Citrus Sinensis ID: 022029

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300----
Protein Sequence
MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRPAAKT
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHcccccccEEcccccccccccccccccccccccccccccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccEEEEEEccccHHHHHHHHHHHHHccccccccccccccccEEEEcccccEEEccccEEEEEEEcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccEEEHHHHHHccccccHHcccccccccccccEEEccccccccEcccccEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHccccccEcccccccccccccccccccEcccccccccccccEEEEEEcccccccccccccccEEccccHccccccccEEEEEccccEEEHHHHHHHcccccccccccccccHccEEEEEcccccEcccccEEEEEEEcccccccccccccccccc
Coil and Loop (DISEMBL)
mpqrhsknnndlafftydekrklgygtqkerlgkdsikpfdacclclkpfidplccqkghiyckECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKAREldafdqqnhgavpqyndrnhsqdkngfhgansvkVTSYEEEALRTMKAfwlpsatpeapvkveapsasticpegkeklklkslfpvyftedkseekksssndksficpsckvtltNTLSLVALSSCGHVFCKKCADKFMAVDKVClvcnkpckernlvnvekggtgfaahgdrleardfkhlgsgsglglvrpaakt
Flexible Loop (DISEMBL)
mpqrhsknnndlafftydekrklgygtqkerlgkdsiKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASticpegkeklklkslFPVYFTEdkseekksssndksficpsCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCnkpckernlvnvekggTGFAAHGDRLEARDfkhlgsgsglglvrpaakt
Low Complexity Region (SEG)
MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQRKLVAHAAqqkqekeeeeeRLMLQKARELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFTedkseekksssndksFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRPAAKT
Disordered region (IsUnstruct)
***********LAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQR********************************************************************ALRTMKAFWL***************************KLKSLFPVYF****************FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRL***********************
Disordered Region (DISOPRED)
********NNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQK*****************************************************************************************************************SLFPVYFT**************SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEAR********************
Disordered Region (DISEMBL)
********NNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQR********************MLQKARELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFT**************SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRPAAKT
Disordered Region (DISPRO)
***********LAFFTYDEKRKLGYGTQK*RLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEE***L********DAFDQQNH***********************************TMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKS*******NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGS*****L*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIxxxxxxxxxxxxxxxxxxxxxxxxxxxxELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRPAAKT
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	304	2.2.26 [Sep-21-2011]
Q6P829	298	Nitric oxide synthase-int	yes	no	0.934	0.953	0.329	5e-39
Q6NUH3	298	Nitric oxide synthase-int	N/A	no	0.940	0.959	0.331	8e-39
Q4R7H4	301	Nitric oxide synthase-int	N/A	no	0.911	0.920	0.327	3e-37
Q9Y314	301	Nitric oxide synthase-int	yes	no	0.904	0.913	0.328	6e-37
Q3SWY5	302	Nitric oxide synthase-int	yes	no	0.911	0.917	0.326	2e-36
Q5U3S7	304	Nitric oxide synthase-int	yes	no	0.934	0.934	0.333	3e-36
Q9D6T0	301	Nitric oxide synthase-int	yes	no	0.904	0.913	0.325	1e-35
Q9VWV8	307	Nitric oxide synthase-int	yes	no	0.927	0.918	0.281	1e-30
Q21755	310	Nitric oxide synthase-int	yes	no	0.888	0.870	0.301	3e-29
Q55DU4	333	Nitric oxide synthase-int	yes	no	0.444	0.405	0.356	8e-12

>sp|Q6P829|NOSIP_XENTR Nitric oxide synthase-interacting protein OS=Xenopus tropicalis GN=nosip PE=2 SV=1

 Score =  161 bits (408), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 96/291 (32%), Positives = 152/291 (52%), Gaps = 7/291 (2%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL KD++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYYEKKKDTAASGYGTQTVRLSKDAVKDFDCCCLSLQPCKDPVVTSDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAV 119
           +IY KE ILE +L QKK+I R++ A+  Q+  +K E +E     K  ++ AF  +    V
Sbjct: 63  YIYEKEAILEYILHQKKEIARQMKAYDKQKNAKKAEMDELNKAAKESQMKAFLDKEMTIV 122

Query: 120 PQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVK-VEAPSASTIC 178
            +  +    +  +G   A         EE  + + +FW+PS TPEA    V+ P  +  C
Sbjct: 123 SKPLNPFTRKSDSGADTAEPSGSQQSSEEKGKQLPSFWIPSLTPEAKTSLVKKPDKTVYC 182

Query: 179 PEGKEKLKLKSLFPVYFT--EDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHV 236
           P   + LK+K L PV+FT  ++K +     +    ++C   +  L N++    L   G V
Sbjct: 183 PMSGKPLKMKDLIPVHFTAVDEKVDRVGLINRQDRYVCAVTRDMLGNSVPCAVLRPSGAV 242

Query: 237 FCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFK 287
              +C +K +  D +  +      ER+++ +++GGTGF+  G  L+A++ +
Sbjct: 243 VTMECVEKLIKKDMIDPISGDKLHERDIIMLQRGGTGFSGSGVLLQAKEAR 293

Negatively regulates nitric oxide production by inducing nitric oxide synthase translocation to actin cytoskeleton and inhibiting its enzymatic activity.
Xenopus tropicalis (taxid: 8364)

>sp|Q6NUH3|NOSIP_XENLA Nitric oxide synthase-interacting protein OS=Xenopus laevis GN=nosip PE=2 SV=1

 Score =  160 bits (406), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 97/293 (33%), Positives = 151/293 (51%), Gaps = 7/293 (2%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL KD++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYYEKKKDTVASGYGTQTVRLSKDAVKDFDCCCLSLQPCKDPVVTSDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAV 119
           +IY KE ILE +L QKK+I R++ A+  Q+  +K E EE     K  ++ AF  +    V
Sbjct: 63  YIYEKESILEYILHQKKEIARQMKAYEKQKNSKKAEMEELNKAAKESKMKAFLDKEMTIV 122

Query: 120 PQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVK-VEAPSASTIC 178
            +  +    +  +G   A         EE  + + +FW+PS TPEA    V+ P  +  C
Sbjct: 123 SKPLNPFTRKSDSGIDAAEPSCSQQSSEEKNKQLPSFWIPSLTPEAKTSLVKKPDKTVYC 182

Query: 179 PEGKEKLKLKSLFPVYFT--EDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHV 236
           P     LK+K L PV FT  ++K +     +    ++C   +  L N++    L   G V
Sbjct: 183 PMSGRPLKMKDLMPVNFTRVDEKVDRVGLINRQDRYVCAVTRDMLGNSVPCAVLRPSGAV 242

Query: 237 FCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHL 289
              +C +K +  D +  +      ER+++ +++GGTGF+  G  L+A++ + +
Sbjct: 243 VTMECVEKLIKKDMIDPISGDKLSERDIIMLQRGGTGFSGSGVLLQAKEARPV 295

Negatively regulates nitric oxide production by inducing nitric oxide synthase translocation to actin cytoskeleton and inhibiting its enzymatic activity.

Xenopus laevis (taxid: 8355)

>sp|Q4R7H4|NOSIP_MACFA Nitric oxide synthase-interacting protein OS=Macaca fascicularis GN=NOSIP PE=2 SV=1

 Score =  155 bits (393), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 96/293 (32%), Positives = 156/293 (53%), Gaps = 16/293 (5%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELD---AFDQQNH 116
           ++Y +E ILE +L QKK+I R++ A+  Q+   +EE++E   LQ+A   D    F ++  
Sbjct: 63  YLYEREAILEYILHQKKEIARQMKAYEKQRGTRREEQKE---LQRAASQDHVRGFLEKES 119

Query: 117 GAVPQYNDRNHSQDKNGFHGANS---VKVTSYEEEALRTMKAFWLPSATPEA-PVKVEAP 172
             V +  +   ++  +G    N+     V    ++  + + +FW+PS TPEA   K+E P
Sbjct: 120 AIVSRPLNPFTAKALSGTSPDNAQPGPSVGPPSKDKDKVLPSFWIPSLTPEAKATKLEKP 179

Query: 173 SASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSS--SNDKSFICPSCKVTLTNTLSLVAL 230
           S +  CP   + L++  L PV+FT   S   +    +  + ++C   + +L+N      L
Sbjct: 180 SRTVTCPMSGKPLRMSDLTPVHFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCAVL 239

Query: 231 SSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
              G V   +C +K +  D V  V      +R+++ +++GGTGFA  G +L+A
Sbjct: 240 RPSGAVVTLECVEKLIRKDMVDPVTGDKLTDRDIIVLQRGGTGFAGSGVKLQA 292

Negatively regulates nitric oxide production by inducing NOS1 and NOS3 translocation to actin cytoskeleton and inhibiting their enzymatic activity.

Macaca fascicularis (taxid: 9541)

>sp|Q9Y314|NOSIP_HUMAN Nitric oxide synthase-interacting protein OS=Homo sapiens GN=NOSIP PE=1 SV=1

 Score =  154 bits (390), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 97/295 (32%), Positives = 157/295 (53%), Gaps = 20/295 (6%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELD---AFDQQNH 116
           ++Y +E ILE +L QKK+I R++ A+  Q+   +EE++E   LQ+A   D    F ++  
Sbjct: 63  YLYEREAILEYILHQKKEIARQMKAYEKQRGTRREEQKE---LQRAASQDHVRGFLEKES 119

Query: 117 GAVPQYNDRNHSQDKNG-----FHGANSVKVTSYEEEALRTMKAFWLPSATPEA-PVKVE 170
             V +  +   ++  +G          SV   S +++  + + +FW+PS TPEA   K+E
Sbjct: 120 AIVSRPLNPFTAKALSGTSPDDVQPGPSVGPPSKDKD--KVLPSFWIPSLTPEAKATKLE 177

Query: 171 APSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSS--SNDKSFICPSCKVTLTNTLSLV 228
            PS +  CP   + L++  L PV+FT   S   +    +  + ++C   + +L+N     
Sbjct: 178 KPSRTVTCPMSGKPLRMSDLTPVHFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCA 237

Query: 229 ALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
            L   G V   +C +K +  D V  V      +R+++ +++GGTGFA  G +L+A
Sbjct: 238 VLRPSGAVVTLECVEKLIRKDMVDPVTGDKLTDRDIIVLQRGGTGFAGSGVKLQA 292

Negatively regulates nitric oxide production by inducing NOS1 and NOS3 translocation to actin cytoskeleton and inhibiting their enzymatic activity.

Homo sapiens (taxid: 9606)

>sp|Q3SWY5|NOSIP_BOVIN Nitric oxide synthase-interacting protein OS=Bos taurus GN=NOSIP PE=2 SV=1

 Score =  153 bits (386), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 96/294 (32%), Positives = 154/294 (52%), Gaps = 17/294 (5%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELD---AFDQQNH 116
           ++Y +E ILE +L QKK+I R++ A+  Q+   +EE++E   LQ+A   D    F ++  
Sbjct: 63  YLYEREAILEYILHQKKEIARQMKAYEKQRGARREEQKE---LQRAAAQDHVRGFLEKEA 119

Query: 117 GAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEAL----RTMKAFWLPSATPEA-PVKVEA 171
             V +  +    +  +  +G +  +  S    A     + + +FW+PS TPEA   K+E 
Sbjct: 120 AIVSRPLNPFTPKAASAGNGPDDAQPGSSAGPAGKDKDKALPSFWIPSLTPEAKATKLEK 179

Query: 172 PSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSS--SNDKSFICPSCKVTLTNTLSLVA 229
           PS    CP   + L++  L PV FT   S   +    +  + ++C   + +L+N      
Sbjct: 180 PSRIVTCPMSGKPLRMSDLTPVRFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCAV 239

Query: 230 LSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
           L   G V   +C +K +  D V  V  +   +R+++ +++GGTGFA  G +L+A
Sbjct: 240 LRPSGAVVTLECVEKLIRKDMVDPVTGEKLTDRDIIVLQRGGTGFAGSGVKLQA 293

Negatively regulates nitric oxide production by inducing NOS1 and NOS3 translocation to actin cytoskeleton and inhibiting their enzymatic activity.

Bos taurus (taxid: 9913)

>sp|Q5U3S7|NOSIP_DANRE Nitric oxide synthase-interacting protein OS=Danio rerio GN=nosip PE=2 SV=1

 Score =  152 bits (384), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 99/297 (33%), Positives = 160/297 (53%), Gaps = 13/297 (4%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EKRK     GYGTQ  RLGKD+IK FD C L L+P  DP+  + G
Sbjct: 3   RHGKNCTAGAVYTYHEKRKDTAASGYGTQSVRLGKDAIKDFDCCSLSLQPCRDPVLTEDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAV 119
           ++Y KE IL+ +L QK +I +K+ A+  Q++  K E +     ++    + F Q+ +  V
Sbjct: 63  YLYEKEAILQYILHQKTEIAKKMKAYEKQKQALKSEGQLESKSEERERAEKFKQRENNIV 122

Query: 120 -----PQYNDRNHSQ-DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA-PVKVEAP 172
                P  + ++  + ++NG   ++S   +S E  +   + +FW+PS TPEA P  ++ P
Sbjct: 123 SKPINPFTSGKSKDEGNQNGSTSSSSTDTSSGESSSSSALPSFWIPSLTPEAKPTLLKKP 182

Query: 173 SASTICPEGKEKLKLKSLFPVYFTE-DKSEEKKS-SSNDKSFICPSCKVTLTNTLSLVAL 230
           S +  CP     LK+  L  V FT  D S ++ +  +    ++C   K TL N++    L
Sbjct: 183 SKTVSCPMSGRPLKMSDLITVRFTPLDPSLDRVALLTRQDRYVCAVTKDTLGNSVPCAVL 242

Query: 231 SSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFK 287
              G V   +C +K +  D V  +     KE++++ +++GGTGFA  G  L+A++ +
Sbjct: 243 RPSGVVVTMECVEKLIKKDMVDPITGDKLKEKDIIPIQRGGTGFAGSGVDLKAKEAR 299

Negatively regulates nitric oxide production by inducing nitric oxide synthase translocation to actin cytoskeleton and inhibiting its enzymatic activity.

Danio rerio (taxid: 7955)

>sp|Q9D6T0|NOSIP_MOUSE Nitric oxide synthase-interacting protein OS=Mus musculus GN=Nosip PE=2 SV=1

 Score =  150 bits (378), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 96/295 (32%), Positives = 152/295 (51%), Gaps = 20/295 (6%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct: 3   RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELD---AFDQQNH 116
           ++Y +E ILE +L QK++I R++ A+  Q+   +EE++E   LQ+A   D    F ++  
Sbjct: 63  YLYEREAILEYILHQKREIARQVKAYEKQRGARREEQKE---LQRAAAQDQVRGFLEKEA 119

Query: 117 GAV-----PQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA-PVKVE 170
             V     P         +  G     SV     +++  + + +FW+PS TPEA   K+E
Sbjct: 120 AIVSRPLNPFMPKAATLPNTEGEQPGPSVGPVGKDKD--KALPSFWIPSLTPEAKATKLE 177

Query: 171 APSASTICPEGKEKLKLKSLFPVYFTE--DKSEEKKSSSNDKSFICPSCKVTLTNTLSLV 228
            PS +  CP   + L++  L  V FT+  D  +     +  + ++C   + +L+N     
Sbjct: 178 KPSRTVTCPMSGKPLRMSDLTSVRFTQLDDSVDRVGLITRSERYVCAVTRDSLSNATPCA 237

Query: 229 ALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
            L   G V   +C +K +  D V  V      ER+++ +++GGTGFA  G +L+A
Sbjct: 238 VLRPSGAVVTLECVEKLIRKDMVDPVNGDTLTERDIIVLQRGGTGFAGSGVKLQA 292

Negatively regulates nitric oxide production by inducing NOS1 and NOS3 translocation to actin cytoskeleton and inhibiting their enzymatic activity.

Mus musculus (taxid: 10090)

>sp|Q9VWV8|NOSIP_DROME Nitric oxide synthase-interacting protein homolog OS=Drosophila melanogaster GN=CG6179 PE=3 SV=1

 Score =  133 bits (335), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 84/298 (28%), Positives = 156/298 (52%), Gaps = 16/298 (5%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH++N    A +TY+EK++     GYGT  +RLGKDS+K FD C L L+P   P+  + G
Sbjct: 3   RHARNCTAGAVYTYNEKKRDAAESGYGTNAQRLGKDSVKSFDCCSLTLQPCRRPVITKDG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEE-EEERLMLQKARELDAFDQQNHGA 118
           +++ KE IL+ ++++K +  R+L  +   ++ E+++  +E    Q+AR     + +    
Sbjct: 63  YLFDKEAILQYIVTKKNEYSRRLKEYERLRRAEEDKLSQEANSKQQARMERFVNAEKPAM 122

Query: 119 VPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMK--------AFWLPSATPEAPV-KV 169
            P ++    S+  +    A +    S    ++  M         +FWLPS  P A + K 
Sbjct: 123 TPAHSSAAASEKPSTSSAAAAASSESSSASSISNMTNGHEKKLPSFWLPSECPNAGLAKA 182

Query: 170 EAPSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSS--SNDKSFICPSCKVTLTNTLSL 227
           + P A+  CP  ++ L++K L  V FT  K  + K S  + +  ++CP     L+N +  
Sbjct: 183 QKPDATIYCPVSQKPLRVKDLIDVKFTLLKDGDTKRSLIAKEARYMCPITHDVLSNAVPC 242

Query: 228 VALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARD 285
             L   G V   +C ++ +  D +  + ++  KE++++ +++GGTG+A   D L+A++
Sbjct: 243 AVLRPTGDVVTMECVERLIRKDMIHPLTDRKLKEKDIIPLQRGGTGYATTNDHLQAKE 300

Negatively regulates nitric oxide production by inducing nitric oxide synthase translocation to actin cytoskeleton and inhibiting its enzymatic activity.

Drosophila melanogaster (taxid: 7227)

>sp|Q21755|NOSIP_CAEEL Nitric oxide synthase-interacting protein homolog OS=Caenorhabditis elegans GN=R05G6.4 PE=3 SV=1

 Score =  129 bits (324), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 89/295 (30%), Positives = 141/295 (47%), Gaps = 25/295 (8%)

Query: 4   RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
           RH KN+   + +TY E+R+     GYGT   RLG DSIK F  C L L+P  +P+    G
Sbjct: 3   RHGKNSTAASVYTYHERRRDAKASGYGTLHARLGADSIKEFHCCSLTLQPCRNPVISPTG 62

Query: 60  HIYCKECILECLLSQKKDIQRKLVAHAAQQKQE----KEEEEERLMLQKARELDAFDQ-- 113
           +I+ +E ILE +L+QKK   +KL  +  Q  +E    K  E +     K  +  A +   
Sbjct: 63  YIFDREAILENILAQKKAYAKKLKEYEKQVAEESAAAKIAEGQAETFTKRTQFSAIESTP 122

Query: 114 QNHGAVPQYNDRNHSQDKNGFHGANSV--KVTSYEEEAL---------RTMKAFWLPSAT 162
              GAV        S  + G   +  +  KV ++ EE +          ++ +FW+P   
Sbjct: 123 SRTGAVATPRPEVGSLKRQGGVMSTEIAAKVKAHGEEGVMSNMKGDKSTSLPSFWIPELN 182

Query: 163 PEA-PVKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTL 221
           P A   K+E PS+  +CP   + +KLK L  V FT     E   ++  + F+CP  +  L
Sbjct: 183 PTAVATKLEKPSSKVLCPVSGKPIKLKELLEVKFTPMPGTE---TAAHRKFLCPVTRDEL 239

Query: 222 TNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAA 276
           TNT     L     V      +K +  D +  +  +P  E +++ +++GGTG++A
Sbjct: 240 TNTTRCAYLKKSKSVVKYDVVEKLIKGDGIDPINGEPMSEDDIIELQRGGTGYSA 294

Negatively regulates nitric oxide production by inducing nitric oxide synthase translocation to actin cytoskeleton and inhibiting its enzymatic activity.

Caenorhabditis elegans (taxid: 6239)

>sp|Q55DU4|NOSIP_DICDI Nitric oxide synthase-interacting protein homolog OS=Dictyostelium discoideum GN=nosip PE=2 SV=1

 Score = 71.2 bits (173), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 51/143 (35%), Positives = 75/143 (52%), Gaps = 8/143 (5%)

Query: 153 MKAFWLPSATPEAPVK-VEAPSASTICP-EGKEKLKLKSLFPVYFTEDKSEEKKSSSNDK 210
           + ++W+   TP+   K +E P + T+CP +GK  LK   L  V+FT  K     S+ ++ 
Sbjct: 192 LNSYWV--ITPDNKDKAIEKPRSYTVCPADGKHPLKSAQLINVHFTNVKPSSSDSNDSNN 249

Query: 211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKF---MAVDKVCLVCNKPCKERNLVNV 267
            + CP C   L+N+     L  CGHVFC  C DKF    +    C VC+KP  E  ++ +
Sbjct: 250 QYCCPICSKVLSNSTKTRLLKRCGHVFC-SCLDKFKEDSSSQLSCYVCDKPYTEDEIIQI 308

Query: 268 EKGGTGFAAHGDRLEARDFKHLG 290
             GGTGF+  G  LEA+ + H  
Sbjct: 309 HSGGTGFSGSGSNLEAKKYTHTA 331

Regulates nitric oxide production.

Dictyostelium discoideum (taxid: 44689)

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	304
297745663	376	unnamed protein product [Vitis vinifera]	1.0	0.808	0.884	1e-156
225469908	304	PREDICTED: nitric oxide synthase-interac	1.0	1.0	0.884	1e-155
224078772	304	predicted protein [Populus trichocarpa]	1.0	1.0	0.884	1e-153
224145334	304	predicted protein [Populus trichocarpa]	1.0	1.0	0.881	1e-152
224116278	304	predicted protein [Populus trichocarpa]	1.0	1.0	0.891	1e-152
356554961	304	PREDICTED: nitric oxide synthase-interac	1.0	1.0	0.875	1e-150
388497328	304	unknown [Medicago truncatula]	1.0	1.0	0.868	1e-149
449445640	304	PREDICTED: nitric oxide synthase-interac	1.0	1.0	0.871	1e-149
217074052	304	unknown [Medicago truncatula] gi|3885066	1.0	1.0	0.865	1e-149
388516035	304	unknown [Medicago truncatula]	1.0	1.0	0.865	1e-149

>gi|297745663|emb|CBI40874.3| unnamed protein product [Vitis vinifera]

 Score =  555 bits (1431), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 269/304 (88%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLG+DSIKPFDACCLCLKPFIDPLCCQKGH
Sbjct: 73  MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGRDSIKPFDACCLCLKPFIDPLCCQKGH 132

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLL+QKKDIQRKL AHAAQ KQEKEEEEERL LQKARELDAFDQQNHGAVP
Sbjct: 133 VFCKECILECLLAQKKDIQRKLAAHAAQLKQEKEEEEERLTLQKARELDAFDQQNHGAVP 192

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+D+NH++DKNGFHGANSVKVTSYEEEALR MKAFWLPSATPEAPVKVEAPS ST+CPE
Sbjct: 193 QYSDKNHTRDKNGFHGANSVKVTSYEEEALRNMKAFWLPSATPEAPVKVEAPSTSTVCPE 252

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           G EKLKLK+LFP++ TED+SE+KKS S DK++ICPSCKVTLTNT+SLVALSSCGHVFCKK
Sbjct: 253 GNEKLKLKTLFPIHLTEDRSEQKKSKSLDKTYICPSCKVTLTNTMSLVALSSCGHVFCKK 312

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           CA KFMAVDKVCLVCNK CK+RNLV +EKGGTGFA HGD LEA DFKHLGSGSGLGLVRP
Sbjct: 313 CAGKFMAVDKVCLVCNKGCKDRNLVPLEKGGTGFAGHGDHLEATDFKHLGSGSGLGLVRP 372

Query: 301 AAKT 304
           A KT
Sbjct: 373 AMKT 376

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225469908|ref|XP_002272953.1| PREDICTED: nitric oxide synthase-interacting protein [Vitis vinifera]

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 269/304 (88%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLG+DSIKPFDACCLCLKPFIDPLCCQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGRDSIKPFDACCLCLKPFIDPLCCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLL+QKKDIQRKL AHAAQ KQEKEEEEERL LQKARELDAFDQQNHGAVP
Sbjct: 61  VFCKECILECLLAQKKDIQRKLAAHAAQLKQEKEEEEERLTLQKARELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+D+NH++DKNGFHGANSVKVTSYEEEALR MKAFWLPSATPEAPVKVEAPS ST+CPE
Sbjct: 121 QYSDKNHTRDKNGFHGANSVKVTSYEEEALRNMKAFWLPSATPEAPVKVEAPSTSTVCPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           G EKLKLK+LFP++ TED+SE+KKS S DK++ICPSCKVTLTNT+SLVALSSCGHVFCKK
Sbjct: 181 GNEKLKLKTLFPIHLTEDRSEQKKSKSLDKTYICPSCKVTLTNTMSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           CA KFMAVDKVCLVCNK CK+RNLV +EKGGTGFA HGD LEA DFKHLGSGSGLGLVRP
Sbjct: 241 CAGKFMAVDKVCLVCNKGCKDRNLVPLEKGGTGFAGHGDHLEATDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224078772|ref|XP_002305622.1| predicted protein [Populus trichocarpa] gi|222848586|gb|EEE86133.1| predicted protein [Populus trichocarpa]

 Score =  546 bits (1407), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 269/304 (88%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLL+QKKDIQRKL AH  Q+KQEK+EE+E+LMLQKARELDAFDQQNHGAVP
Sbjct: 61  VFCKECILECLLAQKKDIQRKLAAHELQKKQEKDEEKEKLMLQKARELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRNHSQDK GFHGANSVKVTSYEEEALRTMKAFWLPSATP+APVKV+APS ST+CPE
Sbjct: 121 QYSDRNHSQDKPGFHGANSVKVTSYEEEALRTMKAFWLPSATPDAPVKVDAPSTSTVCPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKEKLKLKSLFPVYFTED SE+K SSS DK++ICPSCKVTLTNTLSLVALSSCGHVFCKK
Sbjct: 181 GKEKLKLKSLFPVYFTEDTSEKKSSSSLDKTYICPSCKVTLTNTLSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           C+DKFMAVDKVCLVC K CKERNLVN+ KGGTGFA HGD L A +FKHLGSGSGLGLVRP
Sbjct: 241 CSDKFMAVDKVCLVCTKGCKERNLVNLGKGGTGFAGHGDHLMATEFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           AAK+
Sbjct: 301 AAKS 304

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145334|ref|XP_002336220.1| predicted protein [Populus trichocarpa] gi|222832676|gb|EEE71153.1| predicted protein [Populus trichocarpa]

 Score =  545 bits (1403), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 268/304 (88%), Positives = 287/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLL+QKKDIQRKL AH  Q+KQEK+EE+E+ MLQKARELDAFDQQNHGAVP
Sbjct: 61  VFCKECILECLLAQKKDIQRKLAAHELQKKQEKDEEKEKFMLQKARELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRNHSQDK GFHGANSVKVTSYEEEALRTMKAFWLPSATP+APVKV+APS ST+CPE
Sbjct: 121 QYSDRNHSQDKPGFHGANSVKVTSYEEEALRTMKAFWLPSATPDAPVKVDAPSTSTVCPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKEKLKLKSLFPVYFTED SE+K SSS DK++ICPSCKVTLTNTLSLVALSSCGHVFCKK
Sbjct: 181 GKEKLKLKSLFPVYFTEDTSEKKSSSSLDKTYICPSCKVTLTNTLSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           C+DKFMAVDKVCLVC K CKERNLVN+ KGGTGFA HGD L A +FKHLGSGSGLGLVRP
Sbjct: 241 CSDKFMAVDKVCLVCTKGCKERNLVNLGKGGTGFAGHGDHLMATEFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           AAK+
Sbjct: 301 AAKS 304

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224116278|ref|XP_002317258.1| predicted protein [Populus trichocarpa] gi|222860323|gb|EEE97870.1| predicted protein [Populus trichocarpa]

 Score =  544 bits (1401), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 271/304 (89%), Positives = 284/304 (93%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLL+QKKDIQRKL +H  Q+KQEKEEE E+LM QKARELDAFDQQNHGAVP
Sbjct: 61  VFCKECILECLLAQKKDIQRKLASHELQKKQEKEEEAEKLMSQKARELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATP APVKV+APS ST+CPE
Sbjct: 121 QYSDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPVAPVKVDAPSTSTVCPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKEKLKLKSLFPVYFTED SE+K SSS DK+FICPSCKVTLTNTLSLVALSSCGHVFCKK
Sbjct: 181 GKEKLKLKSLFPVYFTEDTSEKKSSSSLDKTFICPSCKVTLTNTLSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           CADKFMAVDKVCL C K CKERNLVN+EKGGTGFA H D L A DFKHLGSGSGLGLVRP
Sbjct: 241 CADKFMAVDKVCLACGKGCKERNLVNLEKGGTGFAGHDDHLVATDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 ATKT 304

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554961|ref|XP_003545809.1| PREDICTED: nitric oxide synthase-interacting protein homolog [Glycine max]

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/304 (87%), Positives = 286/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDAC LCLK  IDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACSLCLKSLIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECIL+CLLSQKKDIQRKL AHAAQQKQEKEEEEE+LMLQKA+ELDAFDQQNHGAVP
Sbjct: 61  LFCKECILQCLLSQKKDIQRKLAAHAAQQKQEKEEEEEKLMLQKAKELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+D+ +S+DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA VKV+APS STICPE
Sbjct: 121 QYSDKTYSRDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEASVKVDAPSTSTICPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKEKLKLK+LFPV FTED SE+KK  + DK++ICPSCKVTLTNT+SLVALS+CGHVFCKK
Sbjct: 181 GKEKLKLKTLFPVQFTEDTSEQKKFKALDKTYICPSCKVTLTNTMSLVALSTCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           CAD+FMAVDKVCLVCNK CKERNLVN+EKGGTGFA HGD LEA DFKHLGSGSGLGLVRP
Sbjct: 241 CADRFMAVDKVCLVCNKACKERNLVNLEKGGTGFAGHGDHLEATDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388497328|gb|AFK36730.1| unknown [Medicago truncatula]

 Score =  535 bits (1378), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 264/304 (86%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDAC LCLK  IDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACSLCLKSLIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLLSQKKDIQR+LVAH+AQQKQEKEEEEE+LMLQKA+ELDAFDQQNHGAVP
Sbjct: 61  LFCKECILECLLSQKKDIQRRLVAHSAQQKQEKEEEEEKLMLQKAKELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRN+++DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA VKVEAPS STICPE
Sbjct: 121 QYSDRNYNRDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEASVKVEAPSTSTICPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKE LKLK+LFPV FTED SE+KKS++ D+S+ICPSCK TLTNT+SLVALSSCGHVFCKK
Sbjct: 181 GKENLKLKTLFPVQFTEDTSEQKKSNALDRSYICPSCKTTLTNTMSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           C+D+FMAVDKVCLVCNK CKER+LVN++KGGTGFA H D LEA+DFKHLGSGSGLGLVRP
Sbjct: 241 CSDRFMAVDKVCLVCNKACKERHLVNLKKGGTGFAGHDDNLEAKDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445640|ref|XP_004140580.1| PREDICTED: nitric oxide synthase-interacting protein-like [Cucumis sativus] gi|449529519|ref|XP_004171747.1| PREDICTED: nitric oxide synthase-interacting protein-like [Cucumis sativus]

 Score =  534 bits (1376), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 265/304 (87%), Positives = 282/304 (92%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFD CCLCLKPFIDP+CCQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDVCCLCLKPFIDPMCCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
            +CK+CILECLL+QKKD QRKL A+ AQQKQEKEE EE+LM QKARELDAFDQQNHGAVP
Sbjct: 61  TFCKQCILECLLAQKKDNQRKLAAYTAQQKQEKEEAEEKLMQQKARELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QYNDRN ++DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVK  APS+ST CPE
Sbjct: 121 QYNDRNQNRDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKAGAPSSSTFCPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           G EKLKLKSLFP++FTED SE KKS S D ++ICPSCKVTLTNT+SLVALS+CGHVFCKK
Sbjct: 181 GNEKLKLKSLFPIHFTEDNSERKKSKSYDVTYICPSCKVTLTNTMSLVALSTCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           CADKFMAVDKVCLVCNK CK R+LVN+EKGGTGFA HGD LEARDFKHLGSGSGLGLVRP
Sbjct: 241 CADKFMAVDKVCLVCNKGCKVRDLVNLEKGGTGFAGHGDSLEARDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217074052|gb|ACJ85386.1| unknown [Medicago truncatula] gi|388506672|gb|AFK41402.1| unknown [Medicago truncatula]

 Score =  534 bits (1376), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 263/304 (86%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDAC LCLK  IDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACSLCLKSLIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLLSQKKDIQR+LVAH+AQQKQEKEEEEE+LMLQ+A+ELDAFDQQNHGAVP
Sbjct: 61  LFCKECILECLLSQKKDIQRRLVAHSAQQKQEKEEEEEKLMLQRAKELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRN+++DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA VKVEAPS STICPE
Sbjct: 121 QYSDRNYNRDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEASVKVEAPSTSTICPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKE LKLK+LFPV FTED SE+KKS++ D+S+ICPSCK TLTNT+SLVALSSCGHVFCKK
Sbjct: 181 GKENLKLKTLFPVQFTEDTSEQKKSNALDRSYICPSCKTTLTNTMSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           C+D+FMAVDKVCLVCNK CKER+LVN++KGGTGFA H D LEA+DFKHLGSGSGLGLVRP
Sbjct: 241 CSDRFMAVDKVCLVCNKACKERHLVNLKKGGTGFAGHDDNLEAKDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388516035|gb|AFK46079.1| unknown [Medicago truncatula]

 Score =  534 bits (1375), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 263/304 (86%), Positives = 288/304 (94%)

Query: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
           MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDAC LCLK  IDP+ CQKGH
Sbjct: 1   MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACSLCLKSLIDPMSCQKGH 60

Query: 61  IYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVP 120
           ++CKECILECLLSQKKDIQR+LVAH+AQQKQEKEEEEE+LMLQKA+ELDAFDQQNHGAVP
Sbjct: 61  LFCKECILECLLSQKKDIQRRLVAHSAQQKQEKEEEEEKLMLQKAKELDAFDQQNHGAVP 120

Query: 121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
           QY+DRN+++DKNGFHGANSVKVTSYEEEAL+TMKAFWLPSATPEA VKVEAPS STICPE
Sbjct: 121 QYSDRNYNRDKNGFHGANSVKVTSYEEEALKTMKAFWLPSATPEASVKVEAPSTSTICPE 180

Query: 181 GKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKK 240
           GKE LKLK+LFPV FTED SE+KKS++ D+S+ICPSCK TLTNT+SLVALSSCGHVFCKK
Sbjct: 181 GKENLKLKTLFPVQFTEDTSEQKKSNALDRSYICPSCKTTLTNTMSLVALSSCGHVFCKK 240

Query: 241 CADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGSGLGLVRP 300
           C+D+FMAVDKVCLVCNK CKER+LVN++KGGTGFA H D LEA+DFKHLGSGSGLGLVRP
Sbjct: 241 CSDRFMAVDKVCLVCNKACKERHLVNLKKGGTGFAGHDDNLEAKDFKHLGSGSGLGLVRP 300

Query: 301 AAKT 304
           A KT
Sbjct: 301 AMKT 304

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	304
TAIR|locus:2200898	310	AT1G61620 [Arabidopsis thalian	0.996	0.977	0.713	3.9e-124
DICTYBASE|DDB_G0270882	333	nosip "putative nitric oxide s	0.437	0.399	0.347	9.5e-42
ZFIN|ZDB-GENE-041114-146	304	nosip "nitric oxide synthase i	0.927	0.927	0.318	1.7e-36
UNIPROTKB|F1RHW0	301	NOSIP "Uncharacterized protein	0.269	0.272	0.476	9.5e-33
UNIPROTKB|Q9Y314	301	NOSIP "Nitric oxide synthase-i	0.904	0.913	0.311	7.7e-32
RGD|1309992	301	Nosip "nitric oxide synthase i	0.269	0.272	0.465	2.7e-31
UNIPROTKB|Q3SWY5	302	NOSIP "Nitric oxide synthase-i	0.911	0.917	0.306	3.3e-31
MGI|MGI:1913644	301	Nosip "nitric oxide synthase i	0.269	0.272	0.465	4.5e-31
FB|FBgn0030915	307	CG6179 [Drosophila melanogaste	0.927	0.918	0.258	1.3e-29
UNIPROTKB|E2R5E4	417	NOSIP "Uncharacterized protein	0.904	0.659	0.301	1.6e-29

TAIR|locus:2200898 AT1G61620 [Arabidopsis thaliana (taxid:3702)]

 Score = 1220 (434.5 bits), Expect = 3.9e-124, P = 3.9e-124
 Identities = 222/311 (71%), Positives = 256/311 (82%)

Query:     1 MPQRHSKNNNDLAFFTYDEKRKLGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGH 60
             MPQRHSKNNNDLA+FTYDEK+KLGYGTQ+ERLG+DSIKPFDAC LCLKPFIDP+CC KGH
Sbjct:     1 MPQRHSKNNNDLAYFTYDEKKKLGYGTQRERLGRDSIKPFDACSLCLKPFIDPMCCHKGH 60

Query:    61 IYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELDAFDQQNHGAVP 120
             ++C+ECILEC L+QKKDIQR+L AH++           RLMLQKARELD FDQQNH A+P
Sbjct:    61 VFCRECILECFLAQKKDIQRRLAAHSSQKKQDKDEEEERLMLQKARELDEFDQQNHSAMP 120

Query:   121 QYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPE 180
             + +D+NH++DKNGFHGANSVK TS+EEEALRTMKAFWLPSATP A V+V+AP   T+CPE
Sbjct:   121 RNSDKNHNEDKNGFHGANSVKTTSFEEEALRTMKAFWLPSATPAASVRVDAPETHTVCPE 180

Query:   181 GKEKLKLKSLFPVYFTX-------XXXXXXXXXXXXXXFICPSCKVTLTNTLSLVALSSC 233
             GKEKLKLK+LF + FT                      +ICPSCKVTLTNT+SLVALSSC
Sbjct:   181 GKEKLKLKNLFAIRFTEDNSEEEETKTKSASSSSYDKSYICPSCKVTLTNTMSLVALSSC 240

Query:   234 GHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGS 293
             GHVFCKKCA+KFM VDKVCLVC+KPCK+RNLV ++KGGTGFA H D LEA+++KHLGSGS
Sbjct:   241 GHVFCKKCAEKFMPVDKVCLVCDKPCKDRNLVGLKKGGTGFAEHDDHLEAKEYKHLGSGS 300

Query:   294 GLGLVRPAAKT 304
             GLGLVRP  KT
Sbjct:   301 GLGLVRPV-KT 310

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007165 "signal transduction" evidence=ISS

GO:0035091 "phosphatidylinositol binding" evidence=ISS

DICTYBASE|DDB_G0270882 nosip "putative nitric oxide synthase-interacting protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 235 (87.8 bits), Expect = 9.5e-42, Sum P(2) = 9.5e-42
 Identities = 49/141 (34%), Positives = 70/141 (49%)

Query:   153 MKAFWLPSATPEAPVK-VEAPSASTICP-EGKEKLKLKSLFPVYFTXXXXXXXXXXXXXX 210
             + ++W+   TP+   K +E P + T+CP +GK  LK   L  V+FT              
Sbjct:   192 LNSYWV--ITPDNKDKAIEKPRSYTVCPADGKHPLKSAQLINVHFTNVKPSSSDSNDSNN 249

Query:   211 XFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFM---AVDKVCLVCNKPCKERNLVNV 267
              + CP C   L+N+     L  CGHVFC  C DKF    +    C VC+KP  E  ++ +
Sbjct:   250 QYCCPICSKVLSNSTKTRLLKRCGHVFCS-CLDKFKEDSSSQLSCYVCDKPYTEDEIIQI 308

Query:   268 EKGGTGFAAHGDRLEARDFKH 288
               GGTGF+  G  LEA+ + H
Sbjct:   309 HSGGTGFSGSGSNLEAKKYTH 329

GO:0008270 "zinc ion binding" evidence=IEA

GO:0050999 "regulation of nitric-oxide synthase activity" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=IEA

ZFIN|ZDB-GENE-041114-146 nosip "nitric oxide synthase interacting protein" [Danio rerio (taxid:7955)]

 Score = 393 (143.4 bits), Expect = 1.7e-36, P = 1.7e-36
 Identities = 94/295 (31%), Positives = 147/295 (49%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EKRK     GYGTQ  RLGKD+IK FD C L L+P  DP+  + G
Sbjct:     3 RHGKNCTAGAVYTYHEKRKDTAASGYGTQSVRLGKDAIKDFDCCSLSLQPCRDPVLTEDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELDAFDQQNHGAV 119
             ++Y KE IL+ +L QK +I +K+ A+                 ++    + F Q+ +  V
Sbjct:    63 YLYEKEAILQYILHQKTEIAKKMKAYEKQKQALKSEGQLESKSEERERAEKFKQRENNIV 122

Query:   120 -----PQYNDRNHSQ-DKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEA-PVKVEAP 172
                  P  + ++  + ++NG   ++S   +S E  +   + +FW+PS TPEA P  ++ P
Sbjct:   123 SKPINPFTSGKSKDEGNQNGSTSSSSTDTSSGESSSSSALPSFWIPSLTPEAKPTLLKKP 182

Query:   173 SASTICPEGKEKLKLKSLFPVYFTXX--XXXXXXXXXXXXXFICPSCKVTLTNTLSLVAL 230
             S +  CP     LK+  L  V FT                 ++C   K TL N++    L
Sbjct:   183 SKTVSCPMSGRPLKMSDLITVRFTPLDPSLDRVALLTRQDRYVCAVTKDTLGNSVPCAVL 242

Query:   231 SSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARD 285
                G V   +C +K +  D V  +     KE++++ +++GGTGFA  G  L+A++
Sbjct:   243 RPSGVVVTMECVEKLIKKDMVDPITGDKLKEKDIIPIQRGGTGFAGSGVDLKAKE 297

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1RHW0 NOSIP "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 201 (75.8 bits), Expect = 9.5e-33, Sum P(2) = 9.5e-33
 Identities = 41/86 (47%), Positives = 56/86 (65%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct:     3 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAH 85
             ++Y +E ILE +L QKK+I R++ A+
Sbjct:    63 YLYEREAILEYILHQKKEIARQMKAY 88

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q9Y314 NOSIP "Nitric oxide synthase-interacting protein" [Homo sapiens (taxid:9606)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 92/295 (31%), Positives = 145/295 (49%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct:     3 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELD---AFDQQNH 116
             ++Y +E ILE +L QKK+I R++ A+                LQ+A   D    F ++  
Sbjct:    63 YLYEREAILEYILHQKKEIARQMKAYEKQRGTRREEQKE---LQRAASQDHVRGFLEKES 119

Query:   117 GAVPQYNDRNHSQDKNG-----FHGANSVKVTSYEEEALRTMKAFWLPSATPEAPV-KVE 170
               V +  +   ++  +G          SV   S +++  + + +FW+PS TPEA   K+E
Sbjct:   120 AIVSRPLNPFTAKALSGTSPDDVQPGPSVGPPSKDKD--KVLPSFWIPSLTPEAKATKLE 177

Query:   171 APSASTICPEGKEKLKLKSLFPVYFT--XXXXXXXXXXXXXXXFICPSCKVTLTNTLSLV 228
              PS +  CP   + L++  L PV+FT                 ++C   + +L+N     
Sbjct:   178 KPSRTVTCPMSGKPLRMSDLTPVHFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCA 237

Query:   229 ALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
              L   G V   +C +K +  D V  V      +R+++ +++GGTGFA  G +L+A
Sbjct:   238 VLRPSGAVVTLECVEKLIRKDMVDPVTGDKLTDRDIIVLQRGGTGFAGSGVKLQA 292

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043086 "negative regulation of catalytic activity" evidence=IDA

GO:0000139 "Golgi membrane" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0046209 "nitric oxide metabolic process" evidence=TAS

GO:0050999 "regulation of nitric-oxide synthase activity" evidence=TAS

RGD|1309992 Nosip "nitric oxide synthase interacting protein" [Rattus norvegicus (taxid:10116)]

 Score = 198 (74.8 bits), Expect = 2.7e-31, Sum P(2) = 2.7e-31
 Identities = 40/86 (46%), Positives = 56/86 (65%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct:     3 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAH 85
             ++Y +E ILE +L QK++I R++ A+
Sbjct:    63 YLYEREAILEYILHQKREIARQMKAY 88

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0043086 "negative regulation of catalytic activity" evidence=ISO

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=ISO

UNIPROTKB|Q3SWY5 NOSIP "Nitric oxide synthase-interacting protein" [Bos taurus (taxid:9913)]

 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 90/294 (30%), Positives = 143/294 (48%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct:     3 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELD---AFDQQNH 116
             ++Y +E ILE +L QKK+I R++ A+                LQ+A   D    F ++  
Sbjct:    63 YLYEREAILEYILHQKKEIARQMKAYEKQRGARREEQKE---LQRAAAQDHVRGFLEKEA 119

Query:   117 GAVPQYNDRNHSQDKNGFHGANSVKVTSYE----EEALRTMKAFWLPSATPEAPV-KVEA 171
               V +  +    +  +  +G +  +  S      ++  + + +FW+PS TPEA   K+E 
Sbjct:   120 AIVSRPLNPFTPKAASAGNGPDDAQPGSSAGPAGKDKDKALPSFWIPSLTPEAKATKLEK 179

Query:   172 PSASTICPEGKEKLKLKSLFPVYFT--XXXXXXXXXXXXXXXFICPSCKVTLTNTLSLVA 229
             PS    CP   + L++  L PV FT                 ++C   + +L+N      
Sbjct:   180 PSRIVTCPMSGKPLRMSDLTPVRFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCAV 239

Query:   230 LSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
             L   G V   +C +K +  D V  V  +   +R+++ +++GGTGFA  G +L+A
Sbjct:   240 LRPSGAVVTLECVEKLIRKDMVDPVTGEKLTDRDIIVLQRGGTGFAGSGVKLQA 293

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=IEA

MGI|MGI:1913644 Nosip "nitric oxide synthase interacting protein" [Mus musculus (taxid:10090)]

 Score = 197 (74.4 bits), Expect = 4.5e-31, Sum P(2) = 4.5e-31
 Identities = 40/86 (46%), Positives = 56/86 (65%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  RL +D++K FD CCL L+P  DP+    G
Sbjct:     3 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQPCHDPVVTPDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAH 85
             ++Y +E ILE +L QK++I R++ A+
Sbjct:    63 YLYEREAILEYILHQKREIARQVKAY 88

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0043086 "negative regulation of catalytic activity" evidence=ISO

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=ISO

FB|FBgn0030915 CG6179 [Drosophila melanogaster (taxid:7227)]

 Score = 328 (120.5 bits), Expect = 1.3e-29, P = 1.3e-29
 Identities = 77/298 (25%), Positives = 143/298 (47%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH++N    A +TY+EK++     GYGT  +RLGKDS+K FD C L L+P   P+  + G
Sbjct:     3 RHARNCTAGAVYTYNEKKRDAAESGYGTNAQRLGKDSVKSFDCCSLTLQPCRRPVITKDG 62

Query:    60 HIYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELDAF-DQQNHGA 118
             +++ KE IL+ ++++K +  R+L  +                 ++   ++ F + +    
Sbjct:    63 YLFDKEAILQYIVTKKNEYSRRLKEYERLRRAEEDKLSQEANSKQQARMERFVNAEKPAM 122

Query:   119 VPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMK--------AFWLPSATPEAPV-KV 169
              P ++    S+  +    A +    S    ++  M         +FWLPS  P A + K 
Sbjct:   123 TPAHSSAAASEKPSTSSAAAAASSESSSASSISNMTNGHEKKLPSFWLPSECPNAGLAKA 182

Query:   170 EAPSASTICPEGKEKLKLKSLFPVYFTXXXXXXXXXXXXX--XXFICPSCKVTLTNTLSL 227
             + P A+  CP  ++ L++K L  V FT                 ++CP     L+N +  
Sbjct:   183 QKPDATIYCPVSQKPLRVKDLIDVKFTLLKDGDTKRSLIAKEARYMCPITHDVLSNAVPC 242

Query:   228 VALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARD 285
               L   G V   +C ++ +  D +  + ++  KE++++ +++GGTG+A   D L+A++
Sbjct:   243 AVLRPTGDVVTMECVERLIRKDMIHPLTDRKLKEKDIIPLQRGGTGYATTNDHLQAKE 300

GO:0003674 "molecular_function" evidence=ND

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0000398 "mRNA splicing, via spliceosome" evidence=IC

GO:0043086 "negative regulation of catalytic activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=ISS

UNIPROTKB|E2R5E4 NOSIP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 327 (120.2 bits), Expect = 1.6e-29, P = 1.6e-29
 Identities = 89/295 (30%), Positives = 144/295 (48%)

Query:     4 RHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKG 59
             RH KN    A +TY EK+K     GYGTQ  +L +D++K F+ CCL L+   DP+    G
Sbjct:   119 RHGKNCTAGAVYTYHEKKKDTAASGYGTQNIQLIRDAVKDFNCCCLSLQACHDPVVTPDG 178

Query:    60 HIYCKECILECLLSQKKDIQRKLVAHAAXXXXXXXXXXXRLMLQKARELD---AFDQQNH 116
             ++Y +E ILE +L QKK+I R++ A+                LQ+A   D    F ++  
Sbjct:   179 YLYEREAILEYILHQKKEIARQMKAYEKQRGARREEQKE---LQRAAAQDQVRGFLEKEA 235

Query:   117 GAVPQYNDRNHSQDKNGFHG-----ANSVKVTSYEEEALRTMKAFWLPSATPEAPV-KVE 170
               V +  +   S+  +G         +S   T  +++  + + +FW+PS TPEA   K+E
Sbjct:   236 AIVSRPLNPFTSKAASGTTSDDAQPGSSAGPTGKDKD--KALPSFWIPSLTPEAKATKLE 293

Query:   171 APSASTICPEGKEKLKLKSLFPVYFT--XXXXXXXXXXXXXXXFICPSCKVTLTNTLSLV 228
              PS +  CP   + L++  L PV FT                 ++C   + +L+N     
Sbjct:   294 KPSRTVTCPMSGKPLRMSDLTPVRFTPLDSSVDRVGLITRSERYVCAVTRDSLSNATPCA 353

Query:   229 ALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEA 283
              L   G V   +C +K +  D V  V  +   +R+++ +++GGTGFA  G +L+A
Sbjct:   354 VLRPSGAVVTMECVEKLIRKDMVDPVNGEKLTDRDIIVLQRGGTGFAGSGVKLQA 408

GO:0051001 "negative regulation of nitric-oxide synthase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9D6T0	NOSIP_MOUSE	No assigned EC number	0.3254	0.9046	0.9136	yes	no
Q6P829	NOSIP_XENTR	No assigned EC number	0.3298	0.9342	0.9530	yes	no
Q3SWY5	NOSIP_BOVIN	No assigned EC number	0.3265	0.9111	0.9172	yes	no
Q21755	NOSIP_CAEEL	No assigned EC number	0.3016	0.8881	0.8709	yes	no
Q5U3S7	NOSIP_DANRE	No assigned EC number	0.3333	0.9342	0.9342	yes	no
Q9Y314	NOSIP_HUMAN	No assigned EC number	0.3288	0.9046	0.9136	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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	304
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-06
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	2e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	0.002
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	0.002
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.002
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.002
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	0.003

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

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNK 257
           +   CP C   L +    V L+ CGHVFC++C  +++     C +C  
Sbjct: 1   EELECPICLDLLRDP---VVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 26/80 (32%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 187 LKSLFPVYFTEDKSEEKKSSSNDKS-FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKF 245
           LK +  +  T + + E     N ++ FICP   + +      VAL  CG VF +K   + 
Sbjct: 83  LKDVVELKLTPNPAFEGSKDDNKEAPFICPVTGLEMNGKYKFVALWPCGCVFSEKALKEV 142

Query: 246 MAVDKVCLVCNKPCKERNLV 265
               KVC VC KP  E ++V
Sbjct: 143 K--SKVCPVCGKPYSEEDVV 160

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

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

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)

Query: 43 CCLCLKPFIDPLCCQK-GHIYCKECILECLLSQKK 76
          C +CL    DP+     GH++C+ECIL  L  + K
Sbjct: 5  CPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSK 39

Length = 45

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

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKV-CLVCNKPC 259
           CP C          V L  CGHVFC+ C DK++   K  C +C  P 
Sbjct: 2   CPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKP 258
           CP C         +V L  CGHVF K+C DK++     C +C  P
Sbjct: 3   CPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFM 246
            F+CP  K  +T+  +   +  CGHV+ +K  +K  
Sbjct: 10  IFVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLA 45

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

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

 Score = 39.0 bits (90), Expect = 0.003
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 4/63 (6%)

Query: 196 TEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKC-ADKFMAVDKVCLV 254
            E   +  K    + S  CP C   L N    +    CGH FC +C     +  D  C  
Sbjct: 259 AEIPDQVYKMQPPNISLKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPN 315

Query: 255 CNK 257
           C++
Sbjct: 316 CSR 318

Length = 427

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	304
KOG3039	303	consensus Uncharacterized conserved protein [Funct	100.0
PF04641	260	Rtf2: Rtf2 RING-finger	99.97
KOG0883	518	consensus Cyclophilin type, U box-containing pepti	99.96
KOG3113	293	consensus Uncharacterized conserved protein [Funct	99.82
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.15
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.12
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.85
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.85
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.84
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.77
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.74
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.72
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.67
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.62
PF14634	44	zf-RING_5: zinc-RING finger domain	98.6
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.56
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.55
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.53
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.48
PHA02929	238	N1R/p28-like protein; Provisional	98.48
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.41
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.4
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.33
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.23
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.21
PHA02926	242	zinc finger-like protein; Provisional	98.13
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.08
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.03
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.02
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.0
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.94
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.87
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.8
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.75
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	97.75
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.62
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	97.58
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.36
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	97.32
COG5152	259	Uncharacterized conserved protein, contains RING a	97.31
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.16
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.11
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	96.89
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.77
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	96.75
KOG4739	233	consensus Uncharacterized protein involved in syna	96.69
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	96.67
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	96.65
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.57
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	96.54
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.53
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.35
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.35
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.34
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.27
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.24
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	96.17
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.12
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
COG5109	396	Uncharacterized conserved protein, contains RING Z	96.0
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.78
KOG0289	506	consensus mRNA splicing factor [General function p	95.72
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.67
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	95.65
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.59
KOG2660	331	consensus Locus-specific chromosome binding protei	95.25
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	95.23
KOG0289	506	consensus mRNA splicing factor [General function p	95.18
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	95.12
PHA02929	238	N1R/p28-like protein; Provisional	95.09
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.08
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.02
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	94.91
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.82
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.72
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.46
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	94.42
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	94.07
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	94.05
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.0
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.82
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	93.51
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	93.39
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.11
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	93.09
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.08
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.69
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	92.07
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	92.06
PF14634	44	zf-RING_5: zinc-RING finger domain	91.66
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	91.41
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	91.22
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	90.85
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	90.34
KOG1940	276	consensus Zn-finger protein [General function pred	90.15
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	89.86
KOG1002	791	consensus Nucleotide excision repair protein RAD16	89.09
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	88.49
COG5236	493	Uncharacterized conserved protein, contains RING Z	88.43
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	88.05
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	87.98
KOG2979	262	consensus Protein involved in DNA repair [General	87.97
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	87.93
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	87.88
PHA02524	498	43A DNA polymerase subunit A; Provisional	86.81
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	86.73
KOG3002	299	consensus Zn finger protein [General function pred	86.39
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	85.53
KOG2169	636	consensus Zn-finger transcription factor [Transcri	85.16
PF06936	190	Selenoprotein_S: Selenoprotein S (SelS); InterPro:	84.69
KOG1941	518	consensus Acetylcholine receptor-associated protei	84.04
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	83.32
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	82.95
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	82.55
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	80.93
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	80.62
COG5219	1525	Uncharacterized conserved protein, contains RING Z	80.6
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	80.55
KOG2979	262	consensus Protein involved in DNA repair [General	80.31

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=2.3e-92  Score=628.79  Aligned_cols=292  Identities=47%  Similarity=0.768  Sum_probs=264.8

Q ss_pred             CCCccccCCCCCccccHHHHhh----cCCCCcccccCCCCcCCCcceecccCCCCCceecCCCceeehhhHHHHHHHhhH
Q 022029            1 MPQRHSKNNNDLAFFTYDEKRK----LGYGTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK   76 (304)
Q Consensus         1 m~~rHsKn~ta~~~~Ty~Er~~----~~~Gt~~~Rlg~ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~qkk   76 (304)
                      || ||+|||||++||||||+++    +|||||.+|||+||+++||||+|||+|++||||||+||||||||||||||+|||
T Consensus         1 mt-RH~kN~ta~avyTY~EkkkdaaasGYGTq~~RLgrDsiK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaqKk   79 (303)
T KOG3039|consen    1 MT-RHGKNCTAGAVYTYHEKKKDAAASGYGTQRERLGRDSIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQKK   79 (303)
T ss_pred             CC-ccccCCccceeEeehhhcchhhhcCcchhhhhhcccccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHHHH
Confidence            87 9999999999999999999    799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCC--C--CCCCCCCCCcCCCCccccchHHHHHhh
Q 022029           77 DIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVPQYND--R--NHSQDKNGFHGANSVKVTSYEEEALRT  152 (304)
Q Consensus        77 ei~r~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~k~  152 (304)
                      +|+|++++||+|.++++.++++++..+.++.+++|.+.+....+....  +  ...-++..+++.+.......++++++.
T Consensus        80 e~arrlkayekqrr~eed~e~qra~~q~~~~~~eF~~~e~~~~s~al~r~~~~~~ae~~a~~~~~~~~~~sn~~~d~~k~  159 (303)
T KOG3039|consen   80 EIARRLKAYEKQRRAEEDKEEQRAMSQKARRLDEFDQQESTPESSALPRNPDTNSAEDAASFHGANSVSTSNMEEDKLKT  159 (303)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHhhhHHHHHHHHhhccccccccccCCCCcchhhhccCccccCCccccCcccccccc
Confidence            999999999999999999999999999999999999988865533221  2  122234556666666677778889999


Q ss_pred             ccccccCCCCCCCC-ccccCCCCCccCCCCCCcCCCCCceeeecccCCCc--ccccCCCCCceeccCccccccCCcceEE
Q 022029          153 MKAFWLPSATPEAP-VKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKSE--EKKSSSNDKSFICPSCKVTLTNTLSLVA  229 (304)
Q Consensus       153 l~sFWlps~tp~a~-~~~~kp~~~~~CP~sg~~l~lKDLi~l~f~~~~~~--~~~~~~~~~~~~CPIc~k~~~~~~~~v~  229 (304)
                      ||||||||+||+|. +++++|+.+++||++|+||+||||++|+|++.+++  ...+.+...+|+||||.++++|.+.+++
T Consensus       160 lpsFWlPs~tP~A~atklekP~~~v~CP~s~kplklkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~  239 (303)
T KOG3039|consen  160 LPSFWLPSLTPTAAATKLEKPSTTVVCPVSGKPLKLKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAV  239 (303)
T ss_pred             ccceecCccCchhhhhcccCCCceeeccCCCCccchhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEE
Confidence            99999999999988 78999999999999999999999999999997653  3334455678999999999999999999


Q ss_pred             EccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCccccccCCeeeeeecccccccc
Q 022029          230 LSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAHGDRLEARDFKHLGSGS  293 (304)
Q Consensus       230 l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gtgfaa~g~~~eak~~~~~~~~~  293 (304)
                      +++||||||++|+++||..++.||+|+++++++|||.||++|||||.+|..++||.+||+|.+|
T Consensus       240 Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGGTGfa~tndhlqAke~rp~lq~~  303 (303)
T KOG3039|consen  240 LRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGGTGFAETNDHLQAKEYRPLLQAS  303 (303)
T ss_pred             eccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeecccccccccchhhhhhhhcccccCC
Confidence            9999999999999999999999999999999999999999999999999999999999999775

>PF04641 Rtf2: Rtf2 RING-finger

Probab=99.97  E-value=1e-30  Score=241.92  Aligned_cols=147  Identities=28%  Similarity=0.518  Sum_probs=121.2

Q ss_pred             cCCCcceecccCCCCCce-ecCCCceeehhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 022029           37 IKPFDACCLCLKPFIDPL-CCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQN  115 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV-~t~~G~lyckEcIle~ll~qkkei~r~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~F~~~~  115 (304)
                      ..+|.+|+|+++|+.+|| +|..|+||+||+||+|||.+++.                                      
T Consensus        31 ~~~w~~CaLS~~pL~~PiV~d~~G~LynKeaile~Ll~~~~~--------------------------------------   72 (260)
T PF04641_consen   31 EARWTHCALSQQPLEDPIVSDRLGRLYNKEAILEFLLDKKKN--------------------------------------   72 (260)
T ss_pred             hCCcCcccCcCCccCCCeeeCCCCeeEcHHHHHHHHHhcCcC--------------------------------------
Confidence            478999999999999998 67789999999999999975321                                      


Q ss_pred             CCCCCCCCCCCCCCCCCCCcCCCCccccchHHHHHhhccccccCCCCCCCCccccCCCCCccCCCCCCcCCCCCceeeec
Q 022029          116 HGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYF  195 (304)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~l~sFWlps~tp~a~~~~~kp~~~~~CP~sg~~l~lKDLi~l~f  195 (304)
                                                                                 ...-+...|+.+||||++|+|
T Consensus        73 -----------------------------------------------------------~~~~~~~~hI~~LKDl~~l~~   93 (260)
T PF04641_consen   73 -----------------------------------------------------------KDLPKTFSHIKSLKDLVELKF   93 (260)
T ss_pred             -----------------------------------------------------------CCCccccccccCccceeeEEe
Confidence                                                                       001122459999999999999


Q ss_pred             ccCCCcccc----cCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCC
Q 022029          196 TEDKSEEKK----SSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       196 ~~~~~~~~~----~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      +.+++....    .....+.|+|||+.+.|++.++||||++|||||++++|+++- .++.||+|+++|+..|||+||+.+
T Consensus        94 ~~n~~~~~~~~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~  172 (260)
T PF04641_consen   94 TKNPSYKEEDKSSGDNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPE  172 (260)
T ss_pred             EecCccccccccccccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCc
Confidence            998643211    123578899999999999999999999999999999999973 577899999999999999999999


Q ss_pred             ccccccCCee
Q 022029          272 TGFAAHGDRL  281 (304)
Q Consensus       272 tgfaa~g~~~  281 (304)
                      ..+......+
T Consensus       173 ee~~~l~~~~  182 (260)
T PF04641_consen  173 EELEKLRERM  182 (260)
T ss_pred             cHHHHHHHHH
Confidence            8776654333

>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=2.5e-30  Score=243.83  Aligned_cols=155  Identities=22%  Similarity=0.462  Sum_probs=138.4

Q ss_pred             CccccCCCCCccccHHHHhhcCCCCcccccC-CCC--cCCCcceecccCCCCCceecCCCceeehhhHHHHHHHhhHHHH
Q 022029            3 QRHSKNNNDLAFFTYDEKRKLGYGTQKERLG-KDS--IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQ   79 (304)
Q Consensus         3 ~rHsKn~ta~~~~Ty~Er~~~~~Gt~~~Rlg-~ds--~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~qkkei~   79 (304)
                      +.|+|+   .+|+||.||+.. ||+.+..+. +..  -+||++|+|++.|+.||||+.+|.||+-.+|+.||-+      
T Consensus         4 kQHqKD---kmylT~tEw~~~-~Ggkk~~~~n~~~FkrLP~~hC~lt~~Pfe~PvC~~dg~vFd~~~Ivp~lkk------   73 (518)
T KOG0883|consen    4 KQHQKD---KMYLTTTEWKSI-YGGKKDTGENRTQFKRLPFNHCSLTMLPFEDPVCTVDGTVFDLTAIVPWLKK------   73 (518)
T ss_pred             cccccc---ceEEeehhhhhh-cCCCCCCcccccccccCChhhceeccccccCcccccCCcEEeeehhhHHHHH------
Confidence            359999   699999999996 777664432 222  3899999999999999999999999999999999853      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCcCCCCccccchHHHHHhhccccccC
Q 022029           80 RKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLP  159 (304)
Q Consensus        80 r~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~l~sFWlp  159 (304)
                                                                                                      
T Consensus        74 --------------------------------------------------------------------------------   73 (518)
T KOG0883|consen   74 --------------------------------------------------------------------------------   73 (518)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CCCCCCCccccCCCCCccCCCCCCcCCCCCceeeecccCCCcccccCCCCCceeccCccccccCCcceEEEccCCccchH
Q 022029          160 SATPEAPVKVEAPSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCK  239 (304)
Q Consensus       160 s~tp~a~~~~~kp~~~~~CP~sg~~l~lKDLi~l~f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~  239 (304)
                                     .+..|++|.++..+|||+|+|.+++         +++|+|||.+++|++.++||++++.|+|||+
T Consensus        74 ---------------~g~nP~tG~kl~~~dLIkL~F~Kns---------~geyhcPvlfk~FT~~sHIvAv~TTGNvy~~  129 (518)
T KOG0883|consen   74 ---------------HGTNPITGQKLDGKDLIKLKFHKNS---------EGEYHCPVLFKVFTRFSHIVAVRTTGNVYSW  129 (518)
T ss_pred             ---------------cCCCCCCCCccccccceeeeeccCC---------CCcccCceeeeeecccceEEEEEecCceeeH
Confidence                           2678999999999999999999987         5789999999999999999999999999999


Q ss_pred             HHHHHH-hh-cCCCCCCCCCCCCCCCceEecCCC
Q 022029          240 KCADKF-MA-VDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       240 ~Ci~~~-~k-~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      ++|++| ++ ++++..+.+.+|++.|||+||.+.
T Consensus       130 eai~~LNiK~knwkdLltdepFtR~DiItiQdP~  163 (518)
T KOG0883|consen  130 EAIEELNIKTKNWKDLLTDEPFTRADIITIQDPN  163 (518)
T ss_pred             HHHHHhCcchhhHHHhhccCCcchhceeeecCcc
Confidence            999998 34 678999999999999999999873

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.82  E-value=1.1e-20  Score=169.95  Aligned_cols=141  Identities=26%  Similarity=0.568  Sum_probs=114.2

Q ss_pred             cccCCCC--cCCCcceecccCCCCCce-ecCCCceeehhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022029           30 ERLGKDS--IKPFDACCLCLKPFIDPL-CCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKAR  106 (304)
Q Consensus        30 ~Rlg~ds--~~~F~~C~LcL~p~~dPV-~t~~G~lyckEcIle~ll~qkkei~r~~~~~e~~~~~~~~~~~~~~~~~~~~  106 (304)
                      +.+.+|.  ...|-.|+|+.+|+..|| +|.-|.||+||.||+.||.+-                               
T Consensus        22 ek~Dkd~~r~sqw~~CaLtqepL~~Piv~c~lGrLYNKe~vi~~LL~Ks-------------------------------   70 (293)
T KOG3113|consen   22 EKVDKDAERVSQWRNCALTQEPLRRPIVACGLGRLYNKESVIEFLLDKS-------------------------------   70 (293)
T ss_pred             CccChhHHHHHHHhhcccccCccccceeeehhhccccHHHHHHHHHhcc-------------------------------
Confidence            4444443  456999999999999997 788999999999999999631                               


Q ss_pred             HHHHHHhhcCCCCCCCCCCCCCCCCCCCcCCCCccccchHHHHHhhccccccCCCCCCCCccccCCCCCccCCCCCCcCC
Q 022029          107 ELDAFDQQNHGAVPQYNDRNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVEAPSASTICPEGKEKLK  186 (304)
Q Consensus       107 ~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~l~sFWlps~tp~a~~~~~kp~~~~~CP~sg~~l~  186 (304)
                                      +                                  +    |         +      ...|+.+
T Consensus        71 ----------------~----------------------------------~----p---------k------saShIKs   81 (293)
T KOG3113|consen   71 ----------------S----------------------------------L----P---------K------SASHIKS   81 (293)
T ss_pred             ----------------c----------------------------------C----C---------c------chhhhcc
Confidence                            0                                  0    0         0      0239999


Q ss_pred             CCCceeeecccCCCccc-----ccCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          187 LKSLFPVYFTEDKSEEK-----KSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       187 lKDLi~l~f~~~~~~~~-----~~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      |||++.|+.+.|++...     ........|+|||+.-.|++..+|++++.|||||++.+++++  +...|++|+..|..
T Consensus        82 lKDvveLklt~n~~~~gD~~~~~~D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~  159 (293)
T KOG3113|consen   82 LKDVVELKLTLNPAFEGDKGNKHDDTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQE  159 (293)
T ss_pred             hhhHhheecccCcccccccCccccccccceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccc
Confidence            99999999999854321     112235689999999999999999999999999999999996  36689999999999


Q ss_pred             CCceEecCCCc
Q 022029          262 RNLVNVEKGGT  272 (304)
Q Consensus       262 ~diI~L~~~gt  272 (304)
                      +|+|.||+...
T Consensus       160 ~dvIvlNg~~E  170 (293)
T KOG3113|consen  160 DDVIVLNGTEE  170 (293)
T ss_pred             cCeEeeCCCHH
Confidence            99999997654

>smart00504 Ubox Modified RING finger domain

Probab=99.15  E-value=3.9e-11  Score=87.10  Aligned_cols=54  Identities=15%  Similarity=0.396  Sum_probs=49.1

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+.||||++.+.++    ++.+|||+||.+||.+++.....||+|+.+++.+|+|++.
T Consensus         1 ~~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~   54 (63)
T smart00504        1 EFLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNL   54 (63)
T ss_pred             CcCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCH
Confidence            37899999999998    5679999999999999998888999999999999999863

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

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

Probab=99.14  E-value=2.9e-11  Score=104.64  Aligned_cols=58  Identities=22%  Similarity=0.695  Sum_probs=51.6

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+-|.||||++.++....  +...||||||..||+..++....||+|+++++.++++.|.
T Consensus       129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence            456999999999988643  5689999999999999999999999999999999998874

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.12  E-value=1.1e-10  Score=103.05  Aligned_cols=62  Identities=27%  Similarity=0.615  Sum_probs=53.0

Q ss_pred             CCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhh----------------cCCCCCCCCCCCCCCCceEecCC
Q 022029          207 SNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA----------------VDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       207 ~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k----------------~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      ...+.+.||||.+.+.++    ++.+|||+||+.||.+|+.                ....||+|+.+++..++++|...
T Consensus        14 ~~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr   89 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR   89 (193)
T ss_pred             cCCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence            345679999999999887    5679999999999999864                13589999999999999999877


Q ss_pred             Cc
Q 022029          271 GT  272 (304)
Q Consensus       271 gt  272 (304)
                      |.
T Consensus        90 g~   91 (193)
T PLN03208         90 GQ   91 (193)
T ss_pred             CC
Confidence            65

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

Probab=98.85  E-value=1.8e-09  Score=99.87  Aligned_cols=56  Identities=20%  Similarity=0.583  Sum_probs=50.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+.+.|.+|++...|++    ..||||+||+.||..|......||+|+.+|.+.+||-|.
T Consensus       237 ~a~~kC~LCLe~~~~pS----aTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~Lr  292 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPS----ATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVICLR  292 (293)
T ss_pred             CCCCceEEEecCCCCCC----cCcCcchHHHHHHHHHHccccCCCcccccCCCcceeeec
Confidence            45689999999999984    689999999999999998777899999999999999874

>smart00504 Ubox Modified RING finger domain

Probab=98.85  E-value=3.7e-09  Score=76.61  Aligned_cols=32  Identities=28%  Similarity=0.468  Sum_probs=30.1

Q ss_pred             cceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      -.|.||+.++.|||+++.||+||++||.+||.
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~   33 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLL   33 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHH
Confidence            36999999999999999999999999999985

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

>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=98.84  E-value=2.3e-09  Score=71.07  Aligned_cols=39  Identities=41%  Similarity=1.108  Sum_probs=33.9

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCC
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVC  255 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC  255 (304)
                      ||||.+.+.++   +++.+|||+||++|+.+++.....||+|
T Consensus         1 C~iC~~~~~~~---~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP---VVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE---EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc---CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999996   5689999999999999999888899998

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

Probab=98.77  E-value=2e-09  Score=110.49  Aligned_cols=55  Identities=22%  Similarity=0.686  Sum_probs=49.5

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceEec
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~L~  268 (304)
                      +...||+|.+.+.+.    +|..||||||+.||+..+. ...+||.|+..|...||.+|.
T Consensus       642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            568999999988886    7999999999999999875 678999999999999999874

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

Probab=98.74  E-value=8.6e-09  Score=92.83  Aligned_cols=60  Identities=25%  Similarity=0.567  Sum_probs=53.1

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh---cCCCCCCCCCCCCCCCceEecCCCc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA---VDKVCLVCNKPCKERNLVNVEKGGT  272 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k---~~~~CPvC~~~f~~~diI~L~~~gt  272 (304)
                      .+.|-|.||++.-.++    ++..|||.|||.||.+|+.   ....||||...++.+.||+|.--|.
T Consensus        45 ~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~  107 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS  107 (230)
T ss_pred             CCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence            5679999999999998    6899999999999999975   3468899999999999999985554

>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=98.72  E-value=6.2e-09  Score=70.65  Aligned_cols=43  Identities=30%  Similarity=0.794  Sum_probs=36.0

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCN  256 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~  256 (304)
                      .||||.+.|.....++ ..+|||+|+.+||.+|++....||+|+
T Consensus         2 ~C~IC~~~~~~~~~~~-~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVV-KLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEE-EETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEE-EccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999998765555 456999999999999998888999994

...

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

Probab=98.67  E-value=1.5e-08  Score=68.50  Aligned_cols=38  Identities=29%  Similarity=0.840  Sum_probs=29.3

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhhcC----CCCCCC
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD----KVCLVC  255 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~----~~CPvC  255 (304)
                      ||||.+.|.++    +..+|||+||..||..+++..    ..||+|
T Consensus         1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999    567999999999999998632    479987

>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=98.62  E-value=2.8e-08  Score=69.29  Aligned_cols=46  Identities=35%  Similarity=0.922  Sum_probs=39.2

Q ss_pred             ceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      +..|+||++.+.+    +++.+|||. ||..|+.+++.....||+|+.+++
T Consensus         2 ~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            3689999998766    368899999 999999999988899999999886

...

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.60  E-value=3.6e-08  Score=67.09  Aligned_cols=44  Identities=34%  Similarity=0.803  Sum_probs=36.8

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNK  257 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~  257 (304)
                      .|+||.+.+++. ...++.+|||+||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~-~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEE-RRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCC-CCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            499999999443 34678999999999999998756789999985

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

Probab=98.56  E-value=3.8e-08  Score=74.22  Aligned_cols=53  Identities=15%  Similarity=0.422  Sum_probs=43.3

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceEe
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~L  267 (304)
                      .|.||||++.+.++    ++.++||+|+..||.+|+.. ...||+|+.+++..++++.
T Consensus         4 ~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn   57 (73)
T PF04564_consen    4 EFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN   57 (73)
T ss_dssp             GGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred             ccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence            68999999999999    57799999999999999986 7899999999999888874

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.55  E-value=4.6e-08  Score=92.25  Aligned_cols=55  Identities=29%  Similarity=0.695  Sum_probs=43.8

Q ss_pred             ceeccCccc--cccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceE
Q 022029          211 SFICPSCKV--TLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       211 ~~~CPIc~k--~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~  266 (304)
                      .+.||+|+.  .++...++++. +|||+||..||+.++. ....||+|+.++.+.++.+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~   60 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV   60 (309)
T ss_pred             CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence            368999998  45555555555 9999999999999874 5568999999998877543

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).

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.53  E-value=5.7e-08  Score=94.87  Aligned_cols=52  Identities=29%  Similarity=0.647  Sum_probs=45.3

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERN  263 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~d  263 (304)
                      ++..+.|+||.+.|.++    ++.+|||+||..||..++.....||+|+.++...+
T Consensus        23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~   74 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK   74 (397)
T ss_pred             cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence            45679999999999988    46899999999999999877778999999987643

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

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

Probab=98.49  E-value=1.3e-07  Score=85.24  Aligned_cols=42  Identities=29%  Similarity=0.686  Sum_probs=37.0

Q ss_pred             CCCCcCCCcceecccCCCCCceecCCCceeehhhHHHHHHHh
Q 022029           33 GKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQ   74 (304)
Q Consensus        33 g~ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~q   74 (304)
                      |.++--.|.-|.+||..++|||+|..|||||.-||+.||..+
T Consensus        40 ~~~~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~   81 (230)
T KOG0823|consen   40 GRNRDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTR   81 (230)
T ss_pred             CccCCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhc
Confidence            334556688899999999999999999999999999999864

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

Probab=98.48  E-value=1.1e-07  Score=64.62  Aligned_cols=33  Identities=39%  Similarity=0.926  Sum_probs=20.1

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhh
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA  247 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k  247 (304)
                      ||||++ |++....-++.+|||+||.+||+++.+
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~   33 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSK   33 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHh
Confidence            999999 877433334456999999999999986

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.48  E-value=1.2e-07  Score=86.95  Aligned_cols=51  Identities=31%  Similarity=0.661  Sum_probs=43.2

Q ss_pred             CceeccCccccccCCc----ceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTL----SLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~----~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      ....||||++.+.+..    .+.++.+|||+||..||.+|+.....||+|+.+|.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            3579999999887642    24567899999999999999988889999999876

>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=98.41  E-value=2.9e-07  Score=60.98  Aligned_cols=44  Identities=39%  Similarity=1.012  Sum_probs=36.4

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPC  259 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f  259 (304)
                      .|+||.+.+.+.   +.+.+|||.||..|+..++.. ...||+|+..+
T Consensus         1 ~C~iC~~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCc---eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999999444   456679999999999999875 77899998753

>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=98.40  E-value=2.8e-07  Score=61.27  Aligned_cols=39  Identities=33%  Similarity=0.966  Sum_probs=34.7

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCC
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVC  255 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC  255 (304)
                      ||||.+.+.++.   .+.+|||.||..|+.+++.  ....||+|
T Consensus         1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999998873   5899999999999999987  56789987

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 ....

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

Probab=98.33  E-value=3.8e-07  Score=68.75  Aligned_cols=33  Identities=24%  Similarity=0.286  Sum_probs=28.9

Q ss_pred             CcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .-.|.||+...+|||++++||.|+|.+|..||.
T Consensus         4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~   36 (73)
T PF04564_consen    4 EFLCPITGELMRDPVILPSGHTYERSAIERWLE   36 (73)
T ss_dssp             GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHC
T ss_pred             ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHH
Confidence            468999999999999999999999999999985

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 ....

>smart00184 RING Ring finger

Probab=98.23  E-value=1.4e-06  Score=55.62  Aligned_cols=38  Identities=34%  Similarity=1.050  Sum_probs=31.4

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCC
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVC  255 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC  255 (304)
                      |+||++...+.    ++.+|||+||..|++.++. ....||+|
T Consensus         1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCc----EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999885544    5678999999999999987 56679987

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

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

Probab=98.21  E-value=7.6e-07  Score=88.23  Aligned_cols=56  Identities=23%  Similarity=0.581  Sum_probs=46.7

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhh-----cCCCCCCCCCCCCCCCceEecCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-----VDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-----~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      ...||||+....-+    ++..|||+||..||-+++.     ....||+|+..+..+|+-++.-+
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e  246 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIE  246 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeec
Confidence            67899999988766    5677999999999999975     23699999999999898776533

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

Probab=98.21  E-value=6.5e-07  Score=82.15  Aligned_cols=55  Identities=18%  Similarity=0.496  Sum_probs=46.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHH-Hhhc-CCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADK-FMAV-DKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~-~~k~-~~~CPvC~~~f~~~diI~L  267 (304)
                      ...|.|+||......+    ..++||||||+.||-. |.++ ...||+|+.....++||.|
T Consensus       213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~viil  269 (271)
T COG5574         213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKVIIL  269 (271)
T ss_pred             ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccchhhhee
Confidence            4579999999998887    4789999999999998 6554 4569999999988888765

>PHA02926 zinc finger-like protein; Provisional

Probab=98.13  E-value=1.6e-06  Score=78.06  Aligned_cols=51  Identities=24%  Similarity=0.575  Sum_probs=40.9

Q ss_pred             CceeccCccccccC-----CcceEEEccCCccchHHHHHHHhhc------CCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTN-----TLSLVALSSCGHVFCKKCADKFMAV------DKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~-----~~~~v~l~~CGhVfc~~Ci~~~~k~------~~~CPvC~~~f~  260 (304)
                      ....|+||++..-.     ..++-++.+|||+||..||.+|...      ...||+|+..|.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            45799999987633     3356789999999999999999753      245999999886

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.08  E-value=3.2e-06  Score=74.93  Aligned_cols=33  Identities=30%  Similarity=0.727  Sum_probs=30.7

Q ss_pred             cceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ..|.+|+.++.|||+|+.||+||++||..||..
T Consensus        19 ~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~   51 (193)
T PLN03208         19 FDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYA   51 (193)
T ss_pred             cCCccCCCcCCCcEEcCCCchhHHHHHHHHHHh
Confidence            569999999999999999999999999999764

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

Probab=98.03  E-value=1.9e-06  Score=80.07  Aligned_cols=51  Identities=25%  Similarity=0.675  Sum_probs=46.3

Q ss_pred             CCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          207 SNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       207 ~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .++....|-||...|.-+    ++.+|||.||+=||+.++..+..||+|+.++.+
T Consensus        21 ~LDs~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          21 GLDSMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             cchhHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            456789999999999877    799999999999999999889999999999875

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

Probab=98.02  E-value=1.3e-06  Score=82.57  Aligned_cols=52  Identities=27%  Similarity=0.655  Sum_probs=47.1

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNL  264 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~di  264 (304)
                      +.-+.|-||++.|+-+    +|.||||.||.=||.+++.....||.|..+|.+.++
T Consensus        21 D~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L   72 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL   72 (442)
T ss_pred             HHHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence            5578999999999887    789999999999999999989999999999998653

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

Probab=98.00  E-value=3e-06  Score=61.05  Aligned_cols=45  Identities=27%  Similarity=0.502  Sum_probs=31.4

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCN  256 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~  256 (304)
                      .-.+.|||++..|.++   |..+.|||+|..++|.+++.  ....||+-|
T Consensus         9 ~~~~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv~G   55 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPVAG   55 (57)
T ss_dssp             B--SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SCCC
T ss_pred             EeccCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCCCC
Confidence            3468999999999999   45789999999999999983  456899943

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

Probab=97.94  E-value=1.7e-06  Score=63.34  Aligned_cols=50  Identities=28%  Similarity=0.721  Sum_probs=26.8

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCce
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI  265 (304)
                      -..|++|...|..+   |.+..|.|+||+.||.+.+.  ..||+|..|--..|+.
T Consensus         7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred             hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence            46899999999998   56899999999999988654  3599999999887764

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

Probab=97.87  E-value=6.5e-06  Score=59.29  Aligned_cols=31  Identities=39%  Similarity=0.723  Sum_probs=24.4

Q ss_pred             cceecccCCCCCceecC-CCceeehhhHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQ-KGHIYCKECILECL   71 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~-~G~lyckEcIle~l   71 (304)
                      .-|.||++++++||.+. .||+|+|++|++||
T Consensus        12 ~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i   43 (57)
T PF11789_consen   12 LKCPITLQPFEDPVKSKKCGHTFEKEAILQYI   43 (57)
T ss_dssp             SB-TTTSSB-SSEEEESSS--EEEHHHHHHHC
T ss_pred             cCCCCcCChhhCCcCcCCCCCeecHHHHHHHH
Confidence            56889999999999765 59999999999999

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

Probab=97.87  E-value=3.6e-06  Score=79.37  Aligned_cols=56  Identities=25%  Similarity=0.481  Sum_probs=49.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+-.||||.+...|++   ++...|.|||+.|+-.++.....|||++.|..-+++|.|.
T Consensus       299 ~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~  354 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLF  354 (357)
T ss_pred             ccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHh
Confidence            3568999999999985   6778899999999999999999999999999888888764

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

Probab=97.80  E-value=2.1e-05  Score=59.34  Aligned_cols=44  Identities=23%  Similarity=0.737  Sum_probs=35.1

Q ss_pred             eccCccccccCC---------cceEEEccCCccchHHHHHHHhhcCCCCCCCC
Q 022029          213 ICPSCKVTLTNT---------LSLVALSSCGHVFCKKCADKFMAVDKVCLVCN  256 (304)
Q Consensus       213 ~CPIc~k~~~~~---------~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~  256 (304)
                      .|+||+..|.++         .-.+++.+|||.|...||.+|++....||+|+
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            499999999332         13456778999999999999998888999996

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

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

Probab=97.75  E-value=1.5e-05  Score=74.09  Aligned_cols=36  Identities=36%  Similarity=0.725  Sum_probs=32.7

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ..-..|.|||.+-.+|-|||.|||||..||++|+-+
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~e  272 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSE  272 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcc
Confidence            334789999999999999999999999999999973

>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=97.75  E-value=2.8e-05  Score=51.31  Aligned_cols=31  Identities=42%  Similarity=0.922  Sum_probs=27.5

Q ss_pred             eecccCCCCCc-eecCCCceeehhhHHHHHHH
Q 022029           43 CCLCLKPFIDP-LCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        43 C~LcL~p~~dP-V~t~~G~lyckEcIle~ll~   73 (304)
                      |.+|+...++| |+++-||+||++||..||..
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~   32 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK   32 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC
Confidence            78999999999 58999999999999999865

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

Probab=97.62  E-value=5.9e-05  Score=72.50  Aligned_cols=77  Identities=23%  Similarity=0.407  Sum_probs=54.6

Q ss_pred             CCCCceeeecccCCCcccccCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCCCCc
Q 022029          186 KLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERNL  264 (304)
Q Consensus       186 ~lKDLi~l~f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~~di  264 (304)
                      .++++-...|+...+.       +....|.||.+.|...-++. +-||+|.|--.||+.|+... ..||+|.......--
T Consensus       211 ~l~~~p~~~f~~~~~~-------~~~~~CaIClEdY~~GdklR-iLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  211 LLKKLPVRTFTKGDDE-------DATDTCAICLEDYEKGDKLR-ILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             HHhhCCcEEecccccc-------CCCceEEEeecccccCCeee-EecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            4455555667665432       12279999999999876654 57999999999999998755 459999987754333


Q ss_pred             eEecCC
Q 022029          265 VNVEKG  270 (304)
Q Consensus       265 I~L~~~  270 (304)
                      +..+.+
T Consensus       283 ~~~~~e  288 (348)
T KOG4628|consen  283 SEPVSE  288 (348)
T ss_pred             CCCccC
Confidence            344333

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

Probab=97.60  E-value=5.5e-05  Score=70.01  Aligned_cols=49  Identities=22%  Similarity=0.596  Sum_probs=40.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~  260 (304)
                      .....||+|.+.-+.+.   .+-+|||+||+-||..-..  ..+.||.|+.+..
T Consensus       237 t~~~~C~~Cg~~PtiP~---~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPH---VIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCe---eeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            45679999999998883   5678999999999998644  4589999998654

>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=97.58  E-value=4.5e-05  Score=71.07  Aligned_cols=52  Identities=27%  Similarity=0.685  Sum_probs=43.1

Q ss_pred             eccCccc-cccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCc
Q 022029          213 ICPSCKV-TLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNL  264 (304)
Q Consensus       213 ~CPIc~k-~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~di  264 (304)
                      .||+|+. .+.|+.-++++.+|||.+|.+|++.++. .+..||.|++.+.+.++
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf   55 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF   55 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence            5999996 5667666667889999999999999865 77899999998876544

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

Probab=97.57  E-value=2.9e-05  Score=70.15  Aligned_cols=46  Identities=28%  Similarity=0.706  Sum_probs=40.2

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNK  257 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~  257 (304)
                      ....+.||||.+.|..+    .+.+|||.||..|+..++.....||+|+.
T Consensus        10 ~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            35679999999999998    57899999999999998765579999993

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

Probab=97.50  E-value=5e-05  Score=66.23  Aligned_cols=35  Identities=29%  Similarity=0.738  Sum_probs=29.7

Q ss_pred             CCCcceecccCCCC--CceecCCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFI--DPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~--dPV~t~~G~lyckEcIle~ll   72 (304)
                      ..-.-|-+||-++.  -||.|..|||||++||-+.|-
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk  165 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK  165 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHH
Confidence            34578999999985  788999999999999988664

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

Probab=97.39  E-value=0.00014  Score=72.42  Aligned_cols=33  Identities=36%  Similarity=0.758  Sum_probs=30.9

Q ss_pred             cceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ..|-+||.|..-|+.|..|||||-.|||.|+..
T Consensus       187 ~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~  219 (513)
T KOG2164|consen  187 MQCPICLEPPSVPVRTNCGHIFCGPCILQYWNY  219 (513)
T ss_pred             CcCCcccCCCCcccccccCceeeHHHHHHHHhh
Confidence            389999999999999999999999999999864

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

Probab=97.36  E-value=0.00014  Score=68.31  Aligned_cols=51  Identities=25%  Similarity=0.588  Sum_probs=43.4

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~  260 (304)
                      +....|.||+..|....+ +++.||-|+|--.|+++|+. ...+||+|+.++-
T Consensus       321 ~~GveCaICms~fiK~d~-~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         321 DKGVECAICMSNFIKNDR-LRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCCceEEEEhhhhcccce-EEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            345799999999987767 45679999999999999987 6679999998864

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

Probab=97.32  E-value=0.00022  Score=48.11  Aligned_cols=31  Identities=32%  Similarity=0.834  Sum_probs=26.7

Q ss_pred             eecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           43 CCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        43 C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      |.+||.-+.+||..+-||.||+.||..+.-.
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~   31 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKE   31 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCC
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHc
Confidence            7899999999999999999999999988754

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

Probab=97.31  E-value=0.00012  Score=65.01  Aligned_cols=48  Identities=31%  Similarity=0.737  Sum_probs=41.5

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPC  259 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f  259 (304)
                      .+-.|.|-||++.|..+    ++..|||.||..|.-.-.+....|-+|++.-
T Consensus       193 e~IPF~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         193 EKIPFLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             CCCceeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            34579999999999998    5789999999999887777778999999854

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

Probab=97.26  E-value=0.00012  Score=68.66  Aligned_cols=47  Identities=30%  Similarity=0.453  Sum_probs=40.0

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCC-CCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKV-CLVCNKPCKE  261 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~-CPvC~~~f~~  261 (304)
                      .-.|+||.-....+    +...|+|+||+-||+-....++. |++|+.+|..
T Consensus         7 ~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids   54 (324)
T KOG0824|consen    7 KKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS   54 (324)
T ss_pred             CCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence            35799999988887    46799999999999987666655 9999999985

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

Probab=97.16  E-value=0.00018  Score=68.16  Aligned_cols=35  Identities=26%  Similarity=0.633  Sum_probs=30.2

Q ss_pred             CCCcceecccCCCCCce-ecCCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPL-CCQKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV-~t~~G~lyckEcIle~ll   72 (304)
                      ..-..|.+||...++|- ++-.||+||.-||+.|+.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~  333 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV  333 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHH
Confidence            44578999999999885 566799999999999986

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

Probab=97.11  E-value=4.9e-05  Score=72.50  Aligned_cols=50  Identities=32%  Similarity=0.625  Sum_probs=43.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~  261 (304)
                      ...++||||+..+++.   +....|+|-||.+||.+.++ ....||.|++.+..
T Consensus        41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            4579999999999887   35789999999999998775 67899999998854

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

Probab=97.00  E-value=0.00049  Score=66.77  Aligned_cols=57  Identities=21%  Similarity=0.407  Sum_probs=44.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc---CCCCCCCCCCCCCCCceEe
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV---DKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~---~~~CPvC~~~f~~~diI~L  267 (304)
                      ..|.|||.++.-++.+..+ .-.||||+|.+++.++.+.   ..+||.|-..-...|.+.|
T Consensus       333 SvF~CPVlKeqtsdeNPPm-~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~kql  392 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPM-MLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTKQL  392 (394)
T ss_pred             ceeecccchhhccCCCCCe-eeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcccc
Confidence            3589999999887765554 4589999999999999763   3799999887766665544

>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=96.89  E-value=0.0011  Score=43.74  Aligned_cols=31  Identities=39%  Similarity=1.021  Sum_probs=28.8

Q ss_pred             eecccCCCCCce-ecCCCceeehhhHHHHHHH
Q 022029           43 CCLCLKPFIDPL-CCQKGHIYCKECILECLLS   73 (304)
Q Consensus        43 C~LcL~p~~dPV-~t~~G~lyckEcIle~ll~   73 (304)
                      |.+|+.++.+|+ .++-||.||.+||.+++..
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~   32 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN   32 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHh
Confidence            789999999999 8889999999999999864

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 ....

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.77  E-value=0.00068  Score=48.20  Aligned_cols=34  Identities=24%  Similarity=0.642  Sum_probs=28.0

Q ss_pred             EEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCc
Q 022029          229 ALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNL  264 (304)
Q Consensus       229 ~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~di  264 (304)
                      ++.+|||++|..|..-  .....||.|+++|...|+
T Consensus        21 ~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen   21 TVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             ccccccceeeccccCh--hhccCCCCCCCcccCCCC
Confidence            4679999999999775  345689999999987664

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

Probab=96.75  E-value=0.00087  Score=61.88  Aligned_cols=40  Identities=38%  Similarity=0.788  Sum_probs=34.5

Q ss_pred             ccCCCCcCCCcc-----eecccCCCCCceecCCCceeehhhHHHH
Q 022029           31 RLGKDSIKPFDA-----CCLCLKPFIDPLCCQKGHIYCKECILEC   70 (304)
Q Consensus        31 Rlg~ds~~~F~~-----C~LcL~p~~dPV~t~~G~lyckEcIle~   70 (304)
                      -|++-...||--     |.||+.+..+|++|+.|||||.-||+..
T Consensus       201 n~s~kn~~pfip~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~  245 (271)
T COG5574         201 NLSKKNGLPFIPLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLIS  245 (271)
T ss_pred             cccccccCCcccccccceeeeecccCCcccccccchhhHHHHHHH
Confidence            334445677777     9999999999999999999999999986

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

Probab=96.69  E-value=0.00075  Score=61.57  Aligned_cols=53  Identities=25%  Similarity=0.624  Sum_probs=39.3

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      ..+|..|..--. +.. .+|..|+||||..|...-.  ...||+|++++.   +|.|+..
T Consensus         3 ~VhCn~C~~~~~-~~~-f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir---~i~l~~s   55 (233)
T KOG4739|consen    3 FVHCNKCFRFPS-QDP-FFLTACRHVFCEPCLKASS--PDVCPLCKKSIR---IIQLNRS   55 (233)
T ss_pred             eEEeccccccCC-CCc-eeeeechhhhhhhhcccCC--ccccccccceee---eeecccc
Confidence            468999987655 434 5799999999999977632  228999999864   6666544

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

Probab=96.67  E-value=0.0012  Score=67.66  Aligned_cols=58  Identities=19%  Similarity=0.472  Sum_probs=45.2

Q ss_pred             CceeccCccccccCCcce-EEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          210 KSFICPSCKVTLTNTLSL-VALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~-v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      ..-.|+||.+.+.....+ .-.-+|||+|+..|+..|+.....||.|+..+-...++..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~~~  348 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLWQI  348 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccccccc
Confidence            356999999999884221 1245999999999999999988999999996665554443

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

Probab=96.65  E-value=0.0018  Score=50.28  Aligned_cols=34  Identities=26%  Similarity=0.663  Sum_probs=28.8

Q ss_pred             EEEccCCccchHHHHHHHhhc---CCCCCCCCCCCCC
Q 022029          228 VALSSCGHVFCKKCADKFMAV---DKVCLVCNKPCKE  261 (304)
Q Consensus       228 v~l~~CGhVfc~~Ci~~~~k~---~~~CPvC~~~f~~  261 (304)
                      +++-.|||.|-..||.+|+..   +..||.|+.++..
T Consensus        47 lv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   47 LVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             eeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            346789999999999999863   4799999998864

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

Probab=96.57  E-value=0.00099  Score=62.41  Aligned_cols=66  Identities=29%  Similarity=0.604  Sum_probs=48.6

Q ss_pred             eeeecccCCCcccc----cCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          191 FPVYFTEDKSEEKK----SSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       191 i~l~f~~~~~~~~~----~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      -.|+|.++...+..    .....-.|.|-||.+.|-++    ++..|||.||..|.-.-++....|++|++...
T Consensus       217 Wqi~~e~d~~ke~~~~~~~D~~~~Pf~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  217 WQIEFEWDSAKEKKRVKIEDIELLPFKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             ceeehhhhccccccceecCCcccCCccccccccccccc----hhhcCCceeehhhhccccccCCcceecccccc
Confidence            46777766432111    11122357799999999999    57899999999998877777789999998764

>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=96.54  E-value=0.0023  Score=43.01  Aligned_cols=33  Identities=33%  Similarity=0.704  Sum_probs=27.8

Q ss_pred             cceecccCCCC---CceecCCCceeehhhHHHHHHH
Q 022029           41 DACCLCLKPFI---DPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        41 ~~C~LcL~p~~---dPV~t~~G~lyckEcIle~ll~   73 (304)
                      |.|.+|+.++.   .++.++-||+|+.+||.+||..
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~   36 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR   36 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh
Confidence            57999999983   5568889999999999999964

...

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

Probab=96.53  E-value=0.00031  Score=49.81  Aligned_cols=49  Identities=24%  Similarity=0.711  Sum_probs=40.8

Q ss_pred             eeccCccccccCCcceEEEccCCcc-chHHHHHHHhh-cCCCCCCCCCCCCCCCceE
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMA-VDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~  266 (304)
                      -.|-||.+.--+.    ++-.|||. +|+.|-.++++ ....||+|+.++.  |||.
T Consensus         8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~--dvIk   58 (62)
T KOG4172|consen    8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK--DVIK   58 (62)
T ss_pred             cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH--HHHH
Confidence            5799999987776    58899996 69999999877 5679999999886  5664

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

Probab=96.35  E-value=0.0013  Score=63.97  Aligned_cols=58  Identities=22%  Similarity=0.564  Sum_probs=46.1

Q ss_pred             ceeccCccccccCC-cceEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKVTLTNT-LSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k~~~~~-~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~~~diI~L~  268 (304)
                      ...||||.+.+.-+ .+.+++..|||.|...||++|+.  ..+.||.|+.+-++.+|.+++
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~   64 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY   64 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence            45899999976543 24456789999999999999974  357999999998887776553

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

Probab=96.35  E-value=0.0021  Score=60.35  Aligned_cols=72  Identities=22%  Similarity=0.555  Sum_probs=50.3

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHH-hhcCCCCCCCCCCC------CCC--------CceEecCCCcccc
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKF-MAVDKVCLVCNKPC------KER--------NLVNVEKGGTGFA  275 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~-~k~~~~CPvC~~~f------~~~--------diI~L~~~gtgfa  275 (304)
                      .+.||.|+..+.|+.+   ..-|||.||.+||... +..+..||+|...-      ..+        -++.-|+..-|-+
T Consensus       274 ~LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lkkq~~~~gts  350 (427)
T COG5222         274 SLKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALKKQRKKVGTS  350 (427)
T ss_pred             cccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHHHHHHHHhcCCC
Confidence            3899999999999843   3569999999999975 45789999998721      110        1222245556777


Q ss_pred             ccCCeeeeee
Q 022029          276 AHGDRLEARD  285 (304)
Q Consensus       276 a~g~~~eak~  285 (304)
                      .-|..-+.++
T Consensus       351 ~d~n~p~s~k  360 (427)
T COG5222         351 DDNNTPMSEK  360 (427)
T ss_pred             CCCCCchhhh
Confidence            7665555555

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

Probab=96.34  E-value=0.001  Score=69.22  Aligned_cols=51  Identities=20%  Similarity=0.429  Sum_probs=43.2

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ..-.||+|...|.+. -+..-++|||.||..||..|.+-...||+|+..|.+
T Consensus       122 ~~~~CP~Ci~s~~Dq-L~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQ-LEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHH-hhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            345899999999886 233467999999999999998877899999999985

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

Probab=96.27  E-value=0.0024  Score=62.87  Aligned_cols=49  Identities=29%  Similarity=0.733  Sum_probs=43.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ...|.|-||+..|-++    +..+|||-||..||.+.+.....||.|+.+|.+
T Consensus        82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCCCCccccccccc
Confidence            4579999999999998    356999999999999987788999999999874

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

Probab=96.24  E-value=0.0034  Score=60.57  Aligned_cols=50  Identities=18%  Similarity=0.545  Sum_probs=38.2

Q ss_pred             CceeccCccccccCCcceE---------EEccCCccchHHHHHHHhhcCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLV---------ALSSCGHVFCKKCADKFMAVDKVCLVCNKPC  259 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v---------~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f  259 (304)
                      +.-.|-||++.+-++-+=-         ---||||.+--+|++.|+..+..||+|+.++
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            4568999999853321000         0238999999999999999889999999983

>TIGR00599 rad18 DNA repair protein rad18

Probab=96.17  E-value=0.003  Score=62.16  Aligned_cols=50  Identities=26%  Similarity=0.495  Sum_probs=39.6

Q ss_pred             CC-CCcccccCCCCcCCCcceecccCCCCCceecCCCceeehhhHHHHHHHhh
Q 022029           24 GY-GTQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQK   75 (304)
Q Consensus        24 ~~-Gt~~~Rlg~ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~qk   75 (304)
                      +| +|.-..|  +.+...-.|.+|+..+.+||+++.||.||..||..+|..+.
T Consensus        11 Dw~~t~~~~l--~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~   61 (397)
T TIGR00599        11 DWLTTPIPSL--YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP   61 (397)
T ss_pred             hhccCCcccc--cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC
Confidence            45 5543444  33556679999999999999999999999999999986543

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

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

Probab=96.12  E-value=0.0023  Score=62.93  Aligned_cols=56  Identities=25%  Similarity=0.682  Sum_probs=46.2

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceE
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~  266 (304)
                      .+..+.||+|..++.++..   ...|||.||..|+..+......||+|.........+.
T Consensus        18 ~~~~l~C~~C~~vl~~p~~---~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQ---TTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             CcccccCccccccccCCCC---CCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence            3567999999999999942   1599999999999999877889999988887655443

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

Probab=96.08  E-value=0.0039  Score=60.88  Aligned_cols=48  Identities=23%  Similarity=0.470  Sum_probs=38.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh--------cCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--------VDKVCLVCNK  257 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--------~~~~CPvC~~  257 (304)
                      ..-|.|-||++...++ +.++..||+||||..|++.+..        +.++||-++-
T Consensus       182 ~slf~C~ICf~e~~G~-~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQ-HCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhcccceeeehhhcCc-ceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4569999999999886 5567889999999999999853        2467876653

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.00  E-value=0.0042  Score=58.79  Aligned_cols=57  Identities=30%  Similarity=0.489  Sum_probs=44.6

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc---CCCCCCCCCCCCCCCceEe
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV---DKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~---~~~CPvC~~~f~~~diI~L  267 (304)
                      .-|+|||.++.-++-+..+ +-.||||++.+.+..+.+.   ..+||.|-..-.-.|++.+
T Consensus       335 s~FiCPVlKe~~t~ENpP~-ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~~~~~~rv  394 (396)
T COG5109         335 SLFICPVLKELCTDENPPV-MLECGHVISKEALSVLSQNGVLSFKCPYCPEMSKYENILRV  394 (396)
T ss_pred             ceeeccccHhhhcccCCCe-eeeccceeeHHHHHHHhhcCcEEeeCCCCCcchhhhhhhcc
Confidence            3589999999887755444 5699999999999998653   4699999877666666654

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

Probab=95.78  E-value=0.0091  Score=49.94  Aligned_cols=50  Identities=30%  Similarity=0.645  Sum_probs=42.1

Q ss_pred             CceeccCccccccCCcceEEEcc---CCccchHHHHHHHhh---cCCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSS---CGHVFCKKCADKFMA---VDKVCLVCNKPCKER  262 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~---CGhVfc~~Ci~~~~k---~~~~CPvC~~~f~~~  262 (304)
                      .-|.|.||.++.++. +  .++|   ||..+|.-|.-.+|+   -...||+|...|+..
T Consensus        79 ~lYeCnIC~etS~ee-~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEE-R--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchh-h--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            359999999998886 3  3566   999999999999987   357999999999754

>KOG0289 consensus mRNA splicing factor [General function prediction only]

Probab=95.72  E-value=0.0062  Score=59.90  Aligned_cols=31  Identities=19%  Similarity=0.426  Sum_probs=27.7

Q ss_pred             ceecccCCCCCceecC-CCceeehhhHHHHHH
Q 022029           42 ACCLCLKPFIDPLCCQ-KGHIYCKECILECLL   72 (304)
Q Consensus        42 ~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll   72 (304)
                      -|+|+-.--++||+.| .||||+|-=|-.||.
T Consensus         2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~   33 (506)
T KOG0289|consen    2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIA   33 (506)
T ss_pred             eecccCCCCCCccccccccchHHHHHHHHHHH
Confidence            4999999999999998 599999999988885

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

Probab=95.67  E-value=0.0071  Score=58.71  Aligned_cols=56  Identities=23%  Similarity=0.552  Sum_probs=43.1

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhh--cC-CCCCCCCCCCCCCCce
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VD-KVCLVCNKPCKERNLV  265 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~-~~CPvC~~~f~~~diI  265 (304)
                      .+..|.||.+-+.+...+..+-.|||+|-..|+.+|+.  +. ..||+|.-......++
T Consensus         3 i~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~   61 (465)
T KOG0827|consen    3 IMAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA   61 (465)
T ss_pred             ccceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence            35689999877777656666778999999999999986  33 5899999555554444

>smart00184 RING Ring finger

Probab=95.65  E-value=0.0072  Score=37.90  Aligned_cols=30  Identities=37%  Similarity=0.930  Sum_probs=27.5

Q ss_pred             eecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           43 CCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        43 C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      |.+|+....+|+..+-||+||.+||..++.
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~   30 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK   30 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHH
Confidence            788999999999999999999999998875

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)

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

Probab=95.59  E-value=0.0094  Score=41.39  Aligned_cols=47  Identities=28%  Similarity=0.632  Sum_probs=23.5

Q ss_pred             ccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCC
Q 022029          214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCK  260 (304)
Q Consensus       214 CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~  260 (304)
                      ||+|...+...-.-+.-=+||+-+|..|..+++. .+..||-|+++|+
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y~   48 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPYK   48 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B--
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence            7888888744322233447899999999999875 5789999999874

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

Probab=95.25  E-value=0.0064  Score=57.86  Aligned_cols=49  Identities=27%  Similarity=0.670  Sum_probs=43.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .-..|++|...|.+++.   +.-|=|.||..||-+++.....||.|+..+..
T Consensus        14 ~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             cceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            46799999999999874   67899999999999998888999999988865

>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=95.23  E-value=0.021  Score=39.44  Aligned_cols=32  Identities=28%  Similarity=0.684  Sum_probs=28.9

Q ss_pred             cceecccCCCCCceecCCCce-eehhhHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHI-YCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~l-yckEcIle~ll   72 (304)
                      +.|.+|+....+++..|-||+ ||.+|+..++.
T Consensus         3 ~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~   35 (50)
T PF13920_consen    3 EECPICFENPRDVVLLPCGHLCFCEECAERLLK   35 (50)
T ss_dssp             SB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH
T ss_pred             CCCccCCccCCceEEeCCCChHHHHHHhHHhcc
Confidence            469999999999999999999 99999999875

...

>KOG0289 consensus mRNA splicing factor [General function prediction only]

Probab=95.18  E-value=0.016  Score=57.15  Aligned_cols=58  Identities=21%  Similarity=0.352  Sum_probs=52.8

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCc
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGT  272 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gt  272 (304)
                      +.|.|..++-..+   |+....||||=.+-|++++.....||+.+++++.++||+|..++.
T Consensus         1 m~CaISgEvP~~P---VvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~Ik~~~~   58 (506)
T KOG0289|consen    1 MVCAISGEVPEEP---VVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVEIKVPAQ   58 (506)
T ss_pred             CeecccCCCCCCc---cccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeeecccccc
Confidence            3799999998887   678889999999999999999999999999999999999988754

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

Probab=95.12  E-value=0.018  Score=55.48  Aligned_cols=49  Identities=24%  Similarity=0.636  Sum_probs=42.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      +..-.|-||+....+.    ++-||-|. +|..|.+.+.-+...||+|+.++..
T Consensus       288 ~~gkeCVIClse~rdt----~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDT----VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcce----EEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            4577999999998886    67899996 6999999987667799999999975

>PHA02929 N1R/p28-like protein; Provisional

Probab=95.09  E-value=0.014  Score=53.77  Aligned_cols=33  Identities=24%  Similarity=0.603  Sum_probs=28.3

Q ss_pred             CcceecccCCCCCc--------eecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDP--------LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dP--------V~t~~G~lyckEcIle~ll   72 (304)
                      -..|++||.++.++        |.++.||+||++||.+|+-
T Consensus       174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~  214 (238)
T PHA02929        174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK  214 (238)
T ss_pred             CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh
Confidence            47899999998753        6778999999999999974

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

Probab=95.08  E-value=0.014  Score=58.83  Aligned_cols=51  Identities=25%  Similarity=0.561  Sum_probs=43.1

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhh-----cCCCCCCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-----VDKVCLVCNKPCKER  262 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-----~~~~CPvC~~~f~~~  262 (304)
                      +.+...|-+|.++-.+.    +...|-|+||.-||.+++.     .+..||+|...++.+
T Consensus       533 nk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             ccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            35678999999998887    4689999999999999875     246999999998753

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

Probab=95.02  E-value=0.012  Score=58.71  Aligned_cols=50  Identities=24%  Similarity=0.594  Sum_probs=37.2

Q ss_pred             ceeccCccccccCC------cce-------EEEccCCccchHHHHHHHhh-cCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNT------LSL-------VALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCK  260 (304)
Q Consensus       211 ~~~CPIc~k~~~~~------~~~-------v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~  260 (304)
                      .--|+||+..+.=-      +..       -++.||-|+|...|+.+|+. -...||+|+.++-
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            45799999765210      000       23569999999999999997 5679999998864

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

Probab=94.91  E-value=0.023  Score=38.55  Aligned_cols=30  Identities=30%  Similarity=0.882  Sum_probs=19.5

Q ss_pred             eecccCCCCC----ceecCCCceeehhhHHHHHHH
Q 022029           43 CCLCLKPFID----PLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        43 C~LcL~p~~d----PV~t~~G~lyckEcIle~ll~   73 (304)
                      |-+|.. +.+    ||+-+-||+||++||-..+-.
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~   34 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK   34 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence            677888 777    999999999999999876653

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

Probab=94.82  E-value=0.014  Score=57.71  Aligned_cols=50  Identities=24%  Similarity=0.478  Sum_probs=42.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      ..--.||||++.+...+..++...|-|.|--.|+.+|.  ++.||||+--..
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            44568999999999988778889999999999999984  678999986554

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

Probab=94.72  E-value=0.055  Score=53.46  Aligned_cols=66  Identities=17%  Similarity=0.459  Sum_probs=50.8

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-----------CCCCCCCCCCCCCCceEecCC-Cccccc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-----------KVCLVCNKPCKERNLVNVEKG-GTGFAA  276 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-----------~~CPvC~~~f~~~diI~L~~~-gtgfaa  276 (304)
                      +.++.||||..-|.++    +|.+|||.+|.-|....+...           -.-|+-+..+-..|-+.|..+ ..||-.
T Consensus         2 eeelkc~vc~~f~~ep----iil~c~h~lc~~ca~~~~~~tp~~~spq~~~aa~s~vs~~~~~~~d~msl~~~ad~g~~~   77 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP----IILPCSHNLCQACARNILVQTPESESPQSHRAAGSGVSDYDYLDLDKMSLYSEADSGYGS   77 (699)
T ss_pred             cccccCceehhhccCc----eEeecccHHHHHHHHhhcccCCCCCCchhhhhcCCCCCccccccccceeeEeeccCCCCc
Confidence            3568999999999998    688999999999988764321           134666666666788888877 568887


Q ss_pred             cC
Q 022029          277 HG  278 (304)
Q Consensus       277 ~g  278 (304)
                      +|
T Consensus        78 ~~   79 (699)
T KOG4367|consen   78 YG   79 (699)
T ss_pred             cC
Confidence            76

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

Probab=94.46  E-value=0.015  Score=45.92  Aligned_cols=30  Identities=30%  Similarity=0.672  Sum_probs=25.3

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHH
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCAD  243 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~  243 (304)
                      -.|++|.+.|.+.  .+++-||||+|.+.|++
T Consensus        79 ~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   79 TKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence            4699999999884  35577999999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

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

Probab=94.42  E-value=0.021  Score=55.75  Aligned_cols=54  Identities=22%  Similarity=0.591  Sum_probs=41.2

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--CCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--DKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--~~~CPvC~~~f~~~diI~L~  268 (304)
                      --.|-||-+.=.+    |-|-||||.+|..|+..|-..  ...||.|+-.++--.-|.|.
T Consensus       369 FeLCKICaendKd----vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid  424 (563)
T KOG1785|consen  369 FELCKICAENDKD----VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID  424 (563)
T ss_pred             HHHHHHhhccCCC----cccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence            3479999885444    358899999999999998643  46899999999755555543

>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=94.07  E-value=0.033  Score=36.11  Aligned_cols=31  Identities=35%  Similarity=0.935  Sum_probs=26.5

Q ss_pred             ceecccCCCCCceecC-CCceeehhhHHHHHH
Q 022029           42 ACCLCLKPFIDPLCCQ-KGHIYCKECILECLL   72 (304)
Q Consensus        42 ~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll   72 (304)
                      .|.+|+..+.+|+..+ -||.||.+|+..++.
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~   32 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLK   32 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHH
Confidence            3889999998888555 899999999998875

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

Probab=94.05  E-value=0.067  Score=40.99  Aligned_cols=49  Identities=22%  Similarity=0.524  Sum_probs=38.8

Q ss_pred             eeccCccccccCCcce-EEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTLSL-VALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~-v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      -.||-|.-..+....+ |+.-.|-|.|-..||.+|+.....||.+++++.
T Consensus        32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            3677777655554444 456689999999999999998899999999874

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.00  E-value=0.037  Score=53.05  Aligned_cols=55  Identities=20%  Similarity=0.477  Sum_probs=39.3

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCce
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI  265 (304)
                      .-.||+|.+.+.=.-+-+.--+||.-+|.-|...+-. -+.+||.|+..++++++.
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            3459999997643222233458998888888777432 357999999999988764

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

Probab=93.82  E-value=0.032  Score=52.83  Aligned_cols=45  Identities=29%  Similarity=0.784  Sum_probs=32.6

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      -.|.-|...+.=..   -+.+|-||||++|...  ..++.||.|+.++.+
T Consensus        91 HfCd~Cd~PI~IYG---RmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYG---RMIPCKHVFCLECARS--DSDKICPLCDDRVQR  135 (389)
T ss_pred             EeecccCCcceeee---cccccchhhhhhhhhc--CccccCcCcccHHHH
Confidence            35677777653322   2679999999999664  357799999987754

>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=93.51  E-value=0.02  Score=52.50  Aligned_cols=51  Identities=25%  Similarity=0.661  Sum_probs=38.0

Q ss_pred             ceeccCccc--cccCCcceEEEcc-CCccchHHHHHHHhh-cCCCCC--CCCCCCCCC
Q 022029          211 SFICPSCKV--TLTNTLSLVALSS-CGHVFCKKCADKFMA-VDKVCL--VCNKPCKER  262 (304)
Q Consensus       211 ~~~CPIc~k--~~~~~~~~v~l~~-CGhVfc~~Ci~~~~k-~~~~CP--vC~~~f~~~  262 (304)
                      .-.||||+.  .++...++. +.| |=|.+|.+|+++++. ..-.||  -|++.+.+.
T Consensus        10 d~~CPvCksDrYLnPdik~l-inPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~   66 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKIL-INPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI   66 (314)
T ss_pred             cccCCccccccccCCCeEEE-ECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence            358999985  344455544 555 999999999999875 556899  898876553

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

Probab=93.39  E-value=0.11  Score=36.03  Aligned_cols=42  Identities=21%  Similarity=0.604  Sum_probs=31.2

Q ss_pred             eccCccccccCCcceEEEccCC-----ccchHHHHHHHhh--cCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCG-----HVFCKKCADKFMA--VDKVCLVCN  256 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CG-----hVfc~~Ci~~~~k--~~~~CPvC~  256 (304)
                      +|-||....++...  ++.||.     |.+-..|+.+|+.  ....||+|+
T Consensus         1 ~CrIC~~~~~~~~~--l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDP--LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCe--eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48899884444332  467985     7899999999985  456899995

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

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

Probab=93.11  E-value=0.051  Score=52.36  Aligned_cols=47  Identities=23%  Similarity=0.622  Sum_probs=38.9

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      ..-.||||.-.--+.    ++.||||--|+.||.+.+.+.+.|..|.....
T Consensus       421 Ed~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  421 EDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             ccccCcceecccchh----hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            456899998755554    68999999999999998888889999987554

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

Probab=93.09  E-value=0.012  Score=43.98  Aligned_cols=49  Identities=22%  Similarity=0.508  Sum_probs=23.4

Q ss_pred             eeccCcccccc-C-CcceEEE--ccCCccchHHHHHHHhhc---C--------CCCCCCCCCCC
Q 022029          212 FICPSCKVTLT-N-TLSLVAL--SSCGHVFCKKCADKFMAV---D--------KVCLVCNKPCK  260 (304)
Q Consensus       212 ~~CPIc~k~~~-~-~~~~v~l--~~CGhVfc~~Ci~~~~k~---~--------~~CPvC~~~f~  260 (304)
                      ..|+||...+. + ....++-  ..||++|-..||.+|+..   .        +.||.|+.+++
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            57999999765 3 2222333  389999999999999752   1        36999998874

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

Probab=93.08  E-value=0.044  Score=38.25  Aligned_cols=43  Identities=26%  Similarity=0.595  Sum_probs=21.7

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhh-----cCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-----VDKVCLVCNKP  258 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-----~~~~CPvC~~~  258 (304)
                      +.||++...+..+.   -...|-|+-|.+- +.|+.     ..+.||+|+++
T Consensus         3 L~CPls~~~i~~P~---Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPV---RGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEE---EETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCc---cCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            68999999998884   4779999976544 22221     46899999874

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

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

Probab=92.69  E-value=0.027  Score=59.15  Aligned_cols=51  Identities=29%  Similarity=0.703  Sum_probs=41.3

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCCCCCceEe
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~~~diI~L  267 (304)
                      +.|++|.+ ...    +++..|||+||.+|+.+.+.  ....||+|+..+..++++..
T Consensus       455 ~~c~ic~~-~~~----~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~  507 (674)
T KOG1001|consen  455 HWCHICCD-LDS----FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSA  507 (674)
T ss_pred             cccccccc-ccc----ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhc
Confidence            89999999 333    36889999999999999875  34579999998887766654

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

Probab=92.07  E-value=0.076  Score=51.24  Aligned_cols=44  Identities=25%  Similarity=0.568  Sum_probs=32.3

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      -...|-||.+.+-+.    +.-+|||+.|  |..-. +....||+|+..+.
T Consensus       304 ~p~lcVVcl~e~~~~----~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSA----VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccce----eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            456899999988874    4669999988  65442 23456999998654

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

Probab=92.06  E-value=0.044  Score=51.03  Aligned_cols=50  Identities=20%  Similarity=0.532  Sum_probs=37.5

Q ss_pred             eeccCccccccCCc-------ceEEEccCCccchHHHHHHHh--hcCCCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTL-------SLVALSSCGHVFCKKCADKFM--AVDKVCLVCNKPCKER  262 (304)
Q Consensus       212 ~~CPIc~k~~~~~~-------~~v~l~~CGhVfc~~Ci~~~~--k~~~~CPvC~~~f~~~  262 (304)
                      -.|.||...|....       + .+--.|+|||-+-||+-|.  -+...||.|.+.++-+
T Consensus       225 ~vCaVCg~~~~~s~~eegvien-ty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  225 SVCAVCGQQIDVSVDEEGVIEN-TYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             chhHhhcchheeecchhhhhhh-heeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            47888887775442       1 2445899999999999995  3667999999887643

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=91.66  E-value=0.096  Score=35.22  Aligned_cols=30  Identities=27%  Similarity=0.826  Sum_probs=24.8

Q ss_pred             ceecccCCC---CCceecCCCceeehhhHHHHH
Q 022029           42 ACCLCLKPF---IDPLCCQKGHIYCKECILECL   71 (304)
Q Consensus        42 ~C~LcL~p~---~dPV~t~~G~lyckEcIle~l   71 (304)
                      .|.+|+.+.   +.|++++-||+||.+||....
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~   33 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK   33 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc
Confidence            377788877   467899999999999998754

>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=91.41  E-value=0.18  Score=37.86  Aligned_cols=34  Identities=35%  Similarity=0.785  Sum_probs=27.0

Q ss_pred             cceecccCCCCCc------------e-ecCCCceeehhhHHHHHHHh
Q 022029           41 DACCLCLKPFIDP------------L-CCQKGHIYCKECILECLLSQ   74 (304)
Q Consensus        41 ~~C~LcL~p~~dP------------V-~t~~G~lyckEcIle~ll~q   74 (304)
                      |.|++|+.++.+|            | ..+-||.|-..||.+||..+
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~   66 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN   66 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC
Confidence            5699999999444            3 34579999999999998543

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 ....

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

Probab=91.22  E-value=0.12  Score=50.11  Aligned_cols=51  Identities=27%  Similarity=0.640  Sum_probs=40.6

Q ss_pred             CceeccCccccccCCc----ceEEEccCCccchHHHHHHHh--hc-----CCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTL----SLVALSSCGHVFCKKCADKFM--AV-----DKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~----~~v~l~~CGhVfc~~Ci~~~~--k~-----~~~CPvC~~~f~  260 (304)
                      ....|-||++......    ++-.+.+|-|.||..||..|-  .+     ...||.|+....
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            4679999999888763    234457899999999999996  34     479999998765

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

Probab=90.85  E-value=0.13  Score=48.60  Aligned_cols=42  Identities=29%  Similarity=0.722  Sum_probs=34.6

Q ss_pred             cccCCCCcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           30 ERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        30 ~Rlg~ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .-.+.+-..||. |-+|-+++.+||+|..||-||.-|.+..+-
T Consensus       232 ~~~~D~~~~Pf~-c~icr~~f~~pVvt~c~h~fc~~ca~~~~q  273 (313)
T KOG1813|consen  232 VKIEDIELLPFK-CFICRKYFYRPVVTKCGHYFCEVCALKPYQ  273 (313)
T ss_pred             eecCCcccCCcc-ccccccccccchhhcCCceeehhhhccccc
Confidence            444445567775 789999999999999999999999998764

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

Probab=90.34  E-value=0.036  Score=52.12  Aligned_cols=42  Identities=24%  Similarity=0.711  Sum_probs=34.0

Q ss_pred             ceeccCccccccCCcceEEEccCCccc-hHHHHHHHhhcCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVF-CKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVf-c~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      +.+|.||++.-.+-    ++.+|||.+ |.+|-+.+.    .||+|++.+.
T Consensus       300 ~~LC~ICmDaP~DC----vfLeCGHmVtCt~CGkrm~----eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDC----VFLECGHMVTCTKCGKRMN----ECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcce----EEeecCcEEeehhhccccc----cCchHHHHHH
Confidence            78999999988774    577999955 888877642    8999998764

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

Probab=90.15  E-value=0.16  Score=47.66  Aligned_cols=48  Identities=27%  Similarity=0.690  Sum_probs=41.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNK  257 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~  257 (304)
                      ....||+|...+......+-.-+|||..-..|+++.+.....||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            456699999988887666677899999999999999876699999999

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

Probab=89.86  E-value=0.15  Score=53.53  Aligned_cols=36  Identities=25%  Similarity=0.659  Sum_probs=31.3

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ++..--|.+|-....|-|++..||+||-+||=..+-
T Consensus       640 yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~e  675 (698)
T KOG0978|consen  640 YKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYE  675 (698)
T ss_pred             HHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHH
Confidence            355667999999999999999999999999987654

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

Probab=89.09  E-value=0.12  Score=52.30  Aligned_cols=36  Identities=33%  Similarity=0.525  Sum_probs=32.0

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ..---|.||--|+.||+.+..-|.|||-||-||+..
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~  569 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVES  569 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHh
Confidence            334579999999999999999999999999999753

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

Probab=88.49  E-value=0.2  Score=49.43  Aligned_cols=75  Identities=20%  Similarity=0.398  Sum_probs=45.5

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHG  117 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~qkkei~r~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~~  117 (304)
                      ++|. |++|...+..||+||.||-||..||.. .|+|..+.---..++..-.   ..+...-........+.+|......
T Consensus        83 sef~-c~vc~~~l~~pv~tpcghs~c~~Cl~r-~ld~~~~cp~Cr~~l~e~~---~~~~~~~~~r~~~~li~~F~~~~~~  157 (398)
T KOG4159|consen   83 SEFE-CCVCSRALYPPVVTPCGHSFCLECLDR-SLDQETECPLCRDELVELP---ALEQALSLNRLLCKLITKFLEGSSS  157 (398)
T ss_pred             chhh-hhhhHhhcCCCccccccccccHHHHHH-HhccCCCCcccccccccch---HHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            4454 559999999999999999999999888 5556544322111111100   0111111345566777888766554

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

Probab=88.43  E-value=0.47  Score=45.82  Aligned_cols=47  Identities=28%  Similarity=0.680  Sum_probs=37.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHH--hhcCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKF--MAVDKVCLVCNKPC  259 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~--~k~~~~CPvC~~~f  259 (304)
                      +...+|-||-..++-    +.+.||||-+|.-|--++  +-....||+|+..-
T Consensus        59 Een~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGSTTY----SARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCceE----EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            456799999887755    468899999999998776  33677999999754

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

Probab=88.05  E-value=0.16  Score=45.62  Aligned_cols=34  Identities=26%  Similarity=0.697  Sum_probs=30.2

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECILECL   71 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~l   71 (304)
                      -..-.|.+||..+.+|++.+.||-||+.||-..+
T Consensus        11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~   44 (386)
T KOG2177|consen   11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSW   44 (386)
T ss_pred             cccccChhhHHHhhcCccccccchHhHHHHHHhc
Confidence            3467899999999999999999999999997765

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=87.98  E-value=0.72  Score=32.83  Aligned_cols=47  Identities=21%  Similarity=0.591  Sum_probs=38.8

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCC--CCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLV--CNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPv--C~~~f~  260 (304)
                      ....|++|.+.|.+...+|+-..||-++-.+|....    ..|-+  |+.+|.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~----g~C~~~~c~~~~~   52 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA----GGCINYSCGTGFE   52 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhC----CceEeccCCCCcc
Confidence            356899999999887789999999999999997763    56766  777764

>KOG2979 consensus Protein involved in DNA repair [General function prediction only]

Probab=87.97  E-value=0.26  Score=45.63  Aligned_cols=46  Identities=24%  Similarity=0.299  Sum_probs=38.4

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--CCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--DKVCLVCNKP  258 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--~~~CPvC~~~  258 (304)
                      -...||++++.+-|+   ++.+.|||||=...|..++..  ...||+=+..
T Consensus       175 fs~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~  222 (262)
T KOG2979|consen  175 FSNRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPVLGCE  222 (262)
T ss_pred             hcccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence            457899999999998   578999999999999998754  4689986654

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

Probab=87.93  E-value=0.27  Score=46.17  Aligned_cols=48  Identities=23%  Similarity=0.650  Sum_probs=36.6

Q ss_pred             eeccCccccccCC--cceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNT--LSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPC  259 (304)
Q Consensus       212 ~~CPIc~k~~~~~--~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f  259 (304)
                      +.|-||...|++.  .++=-+..|||.||..|+..++. ....||.|+.+-
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            5788999888764  23323446999999999999875 345889999883

>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=87.88  E-value=0.39  Score=40.44  Aligned_cols=43  Identities=19%  Similarity=0.405  Sum_probs=31.3

Q ss_pred             ceeccCccccccCCcceEEEccCC------ccchHHHHHHHhhcCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCG------HVFCKKCADKFMAVDKVCLV  254 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CG------hVfc~~Ci~~~~k~~~~CPv  254 (304)
                      ...|.||.+.+.+..- |+..+||      |+||.+|+++|-.....+|-
T Consensus        26 ~~EC~IC~~~I~~~~G-vV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPf   74 (134)
T PF05883_consen   26 TVECQICFDRIDNNDG-VVYVTDGGTLNLEKMFCADCDKRWRRERNRDPF   74 (134)
T ss_pred             CeeehhhhhhhhcCCC-EEEEecCCeehHHHHHHHHHHHHHHhhccCCCc
Confidence            5789999999999434 4445666      89999999998544444443

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.

>PHA02524 43A DNA polymerase subunit A; Provisional

Probab=86.81  E-value=1.8  Score=44.12  Aligned_cols=42  Identities=24%  Similarity=0.312  Sum_probs=34.2

Q ss_pred             CCCCceecCCCceeehh------hHHHHHHHhhHHHHHHHHHHHHHHH
Q 022029           49 PFIDPLCCQKGHIYCKE------CILECLLSQKKDIQRKLVAHAAQQK   90 (304)
Q Consensus        49 p~~dPV~t~~G~lyckE------cIle~ll~qkkei~r~~~~~e~~~~   90 (304)
                      |-.+=+++|.||-|+|+      -||+.||++||++|+.+++.++..+
T Consensus       436 ~~~~~~~~P~G~~F~K~~~GilP~iLe~Ll~~RK~~Kk~M~~a~~~~~  483 (498)
T PHA02524        436 PSDQFSCAPNGMMYKKGVVGVLPNETEKVFLQRKSEKKMMLAAIRNQE  483 (498)
T ss_pred             CCcceEECCCCCEEecCCCcccHHHHHHHHHHHHHHHHHHHHhHhhHH
Confidence            33455689999999997      6999999999999999999655443

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

Probab=86.73  E-value=3  Score=44.70  Aligned_cols=41  Identities=24%  Similarity=0.587  Sum_probs=33.6

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPC  259 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f  259 (304)
                      .|..|.-.+.=|   +|.--|||.|-..|+.   .+...||-|....
T Consensus       842 kCs~C~~~LdlP---~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  842 KCSACEGTLDLP---FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eecccCCccccc---eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            688888888776   4677899999999998   3567999999854

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

Probab=86.39  E-value=0.59  Score=44.55  Aligned_cols=46  Identities=26%  Similarity=0.624  Sum_probs=36.2

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .-+-||||...+.-+.   +--.=||..|..|-.++   ...||.|+.++..
T Consensus        47 ~lleCPvC~~~l~~Pi---~QC~nGHlaCssC~~~~---~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPPI---FQCDNGHLACSSCRTKV---SNKCPTCRLPIGN   92 (299)
T ss_pred             hhccCchhhccCcccc---eecCCCcEehhhhhhhh---cccCCcccccccc
Confidence            3578999999998882   23344999999997654   4689999999984

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=85.53  E-value=0.34  Score=44.90  Aligned_cols=37  Identities=19%  Similarity=0.249  Sum_probs=34.1

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+.+|-||.|+|.=+++||+||.|.-|++..|.|.|-
T Consensus       207 Evpd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~  243 (284)
T KOG4642|consen  207 EVPDYLCGKITLELMREPVITPSGITYDRADIEEHLQ  243 (284)
T ss_pred             cccchhhhhhhHHhhcCCccCccccchhHHHHHHHHH
Confidence            3567999999999999999999999999999999874

>KOG2169 consensus Zn-finger transcription factor [Transcription]

Probab=85.16  E-value=0.51  Score=49.45  Aligned_cols=56  Identities=21%  Similarity=0.357  Sum_probs=41.1

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHh----hcCCCCCCCCCCCCCCCceE
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFM----AVDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~----k~~~~CPvC~~~f~~~diI~  266 (304)
                      ..-.+.||+++..+.-+.+   --.|.|+=|...+.-+-    +..|.||||.+.+.-+++|.
T Consensus       303 ~~vSL~CPl~~~Rm~~P~r---~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~i  362 (636)
T KOG2169|consen  303 LRVSLNCPLSKMRMSLPAR---GHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLII  362 (636)
T ss_pred             ceeEecCCcccceeecCCc---ccccccceecchhhhHHhccCCCeeeCccCCccccccchhh
Confidence            4557999999998877744   34788888776655432    24689999999988766544

>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences

Probab=84.69  E-value=4.9  Score=35.90  Aligned_cols=36  Identities=11%  Similarity=0.271  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 022029           83 VAHAAQQKQEKEEEEERLMLQKARELDAFDQQNHGA  118 (304)
Q Consensus        83 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~  118 (304)
                      .+|+++.+..++++.+++++.|+++|+.++.-+.|.
T Consensus        94 EE~dakA~~~kEKq~q~EEEKRrqkie~we~~q~Gk  129 (190)
T PF06936_consen   94 EELDAKAEEYKEKQKQEEEEKRRQKIEMWESMQEGK  129 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555566666777777888888888766644

SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.

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

Probab=84.04  E-value=0.54  Score=46.10  Aligned_cols=48  Identities=19%  Similarity=0.527  Sum_probs=37.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNK  257 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~  257 (304)
                      -.+-|-.|.+.+.-...-.-.-||.|+|-.+|+.+++.  ....||.|++
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            45789999998766433334569999999999999875  3569999994

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.32  E-value=0.73  Score=31.95  Aligned_cols=31  Identities=23%  Similarity=0.687  Sum_probs=22.5

Q ss_pred             EccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          230 LSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       230 l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      ++=.-|-+|..|+..++..+..||+|+.++-
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            3334689999999998888889999998874

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=82.95  E-value=1.1  Score=28.36  Aligned_cols=11  Identities=45%  Similarity=0.939  Sum_probs=8.7

Q ss_pred             cCCCCCCCCCC
Q 022029          248 VDKVCLVCNKP  258 (304)
Q Consensus       248 ~~~~CPvC~~~  258 (304)
                      ..+.||+|+.+
T Consensus        16 ~~~~CP~Cg~~   26 (33)
T cd00350          16 APWVCPVCGAP   26 (33)
T ss_pred             CCCcCcCCCCc
Confidence            56789999874

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=82.55  E-value=0.45  Score=33.40  Aligned_cols=39  Identities=26%  Similarity=0.726  Sum_probs=24.6

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCK  260 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~  260 (304)
                      .|.||.|.+.|+..           .+..-|.+.-..  ....||+|...+.
T Consensus         2 ~f~CP~C~~~~~~~-----------~L~~H~~~~H~~~~~~v~CPiC~~~~~   42 (54)
T PF05605_consen    2 SFTCPYCGKGFSES-----------SLVEHCEDEHRSESKNVVCPICSSRVT   42 (54)
T ss_pred             CcCCCCCCCccCHH-----------HHHHHHHhHCcCCCCCccCCCchhhhh
Confidence            58999999966543           134444443321  3468999997654

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

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

Probab=80.93  E-value=1.7  Score=34.96  Aligned_cols=32  Identities=31%  Similarity=0.652  Sum_probs=27.7

Q ss_pred             EEEccCCccchHHHHHHHhhcCCCCCCCCCCC
Q 022029          228 VALSSCGHVFCKKCADKFMAVDKVCLVCNKPC  259 (304)
Q Consensus       228 v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f  259 (304)
                      |+--.|.|.|-..||.+|++....||+|.++-
T Consensus        76 VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   76 VAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             EEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            34447999999999999999999999998864

>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1

Probab=80.62  E-value=0.92  Score=33.01  Aligned_cols=36  Identities=28%  Similarity=0.568  Sum_probs=27.1

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHh
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFM  246 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~  246 (304)
                      .-.|+.|.+.|+-..+-.--+.||.+||..|....+
T Consensus        10 ~~~C~~C~~~F~~~~rk~hCr~CG~i~C~~C~~~~~   45 (68)
T smart00064       10 VSNCMGCGKEFNLTKRRHHCRNCGRIFCSKCSSKKA   45 (68)
T ss_pred             CCcCcccCccccCcccccccccCCCCcChHHcCCee
Confidence            357999999888654434467899999999977653

The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the

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

Probab=80.60  E-value=0.82  Score=49.44  Aligned_cols=49  Identities=20%  Similarity=0.455  Sum_probs=37.4

Q ss_pred             CceeccCccccccC-----CcceEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTN-----TLSLVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCK  260 (304)
Q Consensus       210 ~~~~CPIc~k~~~~-----~~~~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~  260 (304)
                      +.-.|+||..++.-     +++  .-.+|-|-|...|+.+|++  ....||+|+..|+
T Consensus      1468 G~eECaICYsvL~~vdr~lPsk--rC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSK--RCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCcc--ccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            45689999987751     221  2357889999999999987  4579999997765

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=80.55  E-value=2.9  Score=29.93  Aligned_cols=49  Identities=24%  Similarity=0.524  Sum_probs=35.0

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKER  262 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~  262 (304)
                      -.|-.|.+.+-..+.-++|=.=-+.||..|.+.++  ...||.||-.|...
T Consensus         6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R   54 (57)
T PF06906_consen    6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR   54 (57)
T ss_pred             CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence            45777777776655333443345689999999976  56899999988654

This family contains a number of conserved cysteine residues and its function is unknown.

>KOG2979 consensus Protein involved in DNA repair [General function prediction only]

Probab=80.31  E-value=0.7  Score=42.89  Aligned_cols=31  Identities=26%  Similarity=0.579  Sum_probs=27.3

Q ss_pred             ceecccCCCCCceecC-CCceeehhhHHHHHH
Q 022029           42 ACCLCLKPFIDPLCCQ-KGHIYCKECILECLL   72 (304)
Q Consensus        42 ~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll   72 (304)
                      -|-+++.|...||+.. .||+|+|..|.++|-
T Consensus       178 rdPis~~~I~nPviSkkC~HvydrDsI~~~l~  209 (262)
T KOG2979|consen  178 RDPISKKPIVNPVISKKCGHVYDRDSIMQILC  209 (262)
T ss_pred             cCchhhhhhhchhhhcCcCcchhhhhHHHHhc
Confidence            4788899999999665 599999999999886

---

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	304
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-04
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-04
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	5e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	6e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-04
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	7e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-05
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	6e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	7e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-04
3k1f_M	197	Transcription initiation factor IIB; RNA polymeras	1e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	6e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	5e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	6e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	7e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	6e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	6e-04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	7e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	7e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-04

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

 Score = 45.9 bits (109), Expect = 6e-07
 Identities = 14/58 (24%), Positives = 20/58 (34%), Gaps = 3/58 (5%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVN 266
           D    C  C          + +  C H +C  C  KF++    C  C     E +L N
Sbjct: 20  DDLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKN 74

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

 Score = 37.4 bits (87), Expect = 6e-04
 Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)

Query: 43 CCLCLKPFIDPLCCQK-GHIYCKECILECLLSQKK 76
          C +C + F   +   +  H YC  CI + L  + +
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQ 59

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 3/58 (5%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVN 266
               +C  CK  L +      ++ C H FCK C  +       C  CN    +   ++
Sbjct: 13  TPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLS 67

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

 Score = 39.4 bits (92), Expect = 7e-05
 Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 1/43 (2%)

Query: 35 DSIKPFDACCLCLKPFIDPLCCQK-GHIYCKECILECLLSQKK 76
            + P+  C +C    ID     +  H +CK CI+       +
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNR 52

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

 Score = 43.7 bits (103), Expect = 3e-06
 Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 4/59 (6%)

Query: 200 SEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKP 258
                S   +  F C  C+    N +       C H FC+ CA +       C +C++P
Sbjct: 4   GSSGGSEEEEIPFRCFICRQAFQNPVVT----KCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 35 DSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          +   PF  C +C + F +P+  +  H +C+ C LE   +  +
Sbjct: 11 EEEIPF-RCFICRQAFQNPVVTKCRHYFCESCALEHFRATPR 51

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

 Score = 43.3 bits (102), Expect = 4e-06
 Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 3/66 (4%)

Query: 205 SSSNDKSFICPSCKVTLTNTLSL---VALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE 261
                 +  CP C    +  +     +  + CGHVFC +C    +     C  C K    
Sbjct: 4   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

Query: 262 RNLVNV 267
           +    +
Sbjct: 64  KRYHPI 69

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 43.8 bits (103), Expect = 5e-06
 Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVNV 267
            KS  C  C+  L + +      SC H+FC+ C  + + V    C  C  PC   +L + 
Sbjct: 21  VKSISCQICEHILADPVET----SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

Query: 268 EK 269
            K
Sbjct: 77  VK 78

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 39.5 bits (92), Expect = 2e-04
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          C +C     DP+     H++C+ CIL CL     
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLKVMGS 59

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 43.6 bits (103), Expect = 6e-06
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 5/58 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLV 265
           +  + CP C + L   +       CGH FCK C  K +      C V N+   E  L 
Sbjct: 16  ESKYECPICLMALREAVQT----PCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 9/29 (31%), Positives = 16/29 (55%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECL 71
          C +CL    + +    GH +CK CI++ +
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSI 49

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 43.3 bits (102), Expect = 8e-06
 Identities = 11/57 (19%), Positives = 22/57 (38%), Gaps = 3/57 (5%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLV 265
           +   +C  C     +      +  C H FCK C  +++   K C +C+    +   +
Sbjct: 13  NPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 66

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 5/57 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERNL 264
           +  + C  C + L +         CGH FC+ C    ++     C  C +   +  +
Sbjct: 13  EDKYKCEKCHLVLCSPKQT----ECGHRFCESCMAALLSSSSPKCTACQESIVKDKV 65

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 4/68 (5%)

Query: 200 SEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDK-VCLVCNKP 258
            +E+   S  + F C  C   L +         C  + C  C  +++   +  C  C  P
Sbjct: 11  MDEQSVESIAEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

Query: 259 CKERNLVN 266
            + R LVN
Sbjct: 68  LQLRELVN 75

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)

Query: 43 CCLCLKPFIDPLCCQK-GHIYCKECILECLLSQK 75
          C +C++   D   C     + C  CI   L  Q+
Sbjct: 25 CFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR 58

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 44.4 bits (104), Expect = 2e-05
 Identities = 13/73 (17%), Positives = 23/73 (31%), Gaps = 5/73 (6%)

Query: 197 EDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVC 255
             +  E          +C  C     +    V +  CGH+ C  C   +   + + C  C
Sbjct: 318 TQEQYELYCEMGSTFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFC 373

Query: 256 NKPCKERNLVNVE 268
               K    + V+
Sbjct: 374 RCEIKGTEPIVVD 386

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 39.7 bits (92), Expect = 7e-04
 Identities = 10/50 (20%), Positives = 19/50 (38%)

Query: 27  TQKERLGKDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
            ++  L  +    F  C +C +   D      GH+ C  C+     S+ +
Sbjct: 319 QEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ 368

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 41.8 bits (98), Expect = 3e-05
 Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 5/56 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNL 264
           +K   C  C   L      V L  C H+FC  C    +     C VC  P   ++L
Sbjct: 20  EKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQDL 70

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

 Score = 40.1 bits (94), Expect = 3e-05
 Identities = 13/55 (23%), Positives = 20/55 (36%)

Query: 213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV 267
           IC      +     L+  + CGHVFC +C    +     C  C K    +    +
Sbjct: 8   ICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI 62

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

 Score = 39.5 bits (92), Expect = 6e-05
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 3/61 (4%)

Query: 205 SSSNDKSFICPSCKVTLTNTLS---LVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE 261
                 +  CP C    +  +    L+  + CGHVFC +C    +     C  C K    
Sbjct: 9   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

Query: 262 R 262
           +
Sbjct: 69  K 69

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

 Score = 39.4 bits (92), Expect = 7e-05
 Identities = 8/34 (23%), Positives = 16/34 (47%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          C +CL+  + P+     H++C  C+       K+
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKR 51

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

 Score = 37.9 bits (88), Expect = 3e-04
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG 271
           C  C  T  + +SL     C HVFC  C      + K C +C +   E  L +    G
Sbjct: 18  CAICLQTCVHPVSL----PCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSGPSSG 71

>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197

 Score = 41.2 bits (96), Expect = 1e-04
 Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 196 TEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKC 241
           + DK   ++  + +    CP CKV       +V   S G V C  C
Sbjct: 6   SIDKRAGRRGPNLNIVLTCPECKVYPPK---IVERFSEGDVVCALC 48

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 212 FICPSCKVT-LTNTLSLVALSSCGHVFCKKCADKFMAVDKV-CLVCNKPCKERN 263
             CP CK T   N    + ++ CGH  C+ C D         C  C  P ++ N
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

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

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 5/37 (13%)

Query: 43 CCLCLKPFIDPL---CCQKGHIYCKECILECLLSQKK 76
          C +C     D +   CC  G+ YC ECI   LL   +
Sbjct: 18 CLICKDIMTDAVVIPCC--GNSYCDECIRTALLESDE 52

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 7/56 (12%)

Query: 212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKV---CLVCNKPCKERNL 264
            ICP C   L   +++     CGH FC KC  +          C +C    ++  +
Sbjct: 21  VICPICLDILQKPVTI----DCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72

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

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 4/35 (11%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQK 75
          C +CL     P  + C  GH +C +CI +   +  
Sbjct: 23 CPICLDILQKPVTIDC--GHNFCLKCITQIGETSC 55

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 40.0 bits (93), Expect = 3e-04
 Identities = 15/54 (27%), Positives = 19/54 (35%), Gaps = 4/54 (7%)

Query: 210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKER 262
              +CP C   L NT   +    C H FC  C    +    K C  C K    +
Sbjct: 53  SELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 39.7 bits (92), Expect = 4e-04
 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 5/58 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLV 265
           +  + CP C + L   +     + CGH FCK C  K +      C V N+   E  L 
Sbjct: 16  ESKYECPICLMALREAVQ----TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 38.9 bits (90), Expect = 5e-04
 Identities = 11/34 (32%), Positives = 13/34 (38%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          C  C      P   Q GH YC  C+   L S  +
Sbjct: 34 CSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQ 67

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

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 4/35 (11%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQK 75
          C +CL+   +P    C   H +C+ CI     S +
Sbjct: 22 CPICLELLKEPVSADC--NHSFCRACITLNYESNR 54

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 37.2 bits (87), Expect = 5e-04
 Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 4/37 (10%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQKKD 77
          C +CL+    P  L C  GH +C+ C+         D
Sbjct: 22 CPICLELLTQPLSLDC--GHSFCQACLTANHKKSMLD 56

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

 Score = 37.8 bits (88), Expect = 6e-04
 Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 7/56 (12%)

Query: 212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKV---CLVCNKPCKERNL 264
             CP C   +   +S      C H+FCK C  K +   K    C +C     +R+L
Sbjct: 22  LECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

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

 Score = 37.8 bits (88), Expect = 7e-04
 Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQKK 76
          C +CL+   +P    C   HI+CK C+L+ L  +K 
Sbjct: 24 CPICLELIKEPVSTKC--DHIFCKFCMLKLLNQKKG 57

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

 Score = 38.2 bits (88), Expect = 6e-04
 Identities = 13/53 (24%), Positives = 19/53 (35%)

Query: 212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNL 264
            IC      +     L+  + CGHVFC +C    +     C  C K    +  
Sbjct: 76  PICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128

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

 Score = 36.5 bits (85), Expect = 6e-04
 Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 4/36 (11%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQKK 76
          C +CL+   +P  + C  GH +CK CI       ++
Sbjct: 18 CSVCLEYLKEPVIIEC--GHNFCKACITRWWEDLER 51

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 36.9 bits (86), Expect = 6e-04
 Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 4/40 (10%)

Query: 43 CCLCLKPFIDP--LCCQKGHIYCKECILECLLSQKKDIQR 80
          C +CL+   +P  L C  GH  C+ CI          +  
Sbjct: 15 CPICLELLTEPLSLDC--GHSLCRACITVSNKEAVTSMGG 52

>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 Length = 61

 Score = 36.2 bits (84), Expect = 7e-04
 Identities = 7/36 (19%), Positives = 13/36 (36%), Gaps = 1/36 (2%)

Query: 43 CCLCLKPFIDPLCCQK-GHIYCKECILECLLSQKKD 77
          C +  K    P+   K   I+ K  + + +     D
Sbjct: 6  CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGND 41

>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} Length = 267

 Score = 39.6 bits (91), Expect = 7e-04
 Identities = 24/219 (10%), Positives = 56/219 (25%), Gaps = 13/219 (5%)

Query: 56  CQKGHIYCKECILECLLSQKKDIQRKLVAHAAQQKQEKEEEEERLMLQKARELDAFDQQN 115
               H      I +    Q  +   +LV   +      EE+   +     + L  ++ ++
Sbjct: 22  FHNLHARDLSNIYQQCYKQIDETINQLVDSTSPSTIGIEEQVADI-TSTYKLLSTYESES 80

Query: 116 HGAVPQYND-----RNHSQDKNGFHGANSVKVTSYEEEALRTMKAFWLPSATPEAPVKVE 170
           +       D     +  S        +   K  + E  A +  + +        A +   
Sbjct: 81  NSFDEHIKDLKKNFKQSSDACPQIDLSTWDKYRTGELTAPKLSELYLNMPTPEPATMVNN 140

Query: 171 APSASTICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVAL 230
             +   +            + P        ++ +         CP            +  
Sbjct: 141 TDTLKILKVLPYIWNDPTCVIPDLQNPADEDDLQIEGGKIELTCPITCKPYEAP---LIS 197

Query: 231 SSCGHVFCKKCADKFMAVDKV----CLVCNKPCKERNLV 265
             C HVF +     ++            C++    R+ V
Sbjct: 198 RKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFV 236

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

 Score = 36.6 bits (84), Expect = 7e-04
 Identities = 14/62 (22%), Positives = 21/62 (33%), Gaps = 1/62 (1%)

Query: 205 SSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKV-CLVCNKPCKERN 263
             + +    CP C   L          +CG+  C+ C  +    +   C  C KP  E  
Sbjct: 5   PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP 64

Query: 264 LV 265
            V
Sbjct: 65  AV 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	304
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.69
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.27
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.24
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.19
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.19
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.16
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.13
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.12
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.1
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.09
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.09
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.08
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.06
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.02
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.02
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.02
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.02
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.01
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.01
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.01
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.99
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.98
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.98
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.95
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.95
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.95
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.93
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.93
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.93
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.92
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.88
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.87
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.86
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.86
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.85
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.83
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.82
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.82
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.81
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.78
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.76
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.75
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.75
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.74
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.7
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.69
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.67
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.65
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.63
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.62
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.61
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.6
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.6
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.59
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.58
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.56
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.53
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.51
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.5
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.49
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.49
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.42
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.4
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.36
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.36
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.28
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.1
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.03
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	97.98
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	97.95
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	97.9
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	97.89
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	97.86
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.86
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	97.85
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	97.84
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	97.82
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.79
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	97.75
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.75
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	97.74
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	97.74
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	97.72
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.66
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	97.64
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	97.61
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	97.59
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	97.56
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	97.56
1z6u_A	150	NP95-like ring finger protein isoform B; structura	97.55
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	97.52
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.52
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	97.49
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	97.47
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	97.42
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	97.41
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	97.39
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	97.32
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	97.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	97.18
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	97.1
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	97.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	96.97
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	96.92
2ect_A	78	Ring finger protein 126; metal binding protein, st	96.86
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	96.81
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	96.77
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	96.76
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	96.75
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	96.73
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	96.7
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	96.68
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.51
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	96.32
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	96.24
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	96.17
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	96.14
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	96.02
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	95.88
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	95.77
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.71
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	95.39
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	95.28
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	95.19
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	95.02
2ea5_A	68	Cell growth regulator with ring finger domain prot	94.97
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	94.71
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	94.12
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	93.84
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	93.63
3nw0_A	238	Non-structural maintenance of chromosomes element	93.45
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	93.15
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	92.98
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	92.97
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	92.95
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	92.89
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	92.78
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.95
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	91.28
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	88.55
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	85.77
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	85.49
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	84.84
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	83.91
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	81.77
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	81.15
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	81.13
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	80.41

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

Probab=99.69  E-value=1.4e-17  Score=135.81  Aligned_cols=81  Identities=25%  Similarity=0.632  Sum_probs=68.5

Q ss_pred             ccCCCCCCcCCCCCceeeecccCCCcccccCCCCCceeccCccccccCC---cceEEEccCCccchHHHHHHHhhcCCCC
Q 022029          176 TICPEGKEKLKLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNT---LSLVALSSCGHVFCKKCADKFMAVDKVC  252 (304)
Q Consensus       176 ~~CP~sg~~l~lKDLi~l~f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~---~~~v~l~~CGhVfc~~Ci~~~~k~~~~C  252 (304)
                      ..||+-..++..+++.++.+..            ....|+||++.|.+.   .+.+++.+|||+||..||.+|+.....|
T Consensus        49 ~~CP~Cr~~~~~~~l~~l~i~~------------~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~C  116 (133)
T 4ap4_A           49 NTCPTCRKKINHKRYHPIYIGS------------GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTC  116 (133)
T ss_dssp             SBCTTTCCBCTTTCEEECBCSS------------SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBC
T ss_pred             CCCCCCCCcCccccccccccCC------------CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCC
Confidence            4799999999999998876532            346899999999764   2344678999999999999999888999


Q ss_pred             CCCCCCCCCCCceEec
Q 022029          253 LVCNKPCKERNLVNVE  268 (304)
Q Consensus       253 PvC~~~f~~~diI~L~  268 (304)
                      |+|+.++..+++++|.
T Consensus       117 P~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A          117 PTCRKKINHKRYHPIY  132 (133)
T ss_dssp             TTTCCBCCGGGEEEEC
T ss_pred             CCCCCcCChhcceeee
Confidence            9999999999998874

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

Probab=99.27  E-value=4.4e-12  Score=93.51  Aligned_cols=61  Identities=23%  Similarity=0.533  Sum_probs=53.2

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      .+..+.||||++.|.++   +.+.+|||+||..||.+|+.....||+|+.++...|++...++|
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~G   72 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSGPSSG   72 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCCCSCC
T ss_pred             cCCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccccccCCCC
Confidence            35678999999999987   45669999999999999998888999999999999988876654

>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=99.24  E-value=5.7e-12  Score=90.89  Aligned_cols=33  Identities=15%  Similarity=0.193  Sum_probs=30.7

Q ss_pred             cceecccCCCCCceec-CCCceeehhhHHHHHHH
Q 022029           41 DACCLCLKPFIDPLCC-QKGHIYCKECILECLLS   73 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll~   73 (304)
                      ..|.||+.+.+|||++ ++||+|||+||.+||..
T Consensus         4 ~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~   37 (61)
T 2bay_A            4 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD   37 (61)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH
T ss_pred             EEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHh
Confidence            4799999999999999 89999999999999963

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

Probab=99.19  E-value=1.4e-11  Score=88.88  Aligned_cols=58  Identities=26%  Similarity=0.596  Sum_probs=50.3

Q ss_pred             ceeccCccc-cccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKV-TLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k-~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+.||||++ .|.++...+++.+|||+||..||.+++. ....||+|+.++...+++...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQL   62 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEEC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccceeec
Confidence            578999999 8999876667789999999999999965 456899999999999988753

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

Probab=99.19  E-value=1.2e-11  Score=92.20  Aligned_cols=65  Identities=26%  Similarity=0.519  Sum_probs=56.4

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCccc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGF  274 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gtgf  274 (304)
                      ...+.|+||++.|.+...+ ++.+|||+||..||.+|+.....||+|+.++...+++...++++|.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~-~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~   77 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESV-RQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPGLTGV   77 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCE-EECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCCCSSCTTC
T ss_pred             CCCCCCeeCCccccCCCCE-EEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCCCCCCCCC
Confidence            4578999999999887544 4558999999999999998888999999999999999888887764

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

Probab=99.16  E-value=1.4e-11  Score=89.96  Aligned_cols=60  Identities=23%  Similarity=0.594  Sum_probs=52.0

Q ss_pred             CCceeccCccccccCC---cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          209 DKSFICPSCKVTLTNT---LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~---~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      +..+.||||.+.|.++   ...+++.+|||+||..||.+|+.....||+|+.++...+++.|.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhheeecc
Confidence            4578999999999775   34557889999999999999998888999999999998888763

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

Probab=99.13  E-value=2.4e-11  Score=86.65  Aligned_cols=58  Identities=24%  Similarity=0.601  Sum_probs=50.6

Q ss_pred             ceeccCccccccCC---cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKVTLTNT---LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k~~~~~---~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      .+.||||++.|.++   ...+++.+|||+||..|+.+|+.....||+|+.++...+++.|.
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccceeeee
Confidence            57899999999874   24456789999999999999998888999999999999998874

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.12  E-value=6.5e-11  Score=93.45  Aligned_cols=55  Identities=13%  Similarity=0.092  Sum_probs=49.6

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      ...|.||||+..|.++    ++.+|||+||..||..|+.....||+|+.++...++++.
T Consensus        27 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn   81 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP----VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPV   81 (100)
T ss_dssp             STTTBCTTTCSBCSSE----EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEEC
T ss_pred             cHhhCCcCccCcccCC----eECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceEC
Confidence            4579999999999999    456799999999999999878899999999998888874

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

Probab=99.10  E-value=6.9e-11  Score=88.08  Aligned_cols=54  Identities=17%  Similarity=0.367  Sum_probs=47.2

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~  266 (304)
                      ...+.||||.+.|.++    ++.+|||+||..||.+|+.. ...||+|+.++...++++
T Consensus         6 ~~~~~C~IC~~~~~~P----v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~   60 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTP   60 (78)
T ss_dssp             SSSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEE
T ss_pred             cccCCCCCccccccCC----EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCcc
Confidence            4579999999999998    34589999999999999875 779999999998877765

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

Probab=99.09  E-value=5.2e-11  Score=88.34  Aligned_cols=59  Identities=19%  Similarity=0.574  Sum_probs=48.1

Q ss_pred             CCceeccCccccccCCcceEEEcc-CCccchHHHHHHHhhcC--CCCCCCCCCCCCCCceEecCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSS-CGHVFCKKCADKFMAVD--KVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~-CGhVfc~~Ci~~~~k~~--~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      ...+.||||++.|.++    +..+ |||+||..||..|+...  ..||+|+.++...|.+.-+..|
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~sg   74 (74)
T 2yur_A           13 PDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGPSSG   74 (74)
T ss_dssp             CGGGSCSSSCCCCTTC----EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTTTCTTTC
T ss_pred             CCCCCCcCCChHHhCC----eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccccccCCCC
Confidence            4578999999999997    3456 99999999999998744  6999999998777766555443

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

Probab=99.09  E-value=2.4e-11  Score=89.30  Aligned_cols=58  Identities=24%  Similarity=0.393  Sum_probs=48.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      ...+.|+||++.|.++    +..+|||+||..||..|+.....||+|+..+...+++....+
T Consensus        13 ~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~p~~s   70 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP----VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSGPSS   70 (71)
T ss_dssp             SSCCBCSSSSSBCSSE----EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHHSCSCSC
T ss_pred             CCCCCCccCCcccCCC----EEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHhhccCCCCC
Confidence            4568999999999886    345899999999999998877899999999998777665444

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

Probab=99.09  E-value=9.2e-11  Score=84.82  Aligned_cols=52  Identities=21%  Similarity=0.729  Sum_probs=45.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNL  264 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~di  264 (304)
                      ...+.||||.+.+.++.    ..+|||+||..||.+|+. ....||+|+.++..++|
T Consensus        13 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK----QTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCEECTTTCCEESSCC----CCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             CcCCCCCCCChHhcCee----ECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            45799999999999883    369999999999999984 56799999999998776

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=99.08  E-value=2.9e-11  Score=102.98  Aligned_cols=79  Identities=28%  Similarity=0.547  Sum_probs=47.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCC-----------ceEecCCCccccc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERN-----------LVNVEKGGTGFAA  276 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~d-----------iI~L~~~gtgfaa  276 (304)
                      ...+.||||++.|.++   +.+.+|||+||..||..|+.. ...||+|+.++...+           |..|.+++++++.
T Consensus        52 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~~~~~~~  128 (165)
T 2ckl_B           52 HSELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPSRDEYEA  128 (165)
T ss_dssp             HHHHBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC--------
T ss_pred             CCCCCCcccChHhhCc---CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcchhHHHH
Confidence            3568999999999986   455699999999999999875 778999999997544           3345688899999


Q ss_pred             cCCeeeeeeccccc
Q 022029          277 HGDRLEARDFKHLG  290 (304)
Q Consensus       277 ~g~~~eak~~~~~~  290 (304)
                      ++..+.++..++..
T Consensus       129 ~~e~~~~~~~~~~~  142 (165)
T 2ckl_B          129 HQERVLARINKHNN  142 (165)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHhhhh
Confidence            98777777655443

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

Probab=99.07  E-value=9.1e-11  Score=89.76  Aligned_cols=55  Identities=15%  Similarity=0.079  Sum_probs=49.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      ...|.||||.+.|.++    ++.+|||+||..||..|+.....||+|+.++...++++.
T Consensus        12 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn   66 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP----VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPV   66 (85)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEEC
T ss_pred             chheECcccCchhcCC----eECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchH
Confidence            4579999999999999    466799999999999999878899999999998888764

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

Probab=99.06  E-value=1.3e-10  Score=88.13  Aligned_cols=61  Identities=26%  Similarity=0.607  Sum_probs=49.3

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC---CCCCCCCCCCCCCCceEec
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD---KVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~---~~CPvC~~~f~~~diI~L~  268 (304)
                      ....+.||||.+.|.+.....++.+|||+||..||..|+...   ..||+|+.++...+|..|.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i~~l~   75 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLT   75 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSSTTTSE
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhHHHHH
Confidence            355789999999999854434566999999999999998754   7999999999877665443

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

Probab=99.05  E-value=1.9e-10  Score=84.45  Aligned_cols=52  Identities=27%  Similarity=0.647  Sum_probs=44.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh---cCCCCCCCCCCCCCCCc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA---VDKVCLVCNKPCKERNL  264 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k---~~~~CPvC~~~f~~~di  264 (304)
                      ...+.||||++.|.++    ++.+|||+||..||..|+.   ....||+|+.++..+++
T Consensus        18 ~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           18 QEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCBCTTTCSBCSSE----EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             ccCCEeccCCcccCCe----EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            4578999999999986    3449999999999999985   45689999999988775

>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=99.02  E-value=9.8e-11  Score=84.36  Aligned_cols=57  Identities=12%  Similarity=0.211  Sum_probs=50.5

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      .|.||||++.+.++   |+..+|||+|+.+||.+|+..+..||+++.+++.+|+|+++.+
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip~~~~   59 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPS   59 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECCCC
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEECccC
Confidence            48999999999998   3444999999999999999877789999999999999999865

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

Probab=99.02  E-value=1.7e-10  Score=83.37  Aligned_cols=54  Identities=26%  Similarity=0.651  Sum_probs=46.1

Q ss_pred             CCCceeccCccccccCC---cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNT---LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~---~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ....+.||||++.|.++   .+.+++.+|||+||..||.+|+.....||+|+.++..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            35678999999999875   3455678999999999999999888899999999864

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.02  E-value=2.8e-10  Score=89.45  Aligned_cols=55  Identities=7%  Similarity=0.088  Sum_probs=49.6

Q ss_pred             CCceeccCccccccCCcceEEEccCC-ccchHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCG-HVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CG-hVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      ...|.||||++.|.++    |+.+|| |+||..||..|+.....||+|+.++...++++.
T Consensus        20 p~~~~CpI~~~~m~dP----V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn   75 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPN   75 (98)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEEC
T ss_pred             cHhcCCcCccccccCC----eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEc
Confidence            3579999999999999    567999 999999999999877899999999998888874

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

Probab=99.02  E-value=3.4e-10  Score=83.43  Aligned_cols=60  Identities=28%  Similarity=0.605  Sum_probs=47.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      +....|+||++.|.+...++ +.+|||+||..||.+|+.....||+|+.++..  +..+..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~--~~~~~~~s   72 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELG-ICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ--LAQLSGPS   72 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEE-EETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS--CCSCCCSC
T ss_pred             CCCCCCcCCCcccCCCCcEE-EcCCCCEecHHHHHHHHHcCCcCCCcCccccc--ccccCCCC
Confidence            45679999999998876554 44899999999999999878899999999864  44444333

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

Probab=99.01  E-value=3.6e-10  Score=84.78  Aligned_cols=55  Identities=27%  Similarity=0.583  Sum_probs=47.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc------CCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV------DKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~------~~~CPvC~~~f~~~diI~L  267 (304)
                      ...+.||||.+.|.++    ++.+|||+||..||..|+..      ...||+|+.++...+++..
T Consensus        17 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n   77 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPN   77 (85)
T ss_dssp             CTTTSCTTTCSCCSSC----EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEEC
T ss_pred             ccCCCCcCCChhhCcc----eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcC
Confidence            4568999999999987    35689999999999999875      6799999999998777653

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

Probab=99.01  E-value=2.2e-10  Score=79.46  Aligned_cols=52  Identities=21%  Similarity=0.593  Sum_probs=45.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      .....||||++.|.+....+++.+|||+||..||.+|+.....||+|+.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            3467899999999775556678899999999999999987799999998874

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

Probab=99.01  E-value=3.6e-10  Score=84.91  Aligned_cols=49  Identities=27%  Similarity=0.786  Sum_probs=43.7

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      .+..+.||||++.|.++    ++.+|||+||..||..|+.....||+|+.++.
T Consensus        12 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCSE----EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhcCe----eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            35578999999999886    45799999999999999988889999999986

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

Probab=98.99  E-value=5.3e-10  Score=82.77  Aligned_cols=68  Identities=19%  Similarity=0.507  Sum_probs=52.2

Q ss_pred             CCCCceeeecccCCCcccccCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          186 KLKSLFPVYFTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       186 ~lKDLi~l~f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .++.|-.+.|.....       ......|+||++.|.+... ++..+|||+||..||..|+.....||+|+.++..
T Consensus         5 ~i~~lp~~~~~~~~~-------~~~~~~C~IC~~~~~~~~~-~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNH-------QSEQTLCVVCMCDFESRQL-LRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CCSSCCCEEBCSSSC-------SSSCCEETTTTEECCBTCE-EEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             hHhhCCcEEecCccc-------cCCCCCCeECCcccCCCCe-EEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            345565566654331       2456799999999988754 4455899999999999999888899999998865

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

Probab=98.98  E-value=1e-10  Score=85.36  Aligned_cols=58  Identities=24%  Similarity=0.522  Sum_probs=49.5

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      ...+.|+||++.+.+     ++.+|||+||..||.+|+.....||+|+.++...+.+.+.++|
T Consensus        13 ~~~~~C~IC~~~~~~-----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~G   70 (70)
T 2ecn_A           13 TDEEECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPSSG   70 (70)
T ss_dssp             CCCCCCSSSCCSCCS-----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCCCCCCCC
T ss_pred             CCCCCCeeCCcCccC-----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCccccCCCC
Confidence            456899999999987     3569999999999999988888999999999987776666554

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

Probab=98.98  E-value=6.4e-10  Score=85.35  Aligned_cols=54  Identities=20%  Similarity=0.621  Sum_probs=43.8

Q ss_pred             CCCceeccCccccccCCcceEEEcc-CCccchHHHHHHHhhc--CCCCCCCCCCCC-CCCce
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSS-CGHVFCKKCADKFMAV--DKVCLVCNKPCK-ERNLV  265 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~-CGhVfc~~Ci~~~~k~--~~~CPvC~~~f~-~~diI  265 (304)
                      ....+.||||.+.|.++    ++.+ |||+||..||..|+..  ...||+|+.++. ..+++
T Consensus        10 ~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~   67 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALI   67 (92)
T ss_dssp             CCTTTEETTTTEECSSC----EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCE
T ss_pred             CCcCCCCCCCChhhcCc----eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccC
Confidence            45679999999999998    3457 9999999999999863  369999999984 44443

>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=98.95  E-value=3.1e-10  Score=89.04  Aligned_cols=56  Identities=25%  Similarity=0.596  Sum_probs=48.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~~diI~L  267 (304)
                      +..+.||||++.|.++   +.+.+|||+||..||..|+... ..||+|+.++...+++..
T Consensus        20 ~~~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~   76 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNC   76 (100)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEEC
T ss_pred             CCCCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhh
Confidence            3468999999999987   3338999999999999998866 699999999998887764

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

Probab=98.95  E-value=2e-10  Score=85.44  Aligned_cols=54  Identities=28%  Similarity=0.579  Sum_probs=45.5

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-------CCCCCCCCCCCCCCCce
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-------DKVCLVCNKPCKERNLV  265 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-------~~~CPvC~~~f~~~diI  265 (304)
                      ....+.||||++.|.++.    +.+|||+||..||.+|+..       ...||+|+.++...++.
T Consensus         9 ~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~   69 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPL----SLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQ   69 (79)
T ss_dssp             CCCCCEETTTTEECSSCC----CCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGG
T ss_pred             cccCCCCcCCCcccCCee----ECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCC
Confidence            356799999999999873    3599999999999998764       57999999999876654

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

Probab=98.95  E-value=4.4e-10  Score=78.01  Aligned_cols=52  Identities=25%  Similarity=0.590  Sum_probs=44.4

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      +....|+||++.|.+....+.+..|||+||..||.+|+.....||+|+.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4567899999999886665656569999999999999988889999998764

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

Probab=98.93  E-value=4.7e-10  Score=84.11  Aligned_cols=54  Identities=30%  Similarity=0.665  Sum_probs=45.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc------CCCCCCCCCCCCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV------DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~------~~~CPvC~~~f~~~diI~  266 (304)
                      ...+.||||.+.|.++.    +.+|||+||..|+..|+..      ...||+|+..+...++++
T Consensus        17 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~   76 (85)
T 2ecv_A           17 KEEVTCPICLELLTQPL----SLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRP   76 (85)
T ss_dssp             CCCCCCTTTCSCCSSCB----CCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCC
T ss_pred             cCCCCCCCCCcccCCce----eCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCc
Confidence            45689999999999872    4599999999999999865      689999999998876654

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

Probab=98.93  E-value=5.8e-10  Score=90.28  Aligned_cols=63  Identities=24%  Similarity=0.591  Sum_probs=53.9

Q ss_pred             CCceeccCccccccCC---cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCC
Q 022029          209 DKSFICPSCKVTLTNT---LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~---~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      .+.+.||||++.|.++   .+.+++.+|||+||..||.+|++....||+|++.+...+++.+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~l~i~~   70 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYIGS   70 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEECBCSS
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccccccccCC
Confidence            3568999999999876   34456789999999999999998888999999999999998876543

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

Probab=98.93  E-value=4.6e-10  Score=87.53  Aligned_cols=54  Identities=24%  Similarity=0.594  Sum_probs=46.3

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~  266 (304)
                      ..+.||||.+.|.++   +.+.+|||+||..||..|+.....||+|+.++...+++.
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~   74 (99)
T 2y43_A           21 DLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKN   74 (99)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEE
T ss_pred             CCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCc
Confidence            458999999999986   345599999999999999987889999999998766554

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

Probab=98.92  E-value=1e-09  Score=79.44  Aligned_cols=60  Identities=23%  Similarity=0.588  Sum_probs=48.0

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCccc
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGF  274 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gtgf  274 (304)
                      ....||||.+.+.++   +++.+|||+||..|+..|+.....||+|+.++.  .++........|
T Consensus         4 ~~~~C~IC~~~~~~~---~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~--~~~~~~~~d~~~   63 (68)
T 1chc_A            4 VAERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE--SVVHTIESDSEF   63 (68)
T ss_dssp             CCCCCSSCCSCCCSC---EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC--CEECCCCSCCCC
T ss_pred             CCCCCeeCCccccCC---cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH--hhhhccccchHh
Confidence            457899999999886   357899999999999999988889999999987  355444444444

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

Probab=98.88  E-value=1.5e-09  Score=81.80  Aligned_cols=68  Identities=21%  Similarity=0.416  Sum_probs=50.1

Q ss_pred             CCCceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceEecCCCcccc
Q 022029          208 NDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVNVEKGGTGFA  275 (304)
Q Consensus       208 ~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~L~~~gtgfa  275 (304)
                      ++..+.||||.+.++.....+..-+|||.||..|+..++. ....||+|+++|...+++..+.+...|+
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~   76 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQEELQ   76 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCCCSCCCSSCC
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhhccCCHHHHh
Confidence            3567899999999864311111124999999999999874 4578999999999888876665554443

>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=98.87  E-value=1.2e-09  Score=86.46  Aligned_cols=51  Identities=22%  Similarity=0.688  Sum_probs=44.6

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKER  262 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~  262 (304)
                      ...+.||||.+.|.++   +.+.+|||+||..||..|+.....||+|+..+...
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            3468999999999987   44569999999999999998888999999999864

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

Probab=98.86  E-value=2.3e-09  Score=76.52  Aligned_cols=43  Identities=33%  Similarity=0.720  Sum_probs=37.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh---cCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA---VDKVCLVC  255 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k---~~~~CPvC  255 (304)
                      +..+.||||++.|.++    ++.+|||+||..||.+|+.   ....||+|
T Consensus        18 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSC----EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCe----EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4578999999999987    3449999999999999987   45689998

>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=98.86  E-value=1.2e-09  Score=84.87  Aligned_cols=55  Identities=20%  Similarity=0.553  Sum_probs=45.1

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc------CCCCCC--CCCC-CCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV------DKVCLV--CNKP-CKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~------~~~CPv--C~~~-f~~~diI~  266 (304)
                      ...|.||||++.|.++   |.+..|||+||..||..|+..      ...||+  |... +...++++
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~p   68 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQ   68 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEE
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcC
Confidence            4579999999999998   334459999999999999864      359999  7766 77777775

>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=98.86  E-value=2.8e-09  Score=77.41  Aligned_cols=52  Identities=25%  Similarity=0.559  Sum_probs=44.1

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      +....|+||+..|.+... ++..+|||+||..||..|+.....||+|+..+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~-~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGED-VRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSC-EEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCc-EEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            556899999999976544 4466899999999999999888899999998864

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

Probab=98.85  E-value=1.2e-09  Score=90.42  Aligned_cols=47  Identities=26%  Similarity=0.668  Sum_probs=41.9

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .+.||||.+.|.++    ++.+|||+||..||..|+.....||+|+.++..
T Consensus        53 ~~~C~iC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE----EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc----eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            46899999999887    456999999999999999888899999999864

>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=98.83  E-value=2.9e-09  Score=84.87  Aligned_cols=60  Identities=20%  Similarity=0.330  Sum_probs=46.5

Q ss_pred             ceeccCccccccCCc--------------ceEEEccCCccchHHHHHHHhh-----cCCCCCCCCCCCCCCCceEecCCC
Q 022029          211 SFICPSCKVTLTNTL--------------SLVALSSCGHVFCKKCADKFMA-----VDKVCLVCNKPCKERNLVNVEKGG  271 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~--------------~~v~l~~CGhVfc~~Ci~~~~k-----~~~~CPvC~~~f~~~diI~L~~~g  271 (304)
                      ...||||++.|.++.              .++.+.+|||+||..||..|+.     ....||+|+..|...  .-.++.|
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~--~g~qp~g  102 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK--TGTQPWG  102 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC--SSSCTTS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC--CCCCCCC
Confidence            358999999996642              3556889999999999999983     467999999999753  3445554


Q ss_pred             c
Q 022029          272 T  272 (304)
Q Consensus       272 t  272 (304)
                      +
T Consensus       103 ~  103 (114)
T 1v87_A          103 K  103 (114)
T ss_dssp             S
T ss_pred             e
Confidence            3

>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=98.82  E-value=2e-09  Score=87.26  Aligned_cols=48  Identities=23%  Similarity=0.553  Sum_probs=41.6

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~  261 (304)
                      ..+.||||.+.|.++    +..+|||+||..||..|+.. ...||+|+.++..
T Consensus        51 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCc----EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            357999999999987    34599999999999999874 4599999999976

>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=98.82  E-value=1.7e-09  Score=85.63  Aligned_cols=54  Identities=28%  Similarity=0.693  Sum_probs=45.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC---CCCCCCCCCCCCCCceEe
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD---KVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~---~~CPvC~~~f~~~diI~L  267 (304)
                      ..+.||||.+.|.++.    +.+|||+||..||..|+...   ..||+|+.++...+++..
T Consensus        20 ~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~   76 (112)
T 1jm7_A           20 KILECPICLELIKEPV----STKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES   76 (112)
T ss_dssp             HHTSCSSSCCCCSSCC----BCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCC
T ss_pred             CCCCCcccChhhcCeE----ECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCcc
Confidence            3579999999999873    46999999999999998743   489999999998777654

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

Probab=98.81  E-value=3.6e-09  Score=81.48  Aligned_cols=52  Identities=21%  Similarity=0.454  Sum_probs=43.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .....|+||++.|.+...++ ..+|||+||..||..|+.....||+|+..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~-~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVAT-ELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEE-EETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEE-ecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            45689999999998765444 45799999999999999888899999998864

>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=98.80  E-value=2.1e-09  Score=86.66  Aligned_cols=54  Identities=31%  Similarity=0.644  Sum_probs=45.7

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~~diI~  266 (304)
                      ...+.||||...|.++    +..+|||+||..||..|+... ..||+|+.++...+++.
T Consensus        16 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (118)
T 3hct_A           16 ESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (118)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCcCChhhcCe----EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhccc
Confidence            4578999999999987    345899999999999998744 49999999998876654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.78  E-value=2e-09  Score=97.64  Aligned_cols=53  Identities=9%  Similarity=0.162  Sum_probs=46.4

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~  266 (304)
                      ..+.||||.+.|.++    |+.+|||+||..||..++.. ...||+|+.++...++++
T Consensus       207 ~~~~c~i~~~~~~dP----v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~  260 (281)
T 2c2l_A          207 DYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIP  260 (281)
T ss_dssp             STTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEE
T ss_pred             cccCCcCcCCHhcCC----eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcc
Confidence            468999999999999    56789999999999999874 345999999999878776

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

Probab=98.76  E-value=4.6e-09  Score=91.22  Aligned_cols=55  Identities=9%  Similarity=0.108  Sum_probs=47.7

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~~diI~L  267 (304)
                      ...|.||||+..|.++    |+.+|||+||..||..|+... ..||+|+.++...++++.
T Consensus       104 p~~f~CPI~~elm~DP----V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN  159 (179)
T 2f42_A          104 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPN  159 (179)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEEC
T ss_pred             cHhhcccCccccCCCC----eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcch
Confidence            4579999999999998    456999999999999998753 369999999998888874

>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=98.75  E-value=4.8e-09  Score=88.39  Aligned_cols=50  Identities=22%  Similarity=0.583  Sum_probs=43.1

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKERN  263 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~~d  263 (304)
                      ..+.||||.+.|.++    ++.+|||+||..||..|+... ..||+|+.++...+
T Consensus        77 ~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~  127 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNY  127 (150)
T ss_dssp             HHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTC
T ss_pred             cCCEeecCChhhcCC----EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCC
Confidence            358999999999987    457999999999999998754 48999999998763

>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=98.75  E-value=3.3e-09  Score=84.93  Aligned_cols=53  Identities=32%  Similarity=0.761  Sum_probs=45.8

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~  266 (304)
                      ..+.||||.+.|.++    +..+|||+||..||.+|+.. ...||+|+.++...+++.
T Consensus        22 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   75 (116)
T 1rmd_A           22 KSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES   75 (116)
T ss_dssp             HHTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC
T ss_pred             CCCCCCCCCcHhcCc----EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccc
Confidence            358999999999987    34699999999999999875 679999999998877654

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

Probab=98.74  E-value=5.8e-09  Score=72.84  Aligned_cols=43  Identities=33%  Similarity=0.768  Sum_probs=36.6

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhh---cCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA---VDKVCLVC  255 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k---~~~~CPvC  255 (304)
                      +..+.||||++.|.++    ++.+|||+||..||.+|+.   ....||+|
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4578999999999997    3468999999999999953   45789998

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

Probab=98.70  E-value=1.6e-08  Score=77.09  Aligned_cols=36  Identities=22%  Similarity=0.129  Sum_probs=33.1

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      +-....|.||+..+.|||+++.||.||+.||..||.
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~   46 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLL   46 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             CchheECcccCchhcCCeECCCCCEECHHHHHHHHh
Confidence            445789999999999999999999999999999985

>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=98.69  E-value=1.5e-08  Score=78.60  Aligned_cols=34  Identities=21%  Similarity=0.319  Sum_probs=30.9

Q ss_pred             CcceecccCCCCCceecC-CCceeehhhHHHHHHH
Q 022029           40 FDACCLCLKPFIDPLCCQ-KGHIYCKECILECLLS   73 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll~   73 (304)
                      ...|.||+..+.|||+++ .||.||++||.+||..
T Consensus         7 ~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~   41 (94)
T 2yu4_A            7 GFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIES   41 (94)
T ss_dssp             CCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHH
T ss_pred             EeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHH
Confidence            356999999999999996 9999999999999964

>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=98.67  E-value=1.5e-08  Score=79.88  Aligned_cols=37  Identities=24%  Similarity=0.138  Sum_probs=33.3

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+-....|.||+..+.|||+++.||.||+.||..||.
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~   61 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLL   61 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTT
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHH
Confidence            3455789999999999999999999999999999874

>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=98.65  E-value=2.4e-08  Score=78.32  Aligned_cols=36  Identities=14%  Similarity=-0.033  Sum_probs=32.5

Q ss_pred             cCCCcceecccCCCCCceecCCC-ceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKG-HIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G-~lyckEcIle~ll   72 (304)
                      +-....|.||+..+.|||+++.| |.||+.||..||.
T Consensus        19 ~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~   55 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLL   55 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTT
T ss_pred             CcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHH
Confidence            34577899999999999999999 9999999999874

>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=98.63  E-value=3.9e-09  Score=84.85  Aligned_cols=51  Identities=31%  Similarity=0.759  Sum_probs=43.1

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCce
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI  265 (304)
                      ..+.||||.+.|.++   |.+.+|||+||..||..|+.  ..||+|+.++...+++
T Consensus        21 ~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~   71 (117)
T 1jm7_B           21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLK   71 (117)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCC
T ss_pred             hCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccccc
Confidence            468999999999998   23449999999999999875  7899999999766554

>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=98.62  E-value=1.5e-08  Score=86.34  Aligned_cols=54  Identities=31%  Similarity=0.646  Sum_probs=46.0

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~  266 (304)
                      +..+.||||...|.++    +..+|||+||..||.+|+.. ...||+|+.++...+++.
T Consensus        16 ~~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (170)
T 3hcs_A           16 ESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (170)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCCCChhhcCc----EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhh
Confidence            4579999999999998    34699999999999999864 459999999998876654

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.61  E-value=1.7e-08  Score=72.66  Aligned_cols=55  Identities=20%  Similarity=0.440  Sum_probs=45.2

Q ss_pred             CceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      ....|+||++.+.+..  +++.||||+ ||+.|+..+......||+|+.++.  ++|.|.
T Consensus         6 ~~~~C~IC~~~~~~~~--~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~--~~i~i~   61 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN--IIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ--LVIKVF   61 (63)
T ss_dssp             GGSBCTTTSSSBSCEE--EEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC--EEEEEE
T ss_pred             cCCCCcccCCcCCCeE--EEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh--ceEEEe
Confidence            4578999999988762  345699998 999999999877789999999986  466654

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

Probab=98.60  E-value=1.3e-08  Score=76.88  Aligned_cols=50  Identities=20%  Similarity=0.578  Sum_probs=39.2

Q ss_pred             eccCccccccC-----------CcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCC
Q 022029          213 ICPSCKVTLTN-----------TLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKER  262 (304)
Q Consensus       213 ~CPIc~k~~~~-----------~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~  262 (304)
                      .|+||+..|.+           ...++++.+|||+|+..||.+|+.....||+|+.++...
T Consensus        17 ~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           17 TCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            46666666643           334566668999999999999998888999999998643

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.60  E-value=2.6e-08  Score=71.97  Aligned_cols=55  Identities=27%  Similarity=0.492  Sum_probs=44.4

Q ss_pred             CceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      ....|+||++.+.+..  ++..+|||+ ||..|+..+......||+|+.++.  ++|.|.
T Consensus         7 ~~~~C~IC~~~~~~~~--~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~--~~i~i~   62 (64)
T 2vje_A            7 AIEPCVICQGRPKNGC--IVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ--MIVLTY   62 (64)
T ss_dssp             GGSCCTTTSSSCSCEE--EEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC--EEEEEE
T ss_pred             CcCCCCcCCCCCCCEE--EECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh--ceEeee
Confidence            3568999999988861  223499999 899999999887889999999986  566664

>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=98.59  E-value=9.2e-09  Score=82.19  Aligned_cols=48  Identities=21%  Similarity=0.519  Sum_probs=41.2

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~  260 (304)
                      ...+.||||.+.|.++    +..+|||+||..||..|+.. ...||+|+..+.
T Consensus        13 ~~~~~C~iC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSC----EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCce----eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            3468999999999987    34499999999999998764 678999999986

>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=98.58  E-value=1.8e-08  Score=92.12  Aligned_cols=55  Identities=18%  Similarity=0.442  Sum_probs=47.4

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--CCCCCC--CCCCCCCCCceE
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--DKVCLV--CNKPCKERNLVN  266 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--~~~CPv--C~~~f~~~diI~  266 (304)
                      ...+.||||+..|.++   |.+..|||+||..||..++..  ...||+  |++.+...|+++
T Consensus       179 ~~el~CPIcl~~f~DP---Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~p  237 (267)
T 3htk_C          179 KIELTCPITCKPYEAP---LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVR  237 (267)
T ss_dssp             BCCSBCTTTSSBCSSE---EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEE
T ss_pred             ceeeECcCccCcccCC---eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCc
Confidence            4579999999999999   345799999999999999864  358999  999999888765

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.56  E-value=2.1e-08  Score=96.51  Aligned_cols=56  Identities=20%  Similarity=0.537  Sum_probs=48.1

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceEecC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVNVEK  269 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~L~~  269 (304)
                      ....|+||.+.+.++    ++.+|||+||..|+..|+. ....||+|+.++...++|.+.+
T Consensus       331 ~~~~C~ICle~~~~p----v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~v~p  387 (389)
T 2y1n_A          331 TFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP  387 (389)
T ss_dssp             SSSBCTTTSSSBCCE----EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEECSCCT
T ss_pred             CCCCCCccCcCCCCe----EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCceeEecCC
Confidence            347999999999876    5789999999999999987 6789999999999877776654

>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=98.53  E-value=1.2e-08  Score=85.12  Aligned_cols=49  Identities=20%  Similarity=0.672  Sum_probs=41.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC-CCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~-~~CPvC~~~f~~  261 (304)
                      +..+.||||...|.++    +..+|||+||..||.+|+... ..||+|+.++..
T Consensus        29 ~~~~~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCc----EECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            4679999999999998    356999999999999998744 489999997643

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

Probab=98.51  E-value=9e-08  Score=83.05  Aligned_cols=38  Identities=18%  Similarity=0.217  Sum_probs=34.7

Q ss_pred             CCcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           35 DSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        35 ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ..+-++..|.||+..+.|||+++.||.||+.||..||.
T Consensus       101 ~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~  138 (179)
T 2f42_A          101 REIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQ  138 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             cCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHH
Confidence            44567889999999999999999999999999999985

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

Probab=98.50  E-value=1.4e-07  Score=69.92  Aligned_cols=39  Identities=21%  Similarity=0.378  Sum_probs=34.8

Q ss_pred             CCCcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           34 KDSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        34 ~ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+.+.....|.||+..+.+||+++.||.||+.||.+||.
T Consensus         2 ~~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~   40 (78)
T 1t1h_A            2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLD   40 (78)
T ss_dssp             CCCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHT
T ss_pred             CcCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHH
Confidence            455667789999999999999999999999999999873

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

Probab=98.49  E-value=2e-08  Score=70.50  Aligned_cols=46  Identities=22%  Similarity=0.574  Sum_probs=38.7

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ...+.|+||.+.|.++    ++.+|||+||..|+..   ....||+|+..+..
T Consensus         4 ~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEA---SGMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSS---SSSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCe----EEcCCCCcccHHHHcc---CCCCCCcCCcEeec
Confidence            4568899999999997    3568999999999877   35689999998863

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

Probab=98.49  E-value=1.2e-07  Score=69.40  Aligned_cols=55  Identities=25%  Similarity=0.581  Sum_probs=44.8

Q ss_pred             CCceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCcc
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTG  273 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gtg  273 (304)
                      .....|+||++.+.+.    ++.||||+ ||..|+..+    ..||+|+.++..  +|.|..+..|
T Consensus        13 ~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~~----~~CP~CR~~i~~--~~~i~~~~sg   68 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNW----VLLPCRHTCLCDGCVKYF----QQCPMCRQFVQE--SFALSGPSSG   68 (68)
T ss_dssp             CCSSCCSSSSSSCCCC----EETTTTBCCSCTTHHHHC----SSCTTTCCCCCC--EECCCSSCCC
T ss_pred             CCCCCCCCcCcCCCCE----EEECCCChhhhHHHHhcC----CCCCCCCcchhc--eEEeecCCCC
Confidence            3467999999998875    68899999 999999863    689999999874  7777665443

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

Probab=98.42  E-value=8.8e-08  Score=70.99  Aligned_cols=44  Identities=25%  Similarity=0.631  Sum_probs=37.9

Q ss_pred             CceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ..+.|+||++.+.++    ++.+|||+ ||..|+..+    ..||+|+.++..
T Consensus        24 ~~~~C~IC~~~~~~~----~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCB----CCSSSCCCCBCHHHHHHC----SBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCE----EEecCCCHHHHHHHhhCC----CCCccCCceecC
Confidence            357899999999887    46799999 999999763    689999999975

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.40  E-value=1.8e-07  Score=84.54  Aligned_cols=37  Identities=19%  Similarity=0.228  Sum_probs=33.7

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+-++..|.||+..+.|||+++.||.||+.||..||.
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~  240 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQ  240 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHH
T ss_pred             CCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHH
Confidence            3456889999999999999999999999999999985

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

Probab=98.36  E-value=1.2e-07  Score=70.25  Aligned_cols=44  Identities=25%  Similarity=0.631  Sum_probs=38.1

Q ss_pred             CceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      ....|+||++.+.++    ++.+|||+ ||..|+..+    ..||+|+.++..
T Consensus        23 ~~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCCE----EEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCCE----EEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            357899999999886    45699999 999999886    689999999874

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

Probab=98.36  E-value=1.1e-07  Score=73.33  Aligned_cols=58  Identities=19%  Similarity=0.496  Sum_probs=44.3

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--------CCCCCC--CCCC--CCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--------DKVCLV--CNKP--CKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--------~~~CPv--C~~~--f~~~diI~L  267 (304)
                      ...+.||||.+.+..+ .++.+.+|||.||..|+..++..        ...||.  |+..  +...+|..|
T Consensus         3 ~~~~~C~IC~~~~~~~-~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~~l   72 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVE-QMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECM   72 (94)
T ss_dssp             CSBCCCSSSCCCCBGG-GEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHH
T ss_pred             CCCcCCcccCcccccc-cceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHHHH
Confidence            3568999999999876 33445689999999999999752        248999  9998  665554443

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

Probab=98.28  E-value=5.9e-07  Score=71.45  Aligned_cols=49  Identities=22%  Similarity=0.537  Sum_probs=41.1

Q ss_pred             eeccCccccccCCc--------------ceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTL--------------SLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       212 ~~CPIc~k~~~~~~--------------~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      -.|+||+..|.+..              -.+++.+|||+|+..||..|+.....||+|+.+|.
T Consensus        38 d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           38 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            47999999987641              13566799999999999999988889999999875

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.10  E-value=8.9e-07  Score=66.50  Aligned_cols=48  Identities=27%  Similarity=0.739  Sum_probs=39.9

Q ss_pred             ceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCCCCceEec
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKERNLVNVE  268 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~  268 (304)
                      ...|+||++.+.+.    ++.||||+ ||..|+..+    ..||+|+.++..  ++.+.
T Consensus        18 ~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~--~~~i~   66 (79)
T 2yho_A           18 AMLCMVCCEEEINS----TFCPCGHTVCCESCAAQL----QSCPVCRSRVEH--VQHVY   66 (79)
T ss_dssp             HTBCTTTSSSBCCE----EEETTCBCCBCHHHHTTC----SBCTTTCCBCCE--EEECB
T ss_pred             CCEeEEeCcccCcE----EEECCCCHHHHHHHHHhc----CcCCCCCchhhC--eEEEE
Confidence            46899999998875    56799999 999999875    489999999985  55554

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=98.03  E-value=6.3e-07  Score=72.58  Aligned_cols=50  Identities=22%  Similarity=0.500  Sum_probs=0.0

Q ss_pred             eeccCccccccCCc--------------ceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTL--------------SLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       212 ~~CPIc~k~~~~~~--------------~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      -.|+||+..|.+..              -.+++.+|||+|+..||..|+.....||+|+.+|..
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             ----------------------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            47999999987631              123445899999999999999888899999998753

>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=97.98  E-value=2.3e-06  Score=72.74  Aligned_cols=37  Identities=24%  Similarity=0.658  Sum_probs=33.5

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+.....|.+|+.++.+||.++-||+||+.||..+|.
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~   50 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIR   50 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             CCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHH
Confidence            4556678999999999999999999999999999885

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

Probab=97.95  E-value=1.6e-05  Score=57.81  Aligned_cols=38  Identities=26%  Similarity=0.678  Sum_probs=33.2

Q ss_pred             CCcCCCcceecccCCCCCceec-CCCceeehhhHHHHHH
Q 022029           35 DSIKPFDACCLCLKPFIDPLCC-QKGHIYCKECILECLL   72 (304)
Q Consensus        35 ds~~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll   72 (304)
                      +.+.....|.+|+..+.+||.. +-||+||++||..||.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~   48 (72)
T 2djb_A           10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFY   48 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHH
T ss_pred             hhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHH
Confidence            3456678899999999999975 8999999999999984

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

Probab=97.90  E-value=1.1e-05  Score=59.16  Aligned_cols=41  Identities=32%  Similarity=0.598  Sum_probs=35.5

Q ss_pred             CCCCcCCCcceecccCCCCCceecC-CCceeehhhHHHHHHH
Q 022029           33 GKDSIKPFDACCLCLKPFIDPLCCQ-KGHIYCKECILECLLS   73 (304)
Q Consensus        33 g~ds~~~F~~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll~   73 (304)
                      ..+.+.....|.+|+..+.+||.++ -||.||++||..||..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~   49 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLE   49 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHH
T ss_pred             ccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHh
Confidence            3345566788999999999999999 7999999999999864

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

Probab=97.89  E-value=1.2e-05  Score=57.56  Aligned_cols=35  Identities=23%  Similarity=0.530  Sum_probs=31.7

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECL   71 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~l   71 (304)
                      +..-..|.+|+..+.+||.++-||+||++||..+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~   46 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALL   46 (66)
T ss_dssp             CCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHH
T ss_pred             CCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHH
Confidence            34557899999999999999999999999999987

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

Probab=97.86  E-value=1e-05  Score=55.95  Aligned_cols=38  Identities=26%  Similarity=0.688  Sum_probs=33.7

Q ss_pred             CCcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           35 DSIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        35 ds~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      +.+.....|.+|+..+.+||.++-||+||++||..|+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   47 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWE   47 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTT
T ss_pred             hccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHH
Confidence            34556788999999999999999999999999999964

>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=97.86  E-value=3e-06  Score=77.42  Aligned_cols=35  Identities=26%  Similarity=0.399  Sum_probs=30.6

Q ss_pred             cCCCcceecccCCCCCceec-CCCceeehhhHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCC-QKGHIYCKECILECL   71 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~l   71 (304)
                      ...--.|.||+.+++|||.+ ..||.|||+||..|+
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~  213 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYL  213 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHS
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHH
Confidence            45556799999999999974 889999999999986

>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=97.85  E-value=1.2e-05  Score=62.52  Aligned_cols=37  Identities=22%  Similarity=0.451  Sum_probs=32.7

Q ss_pred             cCCCcceecccCCCCCcee-cCCCceeehhhHHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLC-CQKGHIYCKECILECLLS   73 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~-t~~G~lyckEcIle~ll~   73 (304)
                      +.....|.+|+..+.+||. ++-||+||+.||..||..
T Consensus        19 l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~   56 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTE   56 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHH
T ss_pred             CCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHH
Confidence            4456789999999999998 889999999999999853

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

Probab=97.84  E-value=1.4e-05  Score=57.65  Aligned_cols=33  Identities=21%  Similarity=0.757  Sum_probs=29.8

Q ss_pred             CcceecccCCCCCc-------eecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDP-------LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dP-------V~t~~G~lyckEcIle~ll   72 (304)
                      -..|.+|+..+.+|       +.++-||+||++||.+||.
T Consensus        10 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~   49 (71)
T 3ng2_A           10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK   49 (71)
T ss_dssp             CCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHH
T ss_pred             CCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHH
Confidence            36799999999988       8899999999999999974

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

Probab=97.82  E-value=2.1e-05  Score=55.53  Aligned_cols=38  Identities=24%  Similarity=0.544  Sum_probs=33.9

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      .+.....|.+|+..+.+||.++-||+||++||..||..
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~   53 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGET   53 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHH
T ss_pred             hCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHc
Confidence            44556789999999999999999999999999999863

>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=97.79  E-value=3.6e-06  Score=79.94  Aligned_cols=48  Identities=25%  Similarity=0.654  Sum_probs=40.0

Q ss_pred             CceeccCccccccCCcceEEEccCCcc-chHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHV-FCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhV-fc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      ....|+||++.+.++    ++.+|||+ ||..|+..+    ..||+|+.++..  +|.|
T Consensus       294 ~~~~C~IC~~~~~~~----v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~--~~~i  342 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV----VFIPCGHLVVCQECAPSL----RKCPICRGIIKG--TVRT  342 (345)
T ss_dssp             TTCBCTTTSSSBCCE----EEETTCCEEECTTTGGGC----SBCTTTCCBCCE--EEEC
T ss_pred             CCCCCCccCCcCCce----EEcCCCChhHhHHHHhcC----CcCCCCCCCccC--eEEe
Confidence            458999999999886    45699999 999999876    689999999974  4443

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

Probab=97.75  E-value=3e-05  Score=57.65  Aligned_cols=36  Identities=25%  Similarity=0.608  Sum_probs=32.2

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ......|.+|+..+.+||+++-||+||++||..+|.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   47 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFR   47 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHH
T ss_pred             CCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHH
Confidence            344568999999999999999999999999999984

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

Probab=97.75  E-value=2.2e-05  Score=59.09  Aligned_cols=53  Identities=15%  Similarity=0.460  Sum_probs=42.1

Q ss_pred             CCceeccCccccccCCcceEEEccCC-----ccchHHHHHHHhhc--CCCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCG-----HVFCKKCADKFMAV--DKVCLVCNKPCKERN  263 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CG-----hVfc~~Ci~~~~k~--~~~CPvC~~~f~~~d  263 (304)
                      .....|+||+..|.....  ++.||+     |.|...||++|+..  ...||+|+..|....
T Consensus        13 ~~~~~C~IC~~~~~~~~~--l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESP--LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSC--EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCe--eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            345789999999876544  357996     99999999999864  369999999997543

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

Probab=97.74  E-value=7.5e-05  Score=55.22  Aligned_cols=38  Identities=26%  Similarity=0.640  Sum_probs=33.8

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      .+.....|.+|+..+.+||.++-||+||++||..++..
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~   52 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKK   52 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHH
T ss_pred             HccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHH
Confidence            34556789999999999999999999999999998864

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

Probab=97.74  E-value=0.00012  Score=54.09  Aligned_cols=38  Identities=29%  Similarity=0.600  Sum_probs=33.6

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      .+.....|.+|+..+.+||.++-||.||++||..++..
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~   52 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYES   52 (85)
T ss_dssp             CCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHH
T ss_pred             hCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHh
Confidence            34556789999999999999999999999999998854

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

Probab=97.72  E-value=2.1e-05  Score=55.30  Aligned_cols=32  Identities=22%  Similarity=0.804  Sum_probs=29.1

Q ss_pred             cceecccCCCCCc-------eecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDP-------LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dP-------V~t~~G~lyckEcIle~ll   72 (304)
                      ..|.+|+..+.+|       +.++-||+||.+||.+||.
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~   42 (64)
T 2xeu_A            4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK   42 (64)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHH
T ss_pred             CCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHH
Confidence            5799999999887       8899999999999999874

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

Probab=97.66  E-value=2.5e-05  Score=61.10  Aligned_cols=46  Identities=30%  Similarity=0.696  Sum_probs=39.1

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKE  261 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~  261 (304)
                      .|++|...+.--.   .+.||+||||++|+..+.+ .+..||.|+.++.+
T Consensus         3 fC~~C~~Pi~iyg---RmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYG---RMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEE---EEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEe---eeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            6999999887653   4679999999999999864 57899999999975

>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=97.64  E-value=4.8e-05  Score=60.79  Aligned_cols=37  Identities=24%  Similarity=0.658  Sum_probs=33.4

Q ss_pred             CcCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+.....|.+|+..+.+||.++-||+||+.||..+|.
T Consensus        14 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   50 (118)
T 3hct_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIR   50 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             CCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHh
Confidence            4555678999999999999999999999999999885

>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=97.61  E-value=2.6e-05  Score=61.16  Aligned_cols=33  Identities=33%  Similarity=0.773  Sum_probs=30.6

Q ss_pred             CcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ...|.+|+..+.+||.++-||.||++||..++.
T Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   53 (112)
T 1jm7_A           21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLN   53 (112)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHH
T ss_pred             CCCCcccChhhcCeEECCCCCHHHHHHHHHHHH
Confidence            457999999999999999999999999999875

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

Probab=97.59  E-value=4.4e-05  Score=57.98  Aligned_cols=40  Identities=33%  Similarity=0.617  Sum_probs=34.6

Q ss_pred             CCcCCCcceecccCCCCCceecC-CCceeehhhHHHHHHHh
Q 022029           35 DSIKPFDACCLCLKPFIDPLCCQ-KGHIYCKECILECLLSQ   74 (304)
Q Consensus        35 ds~~~F~~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll~q   74 (304)
                      +.+.....|.+|+..+.+||.++ -||.||+.||.+++..+
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~   48 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES   48 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHC
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhc
Confidence            34556688999999999999999 79999999999998643

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

Probab=97.56  E-value=8.6e-05  Score=55.52  Aligned_cols=45  Identities=24%  Similarity=0.604  Sum_probs=38.3

Q ss_pred             cccCCCCcCCCcceecccCCCCC----ceecCCCceeehhhHHHHHHHh
Q 022029           30 ERLGKDSIKPFDACCLCLKPFID----PLCCQKGHIYCKECILECLLSQ   74 (304)
Q Consensus        30 ~Rlg~ds~~~F~~C~LcL~p~~d----PV~t~~G~lyckEcIle~ll~q   74 (304)
                      ..+..+.+.....|.+|+..+.+    |+.++-||.||++||..||..+
T Consensus         5 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~   53 (88)
T 2ct2_A            5 SSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASS   53 (88)
T ss_dssp             CCCSCCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHC
T ss_pred             CccChhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcC
Confidence            34455667778899999999999    9999999999999999998653

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

Probab=97.56  E-value=5e-05  Score=55.05  Aligned_cols=36  Identities=19%  Similarity=0.596  Sum_probs=32.3

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ...-..|.+|+..+.+||.++-||+||++||..||.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~   47 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASW   47 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTT
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHH
Confidence            344578999999999999999999999999999885

>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=97.55  E-value=7.4e-05  Score=62.55  Aligned_cols=34  Identities=21%  Similarity=0.448  Sum_probs=31.2

Q ss_pred             CCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ....|.+|+..+.+||.++.||.||+.||..+|-
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~  110 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFK  110 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHH
Confidence            4468999999999999999999999999999884

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

Probab=97.52  E-value=7.5e-05  Score=53.05  Aligned_cols=32  Identities=22%  Similarity=0.633  Sum_probs=27.9

Q ss_pred             cceecccC-CCCCc----eecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLK-PFIDP----LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~-p~~dP----V~t~~G~lyckEcIle~ll   72 (304)
                      ..|.+|+. .+.+|    |+++-||+||++||.+++.
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~   40 (65)
T 1g25_A            4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFV   40 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHH
T ss_pred             CcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHH
Confidence            46999999 78888    5789999999999998864

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

Probab=97.52  E-value=8.3e-05  Score=55.27  Aligned_cols=49  Identities=24%  Similarity=0.487  Sum_probs=40.8

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC--CCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD--KVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~--~~CPvC~~~f~~  261 (304)
                      ....|+||+..|.....   -..|||.|-..||.+|++..  ..||+|+.++..
T Consensus        14 ~i~~C~IC~~~i~~g~~---C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEE---CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCc---cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            45689999999986532   34999999999999999865  799999998863

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

Probab=97.49  E-value=6e-05  Score=54.52  Aligned_cols=36  Identities=25%  Similarity=0.560  Sum_probs=32.7

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      +.....|.+|+..+.+||.++-||+||++||..+|.
T Consensus        17 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~   52 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGE   52 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCS
T ss_pred             CccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHH
Confidence            455678999999999999999999999999999885

>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=97.47  E-value=9e-05  Score=58.78  Aligned_cols=33  Identities=33%  Similarity=0.807  Sum_probs=30.7

Q ss_pred             CcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ...|.+|+..+.+||.++-||.||++||..+|.
T Consensus        23 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   55 (116)
T 1rmd_A           23 SISCQICEHILADPVETSCKHLFCRICILRCLK   55 (116)
T ss_dssp             HTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             CCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHh
Confidence            467999999999999999999999999999885

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

Probab=97.42  E-value=5.4e-05  Score=62.20  Aligned_cols=31  Identities=29%  Similarity=0.717  Sum_probs=29.5

Q ss_pred             ceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           42 ACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        42 ~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .|.+|+..+.+||.++-||.||++||..|+.
T Consensus        55 ~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~   85 (138)
T 4ayc_A           55 QCIICSEYFIEAVTLNCAHSFCSYCINEWMK   85 (138)
T ss_dssp             BCTTTCSBCSSEEEETTSCEEEHHHHHHHTT
T ss_pred             CCcccCcccCCceECCCCCCccHHHHHHHHH
Confidence            6999999999999999999999999999975

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

Probab=97.41  E-value=8.7e-05  Score=52.82  Aligned_cols=39  Identities=18%  Similarity=0.578  Sum_probs=33.5

Q ss_pred             CCcCCCcceecccCCCCCc-------eecCCCceeehhhHHHHHHH
Q 022029           35 DSIKPFDACCLCLKPFIDP-------LCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        35 ds~~~F~~C~LcL~p~~dP-------V~t~~G~lyckEcIle~ll~   73 (304)
                      ++...-..|.+|+..+.+|       |.++-||+||++||..||..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~   55 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN   55 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc
Confidence            3455668899999999888       88999999999999999854

>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=97.39  E-value=0.00013  Score=61.55  Aligned_cols=37  Identities=24%  Similarity=0.574  Sum_probs=32.2

Q ss_pred             CcCCCcceecccCCCCCceec-CCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCC-QKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll   72 (304)
                      ++.....|.+|+..+.+||.+ +.||+||++||..||.
T Consensus        50 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~   87 (165)
T 2ckl_B           50 SLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALR   87 (165)
T ss_dssp             CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHH
T ss_pred             hCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHH
Confidence            344556899999999999987 8999999999999975

>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=97.32  E-value=0.00011  Score=58.99  Aligned_cols=34  Identities=21%  Similarity=0.445  Sum_probs=31.3

Q ss_pred             CCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .-..|.+|+..+.+||.++-||.||+.||..++.
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   84 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFR   84 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHh
Confidence            3467999999999999999999999999999986

>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=97.25  E-value=5.9e-05  Score=59.15  Aligned_cols=37  Identities=35%  Similarity=0.675  Sum_probs=32.8

Q ss_pred             CcCCCcceecccCCCCCceec-CCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDPLCC-QKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll   72 (304)
                      .+.....|.+|+..+.+||.+ +-||.||+.||..+|.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~   48 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLE   48 (108)
T ss_dssp             HHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHT
T ss_pred             ccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHH
Confidence            345567899999999999987 9999999999999985

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

Probab=97.18  E-value=4.8e-05  Score=55.82  Aligned_cols=37  Identities=27%  Similarity=0.617  Sum_probs=33.1

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      +.....|.+|+..+.+||.++-||.||++||..|+..
T Consensus         9 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~   45 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKE   45 (79)
T ss_dssp             CCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCC
T ss_pred             cccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHh
Confidence            4456789999999999999999999999999999863

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

Probab=97.10  E-value=0.00027  Score=54.36  Aligned_cols=35  Identities=29%  Similarity=0.554  Sum_probs=31.3

Q ss_pred             CCCcceecccCCCCCceec-CCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCC-QKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll   72 (304)
                      .....|.+|+..+.+||.+ +-||.||+.||..|+.
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~   55 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS   55 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHT
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHH
Confidence            3456899999999999987 8999999999999985

>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=97.10  E-value=0.00023  Score=58.95  Aligned_cols=36  Identities=28%  Similarity=0.578  Sum_probs=32.2

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      +..-..|.+|+..+.+||.++-||+||+.||..+|-
T Consensus        28 l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~   63 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILS   63 (141)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGG
T ss_pred             CCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHh
Confidence            344568999999999999999999999999999874

>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=96.97  E-value=0.00012  Score=57.99  Aligned_cols=37  Identities=19%  Similarity=0.508  Sum_probs=32.3

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ......|.+|+..+.+||.++-||.||+.||..++..
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~   48 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEK   48 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCT
T ss_pred             CCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhH
Confidence            3445789999999999999999999999999988743

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

Probab=96.92  E-value=0.001  Score=48.13  Aligned_cols=36  Identities=19%  Similarity=0.471  Sum_probs=30.4

Q ss_pred             CCCcceecccCCCCCceec---CCCceeehhhHHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCC---QKGHIYCKECILECLLS   73 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t---~~G~lyckEcIle~ll~   73 (304)
                      ..-+.|.+|+..+.+|+..   +-||+||.+||.+||..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~   51 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV   51 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc
Confidence            4457899999999877644   89999999999999864

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

Probab=96.86  E-value=0.0011  Score=48.57  Aligned_cols=37  Identities=16%  Similarity=0.302  Sum_probs=30.8

Q ss_pred             CcCCCcceecccCCCCCc---eecCCCceeehhhHHHHHH
Q 022029           36 SIKPFDACCLCLKPFIDP---LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        36 s~~~F~~C~LcL~p~~dP---V~t~~G~lyckEcIle~ll   72 (304)
                      ....-..|.+||..+.+|   +..+-||+||++||..||.
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~   50 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLE   50 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHT
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHH
Confidence            345567899999999866   4568999999999999984

>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=96.81  E-value=0.0009  Score=45.42  Aligned_cols=34  Identities=24%  Similarity=0.468  Sum_probs=29.7

Q ss_pred             CcceecccCCCCC----ceecCCCceeehhhHHHHHHH
Q 022029           40 FDACCLCLKPFID----PLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        40 F~~C~LcL~p~~d----PV~t~~G~lyckEcIle~ll~   73 (304)
                      -+.|.+|+..+.+    +++.+-||+|+.+||.+||..
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~   42 (55)
T 2ecm_A            5 SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE   42 (55)
T ss_dssp             CCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHH
T ss_pred             CCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHc
Confidence            3679999999866    778999999999999999864

>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=96.77  E-value=0.00056  Score=53.79  Aligned_cols=32  Identities=16%  Similarity=0.460  Sum_probs=29.0

Q ss_pred             cceecccCCCCCce------------------ecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDPL------------------CCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dPV------------------~t~~G~lyckEcIle~ll   72 (304)
                      +.|.+||.++.+|+                  .++-||+||.+||.+||.
T Consensus        26 ~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~   75 (114)
T 1v87_A           26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYC   75 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHH
T ss_pred             CcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHH
Confidence            68999999998876                  688999999999999985

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

Probab=96.76  E-value=0.0008  Score=47.81  Aligned_cols=32  Identities=22%  Similarity=0.513  Sum_probs=29.1

Q ss_pred             cceecccCCCCCc-eecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDP-LCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dP-V~t~~G~lyckEcIle~ll   72 (304)
                      +.|.+|+..+.+| +..+-||+||.+||..|+.
T Consensus         6 ~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~   38 (68)
T 1chc_A            6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIR   38 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHH
T ss_pred             CCCeeCCccccCCcEecCCCCeeHHHHHHHHHh
Confidence            6799999999997 6888999999999999874

>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=96.75  E-value=0.0015  Score=46.53  Aligned_cols=37  Identities=19%  Similarity=0.404  Sum_probs=30.6

Q ss_pred             cCCCcceecccCCCC---CceecCCCceeehhhHHHHHHH
Q 022029           37 IKPFDACCLCLKPFI---DPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~---dPV~t~~G~lyckEcIle~ll~   73 (304)
                      ...-..|.+|+..+.   .++.++-||+||.+||..||..
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~   50 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT   50 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc
Confidence            344578999998874   5678999999999999999864

>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=96.73  E-value=0.00028  Score=56.14  Aligned_cols=35  Identities=26%  Similarity=0.815  Sum_probs=31.0

Q ss_pred             CCCcceecccCCCCCceec-CCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCC-QKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t-~~G~lyckEcIle~ll   72 (304)
                      .....|.+|+..+.+||.+ +-||.||+.||..++-
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~   55 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG   55 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc
Confidence            3457899999999999998 8999999999998863

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

Probab=96.70  E-value=0.00057  Score=47.30  Aligned_cols=31  Identities=23%  Similarity=0.366  Sum_probs=28.1

Q ss_pred             CCcceecccCCCCCceecCCCceeehhhHHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHIYCKECILE   69 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~lyckEcIle   69 (304)
                      ....|.+|+..+.+||.++-||.||+.||..
T Consensus         5 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~   35 (56)
T 1bor_A            5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA   35 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS
T ss_pred             cCCCceEeCCccCCeEEcCCCCcccHHHHcc
Confidence            4567999999999999999999999999865

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

Probab=96.68  E-value=0.0011  Score=47.47  Aligned_cols=35  Identities=26%  Similarity=0.654  Sum_probs=31.1

Q ss_pred             cCCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      ...-..|.+|+..+.+ |.++-||+||++||..||.
T Consensus        12 ~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~   46 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSD   46 (70)
T ss_dssp             CCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSC
T ss_pred             CCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHH
Confidence            3456789999999999 9999999999999999875

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

Probab=96.51  E-value=0.0029  Score=44.75  Aligned_cols=48  Identities=19%  Similarity=0.548  Sum_probs=38.2

Q ss_pred             CceeccCccccccCCcceEEEccCCc-----cchHHHHHHHhh--cCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGH-----VFCKKCADKFMA--VDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGh-----Vfc~~Ci~~~~k--~~~~CPvC~~~f~~  261 (304)
                      ..-.|.||+....+.    ++.||.+     .|-..||.+|+.  .+..||+|+.+|.-
T Consensus         5 ~~~~CrIC~~~~~~~----l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEELGNE----RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCC----CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCCCCc----eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456899999886554    3678754     899999999986  46899999999863

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

Probab=96.32  E-value=0.0023  Score=46.50  Aligned_cols=36  Identities=17%  Similarity=0.364  Sum_probs=30.9

Q ss_pred             CCCcceecccCCCCCc---eecCCCceeehhhHHHHHHH
Q 022029           38 KPFDACCLCLKPFIDP---LCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dP---V~t~~G~lyckEcIle~ll~   73 (304)
                      ..-+.|.+||..+.++   +..+-||+|+.+||..||..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~   59 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA   59 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc
Confidence            3457899999999877   67889999999999999853

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

Probab=96.24  E-value=0.003  Score=47.88  Aligned_cols=35  Identities=17%  Similarity=0.334  Sum_probs=30.3

Q ss_pred             CCCcceecccCCCCC---ceecCCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFID---PLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~d---PV~t~~G~lyckEcIle~ll   72 (304)
                      ..-..|.+||..+.+   ++..+-||+||.+||..||.
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~   75 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ   75 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHT
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHH
Confidence            345789999999876   77899999999999999985

>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=96.17  E-value=0.0034  Score=47.78  Aligned_cols=35  Identities=23%  Similarity=0.431  Sum_probs=29.9

Q ss_pred             CcceecccCCCCCceec---CCCceeehhhHHHHHHHh
Q 022029           40 FDACCLCLKPFIDPLCC---QKGHIYCKECILECLLSQ   74 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t---~~G~lyckEcIle~ll~q   74 (304)
                      ...|.+|+..+.+|+..   +-||.||++||..|+-.+
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~   42 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELL   42 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHH
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHH
Confidence            35699999999999754   689999999999998653

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

Probab=96.14  E-value=0.0027  Score=43.01  Aligned_cols=34  Identities=26%  Similarity=0.381  Sum_probs=29.1

Q ss_pred             CCcceecccCCCCC---ceecC-CCceeehhhHHHHHH
Q 022029           39 PFDACCLCLKPFID---PLCCQ-KGHIYCKECILECLL   72 (304)
Q Consensus        39 ~F~~C~LcL~p~~d---PV~t~-~G~lyckEcIle~ll   72 (304)
                      .-..|.+|+..+.+   ++..+ -||+|+.+||.+||.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~   41 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG   41 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTT
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHH
Confidence            34679999999987   77777 799999999999874

>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=96.02  E-value=0.0029  Score=60.77  Aligned_cols=34  Identities=24%  Similarity=0.499  Sum_probs=31.1

Q ss_pred             CCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      .+..|.+|+....+||.+|.||+||..||..++-
T Consensus       331 ~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~  364 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQE  364 (389)
T ss_dssp             SSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHH
T ss_pred             CCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHh
Confidence            3578999999999999999999999999988874

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=95.88  E-value=0.0046  Score=65.39  Aligned_cols=36  Identities=17%  Similarity=0.005  Sum_probs=32.2

Q ss_pred             cCCCcceecccCCCCCceecCCC-ceeehhhHHHHHH
Q 022029           37 IKPFDACCLCLKPFIDPLCCQKG-HIYCKECILECLL   72 (304)
Q Consensus        37 ~~~F~~C~LcL~p~~dPV~t~~G-~lyckEcIle~ll   72 (304)
                      +=+.-.|-|++...+|||++|+| +.|+|++|..||+
T Consensus       888 iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~  924 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLL  924 (968)
T ss_dssp             SCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHT
T ss_pred             CcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHh
Confidence            44567899999999999999997 6899999999986

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

Probab=95.77  E-value=0.0038  Score=45.57  Aligned_cols=28  Identities=29%  Similarity=0.684  Sum_probs=26.2

Q ss_pred             CcceecccCCCCCceecCCCce-eehhhH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHI-YCKECI   67 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~l-yckEcI   67 (304)
                      -..|.+|+....+||.+|-||+ ||.+||
T Consensus        25 ~~~C~IC~~~~~~~~~~pCgH~~~C~~C~   53 (75)
T 2ecg_A           25 EKLCKICMDRNIAIVFVPCGHLVTCKQCA   53 (75)
T ss_dssp             HHSCSSSCSSCCCBCCSSSCCCCBCHHHH
T ss_pred             CCCCCcCCCCCCCEEEecCCCHHHHHHHh
Confidence            3579999999999999999999 999998

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

Probab=95.71  E-value=0.0014  Score=62.15  Aligned_cols=52  Identities=12%  Similarity=0.255  Sum_probs=39.6

Q ss_pred             CCceeccCccccccCCcc----eEEEccCCccchHHHHHHHhhcC-----------CCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLS----LVALSSCGHVFCKKCADKFMAVD-----------KVCLVCNKPCK  260 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~----~v~l~~CGhVfc~~Ci~~~~k~~-----------~~CPvC~~~f~  260 (304)
                      ++...|+||...+.+...    ..-..+|||.|-..||.+|++..           ..||.|+.+++
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            567789999999887222    11234899999999999998631           47999999764

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

Probab=95.39  E-value=0.0065  Score=45.06  Aligned_cols=35  Identities=17%  Similarity=0.421  Sum_probs=28.7

Q ss_pred             CcceecccCCCCC--------------ceecC-CCceeehhhHHHHHHHh
Q 022029           40 FDACCLCLKPFID--------------PLCCQ-KGHIYCKECILECLLSQ   74 (304)
Q Consensus        40 F~~C~LcL~p~~d--------------PV~t~-~G~lyckEcIle~ll~q   74 (304)
                      -+.|++|+.++.+              +++.+ -||+|.++||.+||..+
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~   64 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN   64 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC
Confidence            4679999999987              44544 79999999999998653

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=95.28  E-value=0.065  Score=43.31  Aligned_cols=33  Identities=27%  Similarity=0.692  Sum_probs=22.8

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHH
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADK  244 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~  244 (304)
                      ..|.+|...|+-..+=---+.||+|||..|...
T Consensus        70 ~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           70 QNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             CBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            368888888865332234578999999888554

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

Probab=95.19  E-value=0.0072  Score=44.04  Aligned_cols=30  Identities=27%  Similarity=0.607  Sum_probs=27.4

Q ss_pred             CcceecccCCCCCceecCCCce-eehhhHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHI-YCKECILE   69 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~l-yckEcIle   69 (304)
                      -..|.+|+....+||..|-||+ ||.+||..
T Consensus        24 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~   54 (74)
T 4ic3_A           24 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEA   54 (74)
T ss_dssp             HTBCTTTSSSBCCEEEETTCCBCCCHHHHTT
T ss_pred             CCCCCCCCCCCCCEEEcCCCChhHHHHhhhc
Confidence            4579999999999999999999 99999865

>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=95.02  E-value=0.015  Score=45.70  Aligned_cols=34  Identities=24%  Similarity=0.475  Sum_probs=28.8

Q ss_pred             CcceecccCCCCCc------------------eecCCCceeehhhHHHHHHH
Q 022029           40 FDACCLCLKPFIDP------------------LCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        40 F~~C~LcL~p~~dP------------------V~t~~G~lyckEcIle~ll~   73 (304)
                      -+.|++|+.++.++                  +..+-||+|..+||..||..
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~   88 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT   88 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc
Confidence            37899999999876                  23678999999999999863

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

Probab=94.97  E-value=0.021  Score=41.10  Aligned_cols=30  Identities=17%  Similarity=0.455  Sum_probs=27.7

Q ss_pred             CCcceecccCCCCCceecCCCce-eehhhHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHI-YCKECIL   68 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~l-yckEcIl   68 (304)
                      ....|.+|+....++|..|-||+ ||.+|+.
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~   44 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVK   44 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHH
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHh
Confidence            35679999999999999999999 9999987

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

Probab=94.71  E-value=0.018  Score=42.67  Aligned_cols=34  Identities=24%  Similarity=0.383  Sum_probs=27.4

Q ss_pred             CCCcceecccCCC--CCceecC--CCceeehhhHHHHH
Q 022029           38 KPFDACCLCLKPF--IDPLCCQ--KGHIYCKECILECL   71 (304)
Q Consensus        38 ~~F~~C~LcL~p~--~dPV~t~--~G~lyckEcIle~l   71 (304)
                      .....|.+||.|+  .|++..|  -||.||+.||..++
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~   46 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIR   46 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHT
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHH
Confidence            3456799999998  4666655  89999999998764

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=94.12  E-value=0.028  Score=59.50  Aligned_cols=55  Identities=9%  Similarity=0.102  Sum_probs=48.8

Q ss_pred             CCceeccCccccccCCcceEEEccCC-ccchHHHHHHHhhcCCCCCCCCCCCCCCCceEe
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCG-HVFCKKCADKFMAVDKVCLVCNKPCKERNLVNV  267 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CG-hVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L  267 (304)
                      -..|.|||+.+.+.++    |+.+.| +.|=..+|++|+.....||..+.+++..++|+-
T Consensus       889 P~~F~cPIs~~lM~DP----VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN  944 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDP----VILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPN  944 (968)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEEC
T ss_pred             cHHhCCcchhhHHhCC----eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccccccc
Confidence            3579999999999999    577887 589999999999878899999999998888873

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=93.84  E-value=0.044  Score=43.60  Aligned_cols=81  Identities=14%  Similarity=0.192  Sum_probs=55.0

Q ss_pred             ccCCCCCCcCCCCCceeee-cccCCCcccccCCCCCceeccCccccccCC-cceEEEccCCccchHHHHHHHhhcCCCCC
Q 022029          176 TICPEGKEKLKLKSLFPVY-FTEDKSEEKKSSSNDKSFICPSCKVTLTNT-LSLVALSSCGHVFCKKCADKFMAVDKVCL  253 (304)
Q Consensus       176 ~~CP~sg~~l~lKDLi~l~-f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~-~~~v~l~~CGhVfc~~Ci~~~~k~~~~CP  253 (304)
                      +.|+.-+.++.-..+|... -.+-.          .-|.|..|.+.|.+. ..++  ..=|.+||..|+.+++....+|.
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~----------~CF~C~~C~~~L~~~~~~~~--~~~g~~yC~~cy~~~f~~~~~C~   73 (122)
T 1m3v_A            6 KRCAGCGGKIADRFLLYAMDSYWHS----------RCLKCSSCQAQLGDIGTSSY--TKSGMILCRNDYIRLFGNSGAGG   73 (122)
T ss_dssp             CCBSSSSSCCCSSCCEEETTEEECH----------HHHCCSSSCCCTTTSEECCE--EETTEEECHHHHHHHHCCCCSSS
T ss_pred             CCCcccCCEeCCcEEEEECCceeHh----------hCCCcCCCCCcccccCCeEE--EECCeeecHHHHHHHcCCCCccc
Confidence            5777777777655544321 11111          247899999999742 2332  34499999999999876555899


Q ss_pred             CCCCCCCCCCceEec
Q 022029          254 VCNKPCKERNLVNVE  268 (304)
Q Consensus       254 vC~~~f~~~diI~L~  268 (304)
                      .|++++...+|+.+.
T Consensus        74 ~C~~~I~~~~~~~~g   88 (122)
T 1m3v_A           74 SGGHMGSGGDVMVVG   88 (122)
T ss_dssp             CSSCCSCCEESSSSS
T ss_pred             cCCCCcCchheEEcC
Confidence            999999987776543

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=93.63  E-value=0.052  Score=51.70  Aligned_cols=52  Identities=21%  Similarity=0.294  Sum_probs=38.9

Q ss_pred             ceeccCccccccCCcceEEEccCCccch--HHHHHHHhh--cCCCCCCCCCCCCCCCce
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFC--KKCADKFMA--VDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc--~~Ci~~~~k--~~~~CPvC~~~f~~~diI  265 (304)
                      .+.||++...|..+.   --..|-|+-|  ...+-.+..  ..|.||+|++.+...||+
T Consensus       249 SL~CPlS~~ri~~Pv---Rg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~  304 (371)
T 3i2d_A          249 SLQCPISYTRMKYPS---KSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLA  304 (371)
T ss_dssp             ESBCTTTSSBCSSEE---EETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEE
T ss_pred             eecCCCccccccccC---cCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHee
Confidence            478999999999984   4679999944  444444332  679999999999776543

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

Probab=93.45  E-value=0.069  Score=47.81  Aligned_cols=49  Identities=24%  Similarity=0.491  Sum_probs=39.9

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--CCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--DKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--~~~CPvC~~~f~~  261 (304)
                      ....|.+|++..+-..+   -..|||.|-..|+.+|++.  ...||.|+.++..
T Consensus       179 ~i~~C~iC~~iv~~g~~---C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCEE---CSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCcc---cCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            46789999999886532   3459999999999999864  4599999998865

>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=93.15  E-value=0.036  Score=40.97  Aligned_cols=30  Identities=27%  Similarity=0.681  Sum_probs=27.3

Q ss_pred             CcceecccCCCCCceecCCCce-eehhhHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHI-YCKECILE   69 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~l-yckEcIle   69 (304)
                      -..|.+|+....+||..|-||+ ||.+|+..
T Consensus        18 ~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~   48 (79)
T 2yho_A           18 AMLCMVCCEEEINSTFCPCGHTVCCESCAAQ   48 (79)
T ss_dssp             HTBCTTTSSSBCCEEEETTCBCCBCHHHHTT
T ss_pred             CCEeEEeCcccCcEEEECCCCHHHHHHHHHh
Confidence            3579999999999999999999 99999864

>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=92.98  E-value=0.018  Score=46.22  Aligned_cols=34  Identities=24%  Similarity=0.501  Sum_probs=0.0

Q ss_pred             cceecccCCCCCce-----------------e-cCCCceeehhhHHHHHHHh
Q 022029           41 DACCLCLKPFIDPL-----------------C-CQKGHIYCKECILECLLSQ   74 (304)
Q Consensus        41 ~~C~LcL~p~~dPV-----------------~-t~~G~lyckEcIle~ll~q   74 (304)
                      |.|++|+.++.+|.                 + .+-||+|..+||.+||..+
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~  100 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR  100 (117)
T ss_dssp             ----------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC
Confidence            89999999998752                 2 4679999999999998753

>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=92.97  E-value=0.049  Score=38.36  Aligned_cols=33  Identities=27%  Similarity=0.484  Sum_probs=28.6

Q ss_pred             CCcceecccCCCCCceec--CCCce-eehhhHHHHH
Q 022029           39 PFDACCLCLKPFIDPLCC--QKGHI-YCKECILECL   71 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t--~~G~l-yckEcIle~l   71 (304)
                      .-+.|.+|+...+++|+.  |-||+ ||.+|+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~   41 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLK   41 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHH
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHH
Confidence            346799999999999876  99999 9999998754

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

Probab=92.95  E-value=0.15  Score=37.87  Aligned_cols=36  Identities=22%  Similarity=0.352  Sum_probs=29.5

Q ss_pred             CCcceecccCCC--CCceecCC-----CceeehhhHHHHHHHh
Q 022029           39 PFDACCLCLKPF--IDPLCCQK-----GHIYCKECILECLLSQ   74 (304)
Q Consensus        39 ~F~~C~LcL~p~--~dPV~t~~-----G~lyckEcIle~ll~q   74 (304)
                      .-+.|++||..+  .+|++.|-     +|.|-.+||..||...
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~   56 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSS   56 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHH
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhC
Confidence            357899999886  47887775     4999999999999753

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=92.89  E-value=0.08  Score=50.24  Aligned_cols=52  Identities=27%  Similarity=0.476  Sum_probs=38.8

Q ss_pred             ceeccCccccccCCcceEEEccCCcc--chHHHHHHHhh--cCCCCCCCCCCCCCCCce
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHV--FCKKCADKFMA--VDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhV--fc~~Ci~~~~k--~~~~CPvC~~~f~~~diI  265 (304)
                      .+.||++...+.-+.   --..|-|+  |-...+-.+..  ..|.||+|++.+..+||+
T Consensus       215 SL~CPlS~~ri~~P~---Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~  270 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPC---RAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLI  270 (360)
T ss_dssp             ESBCTTTCSBCSSEE---EETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEE
T ss_pred             eeeCCCccceeccCC---cCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeE
Confidence            468999999998884   46799999  44444444332  579999999999876553

>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=92.78  E-value=0.05  Score=38.42  Aligned_cols=32  Identities=19%  Similarity=0.495  Sum_probs=28.5

Q ss_pred             CcceecccCCCCCceec--CCCce-eehhhHHHHH
Q 022029           40 FDACCLCLKPFIDPLCC--QKGHI-YCKECILECL   71 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t--~~G~l-yckEcIle~l   71 (304)
                      -+.|.+|+....++|..  |-||+ ||.+|+..++
T Consensus         8 ~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~   42 (64)
T 2vje_A            8 IEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLK   42 (64)
T ss_dssp             GSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHH
T ss_pred             cCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHH
Confidence            46799999999999977  99999 8999998765

>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=91.28  E-value=0.065  Score=50.61  Aligned_cols=30  Identities=23%  Similarity=0.616  Sum_probs=27.6

Q ss_pred             CcceecccCCCCCceecCCCce-eehhhHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHI-YCKECILE   69 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~l-yckEcIle   69 (304)
                      -..|.+|+....+||..|.||+ ||..||..
T Consensus       295 ~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~  325 (345)
T 3t6p_A          295 ERTCKVCMDKEVSVVFIPCGHLVVCQECAPS  325 (345)
T ss_dssp             TCBCTTTSSSBCCEEEETTCCEEECTTTGGG
T ss_pred             CCCCCccCCcCCceEEcCCCChhHhHHHHhc
Confidence            4679999999999999999999 99999864

>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=88.55  E-value=0.51  Score=35.90  Aligned_cols=52  Identities=21%  Similarity=0.414  Sum_probs=41.1

Q ss_pred             CceeccCccccccC---CcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTN---TLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~---~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~  261 (304)
                      +.-+|-||.+...-   ...||+-..|+--+|..|++--.+ .+..||.|...|+.
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            34699999987432   236788889999999999986444 56799999999974

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A

Probab=85.77  E-value=0.61  Score=36.89  Aligned_cols=52  Identities=19%  Similarity=0.470  Sum_probs=39.0

Q ss_pred             CceeccCccccccCC-cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTNT-LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERN  263 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~-~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~d  263 (304)
                      .-|.|..|.+.|... ..+ +. .=|.+||..|..++......|..|++++...+
T Consensus        28 ~CF~C~~C~~~L~~~~~~~-~~-~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e   80 (131)
T 2xjy_A           28 DCLSCDLCGCRLGEVGRRL-YY-KLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE   80 (131)
T ss_dssp             TTCBCTTTCCBCSSTTCCE-EE-ETTEEECHHHHHHHHCCCEECTTTCCEECTTS
T ss_pred             HHcccCcCCCccccCCCeE-EE-ECCEEeecCchhhhCCCccChhhcCCccCccc
Confidence            358999999999742 233 33 44999999999987644448999999997644

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

Probab=85.49  E-value=0.55  Score=35.57  Aligned_cols=33  Identities=15%  Similarity=0.581  Sum_probs=25.4

Q ss_pred             ceeccCcccc-ccCCcceEEEccCCccchHHHHHHH
Q 022029          211 SFICPSCKVT-LTNTLSLVALSSCGHVFCKKCADKF  245 (304)
Q Consensus       211 ~~~CPIc~k~-~~~~~~~v~l~~CGhVfc~~Ci~~~  245 (304)
                      ...|+||.+. +..++  ..-..|||.||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av--~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAV--KTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCC--EEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCce--EECCcCChHHhHHHCHHH
Confidence            4789999975 55552  223799999999999984

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A

Probab=84.84  E-value=1.9  Score=35.68  Aligned_cols=37  Identities=22%  Similarity=0.324  Sum_probs=28.1

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhc
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV  248 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~  248 (304)
                      =|.|..|.+.|.....+. +..=|.+||..|..+++..
T Consensus        93 CF~C~~C~~~L~~g~~f~-~~~~g~~~C~~c~~~~~~~  129 (169)
T 2rgt_A           93 CFACVVCKRQLATGDEFY-LMEDSRLVCKADYETAKQG  129 (169)
T ss_dssp             GCBCTTTCCBCCTTCEEE-ECTTSCEEEHHHHHHHHHC
T ss_pred             CCcCCCCCCCCCCCCceE-EccCCeEECHHHHHHHhhc
Confidence            489999999997544443 3345899999999998653

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus}

Probab=83.91  E-value=1.5  Score=36.77  Aligned_cols=35  Identities=20%  Similarity=0.345  Sum_probs=26.4

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHH
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKF  245 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~  245 (304)
                      .-|.|..|.+.|.....+.+ ..=|.+||..|..++
T Consensus       146 ~CF~C~~C~~~L~~g~~f~~-~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          146 HCFACVVCKRQLATGDEFYL-MEDSRLVCKADYETA  180 (182)
T ss_dssp             TTCCCTTTCCCCCTTCEEEE-CTTSCEECHHHHHHH
T ss_pred             CCCcCCCCCCCCCCCCceEE-ccCCEEECHHHHHHh
Confidence            35899999999985444433 334899999999875

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=81.77  E-value=4  Score=31.77  Aligned_cols=73  Identities=19%  Similarity=0.264  Sum_probs=50.9

Q ss_pred             ccCCCCCCcCCCCCceeee-cccCCCcccccCCCCCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCC
Q 022029          176 TICPEGKEKLKLKSLFPVY-FTEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLV  254 (304)
Q Consensus       176 ~~CP~sg~~l~lKDLi~l~-f~~~~~~~~~~~~~~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPv  254 (304)
                      ++|+.=++++.-.+++... -.+-          ..-|.|..|.+.|.+. .+  ...=|.+||..|..++.  ..+|..
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H----------~~CF~C~~C~~~L~~~-~f--~~~~g~~yC~~cy~~~~--~~~C~~   68 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWH----------LKHFCCFDCDSILAGE-IY--VMVNDKPVCKPCYVKNH--AVVCQG   68 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEEC----------GGGSBCTTTCCBCTTS-EE--EEETTEEEEHHHHHHHS--CCBCTT
T ss_pred             CCCccCCCEeCCceEEeeCCCCcc----------CCCCCcCCCCCCCCcC-EE--EeECCEEechHHhCcCc--CccCcc
Confidence            5787777777755554331 1111          1358999999999875 33  23459999999998864  468999


Q ss_pred             CCCCCCCCC
Q 022029          255 CNKPCKERN  263 (304)
Q Consensus       255 C~~~f~~~d  263 (304)
                      |++++...+
T Consensus        69 C~~~I~~~~   77 (126)
T 2xqn_T           69 CHNAIDPEV   77 (126)
T ss_dssp             TCSBCCTTS
T ss_pred             cCCcCCcCc
Confidence            999998643

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=81.15  E-value=0.093  Score=42.25  Aligned_cols=45  Identities=27%  Similarity=0.634  Sum_probs=29.0

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVC  255 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC  255 (304)
                      ...|..|...|+-..+----+.||.+||..|....+.....|-.|
T Consensus        19 ~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C   63 (120)
T 1y02_A           19 EPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLC   63 (120)
T ss_dssp             -CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHH
T ss_pred             cCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHH
Confidence            358999999997653333467899999999966543333445444

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=81.13  E-value=0.67  Score=34.99  Aligned_cols=36  Identities=25%  Similarity=0.510  Sum_probs=25.9

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHH
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADK  244 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~  244 (304)
                      ...-.|.+|...|+-..+=---+.||.|||..|...
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCC
Confidence            344589999999876433334578999999988654

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=80.41  E-value=0.83  Score=33.99  Aligned_cols=34  Identities=26%  Similarity=0.650  Sum_probs=25.8

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHH
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADK  244 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~  244 (304)
                      ...|.+|...|+--.+=---+.||.|||..|...
T Consensus        21 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   54 (84)
T 1z2q_A           21 APACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRH   54 (84)
T ss_dssp             CCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCC
T ss_pred             CCCCcCcCCccccchhcccccCCCcEEChHHhCC
Confidence            4589999999976433334578999999998654

---

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	304
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	0.001
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	6e-05
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	9e-05
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-04
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-04
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-04
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-04
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	8e-04
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.002

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.2 bits (99), Expect = 4e-06
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 5/58 (8%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLV 265
            KS  C  C+  L + +       C H+FC+ C  + + V    C  C  PC   +L 
Sbjct: 21  VKSISCQICEHILADPVETS----CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.3 bits (81), Expect = 0.001
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          C +C     DP+     H++C+ CIL CL     
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLKVMGS 59

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 37.9 bits (88), Expect = 6e-05
 Identities = 13/50 (26%), Positives = 18/50 (36%)

Query: 209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKP 258
           D    C  C   L +      L  CGH F  +C D ++     C +C   
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 9e-05
 Identities = 9/37 (24%), Positives = 15/37 (40%)

Query: 40 FDACCLCLKPFIDPLCCQKGHIYCKECILECLLSQKK 76
          F  C +C +   D      GH+ C  C+     S+ +
Sbjct: 23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ 59

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 1e-04
 Identities = 13/74 (17%), Positives = 23/74 (31%), Gaps = 5/74 (6%)

Query: 196 TEDKSEEKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD-KVCLV 254
              +  E          +C  C     +    V +  CGH+ C  C   +   + + C  
Sbjct: 8   VTQEQYELYCEMGSTFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPF 63

Query: 255 CNKPCKERNLVNVE 268
           C    K    + V+
Sbjct: 64  CRCEIKGTEPIVVD 77

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 7/67 (10%)

Query: 202 EKKSSSNDKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDK---VCLVCNKP 258
           +   ++  K   CP C   +   +S      C H+FCK C  K +   K    C +C   
Sbjct: 12  QNVINAMQKILECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

Query: 259 CKERNLV 265
             +R+L 
Sbjct: 68  ITKRSLQ 74

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 5e-04
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLSQKKDIQ 79
          C +CL+   +P+  +  HI+CK C+L+ L  +K   Q
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQ 60

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (83), Expect = 2e-04
 Identities = 7/53 (13%), Positives = 16/53 (30%), Gaps = 3/53 (5%)

Query: 213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLV 265
           +C             V       +F K   ++++       + N+P     +V
Sbjct: 2   LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV 51

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 36.1 bits (83), Expect = 4e-04
 Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 214 CPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKP 258
           CP C    +N         C H FC  C  +++  +  C +C  P
Sbjct: 8   CPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 35.3 bits (81), Expect = 8e-04
 Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 5/39 (12%)

Query: 41 DACCLCLKPFIDP---LCCQKGHIYCKECILECLLSQKK 76
          + C +CL+   +    L C   H +C  CI   +     
Sbjct: 6  ERCPICLEDPSNYSMALPC--LHAFCYVCITRWIRQNPT 42

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 5e-04
 Identities = 16/84 (19%), Positives = 35/84 (41%), Gaps = 5/84 (5%)

Query: 182 KEKLKLKSLFPVY-FTEDKSEEK----KSSSNDKSFICPSCKVTLTNTLSLVALSSCGHV 236
           K++ ++K    V  +  D   +     ++   D    C + + + T+    VA   C H 
Sbjct: 1   KKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHA 60

Query: 237 FCKKCADKFMAVDKVCLVCNKPCK 260
           F   C  +++   +VC + N+  +
Sbjct: 61  FHFHCISRWLKTRQVCPLDNREWE 84

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 34.3 bits (78), Expect = 0.002
 Identities = 8/31 (25%), Positives = 14/31 (45%)

Query: 43 CCLCLKPFIDPLCCQKGHIYCKECILECLLS 73
          C + L+   DP+    G  Y +  I + L +
Sbjct: 11 CPISLELMKDPVIVSTGQTYERSSIQKWLDA 41

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	304
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.39
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.19
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.07
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.06
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.0
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.99
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.97
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.96
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.96
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.95
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.9
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.83
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.8
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.56
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.54
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.52
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.45
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.42
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.3
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.17
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.1
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.05
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	97.98
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.98
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	97.35
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	97.1
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	96.85
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	96.45
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	96.09
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	95.33
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	94.83
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	94.34
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	94.17
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	92.89
d1dx8a_	70	Rubredoxin {Guillardia theta [TaxId: 55529]}	91.12
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	87.99
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	85.48

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.39  E-value=6.1e-14  Score=97.82  Aligned_cols=56  Identities=13%  Similarity=0.216  Sum_probs=50.6

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCC
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKG  270 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~  270 (304)
                      +.||||++.|.++   |++..|||+||.+||.+|+..+..||+|+.+++.+|+|+|.+.
T Consensus         1 l~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLipik~~   56 (56)
T d2baya1           1 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPS   56 (56)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECCCC
T ss_pred             CCCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhceeCCCC
Confidence            3799999999998   4566799999999999999988899999999999999999763

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.19  E-value=5.8e-12  Score=87.54  Aligned_cols=31  Identities=16%  Similarity=0.214  Sum_probs=28.8

Q ss_pred             ceecccCCCCCceecC-CCceeehhhHHHHHH
Q 022029           42 ACCLCLKPFIDPLCCQ-KGHIYCKECILECLL   72 (304)
Q Consensus        42 ~C~LcL~p~~dPV~t~-~G~lyckEcIle~ll   72 (304)
                      .|.||+.+++|||+++ .||+||++||++||.
T Consensus         2 ~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~   33 (56)
T d2baya1           2 LCAISGKVPRRPVLSPKSRTIFEKSLLEQYVK   33 (56)
T ss_dssp             CCTTTCSCCSSEEEETTTTEEEEHHHHHHHHH
T ss_pred             CCccCCchHHhcCccCCCCCcccHHHHHHHHh
Confidence            4999999999999886 699999999999996

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=8.7e-12  Score=94.20  Aligned_cols=51  Identities=29%  Similarity=0.753  Sum_probs=44.8

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCce
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLV  265 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI  265 (304)
                      .+.||||.+.|.++    ++.+|||+||+.||.+|++ ....||+|+.++...|+.
T Consensus        23 ~l~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          23 SISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             CcCCccCCcchhcc----eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            57899999999987    5679999999999999986 456899999999887765

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=4.6e-11  Score=88.60  Aligned_cols=55  Identities=20%  Similarity=0.546  Sum_probs=47.0

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceEecC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVNVEK  269 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~L~~  269 (304)
                      ...||||.+.+.++    ++.+|||+||.+||..|+. ....||+|+..+...+.|.|.+
T Consensus        23 ~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~i~~   78 (79)
T d1fbva4          23 FQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP   78 (79)
T ss_dssp             TTBCTTTSSSBCCE----ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCSSCCC
T ss_pred             CCCCccCCCcCCCe----EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCceeecCC
Confidence            35799999999885    5789999999999999987 4568999999999888777754

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=1.5e-10  Score=82.63  Aligned_cols=56  Identities=29%  Similarity=0.634  Sum_probs=44.8

Q ss_pred             ceeccCcccccc-CCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceE
Q 022029          211 SFICPSCKVTLT-NTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       211 ~~~CPIc~k~~~-~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~  266 (304)
                      ...||||++.+. ++...+++.+|||+||.+||.+|+. ....||+|+++++..++..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~~~   60 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV   60 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEE
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccccc
Confidence            368999998753 3444456789999999999999985 4568999999998877654

>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=98.99  E-value=1e-10  Score=80.92  Aligned_cols=51  Identities=25%  Similarity=0.613  Sum_probs=44.6

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPC  259 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f  259 (304)
                      +....|+||++.|.+...++.+..|||+|+..||.+|++.+..||+|+.++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            345679999999998777777778999999999999999888999999865

>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=98.97  E-value=2e-10  Score=84.52  Aligned_cols=53  Identities=17%  Similarity=0.379  Sum_probs=46.7

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~~diI~  266 (304)
                      ..|.||||++.|.++    ++.+|||+||..||.+|+.. ...||.|+.++...++++
T Consensus         7 ~~l~CpIc~~~m~dP----V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~p   60 (78)
T d1t1ha_           7 EYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTP   60 (78)
T ss_dssp             SSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEE
T ss_pred             ccCCCcCcCchhhCc----eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccc
Confidence            579999999999998    35589999999999999864 467999999999888876

>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=98.96  E-value=1.9e-10  Score=82.71  Aligned_cols=46  Identities=26%  Similarity=0.669  Sum_probs=41.2

Q ss_pred             eeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCK  260 (304)
Q Consensus       212 ~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~  260 (304)
                      -.||||.+.|.++   +++.+|||+||..||.+|++....||+|+.++.
T Consensus         6 d~C~IC~~~~~~~---~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           6 ERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCSSCCSCCCSC---EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCccCCcCccCC---cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            3699999999775   467899999999999999988889999999886

>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=98.96  E-value=1.3e-10  Score=86.10  Aligned_cols=53  Identities=11%  Similarity=0.196  Sum_probs=46.4

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~~diI~  266 (304)
                      ..|.||||++.|.++    ++.+|||+||..||.+++. ....||+|+.++...++++
T Consensus         6 ~~l~CpIc~~l~~dP----v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~p   59 (80)
T d2c2la2           6 DYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIP   59 (80)
T ss_dssp             STTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEE
T ss_pred             ccccCcCcCchhhhh----cccCCcCeecHHHHHHHHhcCCccCCCcccccccccccc
Confidence            468999999999998    4679999999999999986 4568999999998877765

>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=98.95  E-value=1.3e-10  Score=79.38  Aligned_cols=49  Identities=27%  Similarity=0.569  Sum_probs=41.4

Q ss_pred             eccCccccccCCcceEEEccCCccchHHHHHHHhhc-CCCCCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV-DKVCLVCNKPCKE  261 (304)
Q Consensus       213 ~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~-~~~CPvC~~~f~~  261 (304)
                      .||||++.|.+....+.+.+|||+||..||.+|+.. +..||+|+++|.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999999776554456689999999999999874 5689999999976

>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=98.90  E-value=2.5e-10  Score=88.39  Aligned_cols=53  Identities=28%  Similarity=0.701  Sum_probs=44.2

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcC---CCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVD---KVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~---~~CPvC~~~f~~~diI~  266 (304)
                      ..+.||||.+.|.++    +..+|||+||..||.+|+...   ..||+|+.++...++.+
T Consensus        20 ~~l~CpIC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~   75 (103)
T d1jm7a_          20 KILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE   75 (103)
T ss_dssp             HHTSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBC
T ss_pred             cCcCCCccCchhCCe----EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCc
Confidence            357899999999998    346899999999999998633   58999999998777543

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=1e-09  Score=84.37  Aligned_cols=53  Identities=8%  Similarity=0.125  Sum_probs=46.4

Q ss_pred             CceeccCccccccCCcceEEEccCC-ccchHHHHHHHhhcCCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCG-HVFCKKCADKFMAVDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CG-hVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~  266 (304)
                      ..|+||||...|.++    |+.+|| |.||..||.+|+..+..||+|+.++...++++
T Consensus        21 ~~f~CPI~~~lm~dP----V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~p   74 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRP   74 (98)
T ss_dssp             TTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEE
T ss_pred             HHhCCcCchhHHHHH----HhcccccchhhHHHHHHHHHhcCCcccccccccchhhcc
Confidence            369999999999999    355555 68999999999988889999999999988876

>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=98.80  E-value=2.4e-10  Score=87.47  Aligned_cols=52  Identities=31%  Similarity=0.727  Sum_probs=43.6

Q ss_pred             CceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceE
Q 022029          210 KSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVN  266 (304)
Q Consensus       210 ~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~  266 (304)
                      ..+.||||.+.|.++   |.+.+|||+||..||.+|+.  ..||+|+.++...|++.
T Consensus        21 ~~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~   72 (97)
T d1jm7b_          21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (97)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             hcCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCcc
Confidence            357899999999998   34679999999999999874  46999999998777643

>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=98.56  E-value=2.2e-08  Score=78.16  Aligned_cols=51  Identities=22%  Similarity=0.398  Sum_probs=40.7

Q ss_pred             eeccCccccccCC--------------cceEEEccCCccchHHHHHHHhhc-----CCCCCCCCCCCCCC
Q 022029          212 FICPSCKVTLTNT--------------LSLVALSSCGHVFCKKCADKFMAV-----DKVCLVCNKPCKER  262 (304)
Q Consensus       212 ~~CPIc~k~~~~~--------------~~~v~l~~CGhVfc~~Ci~~~~k~-----~~~CPvC~~~f~~~  262 (304)
                      ..|+||++.|.+.              ..++.+.+|||+||..||..|+..     ...||+|+..|..+
T Consensus        26 ~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4799999988653              235678899999999999999863     24799999998654

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.54  E-value=4.9e-09  Score=72.51  Aligned_cols=44  Identities=23%  Similarity=0.609  Sum_probs=37.4

Q ss_pred             ceeccCccccccCCcceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          211 SFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       211 ~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .+.||||++.|.++    ++.+|||+||..||+++   ...||+|+.++..
T Consensus         6 ~l~C~IC~~~~~~p----~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T d1bora_           6 FLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCCCcccCcccCCC----EEecCCCHHhHHHHHcC---CCcCcCCCCcccC
Confidence            46899999999987    35689999999998753   5689999999864

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=3.5e-08  Score=73.93  Aligned_cols=49  Identities=22%  Similarity=0.541  Sum_probs=40.6

Q ss_pred             eccCccccccCCc--------------ceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCC
Q 022029          213 ICPSCKVTLTNTL--------------SLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKE  261 (304)
Q Consensus       213 ~CPIc~k~~~~~~--------------~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~  261 (304)
                      .|+||...+.+..              ..+++.+|||+|+..||..|+..+..||+|+.+|..
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            4888877775532              246788999999999999999988999999999863

>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=98.45  E-value=5.9e-08  Score=71.27  Aligned_cols=33  Identities=18%  Similarity=0.223  Sum_probs=30.7

Q ss_pred             CcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           40 FDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      -..|.||+..+.|||+++.||.||+.||.++|.
T Consensus         7 ~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~   39 (80)
T d2c2la2           7 YLCGKISFELMREPCITPSGITYDRKDIEEHLQ   39 (80)
T ss_dssp             TTBCTTTCSBCSSEEECSSCCEEETTHHHHHHH
T ss_pred             cccCcCcCchhhhhcccCCcCeecHHHHHHHHh
Confidence            357999999999999999999999999999985

>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=98.42  E-value=1.3e-07  Score=68.89  Aligned_cols=35  Identities=23%  Similarity=0.415  Sum_probs=31.3

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      -+-..|.||+..++|||+++.||.||++||..||.
T Consensus         6 P~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~   40 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLD   40 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHT
T ss_pred             CccCCCcCcCchhhCceEccCCCcchHHHHHHHHH
Confidence            34467999999999999999999999999999874

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.30  E-value=2.1e-07  Score=71.10  Aligned_cols=35  Identities=14%  Similarity=-0.026  Sum_probs=30.8

Q ss_pred             CCCcceecccCCCCCceecCCC-ceeehhhHHHHHH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKG-HIYCKECILECLL   72 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G-~lyckEcIle~ll   72 (304)
                      -+...|-||+.-++|||+++.| |.||++||..||.
T Consensus        20 P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~   55 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLL   55 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTT
T ss_pred             cHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHH
Confidence            3467899999999999999986 4899999999874

>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=98.17  E-value=7.7e-07  Score=61.58  Aligned_cols=53  Identities=13%  Similarity=0.317  Sum_probs=40.2

Q ss_pred             CCceeccCccccccCCcc-eEEEccCCccchHHHHHHHhh--cCCCCCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLS-LVALSSCGHVFCKKCADKFMA--VDKVCLVCNKPCKE  261 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~-~v~l~~CGhVfc~~Ci~~~~k--~~~~CPvC~~~f~~  261 (304)
                      +...+|+||++.+++..- ......|+|+|+..||.+|+.  .+..||+|+.+|..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            345789999999887621 112334579999999999984  56789999999964

>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=98.10  E-value=1.1e-06  Score=65.51  Aligned_cols=32  Identities=34%  Similarity=0.861  Sum_probs=30.1

Q ss_pred             cceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      -.|.+|+.++.+||+|+-||+||+.||.+||-
T Consensus        24 l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~   55 (86)
T d1rmda2          24 ISCQICEHILADPVETSCKHLFCRICILRCLK   55 (86)
T ss_dssp             TBCTTTCSBCSSEEECTTSCEEEHHHHHHHHH
T ss_pred             cCCccCCcchhcceecCCCChhhHHHHHHHHh
Confidence            37999999999999999999999999999983

>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=98.05  E-value=1.9e-06  Score=62.92  Aligned_cols=35  Identities=26%  Similarity=0.505  Sum_probs=31.8

Q ss_pred             CCcceecccCCCCCceecCCCceeehhhHHHHHHH
Q 022029           39 PFDACCLCLKPFIDPLCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll~   73 (304)
                      .+.-|.+|+..+.+||+++-||+||++||..||..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~   56 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQES   56 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHT
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHH
Confidence            35679999999999999999999999999999863

>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=97.98  E-value=1.4e-06  Score=66.67  Aligned_cols=32  Identities=34%  Similarity=0.787  Sum_probs=29.6

Q ss_pred             cceecccCCCCCceecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFIDPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~dPV~t~~G~lyckEcIle~ll   72 (304)
                      -.|.+|+..+.+||.++-||+||+.||.+||-
T Consensus        22 l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~   53 (103)
T d1jm7a_          22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLN   53 (103)
T ss_dssp             TSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHH
T ss_pred             cCCCccCchhCCeEEcCCCCchhhHHHHHHHH
Confidence            35999999999999999999999999999874

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=1.9e-06  Score=64.48  Aligned_cols=49  Identities=18%  Similarity=0.491  Sum_probs=38.1

Q ss_pred             CCceeccCccccccCCcceEEEccCCccchHHHHHHHhhc--------CCCCCCCCCC
Q 022029          209 DKSFICPSCKVTLTNTLSLVALSSCGHVFCKKCADKFMAV--------DKVCLVCNKP  258 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~~~~v~l~~CGhVfc~~Ci~~~~k~--------~~~CPvC~~~  258 (304)
                      .+...||||.+.+... .++.+.+|||.||..|+..++..        ...||.|+-+
T Consensus         3 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           3 SGSSGCKLCLGEYPVE-QMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             CSBCCCSSSCCCCBGG-GEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCCcCccCCCcccCC-ceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            4567999999998764 55667799999999999998741        2369987653

>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=97.35  E-value=2.6e-05  Score=58.54  Aligned_cols=33  Identities=27%  Similarity=0.891  Sum_probs=28.0

Q ss_pred             CCcceecccCCCCCcee-cCCCceeehhhHHHHH
Q 022029           39 PFDACCLCLKPFIDPLC-CQKGHIYCKECILECL   71 (304)
Q Consensus        39 ~F~~C~LcL~p~~dPV~-t~~G~lyckEcIle~l   71 (304)
                      ..-.|.+|+..+.+||. ++-||.||++||..||
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~   54 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI   54 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGT
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHH
Confidence            33479999999999995 6789999999997654

>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=97.10  E-value=0.00013  Score=51.10  Aligned_cols=34  Identities=21%  Similarity=0.415  Sum_probs=29.6

Q ss_pred             CcceecccCCCCCce-ecCCCceeehhhHHHHHHH
Q 022029           40 FDACCLCLKPFIDPL-CCQKGHIYCKECILECLLS   73 (304)
Q Consensus        40 F~~C~LcL~p~~dPV-~t~~G~lyckEcIle~ll~   73 (304)
                      -+.|.+||.++.+|+ +++-||.||.+||..||-.
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~   39 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ   39 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh
Confidence            367999999998876 5889999999999999853

>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=96.85  E-value=0.00017  Score=48.84  Aligned_cols=30  Identities=23%  Similarity=0.372  Sum_probs=28.0

Q ss_pred             CCCcceecccCCCCCceecCCCceeehhhH
Q 022029           38 KPFDACCLCLKPFIDPLCCQKGHIYCKECI   67 (304)
Q Consensus        38 ~~F~~C~LcL~p~~dPV~t~~G~lyckEcI   67 (304)
                      ..|--|.+|+..+.+||.+|-||+||+.||
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci   33 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCL   33 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTC
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHH
Confidence            456789999999999999999999999998

>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=96.45  E-value=0.00097  Score=46.12  Aligned_cols=32  Identities=19%  Similarity=0.450  Sum_probs=26.0

Q ss_pred             cceecccCCCC-----CceecCCCceeehhhHHHHHH
Q 022029           41 DACCLCLKPFI-----DPLCCQKGHIYCKECILECLL   72 (304)
Q Consensus        41 ~~C~LcL~p~~-----dPV~t~~G~lyckEcIle~ll   72 (304)
                      ..|.+|+....     ..++++-||+||++||.+||.
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~   40 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFV   40 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHH
T ss_pred             CCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhC
Confidence            57999997642     236789999999999999985

>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=96.09  E-value=0.0016  Score=49.62  Aligned_cols=37  Identities=16%  Similarity=0.437  Sum_probs=29.8

Q ss_pred             CCcceecccCCCCCc------------------eecCCCceeehhhHHHHHHHhh
Q 022029           39 PFDACCLCLKPFIDP------------------LCCQKGHIYCKECILECLLSQK   75 (304)
Q Consensus        39 ~F~~C~LcL~p~~dP------------------V~t~~G~lyckEcIle~ll~qk   75 (304)
                      +-+.|.+|+.++.++                  +.++-||+|+.+||.+||..+.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~   78 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN   78 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcC
Confidence            346799999987643                  3578899999999999997653

>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=95.33  E-value=0.0064  Score=44.36  Aligned_cols=36  Identities=22%  Similarity=0.450  Sum_probs=28.8

Q ss_pred             CcceecccCCCC--C-ceecCCCceeehhhHHHHHHHhh
Q 022029           40 FDACCLCLKPFI--D-PLCCQKGHIYCKECILECLLSQK   75 (304)
Q Consensus        40 F~~C~LcL~p~~--d-PV~t~~G~lyckEcIle~ll~qk   75 (304)
                      -..|.+|+..+.  + ++..+-||.||++||.+||..+-
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i   43 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLI   43 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHH
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHH
Confidence            367999998863  4 44567899999999999998753

>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=94.83  E-value=0.0068  Score=40.34  Aligned_cols=33  Identities=30%  Similarity=0.448  Sum_probs=26.5

Q ss_pred             cceecccCCCCCc---e-ecCCCceeehhhHHHHHHH
Q 022029           41 DACCLCLKPFIDP---L-CCQKGHIYCKECILECLLS   73 (304)
Q Consensus        41 ~~C~LcL~p~~dP---V-~t~~G~lyckEcIle~ll~   73 (304)
                      .-|.+||.++.+.   + .++-||+|+.+||.+||-.
T Consensus         6 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~   42 (55)
T d1iyma_           6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS   42 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT
T ss_pred             CCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh
Confidence            4599999999743   3 3457999999999999853

>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=94.34  E-value=0.0047  Score=40.59  Aligned_cols=33  Identities=24%  Similarity=0.533  Sum_probs=26.3

Q ss_pred             ceecccCCCCC----ceecCCCceeehhhHHHHHHHh
Q 022029           42 ACCLCLKPFID----PLCCQKGHIYCKECILECLLSQ   74 (304)
Q Consensus        42 ~C~LcL~p~~d----PV~t~~G~lyckEcIle~ll~q   74 (304)
                      -|.+||..+.+    ++.++-||.|+++||..|+.++
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~   38 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE   38 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTS
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhc
Confidence            38899998742    3467889999999999988654

>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=94.17  E-value=0.015  Score=42.15  Aligned_cols=34  Identities=24%  Similarity=0.475  Sum_probs=27.0

Q ss_pred             CcceecccCCCCCc------------------eecCCCceeehhhHHHHHHH
Q 022029           40 FDACCLCLKPFIDP------------------LCCQKGHIYCKECILECLLS   73 (304)
Q Consensus        40 F~~C~LcL~p~~dP------------------V~t~~G~lyckEcIle~ll~   73 (304)
                      -|.|++|+.++.+|                  +.++-||+|+.+||..||..
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~   72 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT   72 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH
Confidence            36799998887652                  34678999999999999863

>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=92.89  E-value=0.024  Score=37.87  Aligned_cols=35  Identities=11%  Similarity=0.182  Sum_probs=28.3

Q ss_pred             CcceecccCCCCCceecCC-----CceeehhhHHHHHHHh
Q 022029           40 FDACCLCLKPFIDPLCCQK-----GHIYCKECILECLLSQ   74 (304)
Q Consensus        40 F~~C~LcL~p~~dPV~t~~-----G~lyckEcIle~ll~q   74 (304)
                      -..|++||....++.+.+-     ||+|+++||..||..+
T Consensus         6 ~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~   45 (60)
T d1vyxa_           6 VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS   45 (60)
T ss_dssp             CCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH
T ss_pred             CCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhC
Confidence            3569999998887765543     6999999999999764

>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId: 55529]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Guillardia theta [TaxId: 55529]

Probab=91.12  E-value=0.016  Score=40.68  Aligned_cols=58  Identities=19%  Similarity=0.484  Sum_probs=38.9

Q ss_pred             CCceeccCccccccCC----cceEEEccCCccchHHHHHHHhhcCCCCCCCCCCCCCCCceEecCCCcccccc
Q 022029          209 DKSFICPSCKVTLTNT----LSLVALSSCGHVFCKKCADKFMAVDKVCLVCNKPCKERNLVNVEKGGTGFAAH  277 (304)
Q Consensus       209 ~~~~~CPIc~k~~~~~----~~~v~l~~CGhVfc~~Ci~~~~k~~~~CPvC~~~f~~~diI~L~~~gtgfaa~  277 (304)
                      .++|.|.+|.-++...    ..-  + +=|--|-     . +-.++.||+|+.+  ++++..|.....||+..
T Consensus         5 ~~ky~C~~CgyiYDp~~GD~~~g--I-~pGT~F~-----d-LP~dW~CP~Cga~--K~~F~~~~~~~agf~~N   66 (70)
T d1dx8a_           5 EGKYECEACGYIYEPEKGDKFAG--I-PPGTPFV-----D-LSDSFMCPACRSP--KNQFKSIKKVIAGFAEN   66 (70)
T ss_dssp             SSCEEETTTCCEECTTTCCTTTT--C-CSSCCGG-----G-SCTTCBCTTTCCB--GGGEEECCCBCCCSCCC
T ss_pred             CCeEEcCCCCeEECcccCCcccC--C-CCCCChH-----H-CCCCCCCcCCCCc--HHHheEcccccCChHHh
Confidence            5789999999766432    100  0 1233332     2 3357899999985  66899999988899853

>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=87.99  E-value=0.32  Score=34.91  Aligned_cols=52  Identities=21%  Similarity=0.414  Sum_probs=41.3

Q ss_pred             CceeccCccccccC---CcceEEEccCCccchHHHHHHHhh-cCCCCCCCCCCCCC
Q 022029          210 KSFICPSCKVTLTN---TLSLVALSSCGHVFCKKCADKFMA-VDKVCLVCNKPCKE  261 (304)
Q Consensus       210 ~~~~CPIc~k~~~~---~~~~v~l~~CGhVfc~~Ci~~~~k-~~~~CPvC~~~f~~  261 (304)
                      +.-+|-||.+...-   ...||+---||--+|..|++=-.+ .+..||.|..+|++
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            45699999987633   346788889999999999874343 67799999999986

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=85.48  E-value=0.12  Score=29.47  Aligned_cols=25  Identities=40%  Similarity=0.895  Sum_probs=19.6

Q ss_pred             eecccCCCCC-ceecCCCceeehhhH
Q 022029           43 CCLCLKPFID-PLCCQKGHIYCKECI   67 (304)
Q Consensus        43 C~LcL~p~~d-PV~t~~G~lyckEcI   67 (304)
                      |+.|-.-+.. -|...+|.||||-|-
T Consensus         3 ca~cgk~lestt~adkdgeiyck~cy   28 (31)
T d1ibia2           3 CAKCGKSLESTTLTEKEGEIYCKGCY   28 (31)
T ss_dssp             CSSSCCEECSSCSEEETTEEECHHHH
T ss_pred             cccccCccccceeeccCCcEEEeeee
Confidence            7777777764 467779999999885