Citrus Sinensis ID: 045745

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-
Protein Sequence
MSSLPTTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRPFSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFADNMDNQTSSSRVFPQRRVGGFFRVFRGFGSIFRRFRGNSSRSSHYQTHHVQQSDRPSIV
Secondary Structure (PSIPRED)
cccccccccccEEEEccccEEEccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccHHHHHccccEEEccccccccccccEEcccccccccEEEEccccccccccHHHHHHHccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEEcccEEcccccccccccccccccccEEEccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccHcccccHHHHHHHHHHcccccccccccccccHHHHHcccEEEEEHHHccccccccccHHHccccHHHcccccccccccccEHHHHHHccccccEccccccccccccccccccccEEEccccccEEEcccccccccccccccEEEEcccccccccccccccccccccccHHHHHcccHHEEEccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
msslpttttesfwCYRCLRIVsslsqfdgdttcphchggfieQIETEVITttqtqssshdhisrpfstavmlgqdsgqrttlSFQRrsrrrgnsrsqqldffnpvivlrgnnneenssgssfdlyyedgqgsestlrpiperVLGFLMDSGFHLLLHQLSQIdltalsrpenlpaskasiesmpsieissghvssechCAVCKEAFELgnearempckhiyhedcilpwlkmrnscpvcrqELPAAAAAAAEESSMALSIwwlpgggfavgryeGRRVVAGAAerglsiefadnmdnqtsssrvfpqrrvggffrVFRGFGSIFRrfrgnssrsshyqthhvqqsdrpsiv
Flexible Loop (DISEMBL)
msslpttttesfwcYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRPFSTavmlgqdsgqrttlsfqrrsrrrgnsrsqqldffnpvivlrgnnneenssgSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSiefadnmdnqtsssrvfpqrrvgGFFRVFRGFGSIFRRFrgnssrsshyqthhvqqsdrpsiv
Low Complexity Region (SEG)
MSSLPTTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFieqietevitttqtqsssHDHISRPFSTAVMLGQDSGqrttlsfqrrsrrrgnsrsqqLDFFNPVIVLRgnnneenssgssFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKAsiesmpsieissGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPaaaaaaaEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFADNMDNQTSSSrvfpqrrvggffrvfrgfgsifrrfrgnssrssHYQTHHVQQSDRPSIV
Disordered region (IsUnstruct)
*********ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITT************************************************DFFNPVIVLR****************************PIPERVLGFLMDSGFHLLLHQLSQIDLTA**************************VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFA***********VFPQRRVGGFFRVFRGFGSIFRRF************************
Disordered Region (DISOPRED)
******T****FWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQ***********************STAVMLGQDS************************************************YYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLS*************************IEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ**************************************************************************************************************
Disordered Region (DISEMBL)
*********ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVI*************SRPFSTAVMLGQD********************SQQLDFFNPVIVLRGNNNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL***********SMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFADNMDNQTSSSRVFPQRRVGGFFRVFRGFGSIFRRFR***********************
Disordered Region (DISPRO)
********TESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIET******************PFSTAVMLG*D*************************FFNPVIVLRGNNNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA**********MALSIWWLPGGGFAVGRYEGRRVV****ERGLS*E*********************GFFRVFRGFGSIFR**************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSLPTTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRPFSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFADNMDNQTSSSRVFPQRRVGGFFRVFRGFGSIFRRFRGNSSRSSHYQTHHVQQSDRPSIV
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	351	2.2.26 [Sep-21-2011]
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.649	0.695	0.317	3e-32
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.666	0.692	0.321	5e-32
Q6DIP3	311	RING finger protein 126 O	yes	no	0.199	0.225	0.457	4e-17
Q91YL2	313	RING finger protein 126 O	yes	no	0.199	0.223	0.457	6e-17
Q9D0C1	305	E3 ubiquitin-protein liga	no	no	0.632	0.727	0.246	9e-17
Q7T0Q3	312	RING finger protein 126-A	N/A	no	0.199	0.224	0.457	9e-17
Q9BV68	326	RING finger protein 126 O	yes	no	0.199	0.214	0.442	2e-16
Q6IRP0	312	RING finger protein 126-B	N/A	no	0.199	0.224	0.442	2e-16
Q0II22	313	RING finger protein 126 O	no	no	0.199	0.223	0.442	2e-16
Q9SPL2	334	E3 ubiquitin-protein liga	no	no	0.296	0.311	0.4	1e-15

>sp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana GN=At3g19950 PE=2 SV=1

 Score =  139 bits (350), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 78/246 (31%), Positives = 133/246 (54%), Gaps = 18/246 (7%)

Query: 12  FWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIE----TEVITTTQTQSSSHDHISRPFS 67
           F+CY+C + V+       D  CP C+ GF+E+ E     + +      S S   ++ PFS
Sbjct: 21  FFCYQCNQTVTISISSSADPFCPICNQGFLEEYEDPNPNQSLNFNPNSSDSFFPMADPFS 80

Query: 68  T--AVMLGQDSGQRTTLSFQ------RRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSG 119
           T   ++ G  +   + + F        + + R   ++ Q D F+P   L+ +     SSG
Sbjct: 81  TLLPLIFGSSAAAPSGMDFMSLFGPSMQPQARSTQQNPQSDAFDPFTFLQNHLQTLRSSG 140

Query: 120 SSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKAS 179
           + F+   E+   S+   R +P     +    G   L+ QL++ D      P   PASK++
Sbjct: 141 THFEFVIEN-HPSDPGNR-MPGNFGDYFFGPGLEQLIQQLAENDPNRYGTP---PASKSA 195

Query: 180 IESMPSIEISSGHVSSECH-CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPV 238
           I+++P+++++   + SE + CAVC + FE G++ ++MPCKH++H+DC+LPWL++ NSCPV
Sbjct: 196 IDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPV 255

Query: 239 CRQELP 244
           CR ELP
Sbjct: 256 CRFELP 261

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|P0CH30|RING1_GOSHI E3 ubiquitin-protein ligase RING1 OS=Gossypium hirsutum GN=RING1 PE=2 SV=1

 Score =  138 bits (348), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 83/258 (32%), Positives = 137/258 (53%), Gaps = 24/258 (9%)

Query: 7   TTTESFWCYRCLRIVS-SLSQFDGDTTCPHCHGGFIEQIETE-------VITTTQTQSSS 58
            T + F+CY+C R V+ ++S    D TCP C+ GF+E+ +          +         
Sbjct: 18  VTNKPFFCYQCNRTVNVTISPPSSDPTCPICNEGFLEEYDNPNPNQGSGFLNPNPNSIPF 77

Query: 59  HD---HISRPFSTAVML-----GQDSGQRTTLSFQRRSRRRGNSRSQQLD--FFNPVIVL 108
           HD    +S PF++ + L        +   +           G +RS + D   F+P   +
Sbjct: 78  HDLFLTLSDPFASLLPLLFPSSSSTTTSSSASIDPNNPSLSGPTRSGRGDPFAFDPFTFI 137

Query: 109 RGNNNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALS 168
           + + N+  SSG+  +   ++   S+   R +P  +  + +  G   L+ QL++ D     
Sbjct: 138 QNHLNDLRSSGAQIEFVIQNNP-SDQGFR-LPANIGDYFIGPGLEQLIQQLAENDPNRYG 195

Query: 169 RPENLPASKASIESMPSIEISSGHVSSECH-CAVCKEAFELGNEAREMPCKHIYHEDCIL 227
            P   PASK++IE++P + I+  +++SE + CAVC + FE G EA++MPCKH+YH+DC+L
Sbjct: 196 TP---PASKSAIEALPLVNITKSNLNSEFNQCAVCMDDFEEGTEAKQMPCKHLYHKDCLL 252

Query: 228 PWLKMRNSCPVCRQELPA 245
           PWL++ NSCPVCR ELP 
Sbjct: 253 PWLELHNSCPVCRHELPT 270

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.

Gossypium hirsutum (taxid: 3635)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6DIP3|RN126_XENTR RING finger protein 126 OS=Xenopus tropicalis GN=rnf126 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 49/70 (70%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA    I+++P+I+I+  HV S   C VCKE + +G   R++PC H++H DCI+PWL+  
Sbjct: 202 PADTEKIQALPTIQITEEHVGSGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQH 261

Query: 234 NSCPVCRQEL 243
           ++CPVCR+ L
Sbjct: 262 DTCPVCRKSL 271

Xenopus tropicalis (taxid: 8364)

>sp|Q91YL2|RN126_MOUSE RING finger protein 126 OS=Mus musculus GN=Rnf126 PE=1 SV=1

 Score = 88.6 bits (218), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 49/70 (70%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA K  I+++P++ ++  HV S   C VCKE + LG   R++PC H++H+ CI+PWL+  
Sbjct: 206 PADKEKIQALPTVPVTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH 265

Query: 234 NSCPVCRQEL 243
           +SCPVCR+ L
Sbjct: 266 DSCPVCRKSL 275

Mus musculus (taxid: 10090)

>sp|Q9D0C1|RN115_MOUSE E3 ubiquitin-protein ligase RNF115 OS=Mus musculus GN=Rnf115 PE=1 SV=1

 Score = 88.2 bits (217), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 72/292 (24%), Positives = 122/292 (41%), Gaps = 70/292 (23%)

Query: 12  FWCYRCL-RIVSSLSQFDGDTTCPHCHGGFIEQIETEVI------TTTQTQSSSH----- 59
           F+C+ C   +   L ++     CP C  GFIE++  +        + T   +++H     
Sbjct: 20  FFCHFCKGEVNPKLPEY----ICPRCDSGFIEEVTDDSSFLGGGGSRTDNSTATHFAELW 75

Query: 60  DHIS--------RPFSTAVMLGQDS-----GQRTTLSF-----------QRRSRRRGNSR 95
           DH+         RPF ++  L QD+     G +T   F            RR R RG++R
Sbjct: 76  DHLDHTMFLQDFRPFLSSNPLDQDNRANERGHQTHTDFWGPSRPPRLPMTRRYRSRGSTR 135

Query: 96  SQQLDFFNPVI--VLRGNNNEENSSGSSFDLYYE--------DGQGSESTLRPIPERVLG 145
             +      +I  +  G        GS     +         D    ++ L  I  ++LG
Sbjct: 136 PDRSPAIEGIIQQIFAGFFANSAIPGSPHPFSWSGMLHSNPGDYAWGQTGLDAIVTQLLG 195

Query: 146 FLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEA 205
            L ++G                      PA K  I S+P++ ++   V++   C VCKE 
Sbjct: 196 QLENTG--------------------PPPADKEKITSLPTVTVTQEQVNTGLECPVCKED 235

Query: 206 FELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEESSMA 257
           + +  + R++PC H +H  CI+PWL++ ++CPVCR+ L    +    +SS A
Sbjct: 236 YTVEEKVRQLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDSTRQTQSSEA 287

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7T0Q3|R126A_XENLA RING finger protein 126-A OS=Xenopus laevis GN=rnf126-a PE=2 SV=1

 Score = 88.2 bits (217), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 49/70 (70%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA    I+++P+I+I+  HV S   C VCKE + +G   R++PC H++H DCI+PWL+  
Sbjct: 203 PADNEKIQALPTIQITEEHVGSGLECPVCKEDYTVGECVRQLPCNHLFHNDCIIPWLEQH 262

Query: 234 NSCPVCRQEL 243
           ++CPVCR+ L
Sbjct: 263 DTCPVCRKSL 272

Xenopus laevis (taxid: 8355)

>sp|Q9BV68|RN126_HUMAN RING finger protein 126 OS=Homo sapiens GN=RNF126 PE=1 SV=1

 Score = 87.0 bits (214), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 49/70 (70%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA K  I+++P++ ++  HV S   C VCK+ + LG   R++PC H++H+ CI+PWL+  
Sbjct: 204 PADKEKIQALPTVPVTEEHVGSGLECPVCKDDYALGERVRQLPCNHLFHDGCIVPWLEQH 263

Query: 234 NSCPVCRQEL 243
           +SCPVCR+ L
Sbjct: 264 DSCPVCRKSL 273

Homo sapiens (taxid: 9606)

>sp|Q6IRP0|R126B_XENLA RING finger protein 126-B OS=Xenopus laevis GN=rnf126-b PE=2 SV=1

 Score = 87.0 bits (214), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 48/70 (68%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA    I+++P+I+I+  HV     C VCKE + +G   R++PC H++H DCI+PWL+  
Sbjct: 203 PADTDKIQALPTIQITEEHVGFGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQH 262

Query: 234 NSCPVCRQEL 243
           ++CPVCR+ L
Sbjct: 263 DTCPVCRKSL 272

Xenopus laevis (taxid: 8355)

>sp|Q0II22|RN126_BOVIN RING finger protein 126 OS=Bos taurus GN=RNF126 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 49/70 (70%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
           PA K  I+++P++ ++  HV S   C VCK+ + LG   R++PC H++H+ CI+PWL+  
Sbjct: 207 PADKEKIQALPTVPVTEEHVGSGLECPVCKDDYGLGEHVRQLPCNHLFHDGCIVPWLEQH 266

Query: 234 NSCPVCRQEL 243
           +SCPVCR+ L
Sbjct: 267 DSCPVCRKSL 276

Bos taurus (taxid: 9913)

>sp|Q9SPL2|CIP8_ARATH E3 ubiquitin-protein ligase CIP8 OS=Arabidopsis thaliana GN=CIP8 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 42/105 (40%), Positives = 60/105 (57%), Gaps = 1/105 (0%)

Query: 150 SGFHLLLHQLSQIDLTALSRPENLP-ASKASIESMPSIEISSGHVSSECHCAVCKEAFEL 208
           +G+  LL  L++ D          P A+K++IE++ + E+SS        CAVCK+   +
Sbjct: 207 AGYEALLQNLAEGDGGGGGGRRGAPPAAKSAIEALETFEVSSSEGEMVMVCAVCKDGMVM 266

Query: 209 GNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAAEE 253
           G   +++PC H YH DCI+PWL  RNSCPVCR +L    A   EE
Sbjct: 267 GETGKKLPCGHCYHGDCIVPWLGTRNSCPVCRFQLETDDAEYEEE 311

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. Probably forms a minimal ubiquitin ligase complex in cooperation with the E2 enzyme UBC8. Its interaction with COP1 suggests that it may participate in proteasome-mediated degradation of HY5 in vivo.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	351
147806280	1218	hypothetical protein VITISV_022309 [Viti	0.803	0.231	0.48	2e-69
225434879	388	PREDICTED: E3 ubiquitin-protein ligase R	0.786	0.711	0.489	5e-69
449450754	378	PREDICTED: E3 ubiquitin-protein ligase R	0.743	0.690	0.501	2e-67
224054653	365	predicted protein [Populus trichocarpa]	0.863	0.830	0.447	4e-67
224104391	329	predicted protein [Populus trichocarpa]	0.843	0.899	0.462	5e-67
147861903	364	hypothetical protein VITISV_000345 [Viti	0.851	0.821	0.443	2e-65
225440416	365	PREDICTED: E3 ubiquitin-protein ligase R	0.851	0.819	0.443	2e-65
357472841	369	RING finger protein [Medicago truncatula	0.908	0.864	0.407	4e-65
255559030	318	zinc finger protein, putative [Ricinus c	0.706	0.779	0.480	5e-65
356557881	314	PREDICTED: E3 ubiquitin-protein ligase R	0.774	0.866	0.463	2e-64

>gi|147806280|emb|CAN72193.1| hypothetical protein VITISV_022309 [Vitis vinifera]

 Score =  269 bits (687), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 156/325 (48%), Positives = 193/325 (59%), Gaps = 43/325 (13%)

Query: 1   MSSLPTTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHD 60
           +  +   +T S+WC+RC R V   +Q      CP+C  GF+E+IE        T  S + 
Sbjct: 108 VXGMEMASTTSYWCHRCTRFVRVWAQ--DSIVCPYCESGFLEEIEA-------TPRSENH 158

Query: 61  HISRPFSTAVMLGQ---DSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENS 117
           H   P +   MLG    DS Q   L   RRSRR    RS     FNPVIVLRG  +    
Sbjct: 159 HRRFPATAMYMLGNNRPDSEQSANLGL-RRSRRNAGDRSP----FNPVIVLRGPADGGGG 213

Query: 118 SG-----SSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPEN 172
            G     SSF+LYY+DG GS   LRP+P  +  FLM SGF  LL QLSQI++    R E+
Sbjct: 214 EGGVVERSSFELYYDDGAGS--GLRPLPATMSEFLMGSGFDRLLEQLSQIEINGFGRGEH 271

Query: 173 LPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM 232
            PASKA++ESMP+IEI S H+ +E HCAVCKEAF+LG+EAREMPCKHIYH DCILPWL +
Sbjct: 272 PPASKAAVESMPTIEIVSSHIVTELHCAVCKEAFQLGSEAREMPCKHIYHSDCILPWLSL 331

Query: 233 RNSCPVCRQELP---------------AAAAAAAEESSMALSIWWLPGGGFAVGRYEGRR 277
           RNSCPVCR ELP               A + A  EE ++ L+IW LPGGGFAVGR+ G R
Sbjct: 332 RNSCPVCRHELPTDVPGTRNSPVSGTEALSPAPNEEETVGLTIWRLPGGGFAVGRFSGGR 391

Query: 278 VVAGAAERGLSIEFADNMDNQTSSS 302
               A ER L + + + MD   ++S
Sbjct: 392 ---RAGERELPVVYTE-MDGGFNNS 412

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225434879|ref|XP_002283212.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Vitis vinifera]

 Score =  267 bits (683), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 156/319 (48%), Positives = 191/319 (59%), Gaps = 43/319 (13%)

Query: 7   TTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRPF 66
            +T S+WC+RC R V   +Q      CP+C  GF+E+IE        T  S + H   P 
Sbjct: 4   ASTTSYWCHRCTRFVRVWAQ--DSIVCPYCESGFLEEIEA-------TPRSENHHRRFPA 54

Query: 67  STAVMLGQ---DSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSG---- 119
           +   MLG    DS Q   L   RRSRR    RS     FNPVIVLRG  +     G    
Sbjct: 55  TAMYMLGNNRPDSEQSANLGL-RRSRRNAGDRSP----FNPVIVLRGPADGGGGEGGVVE 109

Query: 120 -SSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKA 178
            SSF+LYY+DG GS   LRP+P  +  FLM SGF  LL QLSQI++    R E+ PASKA
Sbjct: 110 RSSFELYYDDGAGS--GLRPLPATMSEFLMGSGFDRLLEQLSQIEINGFGRGEHPPASKA 167

Query: 179 SIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPV 238
           ++ESMP+IEI S H+ +E HCAVCKEAF+LG+EAREMPCKHIYH DCILPWL +RNSCPV
Sbjct: 168 AVESMPTIEIVSSHIVTELHCAVCKEAFQLGSEAREMPCKHIYHSDCILPWLSLRNSCPV 227

Query: 239 CRQELP---------------AAAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAA 283
           CR ELP               A + A  EE ++ L+IW LPGGGFAVGR+ G R    A 
Sbjct: 228 CRHELPTDVPGTRNSPVSGNEALSPAPNEEETVGLTIWRLPGGGFAVGRFSGGRR---AG 284

Query: 284 ERGLSIEFADNMDNQTSSS 302
           ER L + + + MD   ++S
Sbjct: 285 ERELPVVYTE-MDGGFNNS 302

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450754|ref|XP_004143127.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus] gi|449527992|ref|XP_004170991.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score =  262 bits (669), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 144/287 (50%), Positives = 186/287 (64%), Gaps = 26/287 (9%)

Query: 6   TTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRP 65
           +T T S+WCYRC R V + +Q     TCP+C GGF+E IET    ++   S+ H  +S  
Sbjct: 2   STGTASYWCYRCNRFVRAWAQ--DSITCPYCDGGFVEAIET---ASSLPPSNLHRRLSP- 55

Query: 66  FSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSG----SS 121
            S    L QDS Q   LS +R  RR G+  +     FNPV+VLRG+ +  +  G    +S
Sbjct: 56  -SAIHTLDQDSFQSPRLSTRRSRRRLGDRST-----FNPVVVLRGSADAGDVVGGGERNS 109

Query: 122 FDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIE 181
           FD+YY+DG GS   LRP+P  +  FLM +GF  LL QL+Q+++    R EN PASKA++E
Sbjct: 110 FDIYYDDGAGS--GLRPVPATMSEFLMGTGFDRLLEQLAQLEINGFGRSENPPASKAAVE 167

Query: 182 SMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ 241
           SMP+IEI   HV S+ HCAVCKEAFE+G EAREMPCKHIYH +CI+PWL MRNSCPVCR 
Sbjct: 168 SMPTIEILESHVDSDSHCAVCKEAFEIGTEAREMPCKHIYHSECIIPWLSMRNSCPVCRH 227

Query: 242 ELPAAAAAAA--------EESSMALSIWWLPGGGFAVGRYEGRRVVA 280
           ELP+   + A        +E ++ L+IW LPGGGFAVGR+ G R+  
Sbjct: 228 ELPSERVSPAGGVSDRVVDEETVGLTIWRLPGGGFAVGRFSGGRLAG 274

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054653|ref|XP_002298344.1| predicted protein [Populus trichocarpa] gi|222845602|gb|EEE83149.1| predicted protein [Populus trichocarpa]

 Score =  261 bits (666), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 162/362 (44%), Positives = 202/362 (55%), Gaps = 59/362 (16%)

Query: 3   SLPTTTTESFWCYRCLRIVSSLSQFDGD-------TTCPHCHGGFIEQIETEVITTTQTQ 55
           ++ +TT  S+WCYRC R V+   + D +        TCPHC GGF+E+I++         
Sbjct: 1   TMASTTATSYWCYRCARFVTVSPRNDDEEQNHANYITCPHCDGGFVEEIQSNNDNRRNRS 60

Query: 56  SSSHDHISRPFSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNN--- 112
             S+                           R+RR    RS     +NPVIVLRG +   
Sbjct: 61  RVSN-------------------------FIRNRRNAGDRSP----YNPVIVLRGTSPAV 91

Query: 113 -NEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSR-P 170
             ++N  GS+++ YY+DG GS   LRP+PE +  FLM SGF  LL QLSQI++ +L R  
Sbjct: 92  AADDNDEGSAYEFYYDDGTGS--GLRPVPETMSEFLMVSGFDRLLDQLSQIEINSLGRSA 149

Query: 171 ENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWL 230
            N PASKA +ESMPS+EI+  HV SE +CAVCKEAFE+G+EAREMPCKHIYH DCILPWL
Sbjct: 150 PNPPASKAVVESMPSVEINETHVVSETYCAVCKEAFEIGDEAREMPCKHIYHSDCILPWL 209

Query: 231 KMRNSCPVCRQELPA--AAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLS 288
            MRNSCPVCR ELP   +    AE   + L+IW LPGGGFAVGR+ G R        G+ 
Sbjct: 210 AMRNSCPVCRHELPVDNSDEEEAEGEVVGLTIWRLPGGGFAVGRFSGGRRGGEREFPGVF 269

Query: 289 IEFAD-------------NMDNQTSSSRVFPQRR-VGGFFRVFRGFGSIFRRFRGNSSRS 334
            E                + D+  + SR        GGF RVFRG GS FRR R NSS  
Sbjct: 270 TEMDGGGNGGLSGNRRPRDWDSWVTRSRGRGDSNGSGGFRRVFRGLGSFFRRIRPNSSSR 329

Query: 335 SH 336
            H
Sbjct: 330 MH 331

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104391|ref|XP_002313421.1| predicted protein [Populus trichocarpa] gi|222849829|gb|EEE87376.1| predicted protein [Populus trichocarpa]

 Score =  261 bits (666), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 166/359 (46%), Positives = 201/359 (55%), Gaps = 63/359 (17%)

Query: 6   TTTTESFWCYRCLRIVSSLSQFDGD--------TTCPHCHGGFIEQIETEVITTTQTQSS 57
           TTTT S+WCYRC R V+ +S  + D         TCPHC GGF+E+I          QS+
Sbjct: 1   TTTTTSYWCYRCSRFVT-VSPHNEDEEHSHTSNITCPHCDGGFVEEI----------QSN 49

Query: 58  SHDHISRPFSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNN----N 113
           S   I +              R+ +S   R+RR    RS     FNPV+VLRG       
Sbjct: 50  STSDIRQ-------------NRSRVSNLTRNRRNAGDRSS----FNPVVVLRGTTPAAAA 92

Query: 114 EENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRP-EN 172
           E+N  GS+++ YY+DG G+   LRP+PE +  FLM SGF  LL QLSQI++ +L R   N
Sbjct: 93  EDNEDGSAYEFYYDDGIGT--GLRPVPEMMSEFLMGSGFDRLLDQLSQIEINSLGRSVPN 150

Query: 173 LPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM 232
            PASK  IESMPS+EI+  HV SE +CAVCKEAFE+GNEAREMPCKHIYH DCI PWL M
Sbjct: 151 PPASKVVIESMPSVEINETHVISETYCAVCKEAFEIGNEAREMPCKHIYHSDCIFPWLAM 210

Query: 233 RNSCPVCRQELPA--AAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIE 290
           RNSCPVCR ELP   +     E   + L++W LPGGGFAVGR+ G R        G+  E
Sbjct: 211 RNSCPVCRHELPVENSREEEVEGELVGLTVWRLPGGGFAVGRFSGGRRGGEREFPGVFTE 270

Query: 291 FADNMDNQTSSSRVFPQRR-----------------VGGFFRVFRGFGSIFRRFRGNSS 332
             D   N   +   +P R                   GGF RVFRG  S  RR R NSS
Sbjct: 271 M-DGGGNGGLNGSSWPSRDWDSWVTRRSRRRESTSGTGGFRRVFRGMASFLRRIRPNSS 328

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147861903|emb|CAN82964.1| hypothetical protein VITISV_000345 [Vitis vinifera]

 Score =  256 bits (653), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 154/347 (44%), Positives = 198/347 (57%), Gaps = 48/347 (13%)

Query: 6   TTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRP 65
             +  SFWCYRC R +   +Q      CP C  GF+EQI     +  + +          
Sbjct: 2   AASGSSFWCYRCNRFIRVWAQ--DAILCPDCGSGFVEQINNLSRSPRRRRLPG------- 52

Query: 66  FSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSG------ 119
            S   +  +++  +  +   RR+RR G  RS     FNPVIVLRG+ +   S G      
Sbjct: 53  -SAMYLENRNALDQDPVPRIRRARRSGGDRS----LFNPVIVLRGSADVNGSEGGGTSGE 107

Query: 120 -SSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKA 178
             +F+LYY+DG GS   LRP+P  V  FLM SGF  LL QL+Q+++    R E+ PASKA
Sbjct: 108 RGNFELYYDDGTGS--GLRPLPASVSEFLMGSGFDRLLDQLAQLEINGAGRCEHPPASKA 165

Query: 179 SIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPV 238
           ++ES+P+I+I + HV SE HCAVCKE FEL +EARE+PCKHIYH DCILPWL +RNSCPV
Sbjct: 166 AVESLPTIKIVASHVLSESHCAVCKEPFELDSEARELPCKHIYHSDCILPWLSLRNSCPV 225

Query: 239 CRQELPA-----------AAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGL 287
           CR ELP             +    EE ++ L+IW LPGGGFAVGR+ G R    AAER L
Sbjct: 226 CRHELPTDSHEGGSSGHLQSXGLTEEDNVGLTIWRLPGGGFAVGRFTGGRQ---AAEREL 282

Query: 288 SIEFADNMD---NQTSSSRVFP-------QRRVGGFFRVFRGFGSIF 324
            + F + MD   N + +SR  P        R  GGF RV R F S+F
Sbjct: 283 PVVFTE-MDGGFNPSGASRRNPWVASGIRSREGGGFGRVMRNFLSVF 328

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225440416|ref|XP_002269373.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like isoform 2 [Vitis vinifera]

 Score =  255 bits (652), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 154/347 (44%), Positives = 198/347 (57%), Gaps = 48/347 (13%)

Query: 6   TTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRP 65
             +  SFWCYRC R +   +Q      CP C  GF+EQI     +  + +          
Sbjct: 3   AASGSSFWCYRCNRFIRVWAQ--DAILCPDCGSGFVEQINNLSRSPRRRRLPG------- 53

Query: 66  FSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSG------ 119
            S   +  +++  +  +   RR+RR G  RS     FNPVIVLRG+ +   S G      
Sbjct: 54  -SAMYLENRNALDQDPVPRIRRARRSGGDRS----LFNPVIVLRGSADVNGSEGGGTSGE 108

Query: 120 -SSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKA 178
             +F+LYY+DG GS   LRP+P  V  FLM SGF  LL QL+Q+++    R E+ PASKA
Sbjct: 109 RGNFELYYDDGTGS--GLRPLPASVSEFLMGSGFDRLLDQLAQLEINGAGRCEHPPASKA 166

Query: 179 SIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPV 238
           ++ES+P+I+I + HV SE HCAVCKE FEL +EARE+PCKHIYH DCILPWL +RNSCPV
Sbjct: 167 AVESLPTIKIVASHVLSESHCAVCKEPFELDSEARELPCKHIYHSDCILPWLSLRNSCPV 226

Query: 239 CRQELPA-----------AAAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERGL 287
           CR ELP             +    EE ++ L+IW LPGGGFAVGR+ G R    AAER L
Sbjct: 227 CRHELPTDSHEGGSSGHLQSPGLTEEDNVGLTIWRLPGGGFAVGRFTGGRQ---AAEREL 283

Query: 288 SIEFADNMD---NQTSSSRVFP-------QRRVGGFFRVFRGFGSIF 324
            + F + MD   N + +SR  P        R  GGF RV R F S+F
Sbjct: 284 PVVFTE-MDGGFNPSGASRRNPWVASGIRSREGGGFGRVMRNFLSVF 329

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357472841|ref|XP_003606705.1| RING finger protein [Medicago truncatula] gi|355507760|gb|AES88902.1| RING finger protein [Medicago truncatula]

 Score =  254 bits (649), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 152/373 (40%), Positives = 200/373 (53%), Gaps = 54/373 (14%)

Query: 1   MSSLPTTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHD 60
           M+S  +  T S+WCY C R ++ LS       CPHC  GF+E+I        +      D
Sbjct: 1   MNSESSPETPSYWCYSCTRFIN-LSDHT-LIVCPHCDNGFVEEIAAGESPHHRLSPFPAD 58

Query: 61  HISRPFSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNE------ 114
            +S          +D+G R+                     FNPVIVLRG  ++      
Sbjct: 59  TVSSRRQGFRRRRRDAGSRSP--------------------FNPVIVLRGAGDDGVGEDG 98

Query: 115 ENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLP 174
             + GS+F+L+Y+DG GS   LRP+P  V  FL+ SGF  LL Q SQI++    RPEN P
Sbjct: 99  AGAGGSAFELFYDDGDGS--GLRPLPPTVSEFLLGSGFDRLLEQFSQIEMNGFGRPENPP 156

Query: 175 ASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN 234
           ASKA+IESMP++EI   HVS E HCAVCKE FEL  EARE+PCKH+YH DCILPWL +RN
Sbjct: 157 ASKAAIESMPTVEICEEHVSCELHCAVCKEEFELHAEARELPCKHLYHSDCILPWLTVRN 216

Query: 235 SCPVCRQELPAA--------AAAAAEESSMALSIWWLPGGGFAVGRYEGRRVVAGAAERG 286
           SCPVCR ELP+          +   +E ++ L+IW LPGGGFAVGR+ G R    A E  
Sbjct: 217 SCPVCRHELPSDLNNPLETRVSGQIDEEAIGLTIWRLPGGGFAVGRFSGGR---SAGESH 273

Query: 287 LSIEFADNMDNQTSSSRVFPQRRVG------------GFFRVFRGFGSIFRRFRGNSSRS 334
             + + + MD   ++++    RR+             G  RVFR F S F R    S+ +
Sbjct: 274 FPVVYTE-MDGGLNAAQGSAPRRISRTVRAHRVRESHGIGRVFRNFFSFFGRIGSRSNLN 332

Query: 335 SHYQTHHVQQSDR 347
           S+  T +V    R
Sbjct: 333 SNSGTGNVASVSR 345

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559030|ref|XP_002520538.1| zinc finger protein, putative [Ricinus communis] gi|223540380|gb|EEF41951.1| zinc finger protein, putative [Ricinus communis]

 Score =  254 bits (648), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 146/304 (48%), Positives = 183/304 (60%), Gaps = 56/304 (18%)

Query: 6   TTTTESFWCYRCLRIVSSL-SQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISR 64
            T T S+WCYRC R +S L S+ + D +CPHC GGFIE+IET         +S  D+  R
Sbjct: 4   ATATTSYWCYRCTRFISVLPSEENTDISCPHCDGGFIEEIET--------SNSQSDNPHR 55

Query: 65  PFSTAVMLGQDS---------------GQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLR 109
            F    ML +++               G+  TL F    RR    RS     FNPVIVLR
Sbjct: 56  RF--MYMLPENNNNNNSSGSRRSRHGLGRIPTLRF----RRNNGDRSP----FNPVIVLR 105

Query: 110 GN------NNEENSSGSSFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQID 163
           G+      N+EE  + SS++ YY+DG GS   LRP+P  +  FLM SGF  LL QL+QI+
Sbjct: 106 GSTASPEENSEEGGNNSSYEFYYDDGSGS--GLRPVPASMSEFLMGSGFDRLLEQLAQIE 163

Query: 164 LTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHE 223
           +    R  N PASKA +ESMP ++++  HV++E HCAVCKEAFELG+EAREMPCKHIYH 
Sbjct: 164 VNGFGRVGNPPASKAVVESMPIVDVTDAHVAAEAHCAVCKEAFELGSEAREMPCKHIYHS 223

Query: 224 DCILPWLKMRNSCPVCRQELPA------------AAAAAAEESS--MALSIWWLPGGGFA 269
           DCILPWL +RNSCPVCR E+P                 + EES   + L+IW LPGGGFA
Sbjct: 224 DCILPWLALRNSCPVCRFEMPTDVESSDNSGNSNNNINSTEESEEIVGLTIWRLPGGGFA 283

Query: 270 VGRY 273
           VGR+
Sbjct: 284 VGRW 287

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356557881|ref|XP_003547238.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Glycine max]

 Score =  252 bits (644), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 154/332 (46%), Positives = 186/332 (56%), Gaps = 60/332 (18%)

Query: 6   TTTTESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETEVITTTQTQSSSHDHISRP 65
            + T S+WCY C R V    Q   D  CP CHGGF+E++                     
Sbjct: 2   NSDTTSYWCYSCTRFVHIHDQ--NDVVCPRCHGGFVEKV--------------------- 38

Query: 66  FSTAVMLGQDSGQRTTLSFQRRSRRRGNSRSQQLDFFNPVIVLRGNNNEENSSGSSFDLY 125
                     +GQ     F+RR R  G+        FNPVIVLRG   +E    SSF+LY
Sbjct: 39  ---------TAGQSARQGFRRRRRNAGSHSP-----FNPVIVLRGPGEDEE---SSFELY 81

Query: 126 YE--DGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKASIESM 183
           Y+  DG+G    LRP+P  +  FL+ SGF  LL Q+SQI++  L RPEN PASKA+IESM
Sbjct: 82  YDGFDGEG----LRPLPSTMSEFLLGSGFDRLLEQVSQIEINGLGRPENPPASKAAIESM 137

Query: 184 PSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           P++EI+  HV+SE  CAVCKEAFELG  AREMPCKH+YH DCILPWL MRNSCPVCR EL
Sbjct: 138 PTLEITESHVASETTCAVCKEAFELGELAREMPCKHLYHSDCILPWLSMRNSCPVCRHEL 197

Query: 244 PAAAAAA-------AEESSMALSIWWLPGGGFAVGRYEGRR----VVAGAAERGLSIEFA 292
           P+  AA         EE ++ L+IW LPGGGFAVGR+ G      V       G S E +
Sbjct: 198 PSEQAAPETRVAGQIEEEAVGLTIWRLPGGGFAVGRFAGESPLPVVYTEMESGGNSNEGS 257

Query: 293 DNMDNQTSSSRVFPQRRVGGFFRVFRG-FGSI 323
             +       RV   R  GGF R+FR  FG I
Sbjct: 258 RRISLAVGGGRVRESR--GGFGRIFRNLFGRI 287

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	351
TAIR|locus:2148318	407	RDUF2 "RING and Domain of Unkn	0.501	0.432	0.461	1.8e-48
TAIR|locus:2075175	395	RDUF1 "RING and Domain of Unkn	0.444	0.394	0.497	5.3e-47
TAIR|locus:2063912	401	RHC2A "RING-H2 finger C2A" [Ar	0.487	0.426	0.45	5.2e-41
TAIR|locus:2102569	320	RZF1 "AT3G56580" [Arabidopsis	0.233	0.256	0.493	7.1e-25
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.398	0.426	0.342	1.5e-24
TAIR|locus:2058465	328	RHC1A "RING-H2 finger C1A" [Ar	0.270	0.289	0.46	2.4e-24
TAIR|locus:2195573	327	AT1G60360 [Arabidopsis thalian	0.256	0.275	0.427	1.3e-23
TAIR|locus:2092895	315	AT3G13430 [Arabidopsis thalian	0.284	0.317	0.411	2.3e-22
TAIR|locus:1006230278	199	AT3G10815 [Arabidopsis thalian	0.321	0.567	0.390	9.7e-22
TAIR|locus:2193874	351	AT1G55530 [Arabidopsis thalian	0.279	0.279	0.373	5.9e-21

TAIR|locus:2148318 RDUF2 "RING and Domain of Unknown Function 1117 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 420 (152.9 bits), Expect = 1.8e-48, Sum P(2) = 1.8e-48
 Identities = 91/197 (46%), Positives = 116/197 (58%)

Query:   102 FNPVIVLRXXXXX--------XXXXXXXFDLYYEDGQGSESTLRPIPERVLGFLMDSGFH 153
             FNPVIVL+                    F+ YY+DG GS   LRP+P+ V   LM SGF 
Sbjct:    94 FNPVIVLQGGAGEREEGEEGDAARDRRAFEFYYDDGSGSG--LRPLPDSVSEILMGSGFE 151

Query:   154 LLLHQLSQIDLTA--LSRPENLPASKAXXXXXXXXXXXXGHVSSECHCAVCKEAFELGNE 211
              LL QLSQI+ +A  + R  N PASK+             H+ SE +CAVC E FE   E
Sbjct:   152 RLLEQLSQIEASATGIGRSGNPPASKSAIESLPRVEISDCHIGSEANCAVCTEIFETETE 211

Query:   212 AREMPCKHIYHEDCILPWLKMRNSCPVCRQELPXX----XXXXXEESSMALSIWWLPGGG 267
             AREMPCKH++H+DCI+PWL +RNSCPVCR ELP           E++++ ++IW LPGGG
Sbjct:   212 AREMPCKHLFHDDCIVPWLSIRNSCPVCRFELPSEPNRRSNNNEEDNAVGMTIWRLPGGG 271

Query:   268 FAVGRY-----EGRRVV 279
             FAVGR+     +G RV+
Sbjct:   272 FAVGRFNAAMRDGERVL 288

GO:0005634 "nucleus" evidence=ISM

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

GO:0010200 "response to chitin" evidence=IEP;RCA

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

GO:0009414 "response to water deprivation" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2075175 RDUF1 "RING and Domain of Unknown Function 1117 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 409 (149.0 bits), Expect = 5.3e-47, Sum P(2) = 5.3e-47
 Identities = 83/167 (49%), Positives = 104/167 (62%)

Query:   122 FDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTA--LSRPENLPASKAX 179
             ++ YY+DG GS   LRP+P+ V   LM SGF  LL QLSQI+ +   + R  N PASK+ 
Sbjct:   138 YEFYYDDGSGSG--LRPLPDSVSEILMGSGFERLLEQLSQIEASGNGIGRSGNPPASKSA 195

Query:   180 XXXXXXXXXXXGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVC 239
                         H  +E +CAVC E FE G E REMPCKHI+H DCI+PWL +RNSCPVC
Sbjct:   196 IESLPRVEISDCHTKAEANCAVCTEVFEAGIEGREMPCKHIFHGDCIVPWLSIRNSCPVC 255

Query:   240 RQELPXX--XXXXXEESSMALSIWWLPGGGFAVGRY-----EGRRVV 279
             R ELP         EE ++ ++IW LPGGGFAVGR+     EG R++
Sbjct:   256 RFELPSDPIQRSNEEEHAVGMTIWRLPGGGFAVGRFNAGVREGERIL 302

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

GO:0010200 "response to chitin" evidence=IEP;RCA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

GO:0009414 "response to water deprivation" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2063912 RHC2A "RING-H2 finger C2A" [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 5.2e-41, Sum P(2) = 5.2e-41
 Identities = 90/200 (45%), Positives = 108/200 (54%)

Query:   103 NPVIVLRXXXXXXXXXX-------XXFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLL 155
             NPVIVLR                   F +YY+DG  ++S LRP+P  +  FL+ SGF  L
Sbjct:    95 NPVIVLRGSAAAPSSDVVSEGLDRSAFQMYYDDG--TDSGLRPLPPSMTEFLLGSGFDRL 152

Query:   156 LHQLSQIDLTA---LSRPENLPASKAXXXXXXXXXXXXGHV--SSECHCAVCKEAFELGN 210
             L Q+SQI+L     L   E+ PASK+             H+   S+ HCAVCKE F L +
Sbjct:   153 LDQISQIELNTNRNLRSCEHPPASKSAIEALPLIEIDPTHLLSDSQSHCAVCKENFVLKS 212

Query:   211 EAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPX---------------XXXXXXEESS 255
              AREMPC HIYH DCILPWL +RNSCPVCR ELP                      E+S+
Sbjct:   213 SAREMPCNHIYHPDCILPWLAIRNSCPVCRHELPAEDLTDGTGAALTAVTATAEEEEDSA 272

Query:   256 MALSIWWLPGGGFAVGRYEG 275
               L+IW LPGGGFAVGR  G
Sbjct:   273 AGLTIWRLPGGGFAVGRIPG 292

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

TAIR|locus:2102569 RZF1 "AT3G56580" [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 7.1e-25, Sum P(2) = 7.1e-25
 Identities = 41/83 (49%), Positives = 51/83 (61%)

Query:   174 PASKAXXXXXXXXXXXXGHV-SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM 232
             PA K+             H+ SS+ HC VCK+ FEL +EA++MPC HIYH DCI+PWL  
Sbjct:   160 PAPKSSIDALPTIKITQKHLKSSDSHCPVCKDEFELKSEAKQMPCHHIYHSDCIVPWLVQ 219

Query:   233 RNSCPVCRQELPXXXXXXXEESS 255
              NSCPVCR+ELP        +SS
Sbjct:   220 HNSCPVCRKELPSRGSSSSTQSS 242

GO:0005575 "cellular_component" evidence=ND

GO:0008270 "zinc ion binding" evidence=ISS

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

GO:0009414 "response to water deprivation" evidence=IEP

GO:1902006 "negative regulation of proline biosynthetic process" evidence=IMP

TAIR|locus:2092231 AT3G19950 [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 1.5e-24, Sum P(2) = 1.5e-24
 Identities = 50/146 (34%), Positives = 74/146 (50%)

Query:   100 DFFNPVIVLRXXXXXXXXXXXXFDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQL 159
             D F+P   L+            F+   E+   S+   R +P     +    G   L+ QL
Sbjct:   121 DAFDPFTFLQNHLQTLRSSGTHFEFVIEN-HPSDPGNR-MPGNFGDYFFGPGLEQLIQQL 178

Query:   160 SQIDLTALSRPENLPASKAXXXXXXXXXXXXGHVSSECH-CAVCKEAFELGNEAREMPCK 218
             ++ D      P   PASK+              + SE + CAVC + FE G++ ++MPCK
Sbjct:   179 AENDPNRYGTP---PASKSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCK 235

Query:   219 HIYHEDCILPWLKMRNSCPVCRQELP 244
             H++H+DC+LPWL++ NSCPVCR ELP
Sbjct:   236 HVFHQDCLLPWLELHNSCPVCRFELP 261

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2058465 RHC1A "RING-H2 finger C1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 2.4e-24, Sum P(2) = 2.4e-24
 Identities = 46/100 (46%), Positives = 57/100 (57%)

Query:   146 FLMDSGFHLLLHQLSQIDLTALSRPENLPASKAXXXXXXXXXXXXGHV-SSECHCAVCKE 204
             +    G   L  QLS    T    P   PA ++             H+ SS+ +C VCK+
Sbjct:   140 YFFGPGLEELFEQLSA-GTTRRGPP---PAPRSAIDALPTIKIAQRHLRSSDSNCPVCKD 195

Query:   205 AFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
              FELG+EA++MPC HIYH DCI+PWL   NSCPVCRQELP
Sbjct:   196 EFELGSEAKQMPCNHIYHSDCIVPWLVQHNSCPVCRQELP 235

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

GO:0005618 "cell wall" evidence=IDA

TAIR|locus:2195573 AT1G60360 [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 1.3e-23, Sum P(2) = 1.3e-23
 Identities = 41/96 (42%), Positives = 58/96 (60%)

Query:   150 SGFHLLLHQLSQIDLTALSRPENLPASKAXXXXXXXXXXXXGHVSSEC-HCAVCKEAFEL 208
             S    L+ QL+Q D     RP   PAS+              H++++   C VC E F +
Sbjct:   179 SSLEQLIEQLTQDD-----RPGPPPASEPTINSLPSVKITPQHLTNDMSQCTVCMEEFIV 233

Query:   209 GNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
             G +A E+PCKHIYH+DCI+PWL++ NSCP+CR++LP
Sbjct:   234 GGDATELPCKHIYHKDCIVPWLRLNNSCPICRRDLP 269

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

TAIR|locus:2092895 AT3G13430 [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 2.3e-22, Sum P(2) = 2.3e-22
 Identities = 44/107 (41%), Positives = 61/107 (57%)

Query:   139 IPERVLG-FLMDSGFHLLLHQLSQIDLTALSRPENLPASKAXXXXXXXXXXXXGHVSSEC 197
             +P   LG + +  GF  LL +L++ DL   +R    PA+K                 S  
Sbjct:   170 VPSGSLGDYFIGPGFETLLQRLAENDLN--NRYGTPPATKEAVEALAMVKIE----DSLL 223

Query:   198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
              C+VC + FE+G EA+EMPCKH +H DC+LPWL++ +SCPVCR  LP
Sbjct:   224 QCSVCLDDFEIGMEAKEMPCKHKFHSDCLLPWLELHSSCPVCRYLLP 270

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

TAIR|locus:1006230278 AT3G10815 [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 9.7e-22, Sum P(2) = 9.7e-22
 Identities = 48/123 (39%), Positives = 68/123 (55%)

Query:   122 FDLYYEDGQGSESTLRPIPERVLGFLMDSGFHLLLHQLSQIDLTALSRPENLPASKAXXX 181
             F L YE+ +   +  R     V+G  +   F  L ++L  +      R    PAS A   
Sbjct:    54 FGLAYEEARNRRNNRRS----VIGEQLS--FEELFNRLPALQ----DRRGPPPASLAAIN 103

Query:   182 XXXXXXXXXGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ 241
                       H+  + +C VC++ FE+G++AR+MPCKHIYH +CILPWL  RN+CPVCR+
Sbjct:   104 SLQKIKIRQKHLGLDPYCPVCQDQFEIGSDARKMPCKHIYHSECILPWLVQRNTCPVCRK 163

Query:   242 ELP 244
             ELP
Sbjct:   164 ELP 166

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2193874 AT1G55530 [Arabidopsis thaliana (taxid:3702)]

 Score = 204 (76.9 bits), Expect = 5.9e-21, Sum P(2) = 5.9e-21
 Identities = 40/107 (37%), Positives = 58/107 (54%)

Query:   139 IPERVLG-FLMDSGFHLLLHQLSQIDLTALSRPENLPASKAXXXXXXXXXXXXGHVSSEC 197
             +P   LG + +  GF +LL +L++ D      P   PA K               +    
Sbjct:   170 VPAGSLGDYFIGPGFEMLLQRLAENDPNRYGTP---PAKKEAVEALATVK-----IEETL 221

Query:   198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
              C+VC + FE+G EA+ MPC H +H DC+LPWL++ +SCPVCR +LP
Sbjct:   222 QCSVCLDDFEIGTEAKLMPCTHKFHSDCLLPWLELHSSCPVCRYQLP 268

GO:0005737 "cytoplasm" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	351
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-11
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	4e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-09
smart00184	40	smart00184, RING, Ring finger	4e-08
pfam06547	115	pfam06547, DUF1117, Protein of unknown function (D	4e-08
pfam14369	34	pfam14369, zf-RING_3, zinc-finger	1e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	3e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	5e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	6e-04

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

 Score = 68.6 bits (168), Expect = 3e-15
 Identities = 18/44 (40%), Positives = 29/44 (65%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQE 242
           C +C + FE G E   +PC H++H++C+  WL+  N+CP+CR  
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 55.9 bits (135), Expect = 9e-11
 Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQEL 243
           C +C E  E       +PC H++   CI  WLK   N+CP+CR  +
Sbjct: 2   CPICLE--EFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 60.4 bits (146), Expect = 4e-10
 Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 1/78 (1%)

Query: 168 SRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCIL 227
           S  E +P +       P     +        CA+C   F   +  R +PC H +H  C+ 
Sbjct: 295 SSSEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVD 354

Query: 228 PWL-KMRNSCPVCRQELP 244
            WL    N CPVCR  +P
Sbjct: 355 KWLLGYSNKCPVCRTAIP 372

Length = 374

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

 Score = 53.3 bits (128), Expect = 1e-09
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ 241
           C +C +     +     PC H++  +CIL +LK ++ CP+CR 
Sbjct: 5   CPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 53.2 bits (128), Expect = 2e-09
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 11/71 (15%)

Query: 180 IESMPSIEISSGHVSSECHCAVCKEAFE--------LGNEA--REMPCKHIYHEDCILPW 229
           I+   ++ + S  +  +  CA+C+  F+         G++       C H +H  CI  W
Sbjct: 4   IKKWNAVALWSWDIEDDV-CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRW 62

Query: 230 LKMRNSCPVCR 240
           LK RN+CP+CR
Sbjct: 63  LKTRNTCPLCR 73

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

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

 Score = 48.7 bits (116), Expect = 4e-08
 Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVC 239
           C +C E +    +   +PC H +   CI  WL+  N +CP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|219082 pfam06547, DUF1117, Protein of unknown function (DUF1117)

 Score = 50.6 bits (121), Expect = 4e-08
 Identities = 32/90 (35%), Positives = 41/90 (45%), Gaps = 13/90 (14%)

Query: 258 LSIWWLPGGGFAVGRYEGRRVVAGAAERGLSI---EFADNMDNQTSSSRVF-------PQ 307
           L+IW LPGGGFAVGR+ G R    A ER L +   E     +   +  R+         +
Sbjct: 4   LTIWRLPGGGFAVGRFAGGR---RAGERELPVVYTEMDGGFNGNGAPRRISWGSRGNRSR 60

Query: 308 RRVGGFFRVFRGFGSIFRRFRGNSSRSSHY 337
            R G   R+FR   S F R   + S SS  
Sbjct: 61  ERGGIIRRIFRNMFSCFGRVHSSRSSSSSS 90

This family represents the C-terminus of a number of hypothetical plant proteins. Length = 115

>gnl|CDD|222714 pfam14369, zf-RING_3, zinc-finger

 Score = 47.2 bits (113), Expect = 1e-07
 Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)

Query: 11 SFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQI 44
           +WCY+C R V  ++       CP C GGF+E+I
Sbjct: 2  RYWCYQCDRFVR-IAPSGDSDVCPRCGGGFVEEI 34

Length = 34

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

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVC 239
           C +C E  +  +    +PC H++   CIL WL+  N +CP+C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 199 CAVCKEAFELGNEAREM--PCKHIYHEDCILPWLKMRNSCPVCRQE 242
           C  C+     G+E   +   C H +H+ CI  WL  +  CP+ RQ 
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT 79

Length = 88

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 40.9 bits (96), Expect = 5e-05
 Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 13/79 (16%)

Query: 177 KASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMP----------CKHIYHEDCI 226
           K  I+   ++   +    S+  C +C+ +F+      + P          CKH +H  CI
Sbjct: 2   KVKIKEWNAVATWTWDTPSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCI 61

Query: 227 LPWLKMRNS---CPVCRQE 242
           L WL    S   CP+CRQ 
Sbjct: 62  LKWLATETSKGLCPMCRQT 80

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

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

 Score = 43.4 bits (102), Expect = 1e-04
 Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 10/60 (16%)

Query: 194 SSECHCAVCK-EAFELGNEA---------REMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           +S+  C +C  E F   +E          + +PC HI H  C+  WL+ + +CP+CR+ +
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344

Length = 491

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

 Score = 43.5 bits (102), Expect = 1e-04
 Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 10/61 (16%)

Query: 192  HVSSECHCAVCKEAFELGNEAREMP------CKHIYHEDCILPWLKM--RNSCPVCRQEL 243
              S    CA+C     L    R +P      CK+ +H  C+  W     R++CP+CR E+
Sbjct: 1465 KFSGHEECAIC--YSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Query: 244  P 244
             
Sbjct: 1523 T 1523

Length = 1525

>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 40.5 bits (95), Expect = 6e-04
 Identities = 12/26 (46%), Positives = 17/26 (65%)

Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
           C H++  +CI  W K +N+CPVCR  
Sbjct: 200 CNHVFCIECIDIWKKEKNTCPVCRTP 225

Length = 238

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	351
PF06547	117	DUF1117: Protein of unknown function (DUF1117); In	99.75
PF14369	35	zf-RING_3: zinc-finger	99.61
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.61
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.51
PHA02929	238	N1R/p28-like protein; Provisional	99.24
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.22
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.22
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.21
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.94
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.91
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.91
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.89
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.8
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.75
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.72
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.7
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.7
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.63
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.63
PF14634	44	zf-RING_5: zinc-RING finger domain	98.62
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.61
PHA02926	242	zinc finger-like protein; Provisional	98.58
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.53
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.37
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.32
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.26
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.24
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.21
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.19
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.14
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.07
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.03
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.01
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.0
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.98
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.93
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.89
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.83
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.77
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.7
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.67
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.54
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.47
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.41
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.36
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.1
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.07
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.88
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.67
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.66
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.54
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.53
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.44
KOG2660	331	consensus Locus-specific chromosome binding protei	96.43
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.32
COG5152	259	Uncharacterized conserved protein, contains RING a	95.92
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.81
PHA02862	156	5L protein; Provisional	95.8
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.71
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.67
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.49
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.46
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.41
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.35
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	95.24
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.13
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.06
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.95
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.61
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.56
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.43
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.13
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.79
PF04641	260	Rtf2: Rtf2 RING-finger	93.57
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.56
PHA03096	284	p28-like protein; Provisional	93.49
COG0375	115	HybF Zn finger protein HypA/HybF (possibly regulat	93.34
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	92.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	92.86
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	92.61
COG5236	493	Uncharacterized conserved protein, contains RING Z	92.4
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.11
KOG1940	276	consensus Zn-finger protein [General function pred	91.93
KOG4739	233	consensus Uncharacterized protein involved in syna	91.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.79
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.56
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.79
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.69
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	90.32
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.0
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	89.1
PF07754	24	DUF1610: Domain of unknown function (DUF1610); Int	88.57
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.52
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	87.94
KOG3002	299	consensus Zn finger protein [General function pred	87.87
KOG1609	323	consensus Protein involved in mRNA turnover and st	87.51
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	87.19
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	87.03
KOG1001	674	consensus Helicase-like transcription factor HLTF/	86.83
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.44
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	86.34
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	86.03
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	85.85
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	85.36
KOG3053	293	consensus Uncharacterized conserved protein [Funct	84.44
COG2093	64	DNA-directed RNA polymerase, subunit E'' [Transcri	84.41
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	84.01
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	83.67
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	82.31
KOG4367	699	consensus Predicted Zn-finger protein [Function un	81.88
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	81.61
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	80.21

>PF06547 DUF1117: Protein of unknown function (DUF1117); InterPro: IPR010543 This entry represents the C terminus of a number of hypothetical plant proteins

Probab=99.75  E-value=3.9e-19  Score=144.88  Aligned_cols=77  Identities=49%  Similarity=0.841  Sum_probs=65.4

Q ss_pred             hcccccccCCCCcccccccccccccccccccCcccccccccC---CCC-CCCcccC-------CCCC--Ccchhhhhccc
Q 045745          255 SMALSIWWLPGGGFAVGRYEGRRVVAGAAERGLSIEFADNMD---NQT-SSSRVFP-------QRRV--GGFFRVFRGFG  321 (351)
Q Consensus       255 ~~~~~~~~~p~~~~a~gr~~g~~~~~g~~e~~~p~~~~~e~d---~~~-~~~r~~~-------~~~~--~~~~r~~~~~~  321 (351)
                      +++++||+||+++|||||++|+++   ++|+++||+|| |||   |++ +.||+|+       .+++  ++++|+|||+|
T Consensus         1 avGLTIWRLPGGGFAVGRF~GgrR---~gErelPvVyT-EmDGgfn~~~g~PRRisW~~r~~r~~~~~gg~~~R~frn~f   76 (117)
T PF06547_consen    1 AVGLTIWRLPGGGFAVGRFSGGRR---AGERELPVVYT-EMDGGFNNGGGAPRRISWSSRGGRSRERRGGGFRRVFRNLF   76 (117)
T ss_pred             CcceEEEEcCCCceEEeeecCCCc---CCcccCCEEEE-EecCCccCCCCCceeeeecccCCcccccccchHHHHHHHHH
Confidence            468999999999999999999999   99999999999 999   555 8999998       3344  44999999998


Q ss_pred             cccccccCCCCCCC
Q 045745          322 SIFRRFRGNSSRSS  335 (351)
Q Consensus       322 ~~~~~~~~~~~~~s  335 (351)
                      ++|+.++..+++++
T Consensus        77 s~f~~~~~~~s~ss   90 (117)
T PF06547_consen   77 SCFGRIGSSSSSSS   90 (117)
T ss_pred             HHhcCCCCCccccc
Confidence            88887776665544

>PF14369 zf-RING_3: zinc-finger

Probab=99.61  E-value=2.8e-16  Score=104.97  Aligned_cols=35  Identities=46%  Similarity=1.170  Sum_probs=30.7

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEee
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQI   44 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi   44 (351)
                      ++||||+|+|+|++....+++++||+|++||||||
T Consensus         1 ~~ywCh~C~~~V~~~~~~~~~~~CP~C~~gFvEei   35 (35)
T PF14369_consen    1 QRYWCHQCNRFVRIAPSPDSDVACPRCHGGFVEEI   35 (35)
T ss_pred             CCEeCccCCCEeEeCcCCCCCcCCcCCCCcEeEeC
Confidence            47999999999999865556677999999999997

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

Probab=99.61  E-value=2.6e-16  Score=153.58  Aligned_cols=79  Identities=29%  Similarity=0.730  Sum_probs=69.0

Q ss_pred             CCCCCCHHHHhcCCceeeecCCCCCc-ccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCcchh
Q 045745          171 ENLPASKASIESMPSIEISSGHVSSE-CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAAAA  248 (351)
Q Consensus       171 ~~~pas~~~i~~lp~~~~~~~~~~~~-~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~~~~  248 (351)
                      ....+.+..+.++|..+++....... ..|+||+|+|+.||.++.|||+|.||..||++||.++. .||+||..+..+..
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            56678999999999999987665443 48999999999999999999999999999999998775 59999998887754


Q ss_pred             h
Q 045745          249 A  249 (351)
Q Consensus       249 ~  249 (351)
                      .
T Consensus       283 ~  283 (348)
T KOG4628|consen  283 S  283 (348)
T ss_pred             C
Confidence            3

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

Probab=99.51  E-value=5.8e-15  Score=103.22  Aligned_cols=43  Identities=51%  Similarity=1.257  Sum_probs=40.5

Q ss_pred             cccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCR  240 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR  240 (351)
                      +|+||+++|..++.++.++|+|.||.+||..||+.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999889999999999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=3.8e-12  Score=119.37  Aligned_cols=73  Identities=27%  Similarity=0.529  Sum_probs=56.7

Q ss_pred             CCCCHHHHhcCCceeeecCC---CCCcccccccccccccCCc-----ceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          173 LPASKASIESMPSIEISSGH---VSSECHCAVCKEAFELGNE-----AREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       173 ~pas~~~i~~lp~~~~~~~~---~~~~~~C~ICle~~~~g~~-----~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      ...++..++++|++...-..   ...+.+|+||++.+...+.     +..++|+|.||..||..|++.+.+||+||..+.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            33488899999988654332   2346799999999875431     234569999999999999999999999999876


Q ss_pred             c
Q 045745          245 A  245 (351)
Q Consensus       245 ~  245 (351)
                      .
T Consensus       228 ~  228 (238)
T PHA02929        228 S  228 (238)
T ss_pred             E
Confidence            4

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

Probab=99.22  E-value=4.1e-12  Score=123.53  Aligned_cols=73  Identities=26%  Similarity=0.655  Sum_probs=56.0

Q ss_pred             CCHHHHhcCCceeeecCCCCCcccccccccc-cccC---------CcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          175 ASKASIESMPSIEISSGHVSSECHCAVCKEA-FELG---------NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       175 as~~~i~~lp~~~~~~~~~~~~~~C~ICle~-~~~g---------~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      +.|+.-+-+|+++..+- ..++..|.||+|+ |+.+         ..++.|||+|+||-.|++.|++++++||+||.++.
T Consensus       267 ~~kdl~~~~~t~t~eql-~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         267 ATKDLNAMYPTATEEQL-TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             HhhHHHhhcchhhhhhh-cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            44555555665554332 4467899999999 5544         25799999999999999999999999999999976


Q ss_pred             cchh
Q 045745          245 AAAA  248 (351)
Q Consensus       245 ~~~~  248 (351)
                      .+..
T Consensus       346 fd~~  349 (491)
T COG5243         346 FDQS  349 (491)
T ss_pred             cccC
Confidence            6543

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

Probab=99.22  E-value=5.5e-12  Score=97.88  Aligned_cols=45  Identities=44%  Similarity=0.998  Sum_probs=35.6

Q ss_pred             cccccccccccccC----------CcceeeccCceechhhHHHHhhcCCCCCCCC
Q 045745          196 ECHCAVCKEAFELG----------NEAREMPCKHIYHEDCILPWLKMRNSCPVCR  240 (351)
Q Consensus       196 ~~~C~ICle~~~~g----------~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR  240 (351)
                      +..|+||++.|...          -.+...+|+|.||..||.+||+.+++||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            34699999999321          2344557999999999999999999999997

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 ....

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

Probab=99.21  E-value=5.5e-12  Score=119.97  Aligned_cols=50  Identities=38%  Similarity=0.984  Sum_probs=46.4

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~  245 (351)
                      ..+|+||++.|..+|.++.|||+|.||..||++|+. -++.||+||.+||.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            378999999999999999999999999999999997 56789999999975

>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=98.94  E-value=5.9e-10  Score=79.94  Aligned_cols=46  Identities=33%  Similarity=0.814  Sum_probs=40.1

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCC
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      +..|.||++....   +..+||+|. |+..|+..|++....||+||.+|.
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            4689999999764   789999999 999999999999999999999875

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.91  E-value=6.9e-10  Score=100.65  Aligned_cols=51  Identities=24%  Similarity=0.677  Sum_probs=42.1

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhc----------------CCCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM----------------RNSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~----------------~~sCP~CR~~l~~~~  247 (351)
                      ..+.+|+||++.++.   +++++|+|.||+.||..|+..                ...||+||.+|....
T Consensus        16 ~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         16 GGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            356789999999874   678899999999999999852                247999999986543

>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=98.91  E-value=8.3e-10  Score=75.31  Aligned_cols=44  Identities=39%  Similarity=1.092  Sum_probs=36.6

Q ss_pred             cccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQEL  243 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l  243 (351)
                      +|+||++.+.  +.+..++|+|.||..||..|++. +..||+|+..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999983  34455559999999999999987 67899999764

>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=98.89  E-value=1e-09  Score=74.75  Aligned_cols=39  Identities=31%  Similarity=0.887  Sum_probs=33.5

Q ss_pred             ccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCC
Q 045745          199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~C  239 (351)
                      |+||++.+..  .++.++|+|.||..||.+|++.+.+||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999885  44788999999999999999998899998

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

Probab=98.81  E-value=1.9e-09  Score=99.61  Aligned_cols=51  Identities=25%  Similarity=0.700  Sum_probs=43.2

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCC---CCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN---SCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~---sCP~CR~~l~~~~  247 (351)
                      ....+|.||||.-++   ++++.|+|.||+.||.+||..+.   .|||||..|..++
T Consensus        45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            345789999998765   78899999999999999997543   6999999987765

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

Probab=98.80  E-value=1.3e-09  Score=113.81  Aligned_cols=51  Identities=33%  Similarity=0.981  Sum_probs=45.6

Q ss_pred             CcccccccccccccCCc--ceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELGNE--AREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~--~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      .+..|+||+|++..+..  +++|||+|+||..||..|+++.++||+||..+..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            46789999999998765  8999999999999999999999999999995533

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

Probab=98.75  E-value=6.3e-09  Score=98.90  Aligned_cols=49  Identities=31%  Similarity=0.841  Sum_probs=43.6

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ....|.+|||....   +.-+||||+||+.||..|+..+..||+||.++...
T Consensus       238 a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  238 ATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            34789999999865   78899999999999999999999999999988654

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

Probab=98.72  E-value=7.3e-09  Score=71.99  Aligned_cols=38  Identities=32%  Similarity=0.837  Sum_probs=30.3

Q ss_pred             ccccccccccCCcceeeccCceechhhHHHHhhcC----CCCCCC
Q 045745          199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR----NSCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~----~sCP~C  239 (351)
                      |+||++.|+.   ++.|+|+|.|+..||..|++..    ..||+|
T Consensus         1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999997   8999999999999999999654    369988

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

Probab=98.70  E-value=7.4e-09  Score=82.23  Aligned_cols=51  Identities=33%  Similarity=0.931  Sum_probs=39.2

Q ss_pred             CCcccccccccccc--------cCCc-ceee-ccCceechhhHHHHhhc---CCCCCCCCCCCC
Q 045745          194 SSECHCAVCKEAFE--------LGNE-AREM-PCKHIYHEDCILPWLKM---RNSCPVCRQELP  244 (351)
Q Consensus       194 ~~~~~C~ICle~~~--------~g~~-~~~l-pC~H~FH~~CI~~WL~~---~~sCP~CR~~l~  244 (351)
                      ..+..|.||+..|+        +|+. +.++ .|+|.||..||.+||..   +..||+||++..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            34678999999997        2332 2233 49999999999999975   458999999764

>smart00504 Ubox Modified RING finger domain

Probab=98.70  E-value=1.3e-08  Score=75.68  Aligned_cols=48  Identities=23%  Similarity=0.393  Sum_probs=42.4

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ..|+||++.++.   ++.++|+|+|+..||..|++.+.+||+|+.++...+
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            479999999986   678899999999999999998889999999885443

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

>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=98.63  E-value=2e-08  Score=68.64  Aligned_cols=39  Identities=38%  Similarity=1.020  Sum_probs=33.6

Q ss_pred             ccccccccccCCcceeeccCceechhhHHHHhh--cCCCCCCC
Q 045745          199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLK--MRNSCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~--~~~sCP~C  239 (351)
                      |+||++.++..  ...++|+|.||..||..|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998852  35889999999999999998  45579998

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 ....

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

Probab=98.63  E-value=1.4e-08  Score=90.47  Aligned_cols=50  Identities=26%  Similarity=0.679  Sum_probs=42.5

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ...|+|||+.+++. .+....|||+||+.||..-|+....||+|+++|...
T Consensus       131 ~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  131 TYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            36899999999863 234577999999999999999999999999987654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.62  E-value=1.8e-08  Score=70.41  Aligned_cols=44  Identities=32%  Similarity=0.820  Sum_probs=38.8

Q ss_pred             cccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ  241 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~  241 (351)
                      +|.||++.|.....+..++|+|+|+..||..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999965567899999999999999999866778999984

>smart00184 RING Ring finger

Probab=98.61  E-value=2.3e-08  Score=65.73  Aligned_cols=38  Identities=39%  Similarity=1.144  Sum_probs=33.2

Q ss_pred             ccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCC
Q 045745          199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~C  239 (351)
                      |+||++..   ..+..++|+|.||..||..|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999983   3578899999999999999998 66689998

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)

>PHA02926 zinc finger-like protein; Provisional

Probab=98.58  E-value=2.3e-08  Score=92.10  Aligned_cols=53  Identities=32%  Similarity=0.749  Sum_probs=39.1

Q ss_pred             CCCcccccccccccccCC-----cceee-ccCceechhhHHHHhhcC------CCCCCCCCCCCc
Q 045745          193 VSSECHCAVCKEAFELGN-----EAREM-PCKHIYHEDCILPWLKMR------NSCPVCRQELPA  245 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~-----~~~~l-pC~H~FH~~CI~~WL~~~------~sCP~CR~~l~~  245 (351)
                      .+.+.+|+||+|..-...     .-..| +|+|.||..||..|.+.+      .+||+||..+..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            345689999999863321     12344 599999999999999753      359999997653

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.53  E-value=4.9e-08  Score=97.91  Aligned_cols=51  Identities=27%  Similarity=0.701  Sum_probs=44.3

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +.....|+||++.|..   +++++|+|.||..||..||..+..||+||..+...
T Consensus        23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            4456799999999975   56889999999999999999888999999987654

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

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

Probab=98.37  E-value=1.9e-07  Score=72.89  Aligned_cols=48  Identities=33%  Similarity=0.841  Sum_probs=36.1

Q ss_pred             cccccccccc-----------ccCCccee-ec-cCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          197 CHCAVCKEAF-----------ELGNEARE-MP-CKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       197 ~~C~ICle~~-----------~~g~~~~~-lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      +.|+||...|           ..+++... .- |+|.||..||.+||..++.||++|++..
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            4577776654           34444332 22 9999999999999999999999998754

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

Probab=98.32  E-value=2.7e-07  Score=66.27  Aligned_cols=42  Identities=21%  Similarity=0.816  Sum_probs=33.8

Q ss_pred             cccccccccccCCcceeeccC-----ceechhhHHHHhhcC--CCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMPCK-----HIYHEDCILPWLKMR--NSCPVCR  240 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~-----H~FH~~CI~~WL~~~--~sCP~CR  240 (351)
                      .|.||++ .+.++...++||.     |.+|..||.+||..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 4444567789975     899999999999644  4899995

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

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

Probab=98.26  E-value=5.5e-07  Score=62.94  Aligned_cols=38  Identities=37%  Similarity=0.920  Sum_probs=22.9

Q ss_pred             cccccccccc-CCcceeeccCceechhhHHHHhhcC----CCCC
Q 045745          199 CAVCKEAFEL-GNEAREMPCKHIYHEDCILPWLKMR----NSCP  237 (351)
Q Consensus       199 C~ICle~~~~-g~~~~~lpC~H~FH~~CI~~WL~~~----~sCP  237 (351)
                      |+||+| |.. ...++.|+|+|.|+.+||.+|++..    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 754 4467899999999999999999843    2576

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

Probab=98.24  E-value=3.6e-07  Score=86.25  Aligned_cols=52  Identities=29%  Similarity=0.852  Sum_probs=41.9

Q ss_pred             CcccccccccccccCC-------cceeeccCceechhhHHHHh--hcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGN-------EAREMPCKHIYHEDCILPWL--KMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~-------~~~~lpC~H~FH~~CI~~WL--~~~~sCP~CR~~l~~~  246 (351)
                      ++..|+||-..+....       +.-+|.|+|+||..||+-|-  ..+++||.|+..+...
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            4568999988876443       56778999999999999995  4677999998877543

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

Probab=98.21  E-value=2.5e-07  Score=71.59  Aligned_cols=50  Identities=34%  Similarity=0.891  Sum_probs=37.4

Q ss_pred             Cccccccccccccc--------CC-cceeec-cCceechhhHHHHhhcC---CCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFEL--------GN-EAREMP-CKHIYHEDCILPWLKMR---NSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~--------g~-~~~~lp-C~H~FH~~CI~~WL~~~---~sCP~CR~~l~  244 (351)
                      .+.+|-||.-.|..        || -+.++- |.|.||..||.+||...   ..||+||+...
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34589999998862        33 233444 99999999999999643   36999998753

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

Probab=98.19  E-value=1.3e-06  Score=67.64  Aligned_cols=50  Identities=26%  Similarity=0.462  Sum_probs=40.1

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcchh
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAAAA  248 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~~~  248 (351)
                      +..|+||.+.|..   ++++||+|.|.+.||..||+. +.+||+|+..|.....
T Consensus         4 ~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l   54 (73)
T PF04564_consen    4 EFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL   54 (73)
T ss_dssp             GGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred             ccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence            4689999999996   789999999999999999998 7899999998877654

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 ....

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

Probab=98.14  E-value=6.2e-07  Score=96.09  Aligned_cols=53  Identities=28%  Similarity=0.863  Sum_probs=39.9

Q ss_pred             CCCcccccccccccccCC---cceeec-cCceechhhHHHHhhc--CCCCCCCCCCCCc
Q 045745          193 VSSECHCAVCKEAFELGN---EAREMP-CKHIYHEDCILPWLKM--RNSCPVCRQELPA  245 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~---~~~~lp-C~H~FH~~CI~~WL~~--~~sCP~CR~~l~~  245 (351)
                      .+...+|+||+..+..-+   .-+..+ |+|.||..||.+|++.  +++||+||.+++.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            445579999999876211   123344 9999999999999985  4579999988763

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

Probab=98.07  E-value=1.4e-06  Score=82.25  Aligned_cols=50  Identities=30%  Similarity=0.796  Sum_probs=42.1

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHH-HhhcCC-CCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILP-WLKMRN-SCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~-WL~~~~-sCP~CR~~l~~~~  247 (351)
                      .+..|.||++..+.   +.-++|+|+||..||.. |=+.+. .||+||+.+...+
T Consensus       214 ~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            46789999999876   78899999999999999 976665 5999999876543

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

Probab=98.03  E-value=2.2e-06  Score=87.32  Aligned_cols=48  Identities=29%  Similarity=0.777  Sum_probs=39.8

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhc-----CCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-----RNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-----~~sCP~CR~~l~~~  246 (351)
                      +..|+|||+....   +..+.|||+||..||...+..     ...||+||..|...
T Consensus       186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            5789999998775   566679999999999998854     34799999988763

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

Probab=98.01  E-value=1.7e-06  Score=83.95  Aligned_cols=48  Identities=27%  Similarity=0.737  Sum_probs=44.2

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ..|.||.|-|..   +.++||+|.||.-||+.+|..+..||.|+.++....
T Consensus        24 LRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   24 LRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             HHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            579999999997   789999999999999999999999999999886654

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

Probab=98.00  E-value=2.4e-06  Score=81.54  Aligned_cols=47  Identities=28%  Similarity=0.638  Sum_probs=42.3

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      -..|-||.+.|..   +..++|+|.||.-||...|..+..||+||.+...
T Consensus        25 ~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          25 MLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             HHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            3689999999997   6788999999999999999999999999997543

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

Probab=97.98  E-value=2.2e-06  Score=86.71  Aligned_cols=51  Identities=35%  Similarity=0.973  Sum_probs=39.6

Q ss_pred             CcccccccccccccC---Cc-----------ceeeccCceechhhHHHHhhc-CCCCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELG---NE-----------AREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g---~~-----------~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~  245 (351)
                      ....|+||+..++.-   ..           -...||.|+||..|+..|... +-.||+||.+|+.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            346899999987531   11           134599999999999999985 4489999999874

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

Probab=97.93  E-value=3.4e-06  Score=78.03  Aligned_cols=46  Identities=33%  Similarity=0.727  Sum_probs=39.8

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ  241 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~  241 (351)
                      ...+..|+||++.|..   ++.+||+|.||..||..|+.....||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            3456799999999997   389999999999999999985558999993

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

Probab=97.93  E-value=2.2e-06  Score=65.97  Aligned_cols=50  Identities=24%  Similarity=0.582  Sum_probs=23.1

Q ss_pred             cccccccccccc-cCCcc-eee---ccCceechhhHHHHhhc----C-------CCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFE-LGNEA-REM---PCKHIYHEDCILPWLKM----R-------NSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~-~g~~~-~~l---pC~H~FH~~CI~~WL~~----~-------~sCP~CR~~l~~  245 (351)
                      +.+|.||++.+. .++.+ ...   .|++.||..||..||..    +       ..||.|+.+|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            357999999866 33332 233   39999999999999952    1       149999988753

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.89  E-value=8.3e-06  Score=79.21  Aligned_cols=51  Identities=24%  Similarity=0.437  Sum_probs=37.5

Q ss_pred             cccccccccccccCCcc--eeeccCceechhhHHHHh-hcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEA--REMPCKHIYHEDCILPWL-KMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~--~~lpC~H~FH~~CI~~WL-~~~~sCP~CR~~l~~~  246 (351)
                      +..|+||+.+--.....  .+-+|+|.||..||...+ .....||+|+..+...
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            35799999964433333  233799999999999965 4456899999877554

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).

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

Probab=97.83  E-value=6.3e-06  Score=67.44  Aligned_cols=27  Identities=48%  Similarity=1.089  Sum_probs=25.2

Q ss_pred             cCceechhhHHHHhhcCCCCCCCCCCC
Q 045745          217 CKHIYHEDCILPWLKMRNSCPVCRQEL  243 (351)
Q Consensus       217 C~H~FH~~CI~~WL~~~~sCP~CR~~l  243 (351)
                      |.|.||..||.+||+.++.||+|.++.
T Consensus        81 CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   81 CNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             cchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            999999999999999999999997653

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

Probab=97.77  E-value=1e-05  Score=81.15  Aligned_cols=81  Identities=26%  Similarity=0.627  Sum_probs=51.8

Q ss_pred             cccccccccccccCC-cceeeccCceechhhHHHHhhcCCCCCCCCCCCCcchhhhh--hhhhcccccc-cCCCCccccc
Q 045745          196 ECHCAVCKEAFELGN-EAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA--EESSMALSIW-WLPGGGFAVG  271 (351)
Q Consensus       196 ~~~C~ICle~~~~g~-~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~~~~--~e~~~~~~~~-~~p~~~~a~g  271 (351)
                      -.+|+||||-+...- -++...|.|.||..|+.+|  ...+||+||.-.........  .+-...-..| -+--|....|
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~p~~ve~~~c~~c~~~~~LwicliCg~vgcg  252 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQSPSVVESSLCLACGCTEDLWICLICGNVGCG  252 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcCcchhhhhhhhhhcccccEEEEEEccceecc
Confidence            358999999998643 2355669999999999999  45689999996652111000  0111112233 2455666778


Q ss_pred             ccccccc
Q 045745          272 RYEGRRV  278 (351)
Q Consensus       272 r~~g~~~  278 (351)
                      |+..+++
T Consensus       253 rY~eghA  259 (493)
T KOG0804|consen  253 RYKEGHA  259 (493)
T ss_pred             cccchhH
Confidence            8876644

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

Probab=97.70  E-value=1.8e-05  Score=77.68  Aligned_cols=47  Identities=26%  Similarity=0.668  Sum_probs=41.3

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ..+|.||+.+-..   +.+|||.|. .|..|.+..--+++.||+||++|..
T Consensus       290 gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  290 GKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            4789999999876   789999998 8999998876789999999998754

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

Probab=97.67  E-value=4.3e-06  Score=81.69  Aligned_cols=59  Identities=25%  Similarity=0.572  Sum_probs=45.4

Q ss_pred             eeeecCCCCCcccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          186 IEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       186 ~~~~~~~~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      +.++-..+..+..|+|||+.++.  ...+.-|.|.||.+||.+-|+. .++||.||+.+...
T Consensus        33 i~~~l~~~~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   33 IMVDLAMFDIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             heecHHHhhhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            44555556677899999999985  2333349999999999999974 56899999977543

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

Probab=97.54  E-value=3.1e-05  Score=74.44  Aligned_cols=48  Identities=23%  Similarity=0.468  Sum_probs=40.7

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~~~  247 (351)
                      .+|+||+.....   ++.|+|+|.||..||+--.+... +|++||.+|++.-
T Consensus         8 ~eC~IC~nt~n~---Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    8 KECLICYNTGNC---PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CcceeeeccCCc---CccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            589999998765   68899999999999998776544 6999999997653

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

Probab=97.47  E-value=2.5e-05  Score=82.72  Aligned_cols=50  Identities=28%  Similarity=0.584  Sum_probs=43.9

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      ....|++|+..+..+......+|.|+||..||..|-+.-++||+||.++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            34689999999987766667789999999999999999999999999764

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

Probab=97.44  E-value=4.7e-05  Score=75.34  Aligned_cols=50  Identities=26%  Similarity=0.799  Sum_probs=37.0

Q ss_pred             ccccccccccccCCcceeec-cCceechhhHHHHhhcC---CCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR---NSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~---~sCP~CR~~l~~~  246 (351)
                      ..|.||-+-+-...++.-+. |+|+||..|+..|++.-   ..||+|+-.++..
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r   58 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER   58 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence            47999955554444555555 99999999999999743   4799999555443

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

Probab=97.41  E-value=5.8e-05  Score=56.94  Aligned_cols=44  Identities=25%  Similarity=0.639  Sum_probs=22.8

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      ..|++|.+.|+.  .+....|.|+|+..||..-+.  ..||+|+.+..
T Consensus         8 LrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw   51 (65)
T PF14835_consen    8 LRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW   51 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred             cCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence            579999999985  233445999999999988655  34999988653

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

Probab=97.38  E-value=7.3e-05  Score=73.98  Aligned_cols=49  Identities=33%  Similarity=0.768  Sum_probs=37.2

Q ss_pred             CcccccccccccccCC----cceeec-cCceechhhHHHHh--hc-----CCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGN----EAREMP-CKHIYHEDCILPWL--KM-----RNSCPVCRQEL  243 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~----~~~~lp-C~H~FH~~CI~~WL--~~-----~~sCP~CR~~l  243 (351)
                      .+.+|.||+|......    .-.+|| |.|.||..||..|-  ++     ..+||.||...
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            4578999999876422    012345 99999999999998  44     46899999865

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

Probab=97.36  E-value=8e-05  Score=71.56  Aligned_cols=92  Identities=21%  Similarity=0.428  Sum_probs=59.7

Q ss_pred             hhHHHHHHHhhHhhhhhcCCCCCCCCCHHHHhcCCceeeecCCCCCcccccccccccccCCcceeeccCceechhhHHHH
Q 045745          150 SGFHLLLHQLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPW  229 (351)
Q Consensus       150 ~~le~ll~qL~~~~~~~~~~~~~~pas~~~i~~lp~~~~~~~~~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~W  229 (351)
                      +.|..|..++..+--.+   .+ -|.--..|+.-..+....  .....+|.|||--|..++...+++|-|.||..|+.++
T Consensus        75 ~~~~~i~~~~~~iikq~---~g-~pii~~lie~~~e~LT~n--n~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRy  148 (368)
T KOG4445|consen   75 PEFREIQRQIQEIIKQN---SG-MPIICQLIEHCSEFLTEN--NHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARY  148 (368)
T ss_pred             HHHHHHHHHHHHHHHhc---CC-CchhHHHHHHHHHHcccC--CCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHH
Confidence            44667777665433221   12 334444554433332221  1233579999999999998999999999999999876


Q ss_pred             hhc-----------------------CCCCCCCCCCCCcch
Q 045745          230 LKM-----------------------RNSCPVCRQELPAAA  247 (351)
Q Consensus       230 L~~-----------------------~~sCP~CR~~l~~~~  247 (351)
                      |..                       ...||+||..|..+.
T Consensus       149 l~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  149 LTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            621                       225999999886553

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

Probab=97.10  E-value=0.00025  Score=71.51  Aligned_cols=50  Identities=34%  Similarity=0.713  Sum_probs=44.0

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .++.+|.||+..|..   ++.+||+|.||..||++-|.....||.||.++..-
T Consensus        82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVEL  131 (398)
T ss_pred             cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccccc
Confidence            567899999999886   77889999999999999888777899999998753

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

Probab=97.07  E-value=0.00028  Score=70.35  Aligned_cols=48  Identities=27%  Similarity=0.866  Sum_probs=36.4

Q ss_pred             ccccccccccccc-CCc-ceeeccCceechhhHHHHhhc--CCCCCCCCCCC
Q 045745          196 ECHCAVCKEAFEL-GNE-AREMPCKHIYHEDCILPWLKM--RNSCPVCRQEL  243 (351)
Q Consensus       196 ~~~C~ICle~~~~-g~~-~~~lpC~H~FH~~CI~~WL~~--~~sCP~CR~~l  243 (351)
                      ..+|+||++.++. ++. ...+.|+|.|..+||++||.+  ...||.|..+-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            3589999999874 333 344559999999999999952  22599997653

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

Probab=97.01  E-value=0.00015  Score=52.92  Aligned_cols=46  Identities=26%  Similarity=0.577  Sum_probs=35.9

Q ss_pred             ccccccccccccCCcceeeccCce-echhhHHHHhh-cCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLK-MRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~-~~~sCP~CR~~l~~  245 (351)
                      .+|.||+|.-..   .+...|+|. .|.+|-.+-++ .+..||+||++|..
T Consensus         8 dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            689999997543   244569998 78999777665 78899999998753

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

Probab=97.00  E-value=0.00023  Score=62.89  Aligned_cols=40  Identities=28%  Similarity=0.735  Sum_probs=32.4

Q ss_pred             CceeeecCCCCC-cccccccccccccCCcceeeccCceech
Q 045745          184 PSIEISSGHVSS-ECHCAVCKEAFELGNEAREMPCKHIYHE  223 (351)
Q Consensus       184 p~~~~~~~~~~~-~~~C~ICle~~~~g~~~~~lpC~H~FH~  223 (351)
                      |++.+.+..+.. .-+|.||||+++.|+.+..|||-.+||+
T Consensus       164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccccccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            455555554443 4789999999999999999999999997

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

Probab=96.88  E-value=0.00058  Score=68.94  Aligned_cols=54  Identities=30%  Similarity=0.673  Sum_probs=45.0

Q ss_pred             CCCcccccccccccccCCccee-eccCceechhhHHHHhhcCCCCCCCCCCCCcchhh
Q 045745          193 VSSECHCAVCKEAFELGNEARE-MPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAA  249 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~-lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~~  249 (351)
                      +..+..|++|...+..   +.. ..|+|.||..||..|+..+..||.|+..+......
T Consensus        18 ~~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL   72 (391)
T ss_pred             CcccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence            4556899999999986   334 58999999999999999999999999887655443

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

Probab=96.67  E-value=0.0005  Score=68.48  Aligned_cols=48  Identities=27%  Similarity=0.787  Sum_probs=40.0

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhc--CCCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM--RNSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCP~CR~~l~~~~  247 (351)
                      .-|-||-|.=+   .+++-||+|..|..|+..|-..  .++||.||.+|....
T Consensus       370 eLCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  370 ELCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHHhhccCC---CcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            46999988644   4889999999999999999743  568999999997654

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

Probab=96.66  E-value=0.0012  Score=46.85  Aligned_cols=40  Identities=30%  Similarity=0.821  Sum_probs=27.8

Q ss_pred             ccccccccccCCcceeecc--Cc---eechhhHHHHhh--cCCCCCCC
Q 045745          199 CAVCKEAFELGNEAREMPC--KH---IYHEDCILPWLK--MRNSCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC--~H---~FH~~CI~~WL~--~~~sCP~C  239 (351)
                      |-||++.-+..+ ..+.||  +-   ..|..||..|+.  ...+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            789999877644 567785  43   889999999996  44579988

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

Probab=96.54  E-value=0.00065  Score=67.50  Aligned_cols=47  Identities=38%  Similarity=0.913  Sum_probs=38.8

Q ss_pred             CcccccccccccccCC-cceeeccCceechhhHHHHhhcCC--CCCCCCC
Q 045745          195 SECHCAVCKEAFELGN-EAREMPCKHIYHEDCILPWLKMRN--SCPVCRQ  241 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~-~~~~lpC~H~FH~~CI~~WL~~~~--sCP~CR~  241 (351)
                      .+.-|..|-+.+-..+ ...-|||.|+||..|+...|..+.  +||.||+
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            3567999999986544 566789999999999999997654  7999994

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

Probab=96.53  E-value=0.0012  Score=48.84  Aligned_cols=41  Identities=24%  Similarity=0.736  Sum_probs=28.8

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcC--CCCCC
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR--NSCPV  238 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~--~sCP~  238 (351)
                      ...|+|.+..|+  +.++...|+|.|-++.|..||+.+  ..||+
T Consensus        11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            368999999998  456667899999999999999443  36998

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

Probab=96.44  E-value=0.00092  Score=71.30  Aligned_cols=46  Identities=26%  Similarity=0.712  Sum_probs=38.3

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~  245 (351)
                      ..|++|-.-++.   +++.-|+|.||..||.+-+. ++..||.|-..+..
T Consensus       644 LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            589999988775   56667999999999999996 55689999876643

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

Probab=96.43  E-value=0.00066  Score=66.17  Aligned_cols=50  Identities=20%  Similarity=0.556  Sum_probs=40.8

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ...+|.+|.--|...  ..+.-|-|.||+.||.+.|...++||.|...|-..
T Consensus        14 ~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            447899999988852  33445999999999999999999999998866433

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

Probab=96.32  E-value=0.0012  Score=56.94  Aligned_cols=37  Identities=14%  Similarity=0.445  Sum_probs=31.1

Q ss_pred             cccccccccccccCCcceeeccC------ceechhhHHHHhhc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCK------HIYHEDCILPWLKM  232 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~------H~FH~~CI~~WL~~  232 (351)
                      ..+|.||++.+...+-++.++|+      |.||.+|+.+|-+.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence            36899999999886668888886      99999999999433

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.

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

Probab=95.92  E-value=0.0023  Score=58.51  Aligned_cols=45  Identities=22%  Similarity=0.564  Sum_probs=39.8

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      ..|.||.++|+.   +++..|+|.||..|..+=++....|-+|.+...
T Consensus       197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             eeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            479999999996   788889999999999998888899999976543

>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=95.81  E-value=0.0039  Score=50.58  Aligned_cols=33  Identities=27%  Similarity=0.664  Sum_probs=27.9

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHH
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCIL  227 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~  227 (351)
                      ..+..|+||...+.. ......||+|+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            345689999999987 567888999999999975

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

>PHA02862 5L protein; Provisional

Probab=95.80  E-value=0.0042  Score=54.13  Aligned_cols=46  Identities=17%  Similarity=0.645  Sum_probs=34.8

Q ss_pred             ccccccccccccCCcceeeccC-----ceechhhHHHHhhc--CCCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMPCK-----HIYHEDCILPWLKM--RNSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~-----H~FH~~CI~~WL~~--~~sCP~CR~~l~~~  246 (351)
                      ..|-||+++-++  .  .-||.     ...|++||.+|+..  +.+|++|+.+....
T Consensus         3 diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          3 DICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            579999998543  2  35654     67899999999964  44799999987543

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

Probab=95.71  E-value=0.0061  Score=42.50  Aligned_cols=41  Identities=32%  Similarity=0.867  Sum_probs=25.4

Q ss_pred             ccccccccccCCcceeeccCceechhhHHHHhhcCC--CCCCC
Q 045745          199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN--SCPVC  239 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~--sCP~C  239 (351)
                      |.+|.+....|..-....|.=.+|..|+..++..+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            789999988875555555999999999999998666  79988

; PDB: 3NW0_A 2CT0_A.

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.67  E-value=0.0073  Score=53.48  Aligned_cols=49  Identities=24%  Similarity=0.706  Sum_probs=35.6

Q ss_pred             CCcccccccccccccCCcceeec--cCc---eechhhHHHHhhcC--CCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMP--CKH---IYHEDCILPWLKMR--NSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp--C~H---~FH~~CI~~WL~~~--~sCP~CR~~l~~~  246 (351)
                      ..+..|-||+++-.  +.  .-|  |+.   ..|.+|+.+|+...  .+|++|+.+....
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            34568999998843  22  346  444   56999999999643  4799999877544

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

Probab=95.49  E-value=0.0074  Score=68.10  Aligned_cols=52  Identities=27%  Similarity=0.642  Sum_probs=41.1

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhc-----CC-----CCCCCCCCCCc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-----RN-----SCPVCRQELPA  245 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-----~~-----sCP~CR~~l~~  245 (351)
                      ..++.|-||.-+--....++.|.|+|+||..|.+.-|+.     +-     +||+|+.+|..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            345789999987666667899999999999999865543     21     69999998854

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

Probab=95.46  E-value=0.0057  Score=63.03  Aligned_cols=51  Identities=27%  Similarity=0.635  Sum_probs=40.7

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhc-----CCCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-----RNSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-----~~sCP~CR~~l~~~~  247 (351)
                      .++.+|-+|.+.-++   ..+..|.|.||..||..++..     +-+||+|...|.-+.
T Consensus       534 k~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  534 KGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             cCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            345789999998664   678889999999999888742     348999988876553

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

Probab=95.41  E-value=0.012  Score=42.12  Aligned_cols=44  Identities=25%  Similarity=0.601  Sum_probs=22.4

Q ss_pred             ccccccccccCCcceeec--cCceechhhHHHHhh-cCCCCCCCCCCC
Q 045745          199 CAVCKEAFELGNEAREMP--CKHIYHEDCILPWLK-MRNSCPVCRQEL  243 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lp--C~H~FH~~CI~~WL~-~~~sCP~CR~~l  243 (351)
                      |++|.+++...+ ...+|  |++..+..|...-++ ....||-||.+.
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999994432 34455  899999999988886 477999999863

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.35  E-value=0.02  Score=54.11  Aligned_cols=68  Identities=13%  Similarity=0.327  Sum_probs=52.3

Q ss_pred             HhcCCceeeecCCC----------CCcccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          180 IESMPSIEISSGHV----------SSECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       180 i~~lp~~~~~~~~~----------~~~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ++.|-.++|+....          +....|+||.+.+........| ||+|+|+.+|+.+.+.....||+|-.++...+
T Consensus       195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            45555666654332          1236799999999987665555 59999999999999999999999988886654

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

Probab=95.24  E-value=0.011  Score=55.08  Aligned_cols=49  Identities=24%  Similarity=0.668  Sum_probs=40.6

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhc--------CCCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM--------RNSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~--------~~sCP~CR~~l~~~  246 (351)
                      .-|..|.-.++.||. ..|-|-|.||.+|+..|-..        .-.||.|-.+|...
T Consensus        51 pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   51 PNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            469999999999875 57889999999999999743        22599999988654

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

Probab=95.13  E-value=0.019  Score=55.01  Aligned_cols=53  Identities=26%  Similarity=0.509  Sum_probs=39.3

Q ss_pred             CCCCcccccccccccccCCcceeeccCceechhhHHHHhhc--CCCCCCCCCCCCcc
Q 045745          192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM--RNSCPVCRQELPAA  246 (351)
Q Consensus       192 ~~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCP~CR~~l~~~  246 (351)
                      ...++.+|++|-+.=..  .-...+|+|+||..||..=+..  ..+||.|-.++..-
T Consensus       235 ~~t~~~~C~~Cg~~Pti--P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTI--PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             cccCCceeeccCCCCCC--CeeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            34567899999987553  2234459999999999997754  35899998776543

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

Probab=95.06  E-value=0.012  Score=58.31  Aligned_cols=44  Identities=34%  Similarity=0.643  Sum_probs=33.2

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ..-|.||+++.+.   +..+||+|.-|  |..--. .-.+||+||..|..
T Consensus       305 p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  305 PDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIRL  348 (355)
T ss_pred             CCceEEecCCccc---eeeecCCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence            3679999999886   89999999977  655432 22359999987643

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

Probab=94.95  E-value=0.0019  Score=64.22  Aligned_cols=50  Identities=30%  Similarity=0.721  Sum_probs=44.1

Q ss_pred             ccccccccccccC-CcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELG-NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..|+||.+.++.. +....+-|+|.+|.+||.+||.....||.|+.+|+..
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            5799999999865 5677778999999999999999988999999998754

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

Probab=94.61  E-value=0.012  Score=59.00  Aligned_cols=47  Identities=21%  Similarity=0.565  Sum_probs=38.0

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCC--------CCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN--------SCPVCRQ  241 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~--------sCP~CR~  241 (351)
                      ....|.||.++..-..-.+.+||.|+||+.|+..++..+.        .||-|.-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4468999999987657788999999999999999985321        4877654

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

Probab=94.56  E-value=0.013  Score=56.50  Aligned_cols=46  Identities=26%  Similarity=0.563  Sum_probs=40.4

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ..|-||.+.|..   +++..|+|.||..|...-++....|.+|-+.+..
T Consensus       242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccccc
Confidence            359999999996   6888999999999999999999999999876643

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

Probab=94.43  E-value=0.027  Score=54.58  Aligned_cols=45  Identities=24%  Similarity=0.656  Sum_probs=35.2

Q ss_pred             ccccccccccccCCcceeec-cCceechhhHHHHhh-cCCCCCCCCC-CCC
Q 045745          197 CHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLK-MRNSCPVCRQ-ELP  244 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~-~~~sCP~CR~-~l~  244 (351)
                      ..|+.|...+..   +..+| |+|.||..||..-|. ....||.|.. .|.
T Consensus       275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl  322 (427)
T COG5222         275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL  322 (427)
T ss_pred             ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCcccccch
Confidence            679999998874   44456 899999999998875 5668999944 443

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

Probab=94.13  E-value=0.023  Score=61.57  Aligned_cols=47  Identities=26%  Similarity=0.813  Sum_probs=35.0

Q ss_pred             CcccccccccccccCCcceee-ccCceechhhHHHHhhcC-C------CCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMR-N------SCPVCRQ  241 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~-~------sCP~CR~  241 (351)
                      ...+|.||++.+...+.+-.. .|-|+||..||..|-+.. .      .||.|..
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            447999999999875543222 278999999999997531 1      4999974

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

Probab=93.79  E-value=0.029  Score=55.50  Aligned_cols=50  Identities=24%  Similarity=0.443  Sum_probs=42.1

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .++..|+||+..=.   .++..||+|.=|+.||.+.|...+.|=.|+..+...
T Consensus       420 sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence            35678999987533   368889999999999999999999999999877643

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.57  E-value=0.13  Score=49.11  Aligned_cols=52  Identities=21%  Similarity=0.506  Sum_probs=39.9

Q ss_pred             CCcccccccccccccCCc-ceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNE-AREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~-~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .....|+|...+|..... +...||||+|...+|..- +....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            445789999999954433 444589999999999996 3355799999887644

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

Probab=93.56  E-value=0.05  Score=52.49  Aligned_cols=47  Identities=26%  Similarity=0.646  Sum_probs=39.2

Q ss_pred             ccccccccccccCC---cceeeccCceechhhHHHHhhcC-CCCCCCCCCC
Q 045745          197 CHCAVCKEAFELGN---EAREMPCKHIYHEDCILPWLKMR-NSCPVCRQEL  243 (351)
Q Consensus       197 ~~C~ICle~~~~g~---~~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l  243 (351)
                      ..|-||-++|..++   .++.|-|+|.|+..|+.+-+... ..||.||...
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            47999999998763   56778899999999999877644 4799999985

>PHA03096 p28-like protein; Provisional

Probab=93.49  E-value=0.033  Score=54.04  Aligned_cols=45  Identities=22%  Similarity=0.413  Sum_probs=31.4

Q ss_pred             ccccccccccccCC----cceeec-cCceechhhHHHHhhcC---CCCCCCCC
Q 045745          197 CHCAVCKEAFELGN----EAREMP-CKHIYHEDCILPWLKMR---NSCPVCRQ  241 (351)
Q Consensus       197 ~~C~ICle~~~~g~----~~~~lp-C~H~FH~~CI~~WL~~~---~sCP~CR~  241 (351)
                      ..|.||+|......    .-..|+ |.|.||..||..|-...   .+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            58999999765421    234566 99999999999998532   24555543

>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]

Probab=93.34  E-value=0.06  Score=45.43  Aligned_cols=35  Identities=26%  Similarity=0.565  Sum_probs=29.5

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeeccC
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIETE   47 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~~~   47 (351)
                      ...||..|++.+.....   +..||.|+|..+.-+...
T Consensus        69 ~~~~C~~C~~~~~~e~~---~~~CP~C~s~~~~i~~G~  103 (115)
T COG0375          69 AECWCLDCGQEVELEEL---DYRCPKCGSINLRIIGGD  103 (115)
T ss_pred             cEEEeccCCCeecchhh---eeECCCCCCCceEEecCC
Confidence            46899999999988864   788999999999887543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=92.87  E-value=0.069  Score=39.12  Aligned_cols=33  Identities=36%  Similarity=0.884  Sum_probs=29.2

Q ss_pred             cccccccccccccCCcceeec-cCceechhhHHH
Q 045745          196 ECHCAVCKEAFELGNEAREMP-CKHIYHEDCILP  228 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~  228 (351)
                      ...|.+|-+.|+.++.+++.| |+-.||.+|..+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            357999999999888899998 999999999654

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

Probab=92.86  E-value=0.053  Score=53.16  Aligned_cols=49  Identities=16%  Similarity=0.367  Sum_probs=38.5

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ....|+||+.....   ..++. -|-+||..||...+..++.||+=-.++..+
T Consensus       299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~  348 (357)
T KOG0826|consen  299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD  348 (357)
T ss_pred             ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence            34689999998664   33444 589999999999999999999976665443

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

Probab=92.61  E-value=0.021  Score=55.08  Aligned_cols=43  Identities=30%  Similarity=0.614  Sum_probs=33.6

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      +.-|+||++.-.+   ...|+|+|. -|..|-..    -+.||+||+.|..
T Consensus       300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHHH
Confidence            5679999998664   789999997 46777544    3589999987643

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

Probab=92.40  E-value=0.082  Score=52.27  Aligned_cols=47  Identities=28%  Similarity=0.746  Sum_probs=39.3

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHH--hhcCCCCCCCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPW--LKMRNSCPVCRQEL  243 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~W--L~~~~sCP~CR~~l  243 (351)
                      ++...|.||-+.+.-   +..+||+|..|..|..+.  |.....||+||.+.
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            445679999998775   688999999999998765  56788999999864

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.11  E-value=0.097  Score=38.45  Aligned_cols=45  Identities=22%  Similarity=0.599  Sum_probs=33.0

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..|..|...=   ..-.++||+|+.+..|..-  ++-+-||+|-.++...
T Consensus         8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence            4566665543   3357899999999999665  3667899998887654

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

Probab=91.93  E-value=0.086  Score=50.91  Aligned_cols=44  Identities=30%  Similarity=0.770  Sum_probs=37.8

Q ss_pred             cccccccccccC-CcceeeccCceechhhHHHHhhcCCCCCCCCC
Q 045745          198 HCAVCKEAFELG-NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ  241 (351)
Q Consensus       198 ~C~ICle~~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~  241 (351)
                      -|+||.+.+-.. ..+..++|+|.-|..|+......+-+||+|.+
T Consensus       160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            499999976554 36788999999999999998877789999987

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

Probab=91.80  E-value=0.057  Score=50.82  Aligned_cols=45  Identities=22%  Similarity=0.632  Sum_probs=34.2

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~  245 (351)
                      .+|-.|..-=. ++.-..+.|.|+||..|...-   +. .||+|+..|..
T Consensus         4 VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCC-CCceeeeechhhhhhhhcccC---Cccccccccceeee
Confidence            46887876544 666777889999999997653   33 89999998643

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

Probab=91.79  E-value=0.063  Score=58.33  Aligned_cols=44  Identities=30%  Similarity=0.810  Sum_probs=34.9

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ..|..|--.++.  .++..-|+|.||..|+.   .....||-|+.++..
T Consensus       841 skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~~  884 (933)
T KOG2114|consen  841 SKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELRG  884 (933)
T ss_pred             eeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhhhh
Confidence            589999888774  35667799999999998   455689999885543

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

Probab=91.56  E-value=0.11  Score=58.67  Aligned_cols=43  Identities=23%  Similarity=0.619  Sum_probs=37.5

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCC
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQ  241 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~  241 (351)
                      ..|.||++.+..  .-.+.-|+|.||..|+..|+..+..||+|..
T Consensus      1154 ~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            489999999983  2356679999999999999999999999975

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

Probab=90.79  E-value=0.14  Score=46.29  Aligned_cols=49  Identities=24%  Similarity=0.713  Sum_probs=34.5

Q ss_pred             ccccccccccccCC----cceeeccCceechhhHHHHhhc----CC-------CCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGN----EAREMPCKHIYHEDCILPWLKM----RN-------SCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~----~~~~lpC~H~FH~~CI~~WL~~----~~-------sCP~CR~~l~~  245 (351)
                      ..|.||+.---.|.    ..--..|+.-||+-|+..||+.    ++       .||.|-.+|..
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            35888876543333    2333459999999999999952    22       49999887754

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

Probab=90.69  E-value=0.086  Score=51.39  Aligned_cols=43  Identities=26%  Similarity=0.784  Sum_probs=30.7

Q ss_pred             cccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      .|--|---+..  .-+.+||+|+||.+|.+.  ...+.||.|-.+|.
T Consensus        92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence            46666554443  347889999999999764  34568999976654

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

Probab=90.32  E-value=0.24  Score=49.55  Aligned_cols=29  Identities=28%  Similarity=0.912  Sum_probs=22.5

Q ss_pred             cCceechhhHHHHhhcC-------------CCCCCCCCCCCc
Q 045745          217 CKHIYHEDCILPWLKMR-------------NSCPVCRQELPA  245 (351)
Q Consensus       217 C~H~FH~~CI~~WL~~~-------------~sCP~CR~~l~~  245 (351)
                      |.=.+|.+|+-+|+..+             -.||+||+++.-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            66778999999998532             259999998754

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

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.00  E-value=0.16  Score=50.10  Aligned_cols=51  Identities=22%  Similarity=0.533  Sum_probs=37.2

Q ss_pred             cccccccccccccCCc-ceeeccCceechhhHHHHhh-cCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNE-AREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~-~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~~  246 (351)
                      ++-|+.|+|++...|. -.-.||+...|.-|....-+ .+..||.||+....+
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            3459999999987663 44566898888888655433 455899999976554

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=89.10  E-value=0.38  Score=40.43  Aligned_cols=34  Identities=26%  Similarity=0.438  Sum_probs=27.6

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeecc
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIET   46 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~~   46 (351)
                      ...||..|...+.+..   ....||.|++..++-+..
T Consensus        69 ~~~~C~~Cg~~~~~~~---~~~~CP~Cgs~~~~i~~G  102 (115)
T TIGR00100        69 VECECEDCSEEVSPEI---DLYRCPKCHGIMLQVRAG  102 (115)
T ss_pred             cEEEcccCCCEEecCC---cCccCcCCcCCCcEEecC
Confidence            5799999999888865   368899999988776643

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species

Probab=88.57  E-value=0.27  Score=30.19  Aligned_cols=23  Identities=30%  Similarity=0.694  Sum_probs=18.8

Q ss_pred             cccCCceeecCcCCCCCccCCCCC
Q 045745           14 CYRCLRIVSSLSQFDGDTTCPHCH   37 (351)
Q Consensus        14 Ch~C~r~V~~~~~~~~~~~CP~C~   37 (351)
                      |..|.+.|..+.. ...+.||.|+
T Consensus         1 C~sC~~~i~~r~~-~v~f~CPnCG   23 (24)
T PF07754_consen    1 CTSCGRPIAPREQ-AVPFPCPNCG   23 (24)
T ss_pred             CccCCCcccCccc-CceEeCCCCC
Confidence            7889998877653 5789999997

It is likely to bind zinc via its four well-conserved cysteine residues.

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

Probab=88.52  E-value=0.17  Score=55.44  Aligned_cols=37  Identities=22%  Similarity=0.678  Sum_probs=30.0

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHh
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWL  230 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL  230 (351)
                      ++....|.+|...+-. ..-.+.||+|.||++||.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence            4566799999998765 345778999999999998764

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=87.94  E-value=0.49  Score=39.74  Aligned_cols=34  Identities=32%  Similarity=0.883  Sum_probs=26.6

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeec
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIE   45 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~   45 (351)
                      ...||..|...+.....  ....||.|++.-++-+.
T Consensus        69 ~~~~C~~Cg~~~~~~~~--~~~~CP~Cgs~~~~i~~  102 (114)
T PRK03681         69 AECWCETCQQYVTLLTQ--RVRRCPQCHGDMLRIVA  102 (114)
T ss_pred             cEEEcccCCCeeecCCc--cCCcCcCcCCCCcEEcc
Confidence            57999999998877642  23679999998877664

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

Probab=87.87  E-value=0.33  Score=47.55  Aligned_cols=42  Identities=29%  Similarity=0.699  Sum_probs=35.0

Q ss_pred             ccccccccccccCCcceeecc--CceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNEAREMPC--KHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC--~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      .+|+||.+.+..    -++.|  +|+-|..|=.   +.++.||.||.+|..
T Consensus        49 leCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   49 LDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             ccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            689999999985    45667  6999999965   467899999999974

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

Probab=87.51  E-value=0.26  Score=47.41  Aligned_cols=51  Identities=24%  Similarity=0.561  Sum_probs=38.0

Q ss_pred             cccccccccccccCCc-ceeeccC-----ceechhhHHHHhh--cCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNE-AREMPCK-----HIYHEDCILPWLK--MRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~-~~~lpC~-----H~FH~~CI~~WL~--~~~sCP~CR~~l~~~  246 (351)
                      +..|-||.++...... ..+.||.     +..|..|+..|+.  ....|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4689999998765332 4667753     6789999999997  445799998865444

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

Probab=87.19  E-value=0.51  Score=41.97  Aligned_cols=51  Identities=25%  Similarity=0.593  Sum_probs=35.1

Q ss_pred             cccccccccccccCCcceeec------------cCc-eechhhHHHHhhc------------------------------
Q 045745          196 ECHCAVCKEAFELGNEAREMP------------CKH-IYHEDCILPWLKM------------------------------  232 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lp------------C~H-~FH~~CI~~WL~~------------------------------  232 (351)
                      +..|+||||-=-.   ++.|-            |.. .=|..||++.-+.                              
T Consensus         2 d~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            5689999997443   44443            443 3478999987531                              


Q ss_pred             -CCCCCCCCCCCCcchhh
Q 045745          233 -RNSCPVCRQELPAAAAA  249 (351)
Q Consensus       233 -~~sCP~CR~~l~~~~~~  249 (351)
                       +-.||+||-+|..+...
T Consensus        79 ~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccccCccccCceeceEEc
Confidence             12599999999888654

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

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

Probab=87.03  E-value=0.7  Score=32.29  Aligned_cols=34  Identities=24%  Similarity=0.398  Sum_probs=27.2

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEee
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQI   44 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi   44 (351)
                      ..|-|-.|...+..... ...+.||+|++-++-..
T Consensus         2 ~~y~C~~CG~~~~~~~~-~~~~~Cp~CG~~~~~~~   35 (46)
T PRK00398          2 AEYKCARCGREVELDEY-GTGVRCPYCGYRILFKE   35 (46)
T ss_pred             CEEECCCCCCEEEECCC-CCceECCCCCCeEEEcc
Confidence            35999999999888754 33899999999888543

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

Probab=86.83  E-value=0.18  Score=54.51  Aligned_cols=48  Identities=21%  Similarity=0.546  Sum_probs=39.0

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCC--CCCCCCCCCCcchh
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN--SCPVCRQELPAAAA  248 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~--sCP~CR~~l~~~~~  248 (351)
                      ..|.||++    -+.+...+|+|.||..|+..-+....  .||+||..+.....
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l  504 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL  504 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence            68999999    24578889999999999999886433  59999998766543

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

Probab=86.44  E-value=0.32  Score=34.69  Aligned_cols=33  Identities=27%  Similarity=0.742  Sum_probs=23.4

Q ss_pred             eeccC-ceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          214 EMPCK-HIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       214 ~lpC~-H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .+.|. |..|-.|+..-|.....||+|..+||..
T Consensus        15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            44575 9999999999999999999999998864

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.

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=86.34  E-value=0.69  Score=38.78  Aligned_cols=33  Identities=33%  Similarity=0.892  Sum_probs=26.4

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeec
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIE   45 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~   45 (351)
                      ..+||..|.....+..   ....||.|++.-++-+.
T Consensus        69 ~~~~C~~Cg~~~~~~~---~~~~CP~Cgs~~~~i~~  101 (113)
T PRK12380         69 AQAWCWDCSQVVEIHQ---HDAQCPHCHGERLRVDT  101 (113)
T ss_pred             cEEEcccCCCEEecCC---cCccCcCCCCCCcEEcc
Confidence            5799999998887764   36779999998777654

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=86.03  E-value=0.66  Score=39.16  Aligned_cols=35  Identities=14%  Similarity=0.338  Sum_probs=26.5

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeecc
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIET   46 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~~   46 (351)
                      ...||..|...+.+...  ....||.|++..++-+..
T Consensus        70 ~~~~C~~Cg~~~~~~~~--~~~~CP~Cgs~~~~i~~G  104 (117)
T PRK00564         70 VELECKDCSHVFKPNAL--DYGVCEKCHSKNVIITQG  104 (117)
T ss_pred             CEEEhhhCCCccccCCc--cCCcCcCCCCCceEEecC
Confidence            57999999987766542  244599999998886643

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=85.85  E-value=0.55  Score=39.31  Aligned_cols=33  Identities=24%  Similarity=0.422  Sum_probs=24.8

Q ss_pred             CceecccCCceeecCcCCCCCccCCCCCCCceEeec
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDTTCPHCHGGFIEQIE   45 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~~CP~C~~GFvEEi~   45 (351)
                      ...||..|.....+...   ...||.|++..++-+.
T Consensus        69 ~~~~C~~Cg~~~~~~~~---~~~CP~Cgs~~~~i~~  101 (113)
T PF01155_consen   69 ARARCRDCGHEFEPDEF---DFSCPRCGSPDVEIIS  101 (113)
T ss_dssp             -EEEETTTS-EEECHHC---CHH-SSSSSS-EEEEE
T ss_pred             CcEECCCCCCEEecCCC---CCCCcCCcCCCcEEcc
Confidence            57999999999998873   6899999999887664

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

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

Probab=85.36  E-value=0.41  Score=50.47  Aligned_cols=47  Identities=30%  Similarity=0.788  Sum_probs=40.3

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcchh
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAA  248 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~  248 (351)
                      ....|.||++++    ..+..+|.   |..|+.+|+..+..||+|+..+..++.
T Consensus       478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF  524 (543)
T ss_pred             ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence            346899999998    46888899   999999999999999999987766643

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.44  E-value=0.36  Score=46.06  Aligned_cols=51  Identities=29%  Similarity=0.627  Sum_probs=35.8

Q ss_pred             CCCcccccccccccccCCcc-eeecc-----CceechhhHHHHhhcC--------CCCCCCCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEA-REMPC-----KHIYHEDCILPWLKMR--------NSCPVCRQEL  243 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~-~~lpC-----~H~FH~~CI~~WL~~~--------~sCP~CR~~l  243 (351)
                      .+.+..|-||...=++.-.. =+-||     .|-.|..||..|+..+        .+||.|+.+.
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            34567899999876643222 34465     3889999999999421        2599999864

>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]

Probab=84.41  E-value=0.45  Score=35.85  Aligned_cols=29  Identities=24%  Similarity=0.521  Sum_probs=21.9

Q ss_pred             ecccCCceeecCcCCCCCccCCCCCCC-ceEeecc
Q 045745           13 WCYRCLRIVSSLSQFDGDTTCPHCHGG-FIEQIET   46 (351)
Q Consensus        13 wCh~C~r~V~~~~~~~~~~~CP~C~~G-FvEEi~~   46 (351)
                      =|+.|.+.+...     .-+||.|++. |.||-..
T Consensus         6 AC~~Ck~l~~~d-----~e~CP~Cgs~~~te~W~G   35 (64)
T COG2093           6 ACKNCKRLTPED-----TEICPVCGSTDLTEEWFG   35 (64)
T ss_pred             HHhhccccCCCC-----CccCCCCCCcccchhhcc
Confidence            399999876433     4689999996 8887654

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=84.01  E-value=0.97  Score=39.10  Aligned_cols=36  Identities=19%  Similarity=0.285  Sum_probs=26.2

Q ss_pred             CceecccCCceeecCc----------------CC--CCCccCCCCCCCceEeec
Q 045745           10 ESFWCYRCLRIVSSLS----------------QF--DGDTTCPHCHGGFIEQIE   45 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~----------------~~--~~~~~CP~C~~GFvEEi~   45 (351)
                      ..|||..|...+....                ++  .....||.|++.-++-+.
T Consensus        69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~  122 (135)
T PRK03824         69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVK  122 (135)
T ss_pred             eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEec
Confidence            6799999998887751                00  135779999998777553

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

Probab=83.67  E-value=0.55  Score=51.13  Aligned_cols=52  Identities=21%  Similarity=0.662  Sum_probs=39.0

Q ss_pred             CCcccccccccccccCCcceeeccC-----ceechhhHHHHhhcC--CCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCK-----HIYHEDCILPWLKMR--NSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~-----H~FH~~CI~~WL~~~--~sCP~CR~~l~~~  246 (351)
                      +++..|-||.-+=..++ +.-=||+     ...|.+|+..|+.-.  ..|-+|+.++...
T Consensus        10 ~d~~~CRICr~e~~~d~-pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk   68 (1175)
T COG5183          10 EDKRSCRICRTEDIRDD-PLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK   68 (1175)
T ss_pred             ccchhceeecCCCCCCC-cCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence            34578999998866644 4566776     468999999999744  3699999977543

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

Probab=82.31  E-value=1.1  Score=45.03  Aligned_cols=47  Identities=28%  Similarity=0.444  Sum_probs=40.8

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCC---CCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN---SCPVC  239 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~---sCP~C  239 (351)
                      ..+-..|+|=++.-.+...+..|.|||+..++=|.+-.+...   .||.|
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence            445678999999988888999999999999999999876544   69999

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

Probab=81.88  E-value=0.6  Score=47.61  Aligned_cols=36  Identities=25%  Similarity=0.528  Sum_probs=31.0

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM  232 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~  232 (351)
                      +++..|+||...|++   +++|||+|..|..|...-|.+
T Consensus         2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccC---ceEeecccHHHHHHHHhhccc
Confidence            456789999999986   899999999999999876643

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=81.61  E-value=1.2  Score=29.73  Aligned_cols=29  Identities=31%  Similarity=0.701  Sum_probs=22.8

Q ss_pred             CceecccCCceeecCcCC--CCCccCCCCCC
Q 045745           10 ESFWCYRCLRIVSSLSQF--DGDTTCPHCHG   38 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~--~~~~~CP~C~~   38 (351)
                      ..|.|-.|...+.+....  ...+.||.|++
T Consensus         4 Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~   34 (41)
T smart00834        4 YEYRCEDCGHTFEVLQKISDDPLATCPECGG   34 (41)
T ss_pred             EEEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence            579999999977665421  46789999998

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

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

Probab=80.21  E-value=0.82  Score=42.44  Aligned_cols=40  Identities=28%  Similarity=0.690  Sum_probs=28.8

Q ss_pred             ccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCc
Q 045745          199 CAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       199 C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      |-+|.+.   +..|..+||.|. +|..|=..    -.+||+|+.....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            7777665   345899999865 88999554    3459999886543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	351
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-12
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		5e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		7e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-05
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-04

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 37/52 (71%)
Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           HV S   C VCKE + LG   R++PC H++H+ CI+PWL+  +SCPVCR+ L
Sbjct: 11  HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           C +C    E G + R +PC H++H+ C+  WL     CP+CR ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 30/54 (55%)
Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
           G V  E  C +C   +  G+ A E+PC H +H+ C+  WL+   +CPVCR   P
Sbjct: 35  GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 27/41 (65%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVC 239
           CAVC E F+  +E    PCKH +H  C++ WL++R  CP+C
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 27/52 (51%)
Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQE 242
            H S +  C VC   FE     R +PC H +H  C+  WLK   +CP+CR +
Sbjct: 18  NHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCR 240
           CAVC    E G EAR +P C H +H +C+  WL   ++CP+CR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	351
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-37
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-28
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	1e-22
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-22
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-17
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	7e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	4e-11
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-09
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	9e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	7e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	9e-07
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	9e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	6e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	7e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	4e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	4e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-04

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score =  128 bits (325), Expect = 2e-37
 Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 2/88 (2%)

Query: 159 LSQIDLTALSRPENLPASKASIESMPSIEISSGH--VSSECHCAVCKEAFELGNEAREMP 216
           +            N PASK SI+++P I ++  H  V  E  C +C   +  G+ A E+P
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQELP 244
           C H +H+ C+  WL+   +CPVCR   P
Sbjct: 61  CHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score =  104 bits (261), Expect = 2e-28
 Identities = 28/59 (47%), Positives = 38/59 (64%)

Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAA 250
           HV S   C VCKE + LG   R++PC H++H+ CI+PWL+  +SCPVCR+ L     A 
Sbjct: 11  HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT 69

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score = 96.6 bits (241), Expect = 2e-25
 Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 1/75 (1%)

Query: 175 ASKASIESMPSIEISSGHVSSE-CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR 233
            S  S   +PS   +  +  SE   C VC   FE     R +PC H +H  C+  WLK  
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 234 NSCPVCRQELPAAAA 248
            +CP+CR +   ++ 
Sbjct: 61  RTCPICRADSGPSSG 75

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 88.6 bits (220), Expect = 1e-22
 Identities = 18/57 (31%), Positives = 31/57 (54%)

Query: 195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA 251
           +E  C +C    E G + R +PC H++H+ C+  WL     CP+CR ++ A   + +
Sbjct: 13  TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 88.7 bits (220), Expect = 2e-22
 Identities = 21/63 (33%), Positives = 33/63 (52%)

Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA 251
            ++    CAVC E F+  +E    PCKH +H  C++ WL++R  CP+C   +   A  + 
Sbjct: 11  ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSG 70

Query: 252 EES 254
             S
Sbjct: 71  PSS 73

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 75.1 bits (185), Expect = 2e-17
 Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 8/77 (10%)

Query: 178 ASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCP 237
            S  S   ++     ++ E  C +C +    G     +PC H + + CI  W     +CP
Sbjct: 1   GSSGSSGRVK----QLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCP 52

Query: 238 VCRQELPAAAAAAAEES 254
           +CR ++  A  ++   S
Sbjct: 53  ICRLQMTGANESSGPSS 69

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 73.1 bits (180), Expect = 6e-17
 Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 1/48 (2%)

Query: 194 SSECHCAVCKEAFELGNE-AREMPCKHIYHEDCILPWLKMRNSCPVCR 240
           S    C +C E        A  +PC H+ H  C    LK    CP+C 
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score = 67.2 bits (165), Expect = 7e-15
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQEL 243
           CAVC    E G EAR +P C H +H +C+  WL   ++CP+CR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 66.3 bits (162), Expect = 2e-14
 Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           C +C E     N +  +PC H +   CI  W++   +CP+C+  +
Sbjct: 8   CPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 64.2 bits (156), Expect = 2e-13
 Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 1/46 (2%)

Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQEL 243
           C  C+   +  +       C H +H  C+  W+K  N CP+C+Q+ 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

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

 Score = 61.1 bits (148), Expect = 2e-12
 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 189 SSGHVSSECHCAVCKEAFE----LGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           +    S    C +C + +      G       C H++   C+   LK  N+CP CR+++
Sbjct: 8   TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 57.1 bits (138), Expect = 4e-11
 Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 199 CAVCKEAFELGNEAREM----PCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           C +C + +    +   +     C H++   C+   LK  N+CP CR+++
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>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 = 56.8 bits (137), Expect = 5e-11
 Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 199 CAVCKEAFE----LGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           C +C + +      G       C H++   C+   LK  N+CP CR+++
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 54.1 bits (129), Expect = 1e-09
 Identities = 15/90 (16%), Positives = 30/90 (33%), Gaps = 16/90 (17%)

Query: 168 SRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMP----------- 216
                    +  ++   ++ + +  +  +  CA+C+          +             
Sbjct: 10  GTNSGAGKKRFEVKKWNAVALWAWDIVVDN-CAICRNHIMDLCIECQANQASATSEECTV 68

Query: 217 ----CKHIYHEDCILPWLKMRNSCPVCRQE 242
               C H +H  CI  WLK R  CP+  +E
Sbjct: 69  AWGVCNHAFHFHCISRWLKTRQVCPLDNRE 98

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

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQE 242
           C +C++AF+         C+H + E C L   +    C +C Q 
Sbjct: 18  CFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
           CA+C +          +PCKH++   C+     +   C +CRQE+P
Sbjct: 18  CAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

>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 = 55.9 bits (134), Expect = 6e-09
 Identities = 22/87 (25%), Positives = 33/87 (37%), Gaps = 7/87 (8%)

Query: 158 QLSQIDLTALSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPC 217
           +    DLT L  P      K + E     E+     S+   C +C E      + +  PC
Sbjct: 297 RNQNPDLTGLCEPTPQDHIKVTQEQY---ELYCEMGSTFQLCKICAEND---KDVKIEPC 350

Query: 218 KHIYHEDCILPWLKMRN-SCPVCRQEL 243
            H+    C+  W +     CP CR E+
Sbjct: 351 GHLMCTSCLTSWQESEGQGCPFCRCEI 377

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

 Score = 50.9 bits (122), Expect = 8e-09
 Identities = 13/66 (19%), Positives = 24/66 (36%), Gaps = 6/66 (9%)

Query: 178 ASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCP 237
            S  S  ++      ++    C++CK      +      C H + + CI+      N CP
Sbjct: 1   GSSGSSGNLS----ELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCP 54

Query: 238 VCRQEL 243
            C   +
Sbjct: 55  KCNIVV 60

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 51.8 bits (123), Expect = 1e-08
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 197 CHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQE 242
             C   + +            C H +H  CI  WLK R  CP+  +E
Sbjct: 63  IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 109

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 48.4 bits (115), Expect = 6e-08
 Identities = 10/48 (20%), Positives = 14/48 (29%), Gaps = 4/48 (8%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNS--CPVCRQELP 244
           C +C      G       C    H  C+  + +      CP C    P
Sbjct: 18  CNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 63

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

 Score = 48.7 bits (116), Expect = 9e-08
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)

Query: 193 VSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWL-KMRNSCPVCRQELP 244
           ++    C +C E      +AR  P C  +    CI  WL + R  CP CR  L 
Sbjct: 19  IAEVFRCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ 69

>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 = 48.3 bits (115), Expect = 1e-07
 Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 2/51 (3%)

Query: 193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           ++    C +C   F   +    + C H + + CI+ +L+    CP+C  ++
Sbjct: 12  LNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 47.5 bits (113), Expect = 3e-07
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%)

Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQEL 243
             + S+  C +C  A     EA + PC H + + CI+  ++   + CPV  + L
Sbjct: 13  PPLESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 46.4 bits (109), Expect = 7e-07
 Identities = 16/87 (18%), Positives = 25/87 (28%), Gaps = 20/87 (22%)

Query: 174 PASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREM---------------PCK 218
             S    E +         V+ E  C +C E   + +   +M                C 
Sbjct: 3   SGSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCS 62

Query: 219 HIYHEDCILPWLK-----MRNSCPVCR 240
           H +H  C+L             CP C+
Sbjct: 63  HAFHLLCLLAMYCNGNKDGSLQCPSCK 89

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

 Score = 47.1 bits (111), Expect = 7e-07
 Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 4/56 (7%)

Query: 192 HVSSECHCAVCKEAFELGNEARE----MPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
             S    C +C + +    +         C H++   C+   LK  N+CP CR+++
Sbjct: 68  IGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 44.8 bits (105), Expect = 4e-06
 Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 4/50 (8%)

Query: 199 CAVCKEAFELGNEARE----MPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
           C +C + +    +         C H++   C+   LK  N+CP CR+++ 
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 47.0 bits (111), Expect = 9e-07
 Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 3/50 (6%)

Query: 195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
           +E  C +C E F    EA  + C H +   CI  W+K +  CP+CR+++ 
Sbjct: 63  NELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109

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

 Score = 47.4 bits (112), Expect = 9e-07
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELP 244
             + S+  C +C  A     EA + PC H + + CI+  ++   + CPV  + L 
Sbjct: 13  PPLESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

>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 = 46.3 bits (109), Expect = 2e-06
 Identities = 13/78 (16%), Positives = 24/78 (30%), Gaps = 4/78 (5%)

Query: 168 SRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCIL 227
           +     P S   ++   S  +    + ++  C+ C+          +  C H Y   C+ 
Sbjct: 3   AASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACRNVLR---RPFQAQCGHRYCSFCLA 59

Query: 228 PWLKMRNS-CPVCRQELP 244
             L      C  C  E  
Sbjct: 60  SILSSGPQNCAACVHEGI 77

>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 = 45.3 bits (107), Expect = 2e-06
 Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 4/57 (7%)

Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNS-CPVCRQELPAA 246
            H      C +C+       +  E  CKH++   CIL  LK+  S CP CR      
Sbjct: 18  AHFVKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 46.7 bits (110), Expect = 3e-06
 Identities = 10/55 (18%), Positives = 16/55 (29%), Gaps = 4/55 (7%)

Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNS--CPVCRQELP 244
           +  +   C +C      G       C    H  C+  + +      CP C    P
Sbjct: 176 YPDAVKICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 228

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

 Score = 42.8 bits (100), Expect = 6e-06
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 199 CAVCKEAFELGNEA-REMPCKHIYHEDCILPWLKMRN-SCPVCRQELP 244
           C +C E  E+ +       C +     C        N  CP CR+  P
Sbjct: 14  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 61

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 42.0 bits (99), Expect = 7e-06
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 6/53 (11%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA 251
           C  C+         + +PC H     C+         CP+C+   P  A   A
Sbjct: 9   CQQCQAEA---KCPKLLPCLHTLCSGCLE---ASGMQCPICQAPWPLGADTPA 55

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 43.4 bits (102), Expect = 1e-05
 Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 4/75 (5%)

Query: 171 ENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWL 230
           E L + K    S    ++    V     C  C+E            C+H   +DC+    
Sbjct: 27  EVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVF---RPITTVCQHNVCKDCLDRSF 83

Query: 231 KMR-NSCPVCRQELP 244
           + +  SCP CR +L 
Sbjct: 84  RAQVFSCPACRYDLG 98

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 43.8 bits (103), Expect = 1e-05
 Identities = 15/76 (19%), Positives = 25/76 (32%), Gaps = 4/76 (5%)

Query: 170 PENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPW 229
            +N       +  +         +     C  C+E      +     C H   +DC+   
Sbjct: 52  CQNQKLWDEVLSHLVEGPNFLKKLEQSFMCVCCQELVY---QPVTTECFHNVCKDCLQRS 108

Query: 230 LKMRN-SCPVCRQELP 244
            K +  SCP CR +L 
Sbjct: 109 FKAQVFSCPACRHDLG 124

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

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 4/52 (7%)

Query: 193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQEL 243
           V  +  C  C          ++  C H + E C+   L      C  C++ +
Sbjct: 12  VEDKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESI 60

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

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 4/52 (7%)

Query: 193 VSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQEL 243
           +     C +C E F   N A  +P C H Y   CI  +L  +  CP C   +
Sbjct: 19  IDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 40.5 bits (95), Expect = 3e-05
 Identities = 18/73 (24%), Positives = 27/73 (36%), Gaps = 13/73 (17%)

Query: 175 ASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR 233
            S  S      I         E  C +CK+      +A  +P C + Y ++CI   L   
Sbjct: 1   GSSGSSGEDDPIP-------DELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLES 50

Query: 234 N--SCPVCRQELP 244
           +  +CP C Q   
Sbjct: 51  DEHTCPTCHQNDV 63

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster} Length = 381

 Score = 44.5 bits (104), Expect = 3e-05
 Identities = 15/71 (21%), Positives = 22/71 (30%), Gaps = 16/71 (22%)

Query: 199 CAVCKEAFELGNEAREM-----PCKHIYHEDCILPWLKMRNS-----------CPVCRQE 242
           C +C      G E   +      C    H  C+  W K               CP C+ +
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370

Query: 243 LPAAAAAAAEE 253
           L  + AA   +
Sbjct: 371 LSTSFAALLND 381

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAAAAAAAEE 253
           SEC C +C E      E   +PC H   + C    ++  +  CP CR+ + +        
Sbjct: 14  SECQCGICMEILV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70

Query: 254 SS 255
           +S
Sbjct: 71  NS 72

>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 = 40.7 bits (94), Expect = 4e-04
 Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 8/81 (9%)

Query: 167 LSRPENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCI 226
            + P  +     +      ++I  G +     C +  + +E         C H++  D I
Sbjct: 154 WNDPTCVIPDLQNPADEDDLQIEGGKIEL--TCPITCKPYE--APLISRKCNHVFDRDGI 209

Query: 227 LPWLKMRNS--CPV--CRQEL 243
             +L+   +  CP   C Q +
Sbjct: 210 QNYLQGYTTRDCPQAACSQVV 230

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 38.2 bits (89), Expect = 4e-04
 Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 189 SSGHVSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWL--KMRNSCPVCRQE 242
               +  E  C +CK+      +A  +P C + Y ++CI   L     ++CP C Q 
Sbjct: 6   EDDPIPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	351
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.71
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.64
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.54
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.51
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.49
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.42
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.4
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.38
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.38
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.38
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.36
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.33
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.32
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.3
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.29
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.29
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.28
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.28
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.24
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.24
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.23
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.23
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.21
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.21
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.2
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.17
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.16
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.15
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.14
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.14
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.14
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.12
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.1
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.1
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.08
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.06
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.01
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.01
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.0
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.99
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.97
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.94
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.93
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.92
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.91
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.91
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.89
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.88
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.88
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.81
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.81
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.77
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.7
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.62
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.6
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.55
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.54
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.5
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.42
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.4
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.4
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.28
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.23
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.85
3nw0_A	238	Non-structural maintenance of chromosomes element	97.83
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.57
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.91
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.9
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	90.48
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	88.35
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	87.03
1we9_A	64	PHD finger family protein; structural genomics, PH	86.94
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	86.93
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	85.27
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	83.89
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	82.05
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	81.71
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	81.09
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	81.05
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	80.21

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

Probab=99.71  E-value=1.1e-17  Score=133.19  Aligned_cols=77  Identities=39%  Similarity=0.877  Sum_probs=68.9

Q ss_pred             CCCCCCCCHHHHhcCCceeeecCC--CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          169 RPENLPASKASIESMPSIEISSGH--VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       169 ~~~~~pas~~~i~~lp~~~~~~~~--~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      .....+++++.|+.||.+++....  ...+..|+||++.|..++.++.|||+|.||..||..||+.+.+||+||..|..
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            467889999999999999987654  34567899999999999989999999999999999999999999999998865

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

Probab=99.64  E-value=7.4e-17  Score=123.33  Aligned_cols=71  Identities=32%  Similarity=0.736  Sum_probs=61.1

Q ss_pred             CHHHHhcCCceeeecCC-CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          176 SKASIESMPSIEISSGH-VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       176 s~~~i~~lp~~~~~~~~-~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +.+.+++||.++++... ...+..|+||++.|..++.++.|||+|.||..||.+||+.+.+||+||+++...
T Consensus         2 s~~~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            2 SSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCCCCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             cHhhHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            34567889999887643 345678999999999988889999999999999999999999999999988653

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

Probab=99.54  E-value=4.6e-15  Score=106.30  Aligned_cols=51  Identities=39%  Similarity=0.925  Sum_probs=46.8

Q ss_pred             CCcccccccccccccCCcceeec-cCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      +++.+|+||++.|+.++.+..++ |+|.||..||.+|++.+.+||+||.+|.
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            34578999999999988899998 9999999999999999999999999874

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

Probab=99.51  E-value=7.7e-15  Score=112.60  Aligned_cols=56  Identities=46%  Similarity=1.188  Sum_probs=49.8

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcchh
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAA  248 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~  248 (351)
                      ...+..|+||++.|...+.++.|+|+|.||..||.+||+.+.+||+||.++.....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            44567899999999988888889999999999999999999999999999877643

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

Probab=99.51  E-value=9.7e-15  Score=109.46  Aligned_cols=53  Identities=34%  Similarity=0.979  Sum_probs=48.2

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..+..|+||++.|..++.++.++|+|.||..||..||+.+.+||+||..|...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            44578999999999888899999999999999999999999999999988764

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

Probab=99.49  E-value=1.5e-14  Score=109.85  Aligned_cols=54  Identities=37%  Similarity=0.878  Sum_probs=48.4

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ..+..|+||++.|.....++.|+|+|.||..||..||+.+.+||+||.+|....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            445789999999998888889999999999999999999999999999886543

>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=99.42  E-value=9.2e-14  Score=99.30  Aligned_cols=50  Identities=28%  Similarity=0.657  Sum_probs=43.8

Q ss_pred             CcccccccccccccC-CcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELG-NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      .+..|+||++.|..+ +.++.++|+|.||..||.+|++.+.+||+||.+|.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            456899999999654 35778899999999999999999999999999875

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

Probab=99.40  E-value=8.6e-14  Score=108.36  Aligned_cols=51  Identities=27%  Similarity=0.685  Sum_probs=42.1

Q ss_pred             cccccccccccc-----------cCCcceeec-cCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFE-----------LGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~-----------~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|+||++.|+           .++.++.++ |+|.||.+||.+||+.+++||+||+++...
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            456888888775           345567776 999999999999999999999999988654

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.38  E-value=1.9e-13  Score=112.19  Aligned_cols=50  Identities=30%  Similarity=0.599  Sum_probs=42.8

Q ss_pred             CcccccccccccccCC---------------cceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGN---------------EAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~---------------~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      .+..|+||++.|+..-               .++.++|+|.||..||.+||+.+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4578999999998531               3566889999999999999999999999999864

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

Probab=99.38  E-value=2.4e-13  Score=111.53  Aligned_cols=52  Identities=25%  Similarity=0.598  Sum_probs=42.3

Q ss_pred             CcccccccccccccCC---------------cceeeccCceechhhHHHHh-----hcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGN---------------EAREMPCKHIYHEDCILPWL-----KMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~---------------~~~~lpC~H~FH~~CI~~WL-----~~~~sCP~CR~~l~~~  246 (351)
                      .+..|+||++.|....               .++.++|+|.||..||..||     +.+.+||+||..+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3468999999997643               23478899999999999999     4567999999987654

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

Probab=99.38  E-value=2.7e-13  Score=100.90  Aligned_cols=52  Identities=25%  Similarity=0.664  Sum_probs=44.6

Q ss_pred             CCcccccccccccccC----CcceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          194 SSECHCAVCKEAFELG----NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ..+..|+||++.|...    ..++.++|+|.||..||..||+.+.+||+||.+|..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4557899999999863    334788999999999999999999999999998753

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

Probab=99.36  E-value=2.4e-13  Score=101.95  Aligned_cols=53  Identities=26%  Similarity=0.719  Sum_probs=45.6

Q ss_pred             CCccccccccccccc----CCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFEL----GNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~----g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .++..|+||++.|..    ++.++.++|+|.||..||.+|++.+.+||+||.++...
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            345789999999975    24457889999999999999999999999999988754

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

Probab=99.33  E-value=4.7e-13  Score=98.12  Aligned_cols=51  Identities=24%  Similarity=0.645  Sum_probs=44.5

Q ss_pred             cccccccccccccC----CcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELG----NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|+||++.|...    +.+..++|+|.||..||.+|++.+.+||+||.++...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            46899999999752    4457889999999999999999999999999988754

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

Probab=99.32  E-value=6.3e-13  Score=100.35  Aligned_cols=50  Identities=28%  Similarity=0.660  Sum_probs=44.3

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..+..|+||++.|..   ++.++|+|.||..||..|++.+.+||+||..|...
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            345789999999875   68889999999999999999999999999998754

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

Probab=99.30  E-value=1.2e-12  Score=97.52  Aligned_cols=50  Identities=24%  Similarity=0.707  Sum_probs=43.8

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .+..|+||++.+..  .++.++|+|.||..||..|++.+.+||+||..+...
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhh
Confidence            35689999999874  358899999999999999999999999999988654

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

Probab=99.29  E-value=1.2e-12  Score=102.12  Aligned_cols=52  Identities=25%  Similarity=0.666  Sum_probs=44.0

Q ss_pred             CcccccccccccccCCcceeeccC-----ceechhhHHHHhhcCC--CCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFELGNEAREMPCK-----HIYHEDCILPWLKMRN--SCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~-----H~FH~~CI~~WL~~~~--sCP~CR~~l~~~~  247 (351)
                      ++..|.||+++|+.++. .++||+     |.||.+||.+||+.++  +||+||..+....
T Consensus        14 ~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           14 SQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            45689999999987665 479997     9999999999998664  8999999987654

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

Probab=99.29  E-value=1.8e-12  Score=98.07  Aligned_cols=52  Identities=23%  Similarity=0.578  Sum_probs=44.6

Q ss_pred             CCCcccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      +..+..|+||++.|..   ++.+ +|+|.||..||..||+.+.+||+||..+...+
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           12 LTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCGGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             cCCCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            3456789999999985   4555 99999999999999999999999999987654

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

Probab=99.28  E-value=6e-13  Score=99.89  Aligned_cols=50  Identities=28%  Similarity=0.790  Sum_probs=44.3

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ..+..|+||++.+..    +.++|+|.||..||..|++.+.+||+||.++....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            445789999999885    78999999999999999999999999999887553

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

Probab=99.28  E-value=2.3e-12  Score=100.42  Aligned_cols=55  Identities=20%  Similarity=0.501  Sum_probs=46.7

Q ss_pred             CCCCcccccccccccccCCc-ceeeccCceechhhHHHHhhcC---CCCCCCCCCCCcc
Q 045745          192 HVSSECHCAVCKEAFELGNE-AREMPCKHIYHEDCILPWLKMR---NSCPVCRQELPAA  246 (351)
Q Consensus       192 ~~~~~~~C~ICle~~~~g~~-~~~lpC~H~FH~~CI~~WL~~~---~sCP~CR~~l~~~  246 (351)
                      .+.++..|+||++.|...+. ++.++|+|.||..||..|++.+   .+||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            34456789999999987664 7889999999999999999876   6899999987654

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

Probab=99.24  E-value=5e-12  Score=95.34  Aligned_cols=51  Identities=20%  Similarity=0.532  Sum_probs=43.2

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhh---cCCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK---MRNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~---~~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++   .+..||+||.++...
T Consensus        17 ~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           17 LQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             CccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            3456789999999985   67889999999999999997   455899999988654

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

Probab=99.24  E-value=4.9e-12  Score=97.69  Aligned_cols=48  Identities=25%  Similarity=0.658  Sum_probs=43.0

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      .....|+||++.|..   ++.++|+|.||..||..|++...+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            345789999999975   678999999999999999999999999999986

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

Probab=99.23  E-value=6e-12  Score=95.86  Aligned_cols=51  Identities=29%  Similarity=0.684  Sum_probs=43.1

Q ss_pred             CCCcccccccccccccCCcceeec-cCceechhhHHHHhhcC--CCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR--NSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~--~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.++ |+|.||..||..||+.+  .+||+||.++...
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           12 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             SCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            3456789999999985   67899 99999999999999865  5899999976543

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

Probab=99.23  E-value=5.3e-12  Score=93.79  Aligned_cols=50  Identities=18%  Similarity=0.565  Sum_probs=42.5

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCCCCCCCcc
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPAA  246 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~~  246 (351)
                      .++..|+||++.+..   +..++|+|.||..||..|++ .+.+||+||.++..+
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            456789999999975   45689999999999999995 566899999988654

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

Probab=99.21  E-value=4.5e-12  Score=107.90  Aligned_cols=50  Identities=32%  Similarity=0.852  Sum_probs=44.3

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      .+..|+||++.|..   ++.+||+|.||..||..|+..+.+||+||.+|....
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT  101 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEE
T ss_pred             ccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCC
Confidence            34579999999975   788999999999999999999999999999987653

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=99.21  E-value=1.4e-12  Score=108.82  Aligned_cols=50  Identities=30%  Similarity=0.648  Sum_probs=0.9

Q ss_pred             Cccccccccccccc-------------CC--cceeeccCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFEL-------------GN--EAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~-------------g~--~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      .+..|+||++.|+.             ++  .+..++|+|.||..||.+||+.+++||+||.++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            45689999999975             22  2333589999999999999999999999999764

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

Probab=99.20  E-value=1.1e-11  Score=94.92  Aligned_cols=51  Identities=20%  Similarity=0.421  Sum_probs=44.5

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      +.++..|+||++.|..   ++.++|+|.||..||..||+. +.+||+||.++...
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CcccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            3456799999999985   678899999999999999987 77999999988654

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

Probab=99.17  E-value=2.5e-12  Score=103.75  Aligned_cols=50  Identities=30%  Similarity=0.650  Sum_probs=43.3

Q ss_pred             CcccccccccccccCCccee-eccCceechhhHHHHhhcC-CCCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFELGNEARE-MPCKHIYHEDCILPWLKMR-NSCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~-lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~~~  247 (351)
                      .+..|+||++.|..   ++. ++|+|.||..||..|++.+ .+||+||.++....
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           21 EVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            45789999999984   566 8999999999999999887 69999999986543

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

Probab=99.16  E-value=7e-12  Score=95.81  Aligned_cols=51  Identities=29%  Similarity=0.583  Sum_probs=43.8

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhc-------CCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-------RNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-------~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++.       ..+||+||..+...
T Consensus         9 ~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            9 VQEEVTCPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCEETTTTEECSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cccCCCCcCCCcccCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            3456789999999975   677899999999999999986       56899999998764

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

Probab=99.15  E-value=2.1e-11  Score=93.87  Aligned_cols=51  Identities=27%  Similarity=0.692  Sum_probs=43.7

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhc------CCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM------RNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~------~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++.      ...||+||..+...
T Consensus        16 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           16 IKEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CCTTTSCTTTCSCCSS---CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             CccCCCCcCCChhhCc---ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            3456789999999975   568999999999999999987      66899999988754

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

Probab=99.14  E-value=2.9e-11  Score=88.83  Aligned_cols=44  Identities=23%  Similarity=0.593  Sum_probs=38.0

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhh---cCCCCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK---MRNSCPVC  239 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~---~~~sCP~C  239 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++   ...+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSS---CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCC---eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4456789999999985   67889999999999999998   45589998

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

Probab=99.14  E-value=2.2e-11  Score=93.74  Aligned_cols=51  Identities=29%  Similarity=0.683  Sum_probs=43.9

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhc------CCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM------RNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~------~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++.      ...||+||..+...
T Consensus        16 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCCCTTTCSCCSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             ccCCCCCCCCCcccCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            3455789999999975   677899999999999999987      77899999988754

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

Probab=99.14  E-value=2.8e-11  Score=93.13  Aligned_cols=49  Identities=20%  Similarity=0.573  Sum_probs=41.8

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcC--CCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR--NSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~--~sCP~CR~~l~~~  246 (351)
                      ...|+||++.|..++...  .|+|.||..||.+||+.+  .+||+||.++...
T Consensus        15 i~~C~IC~~~i~~g~~C~--~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SCBCSSSCCBCSSSEECS--SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCcCcchhhHcccCCccC--CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            368999999999764333  799999999999999987  7999999987654

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

Probab=99.12  E-value=2.2e-11  Score=101.18  Aligned_cols=53  Identities=23%  Similarity=0.632  Sum_probs=45.8

Q ss_pred             CcccccccccccccC----CcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFELG----NEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ++..|+||++.|+..    +.++.++|+|.||..||..||+.+.+||+||..+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            457899999999752    44588999999999999999999999999999886543

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

Probab=99.12  E-value=1.7e-11  Score=99.78  Aligned_cols=51  Identities=24%  Similarity=0.672  Sum_probs=44.4

Q ss_pred             CCCcccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.+ +|+|.||..||..|++.+.+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhC---cCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            4456789999999975   5666 9999999999999999999999999998764

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

Probab=99.10  E-value=5.1e-11  Score=93.93  Aligned_cols=49  Identities=31%  Similarity=0.702  Sum_probs=42.2

Q ss_pred             CCCcccccccccccccCCcceeec-cCceechhhHHHHhhcC--CCCCCCCCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR--NSCPVCRQELP  244 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~--~sCP~CR~~l~  244 (351)
                      +..+..|+||++.|..   ++.++ |+|.||..||..|+..+  .+||+||..+.
T Consensus        10 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4456799999999985   78899 99999999999999754  48999999873

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

Probab=99.10  E-value=4e-11  Score=95.97  Aligned_cols=48  Identities=29%  Similarity=0.709  Sum_probs=42.4

Q ss_pred             cccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|+||++.|..   ++.+ +|+|.||..||..|+..+.+||+||..+...
T Consensus        22 ~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           22 LLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCcccCChhhCC---cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            4689999999985   5566 8999999999999999999999999988764

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

Probab=99.09  E-value=4.4e-11  Score=85.96  Aligned_cols=44  Identities=32%  Similarity=0.798  Sum_probs=37.1

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHh---hcCCCCCCC
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWL---KMRNSCPVC  239 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL---~~~~sCP~C  239 (351)
                      +..+..|+||++.|+.   ++.++|+|.||..||..|+   +.+.+||+|
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3455789999999986   5678999999999999995   456689998

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

Probab=99.08  E-value=5.3e-11  Score=98.86  Aligned_cols=53  Identities=25%  Similarity=0.701  Sum_probs=45.4

Q ss_pred             Cccccccccccccc----CCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          195 SECHCAVCKEAFEL----GNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       195 ~~~~C~ICle~~~~----g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ....|+||++.|+.    +..++.++|+|.||..||.+||+.+.+||+||..+....
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            45689999999975    234478899999999999999999999999999987653

>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=99.06  E-value=3.5e-11  Score=105.09  Aligned_cols=51  Identities=29%  Similarity=0.736  Sum_probs=42.9

Q ss_pred             CCCcccccccccccccCCcceee-ccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          193 VSSECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      +..+..|+||++.|..   ++.+ +|+|.||..||..||+. +.+||+||..+...
T Consensus        51 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  103 (165)
T 2ckl_B           51 LHSELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK  103 (165)
T ss_dssp             CHHHHBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSG
T ss_pred             CCCCCCCcccChHhhC---cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCc
Confidence            3445789999999985   4555 99999999999999987 77899999998643

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=99.06  E-value=6.2e-11  Score=98.75  Aligned_cols=48  Identities=27%  Similarity=0.594  Sum_probs=42.3

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~  245 (351)
                      .+..|+||++.|..   ++.++|+|.||..||..|+..+. +||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            34689999999985   67889999999999999998555 89999999876

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

Probab=99.04  E-value=1.3e-10  Score=85.98  Aligned_cols=51  Identities=22%  Similarity=0.461  Sum_probs=40.8

Q ss_pred             ccccccccc-ccccCCcc-eeeccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKE-AFELGNEA-REMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle-~~~~g~~~-~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      +..|+||++ .|...... ..++|+|.||..||..|+.. ..+||+||..+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            468999999 77754322 46799999999999999764 45899999988654

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=99.01  E-value=4.5e-11  Score=103.56  Aligned_cols=49  Identities=29%  Similarity=0.604  Sum_probs=43.1

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~~  246 (351)
                      .+..|+||++.|..   ++.++|+|.||..||..|+.... +||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            34689999999985   67799999999999999998765 899999998765

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

Probab=99.01  E-value=1.2e-10  Score=94.69  Aligned_cols=49  Identities=24%  Similarity=0.733  Sum_probs=41.8

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcCC---CCCCCCCCCCcch
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN---SCPVCRQELPAAA  247 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~---sCP~CR~~l~~~~  247 (351)
                      ...|+||++.|..   ++.++|+|.||..||..|+..+.   +||+||..+....
T Consensus        21 ~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcC---eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            3589999999975   56789999999999999998654   8999999887643

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

Probab=99.00  E-value=1.6e-10  Score=95.65  Aligned_cols=52  Identities=27%  Similarity=0.603  Sum_probs=44.7

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~~~  247 (351)
                      +..+..|+||++.|..   ++.++|+|.||..||..|++... +||+||..+....
T Consensus        15 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           15 LESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcCChhhcC---eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            4456799999999985   57789999999999999998765 9999999987653

>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=98.99  E-value=6.1e-11  Score=97.46  Aligned_cols=49  Identities=29%  Similarity=0.766  Sum_probs=42.7

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      .+..|+||++.|..   ++.++|+|.||..||..|++. +.+||+||..+...
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSW   63 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHH
T ss_pred             CCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCcc
Confidence            35789999999985   788899999999999999976 66899999998753

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

Probab=98.97  E-value=3.9e-10  Score=88.51  Aligned_cols=52  Identities=17%  Similarity=0.188  Sum_probs=46.3

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      +..+..|+||++.|+.   +++++|||.|+..||..||..+.+||+|+.++....
T Consensus        11 ~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTD---PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESM   62 (85)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CchheECcccCchhcC---CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHh
Confidence            3456789999999996   789999999999999999998899999999987654

>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=98.94  E-value=3.7e-10  Score=92.88  Aligned_cols=49  Identities=31%  Similarity=0.687  Sum_probs=43.0

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcch
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAAA  247 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~~  247 (351)
                      +..|+||++.|..   ++.++|+|.||..||..|++. ..+||+||..+....
T Consensus        23 ~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            4689999999975   677999999999999999987 679999999987654

>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=98.93  E-value=6.1e-10  Score=90.17  Aligned_cols=52  Identities=19%  Similarity=0.206  Sum_probs=46.3

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      +..+..|+||++.|+.   +++++|+|.|+..||..||..+.+||+||.++....
T Consensus        26 ~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           26 APDEFRDPLMDTLMTD---PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             CSTTTBCTTTCSBCSS---EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             CcHhhCCcCccCcccC---CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            3456799999999996   789999999999999999998889999999987654

>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=98.92  E-value=4.7e-10  Score=110.89  Aligned_cols=49  Identities=27%  Similarity=0.695  Sum_probs=43.4

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCCCCCCCcch
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPAAA  247 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~~~  247 (351)
                      ...|+||++.+..   ++.+||+|.||..||..|+. .+.+||+||.++....
T Consensus       332 ~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            4689999999865   78899999999999999998 6789999999887653

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

Probab=98.91  E-value=3e-10  Score=82.04  Aligned_cols=46  Identities=22%  Similarity=0.625  Sum_probs=39.8

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ++..|+||++.|..   ++.|+|+|.||..||..|   ...||+||..+...
T Consensus         5 ~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            5 QFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             cCCCceEeCCccCC---eEEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            45689999999985   688999999999999885   66899999988754

>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=98.91  E-value=5.8e-10  Score=89.96  Aligned_cols=52  Identities=13%  Similarity=0.073  Sum_probs=46.2

Q ss_pred             CCcccccccccccccCCcceeeccC-ceechhhHHHHhhcCCCCCCCCCCCCcchh
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCK-HIYHEDCILPWLKMRNSCPVCRQELPAAAA  248 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~  248 (351)
                      ..+..|+||++.|+.   +++++|+ |.|+..||..||..+.+||+||.++.....
T Consensus        20 p~~~~CpI~~~~m~d---PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L   72 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             cHhcCCcCccccccC---CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhc
Confidence            456789999999996   7889999 999999999999988899999999876543

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

Probab=98.89  E-value=1.9e-10  Score=98.65  Aligned_cols=51  Identities=20%  Similarity=0.492  Sum_probs=43.5

Q ss_pred             CCCCcccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCc
Q 045745          192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPA  245 (351)
Q Consensus       192 ~~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~  245 (351)
                      .+..+..|+||++.|..   ++.++|+|.||..||..|++... +||+||.++..
T Consensus        27 ~l~~~~~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCCcCcCCCCCChhhcC---cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            34566899999999986   57789999999999999998665 89999998643

>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=1e-09  Score=85.03  Aligned_cols=54  Identities=22%  Similarity=0.530  Sum_probs=42.7

Q ss_pred             CCCcccccccccccccCCcceeec--cCceechhhHHHHhh-cCCCCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREMP--CKHIYHEDCILPWLK-MRNSCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lp--C~H~FH~~CI~~WL~-~~~sCP~CR~~l~~~~  247 (351)
                      +.++..|+||++.+...+ ++.+|  |+|.||..||..|++ ....||+||..+....
T Consensus         8 ~~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            455678999999986533 44555  999999999999985 4568999999887653

>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=98.88  E-value=8.5e-10  Score=81.97  Aligned_cols=48  Identities=23%  Similarity=0.434  Sum_probs=41.0

Q ss_pred             CcccccccccccccCCcceee--ccCce-echhhHHHHhhcCCCCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELGNEAREM--PCKHI-YHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~l--pC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      ++..|.||++.+..   +..+  ||+|. |+..|+..|++.+..||+||.++..
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            34689999998774   4555  99999 8999999999988999999998854

>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=98.81  E-value=2e-09  Score=79.69  Aligned_cols=48  Identities=21%  Similarity=0.437  Sum_probs=40.7

Q ss_pred             CcccccccccccccCCcceee--ccCce-echhhHHHHhhcCCCCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELGNEAREM--PCKHI-YHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~l--pC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      .+..|.||++.+..   +..+  ||+|. |+..|+..|.+....||+||.+|..
T Consensus         6 ~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            34689999998764   4455  99998 9999999999888899999998854

>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=98.81  E-value=1.3e-09  Score=89.87  Aligned_cols=46  Identities=22%  Similarity=0.591  Sum_probs=40.3

Q ss_pred             cccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|+||++.|..   ++.+ +|+|.||..||..|+.  ..||+||..+...
T Consensus        22 ~~~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           22 LLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             TTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             CCCCCCCChHhhC---ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            4689999999975   6777 9999999999999998  8899999988543

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

Probab=98.77  E-value=4.3e-10  Score=85.81  Aligned_cols=44  Identities=23%  Similarity=0.573  Sum_probs=39.0

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|.||++.+..   ++.+||+|. ||..|+..|    ..||+||..+...
T Consensus        24 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             CCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            4689999999875   788999999 999999999    8999999988654

>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=98.70  E-value=6.9e-09  Score=82.69  Aligned_cols=51  Identities=29%  Similarity=0.623  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCCcceeec-cCceechhhHHHHhhcC------CCCCC--CCCC-CCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR------NSCPV--CRQE-LPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~------~sCP~--CR~~-l~~~~  247 (351)
                      ..+..|+||++.|+.   +++++ |+|.|+..||..||..+      .+||+  |+.. +....
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~   65 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSD   65 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGG
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhh
Confidence            345789999999996   78886 99999999999999764      48999  9876 65544

>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=98.69  E-value=6.7e-09  Score=90.83  Aligned_cols=53  Identities=26%  Similarity=0.585  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccccCCcceeeccCceechhhHHHHhhcCC-CCCCCCCCCCcch
Q 045745          192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-SCPVCRQELPAAA  247 (351)
Q Consensus       192 ~~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCP~CR~~l~~~~  247 (351)
                      .+.++..|+||++.|..   ++.++|+|.||..||..||+... +||+||..|....
T Consensus        14 ~~~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           14 PLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCChhhcC---cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            34456799999999985   57789999999999999997654 9999999987653

>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=98.69  E-value=9.1e-09  Score=95.53  Aligned_cols=51  Identities=18%  Similarity=0.106  Sum_probs=44.0

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcC-CCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~~~  247 (351)
                      .....|+||++.|..   ++++||+|.||..||..||..+ .+||+||.++....
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CcccCCcCcCCHhcC---CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            356789999999986   7899999999999999999864 46999999997654

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

Probab=98.62  E-value=1.8e-08  Score=74.12  Aligned_cols=47  Identities=30%  Similarity=0.733  Sum_probs=37.0

Q ss_pred             CcccccccccccccCCcceeeccC--c---eechhhHHHHhhc--CCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMPCK--H---IYHEDCILPWLKM--RNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~--H---~FH~~CI~~WL~~--~~sCP~CR~~l~  244 (351)
                      +...|.||+++.  ++. .++||+  |   .||..||.+||..  +.+||+|+.++.
T Consensus         5 ~~~~CrIC~~~~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEEC--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCC--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            456899999983  233 468954  5   9999999999964  568999999775

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

Probab=98.60  E-value=1e-08  Score=99.41  Aligned_cols=52  Identities=25%  Similarity=0.600  Sum_probs=40.1

Q ss_pred             Cccccccccccccc-CCcce----eeccCceechhhHHHHhhcC-----------CCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFEL-GNEAR----EMPCKHIYHEDCILPWLKMR-----------NSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~-g~~~~----~lpC~H~FH~~CI~~WL~~~-----------~sCP~CR~~l~~~  246 (351)
                      ...+|+||++.+.. ++.+.    ...|+|.||..||.+||+..           .+||.||.+|...
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            44689999999987 33222    23599999999999999752           4699999988643

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

Probab=98.55  E-value=3.9e-08  Score=87.65  Aligned_cols=52  Identities=17%  Similarity=0.086  Sum_probs=44.6

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcC-CCCCCCCCCCCcchh
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQELPAAAA  248 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~~~~  248 (351)
                      ..+..|+||++.|..   ++++||||.|+..||..||..+ .+||+|+.++.....
T Consensus       104 p~~f~CPI~~elm~D---PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L  156 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQL  156 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cHhhcccCccccCCC---CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhC
Confidence            455789999999996   7888999999999999999864 479999999876543

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

Probab=98.54  E-value=2.1e-08  Score=76.40  Aligned_cols=44  Identities=23%  Similarity=0.577  Sum_probs=37.1

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|.||++.+..   ++.+||+|. ||..|+..    ...||+||.++...
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            3579999999875   778999999 99999965    37899999988653

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

Probab=98.50  E-value=6.3e-08  Score=72.78  Aligned_cols=45  Identities=27%  Similarity=0.664  Sum_probs=38.4

Q ss_pred             CcccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ++..|.||++.+..   ++.+||+|. ||..|+..    ...||+||..|...
T Consensus        14 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           14 NSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            45689999998764   788999999 99999984    47999999988654

>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=98.42  E-value=5.4e-08  Score=75.24  Aligned_cols=44  Identities=34%  Similarity=0.662  Sum_probs=38.2

Q ss_pred             cccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      +..|.||++.+..   +..+||+|. |+..|+..|    ..||+||..+...
T Consensus        18 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            3589999998775   788999999 999999987    4999999988664

>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=98.40  E-value=8.1e-08  Score=76.06  Aligned_cols=52  Identities=19%  Similarity=0.587  Sum_probs=39.9

Q ss_pred             CcccccccccccccCCcceeeccCceechhhHHHHhhc--------CCCCCC--CCCC--CCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM--------RNSCPV--CRQE--LPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~--------~~sCP~--CR~~--l~~~  246 (351)
                      ...+|+||++++...+.....+|+|.||.+||..|++.        ..+||.  |+..  +...
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~   67 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN   67 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHH
Confidence            34689999999886443333479999999999999963        137999  9998  6544

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.40  E-value=1.2e-07  Score=69.83  Aligned_cols=48  Identities=13%  Similarity=0.236  Sum_probs=42.9

Q ss_pred             ccccccccccccCCcceee-ccCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREM-PCKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      ..|+||++.|++   ++.+ +|+|.|...||.+||+.+.+||+++.+|...+
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            579999999995   6777 89999999999999998889999999987654

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.28  E-value=2.5e-07  Score=90.27  Aligned_cols=45  Identities=27%  Similarity=0.684  Sum_probs=39.7

Q ss_pred             CcccccccccccccCCcceeeccCce-echhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGNEAREMPCKHI-YHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      .+..|+||++.+..   ++.+||+|. ||..|+..|    ..||+||..+...
T Consensus       294 ~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            45789999999875   788999999 999999998    7899999988654

>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=98.23  E-value=4e-07  Score=85.46  Aligned_cols=52  Identities=23%  Similarity=0.523  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhcC--CCCCC--CCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR--NSCPV--CRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~--~sCP~--CR~~l~~~~  247 (351)
                      ..+..|+||++.|+.  .|+.+.|+|.|++.||..|++.+  .+||+  |+..+....
T Consensus       179 ~~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          179 KIELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             BCCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             ceeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            456789999999984  34445899999999999999764  37999  999876554

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

Probab=97.85  E-value=7.4e-06  Score=65.92  Aligned_cols=49  Identities=27%  Similarity=0.649  Sum_probs=39.6

Q ss_pred             cccccccccccCCcceeeccCceechhhHHHHhh-cCCCCCCCCCCCCcchh
Q 045745          198 HCAVCKEAFELGNEAREMPCKHIYHEDCILPWLK-MRNSCPVCRQELPAAAA  248 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCP~CR~~l~~~~~  248 (351)
                      .|.+|---+..  ..+.+||+|+||.+|+..|.+ ..++||.|+.+|..-+.
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            47777766653  468899999999999999985 46799999999876543

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

Probab=97.83  E-value=6.9e-06  Score=76.13  Aligned_cols=48  Identities=21%  Similarity=0.573  Sum_probs=40.0

Q ss_pred             cccccccccccccCCcceeec-cCceechhhHHHHhhcCC--CCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRN--SCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~--sCP~CR~~l~~~  246 (351)
                      -..|.||++....|.   ..+ |+|.||..|+..|++.+.  .||.|+...+..
T Consensus       180 i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            468999999998763   333 999999999999998765  899999977655

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=93.91  E-value=0.048  Score=40.36  Aligned_cols=44  Identities=23%  Similarity=0.623  Sum_probs=31.9

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhcCC----CCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRN----SCPVCRQE  242 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~----sCP~CR~~  242 (351)
                      ....|.||.+.    ..+..-. |...||..|+.+.|....    .||.|...
T Consensus        11 ~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            34679999853    2333333 999999999999986432    69999764

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

Probab=92.90  E-value=0.049  Score=42.72  Aligned_cols=33  Identities=18%  Similarity=0.553  Sum_probs=25.5

Q ss_pred             CcccccccccccccCCccee--eccCceechhhHHHH
Q 045745          195 SECHCAVCKEAFELGNEARE--MPCKHIYHEDCILPW  229 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~--lpC~H~FH~~CI~~W  229 (351)
                      ++..|.||++.+..  .++.  +.|+|.|+..||..|
T Consensus         2 ee~~C~~C~~~~~~--~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQ--DAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCC--BCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCC--CceEECCcCChHHhHHHCHHH
Confidence            34689999987543  2344  889999999999983

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=90.48  E-value=0.19  Score=41.07  Aligned_cols=33  Identities=18%  Similarity=0.407  Sum_probs=27.3

Q ss_pred             CceecccCCceeecCcCCCCCc-cCCCCCCCceEeec
Q 045745           10 ESFWCYRCLRIVSSLSQFDGDT-TCPHCHGGFIEQIE   45 (351)
Q Consensus        10 ~~ywCh~C~r~V~~~~~~~~~~-~CP~C~~GFvEEi~   45 (351)
                      ..|||..|...+.+..   ... .||.|++..++-+.
T Consensus        72 ~~~~C~~CG~~~e~~~---~~~~~CP~Cgs~~~~i~~  105 (119)
T 2kdx_A           72 VELECKDCSHVFKPNA---LDYGVCEKCHSKNVIITQ  105 (119)
T ss_dssp             CEEECSSSSCEECSCC---STTCCCSSSSSCCCEEEE
T ss_pred             ceEEcCCCCCEEeCCC---CCCCcCccccCCCcEEec
Confidence            5799999999988754   367 89999999887664

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=88.35  E-value=0.23  Score=35.94  Aligned_cols=44  Identities=32%  Similarity=0.727  Sum_probs=30.6

Q ss_pred             CCcccccccccccccCCcceeec-cCceechhhHHHHhhc----CCCCCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKM----RNSCPVCRQ  241 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~----~~sCP~CR~  241 (351)
                      ..+..|.||.+.   + .+.... |...||..|+.+=|..    .-.||.|..
T Consensus         9 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            345789999873   2 233333 8999999999986542    226999954

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=87.03  E-value=0.28  Score=35.47  Aligned_cols=45  Identities=33%  Similarity=0.600  Sum_probs=31.0

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhcC----CCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR----NSCPVCRQEL  243 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~----~sCP~CR~~l  243 (351)
                      .+..|.||.+.   + .+.... |...||..|+.+-|...    -.||.|....
T Consensus         8 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            8 HMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            45679999863   2 233333 99999999999766432    2699997653

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.94  E-value=0.16  Score=36.83  Aligned_cols=47  Identities=21%  Similarity=0.513  Sum_probs=33.0

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhh-----cCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLK-----MRNSCPVCRQ  241 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~-----~~~sCP~CR~  241 (351)
                      +...|.||...+..+...+... |..-||..|+.--..     ..-.||.|+.
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            4467999999886544444444 999999999875432     2346999965

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=86.93  E-value=0.42  Score=37.14  Aligned_cols=32  Identities=22%  Similarity=0.671  Sum_probs=23.2

Q ss_pred             CCcccccccccccccCCcceeec---cCceechhhHHHH
Q 045745          194 SSECHCAVCKEAFELGNEAREMP---CKHIYHEDCILPW  229 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp---C~H~FH~~CI~~W  229 (351)
                      ..+..|.||.-- ..   -..+|   |+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~~~-t~---~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEVW-TA---ESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCCC-CS---SCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccccc-cc---cceeccccccccccHhhcccc
Confidence            456789999732 22   13455   8899999999996

>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=85.27  E-value=0.53  Score=51.25  Aligned_cols=55  Identities=13%  Similarity=0.067  Sum_probs=47.0

Q ss_pred             CCcccccccccccccCCcceeeccC-ceechhhHHHHhhcCCCCCCCCCCCCcchhhhh
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCK-HIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA  251 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~~~~  251 (351)
                      .++..|+|-++.|++   ++++|-+ +.|-..+|.+||..+.+||+=|.+|......+.
T Consensus       889 P~~F~cPIs~~lM~D---PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN  944 (968)
T 3m62_A          889 PDEFLDPLMYTIMKD---PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPN  944 (968)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEEC
T ss_pred             cHHhCCcchhhHHhC---CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccccccc
Confidence            345789999999996   8899987 689999999999999999999999987654433

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=83.89  E-value=0.44  Score=41.62  Aligned_cols=46  Identities=30%  Similarity=0.632  Sum_probs=32.5

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhcC----CCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR----NSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~----~sCP~CR~~l~  244 (351)
                      .+..|.||.+.   |+ +.... |...||..|+.+-|...    -.||.|+....
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            34679999854   33 33333 89999999998877542    26999987543

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=82.05  E-value=0.75  Score=40.58  Aligned_cols=49  Identities=20%  Similarity=0.520  Sum_probs=35.4

Q ss_pred             ccccccccccccCCc---ceeec-cCceechhhHHHH------hh-----cCCCCCCCCCCCCc
Q 045745          197 CHCAVCKEAFELGNE---AREMP-CKHIYHEDCILPW------LK-----MRNSCPVCRQELPA  245 (351)
Q Consensus       197 ~~C~ICle~~~~g~~---~~~lp-C~H~FH~~CI~~W------L~-----~~~sCP~CR~~l~~  245 (351)
                      ..|+||...+..++.   .+... |...||..|+.--      +.     ..-.||.|+..-+.
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            469999999987653   44444 9999999998532      11     14589999886554

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=81.71  E-value=0.5  Score=42.11  Aligned_cols=45  Identities=31%  Similarity=0.633  Sum_probs=31.8

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhcC----CCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMR----NSCPVCRQEL  243 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~----~sCP~CR~~l  243 (351)
                      .+..|.||.+.   | .+.... |...||..|+.+.|...    -.||.|+..-
T Consensus         6 ~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            45679999853   2 233333 89999999999877532    2699998754

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.09  E-value=0.29  Score=34.63  Aligned_cols=43  Identities=37%  Similarity=0.851  Sum_probs=29.3

Q ss_pred             CCcccccccccccccCCcceeec-cCceechhhHHHHhhcCC----CCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRN----SCPVCR  240 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~----sCP~CR  240 (351)
                      ..+..|.||.+.   + .+.... |...||..|+.+=|....    .||.|.
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~   54 (56)
T 2yql_A            7 GHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ   54 (56)
T ss_dssp             SSCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHH
T ss_pred             CCCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhh
Confidence            455789999974   2 233333 999999999997654321    487774

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=81.05  E-value=0.45  Score=35.45  Aligned_cols=49  Identities=20%  Similarity=0.449  Sum_probs=33.3

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHhhc----CCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKM----RNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~----~~sCP~CR~~l~  244 (351)
                      ....|.||..... ++..+... |...||..|+..-+..    .-.||.|+..+.
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            3457999987753 33333333 9999999999876542    336999976543

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.21  E-value=0.83  Score=31.37  Aligned_cols=43  Identities=28%  Similarity=0.627  Sum_probs=28.5

Q ss_pred             cccccccccccCCcceeec-cCceechhhHHHHhhc----CCCCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKM----RNSCPVCRQ  241 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~----~~sCP~CR~  241 (351)
                      .|.||.+.-.. +....-. |...||..|+.+=|..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            58899875432 2233333 9999999999865532    225999964

---

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	351
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-16
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-13
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	5e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	5e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	0.001

>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 = 69.9 bits (171), Expect = 3e-16
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQEL 243
           CAVC    E G EAR +P C H +H +C+  WL   ++CP+CR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 63.0 bits (153), Expect = 1e-13
 Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
           C +C E     N +  +PC H +   CI  W++   +CP+C+  + 
Sbjct: 8   CPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 57.8 bits (139), Expect = 1e-11
 Identities = 15/58 (25%), Positives = 20/58 (34%)

Query: 185 SIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQE 242
           +I  +          A    A           C H +H  CI  WLK R  CP+  +E
Sbjct: 25  AICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

>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 = 56.5 bits (136), Expect = 4e-11
 Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 4/51 (7%)

Query: 194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQEL 243
           S+   C +C E  +   + +  PC H+    C+  W +     CP CR E+
Sbjct: 21  STFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.3 bits (128), Expect = 2e-10
 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 6/53 (11%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAAAAA 251
           C  C+   +     + +PC H     C+         CP+C+   P  A   A
Sbjct: 9   CQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGADTPA 55

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.2 bits (127), Expect = 4e-10
 Identities = 12/51 (23%), Positives = 16/51 (31%), Gaps = 3/51 (5%)

Query: 196 ECHCAVCKEAFELGNEAREM--PCKHIYHEDCILPWLKMR-NSCPVCRQEL 243
           +  C  CK         + M   C H   E C+         +CP C   L
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (116), Expect = 7e-09
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 199 CAVCKEAFELGNEA-REMPCKHIYHEDCILPWLKMRN-SCPVCRQELP 244
           C +C E  E+ +       C +     C        N  CP CR+  P
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 46.2 bits (109), Expect = 3e-07
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 6/62 (9%)

Query: 186 IEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN---SCPVCRQE 242
           ++     +     C +C E  +   E     C HI+ + C+L  L  +     CP+C+ +
Sbjct: 11  VQNVINAMQKILECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

Query: 243 LP 244
           + 
Sbjct: 68  IT 69

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 44.1 bits (103), Expect = 5e-07
 Identities = 9/51 (17%), Positives = 13/51 (25%), Gaps = 4/51 (7%)

Query: 196 ECHCAVCKEAFELGNEAREMP--CKHIYHEDCILPWLK--MRNSCPVCRQE 242
              C +C E                   H  C+  WL      +C +C   
Sbjct: 6   VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.3 bits (103), Expect = 1e-06
 Identities = 16/69 (23%), Positives = 23/69 (33%), Gaps = 5/69 (7%)

Query: 177 KASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN-- 234
           K + E    I +    V+S        +A       R   C H +H  C+L      N  
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 235 ---SCPVCR 240
               CP C+
Sbjct: 81  GSLQCPSCK 89

>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 = 43.4 bits (102), Expect = 2e-06
 Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNS-CPVCRQELPAA 246
           H      C +C+       +  E  CKH++   CIL  LK+  S CP CR      
Sbjct: 19  HFVKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>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 = 41.3 bits (96), Expect = 5e-06
 Identities = 6/45 (13%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
           CA+  +             + I+ +  +  ++K   + P+  + L
Sbjct: 3   CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 2e-05
 Identities = 14/74 (18%), Positives = 24/74 (32%), Gaps = 11/74 (14%)

Query: 170 PENLPASKASIESMPSIEISSGHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPW 229
           P+   A   S  ++  +E           C+ C              C+HI+  +C+   
Sbjct: 3   PDGRGAWAHSRAALDRLE-------KLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDC 53

Query: 230 LKMRNSCPVCRQEL 243
           +     CPVC    
Sbjct: 54  IGTG--CPVCYTPA 65

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 0.001
 Identities = 9/55 (16%), Positives = 19/55 (34%), Gaps = 8/55 (14%)

Query: 194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN--------SCPVCR 240
           S    C +C   + +        C+ I+   C+  ++++          SCP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	351
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.65
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.44
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.37
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.35
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.29
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.21
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.16
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.13
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.09
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.97
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.96
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.95
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.93
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.7
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.35
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.54
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	87.1
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	86.86
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	86.83
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	86.71
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	82.79

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.65  E-value=3.2e-17  Score=117.63  Aligned_cols=51  Identities=39%  Similarity=0.925  Sum_probs=46.5

Q ss_pred             CCcccccccccccccCCcceeec-cCceechhhHHHHhhcCCCCCCCCCCCC
Q 045745          194 SSECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQELP  244 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~  244 (351)
                      +++.+|+||+++|+.++.++.++ |+|.||..||.+||+.+++||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45568999999999999998886 9999999999999999999999999874

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.44  E-value=1.6e-14  Score=107.35  Aligned_cols=49  Identities=24%  Similarity=0.728  Sum_probs=43.0

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..+|+||++.|..  .++.+||+|.||.+||.+||+.+.+||+||.+|...
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~   53 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhh
Confidence            3579999999974  467789999999999999999999999999988543

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=5.1e-14  Score=99.40  Aligned_cols=48  Identities=23%  Similarity=0.501  Sum_probs=41.1

Q ss_pred             cccccccccccCCc-ceeeccCceechhhHHHHhhcC-CCCCCCCCCCCc
Q 045745          198 HCAVCKEAFELGNE-AREMPCKHIYHEDCILPWLKMR-NSCPVCRQELPA  245 (351)
Q Consensus       198 ~C~ICle~~~~g~~-~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~  245 (351)
                      +|+||+++|+.++. ++.++|+|.||.+||.+|++.+ .+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            79999999987654 4556899999999999999864 479999998865

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.2e-13  Score=107.63  Aligned_cols=51  Identities=29%  Similarity=0.572  Sum_probs=42.3

Q ss_pred             CcccccccccccccCC---------------cceeeccCceechhhHHHHhhcCCCCCCCCCCCCc
Q 045745          195 SECHCAVCKEAFELGN---------------EAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPA  245 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~---------------~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~  245 (351)
                      .+..|+||++.+....               .+..++|+|+||..||.+||+.+++||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            3457999999886422               35678899999999999999999999999998653

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.35  E-value=3e-13  Score=109.62  Aligned_cols=52  Identities=25%  Similarity=0.561  Sum_probs=40.9

Q ss_pred             CcccccccccccccC---------------CcceeeccCceechhhHHHHhhcC-----CCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELG---------------NEAREMPCKHIYHEDCILPWLKMR-----NSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g---------------~~~~~lpC~H~FH~~CI~~WL~~~-----~sCP~CR~~l~~~  246 (351)
                      .+..|+||++.|...               ..+..++|+|.||..||..||+..     .+||+||..+...
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            356899999998532               234667899999999999999743     4899999877554

>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=99.31  E-value=5.8e-13  Score=101.73  Aligned_cols=48  Identities=27%  Similarity=0.740  Sum_probs=41.8

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~~  247 (351)
                      ..|+||++.++.   ++.+||+|.||..||..||+. +++||+||..|....
T Consensus        24 ~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          24 QLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            479999999875   788999999999999999974 568999999987543

>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=99.29  E-value=6.5e-13  Score=97.76  Aligned_cols=52  Identities=21%  Similarity=0.415  Sum_probs=41.2

Q ss_pred             CcccccccccccccCC--cceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcc
Q 045745          195 SECHCAVCKEAFELGN--EAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAA  246 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~--~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~  246 (351)
                      ++..|+||++.+....  .+..++|+|.||.+||..||+. +.+||+||.+|...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            3568999999875433  3456689999999999999965 55899999988543

>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=99.21  E-value=2.2e-12  Score=92.14  Aligned_cols=47  Identities=15%  Similarity=0.305  Sum_probs=41.8

Q ss_pred             cccccccccccCCcceeec-cCceechhhHHHHhhcCCCCCCCCCCCCcch
Q 045745          198 HCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCRQELPAAA  247 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~  247 (351)
                      .|+||++.|+.   ++.++ |+|.||.+||.+||+.+.+||+||.++...+
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            69999999985   66665 9999999999999999999999999887654

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=3.1e-12  Score=91.53  Aligned_cols=46  Identities=24%  Similarity=0.667  Sum_probs=40.0

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcchh
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAAAA  248 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~  248 (351)
                      .+|+||++.|..   ++.+||+|.||..||.+|   +.+||+||.++.....
T Consensus         7 l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           7 LRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             SSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCcccCcccCC---CEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            589999999975   688999999999999876   6689999999976543

>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=99.13  E-value=1.1e-11  Score=96.17  Aligned_cols=48  Identities=31%  Similarity=0.695  Sum_probs=41.8

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcC-CCCCCCCCCCCcch
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQELPAAA  247 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~~~  247 (351)
                      ..|+||++.|+.   +++++|+|.||..||..|++.+ .+||+||.++...+
T Consensus        24 l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          24 ISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             TBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            579999999975   7889999999999999999755 58999999886543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.09  E-value=1.7e-11  Score=97.62  Aligned_cols=47  Identities=26%  Similarity=0.776  Sum_probs=40.8

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCC---CCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRN---SCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~---sCP~CR~~l~~~  246 (351)
                      ..|+||++.|+.   ++.++|+|.||..||..|++.+.   .||+||.++...
T Consensus        22 l~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          22 LECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             TSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             cCCCccCchhCC---eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            579999999975   67899999999999999997654   799999988654

>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=98.97  E-value=1.8e-10  Score=87.41  Aligned_cols=51  Identities=18%  Similarity=0.113  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCCcceeeccCceechhhHHHHhhc-CCCCCCCCCCCCcch
Q 045745          194 SSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKM-RNSCPVCRQELPAAA  247 (351)
Q Consensus       194 ~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCP~CR~~l~~~~  247 (351)
                      .++..|+||++.|..   ++.++|+|.|+..||..||.. +.+||+||.+|...+
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CccccCcCcCchhhh---hcccCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            456789999999986   678999999999999999975 458999999887654

>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=98.96  E-value=1.4e-10  Score=83.39  Aligned_cols=47  Identities=21%  Similarity=0.475  Sum_probs=36.7

Q ss_pred             CcccccccccccccCCcceeec-----cCceechhhHHHHhh--cCCCCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-----CKHIYHEDCILPWLK--MRNSCPVCRQELP  244 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-----C~H~FH~~CI~~WL~--~~~sCP~CR~~l~  244 (351)
                      +...|.||++++...   ...|     |.|.||..||..|+.  .+.+||+||+++.
T Consensus         5 d~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            456899999988642   3334     459999999999995  4558999999864

>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=98.95  E-value=2.4e-10  Score=86.33  Aligned_cols=52  Identities=19%  Similarity=0.406  Sum_probs=44.7

Q ss_pred             CCCcccccccccccccCCcceeeccCceechhhHHHHhhcC-CCCCCCCCCCCcch
Q 045745          193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR-NSCPVCRQELPAAA  247 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCP~CR~~l~~~~  247 (351)
                      ..++..|+||++.|+.   +++++|+|.|++.||..|++.+ .+||+|+.++....
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CCccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            3456899999999986   6789999999999999999765 57999999887654

>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=98.93  E-value=1.5e-10  Score=91.09  Aligned_cols=46  Identities=22%  Similarity=0.561  Sum_probs=37.7

Q ss_pred             ccccccccccccCCcceeeccCceechhhHHHHhhcCCCCCCCCCCCCcc
Q 045745          197 CHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELPAA  246 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCP~CR~~l~~~  246 (351)
                      ..|+||++.|..  .+...+|+|.||..||..|+.  +.||+||.++...
T Consensus        23 l~C~IC~~~~~~--pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          23 LRCSRCTNILRE--PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             TSCSSSCSCCSS--CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             CCCccCCchhhc--CceeCCCCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            589999999974  233457999999999999984  4699999987654

>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=98.70  E-value=4.6e-09  Score=82.80  Aligned_cols=51  Identities=14%  Similarity=0.074  Sum_probs=44.8

Q ss_pred             CcccccccccccccCCcceeeccC-ceechhhHHHHhhcCCCCCCCCCCCCcchh
Q 045745          195 SECHCAVCKEAFELGNEAREMPCK-HIYHEDCILPWLKMRNSCPVCRQELPAAAA  248 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCP~CR~~l~~~~~  248 (351)
                      ++..|+||++.|..   +++++|+ |.|++.||..||+.+.+||+|+.+|.....
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchhh
Confidence            46899999999996   7899865 589999999999999999999999876643

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.35  E-value=5.8e-08  Score=75.06  Aligned_cols=46  Identities=17%  Similarity=0.506  Sum_probs=36.8

Q ss_pred             cccccccccccccCCcceeeccCceechhhHHHHhhcC--------CCCCCCCC
Q 045745          196 ECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR--------NSCPVCRQ  241 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lpC~H~FH~~CI~~WL~~~--------~sCP~CR~  241 (351)
                      ..+|+||++++...+.+..++|+|.||.+||..|++.+        -+||.|.-
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            46899999999876666666899999999999999521        15998643

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.54  E-value=0.055  Score=35.85  Aligned_cols=43  Identities=28%  Similarity=0.629  Sum_probs=30.0

Q ss_pred             cccccccccccCCcceeec-cCceechhhHHHHhhcCC----CCCCCCC
Q 045745          198 HCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRN----SCPVCRQ  241 (351)
Q Consensus       198 ~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~----sCP~CR~  241 (351)
                      .|.||...-.. +..+.-. |...||..|+.+-+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58899865433 2333333 999999999999875322    5999975

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.10  E-value=0.15  Score=37.61  Aligned_cols=33  Identities=27%  Similarity=0.794  Sum_probs=25.5

Q ss_pred             CCCcccccccccccccCCcceeec---cCceechhhHHHH
Q 045745          193 VSSECHCAVCKEAFELGNEAREMP---CKHIYHEDCILPW  229 (351)
Q Consensus       193 ~~~~~~C~ICle~~~~g~~~~~lp---C~H~FH~~CI~~W  229 (351)
                      ...+..|.|| +.|...   .++|   |+.+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~---~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccc---ceecceeecchhhHHHHHHh
Confidence            4466789999 777653   3446   7899999999986

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.86  E-value=0.18  Score=34.80  Aligned_cols=47  Identities=21%  Similarity=0.524  Sum_probs=33.5

Q ss_pred             CcccccccccccccCCcceeec-cCceechhhHHHHh---h--cCCCCCCCCC
Q 045745          195 SECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWL---K--MRNSCPVCRQ  241 (351)
Q Consensus       195 ~~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL---~--~~~sCP~CR~  241 (351)
                      +...|.||.+....++..+.-. |+..||..|+..=.   .  .+-.||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            4568999999877665545454 99999999996422   1  2336999965

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.83  E-value=0.15  Score=35.98  Aligned_cols=43  Identities=33%  Similarity=0.703  Sum_probs=29.5

Q ss_pred             ccccccccccccCCcceeec-cCceechhhHHHHhhcCC----CCCCCCCCC
Q 045745          197 CHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRN----SCPVCRQEL  243 (351)
Q Consensus       197 ~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~----sCP~CR~~l  243 (351)
                      ..|.||.+.   ++ +..-. |...||..|+.+.|....    .||.|+...
T Consensus         8 ~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           8 TICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            467777642   33 33333 999999999999885432    599997644

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.71  E-value=0.12  Score=35.58  Aligned_cols=44  Identities=34%  Similarity=0.637  Sum_probs=30.3

Q ss_pred             cccccccccccccCCcceeec-cCceechhhHHHHhhc----CCCCCCCCCCC
Q 045745          196 ECHCAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKM----RNSCPVCRQEL  243 (351)
Q Consensus       196 ~~~C~ICle~~~~g~~~~~lp-C~H~FH~~CI~~WL~~----~~sCP~CR~~l  243 (351)
                      +..|.||.+.   + .++.-. |.-.||..||...+..    .-.||.|+...
T Consensus         9 ~~~C~~C~~~---g-~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           9 MEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCcCCCCC---C-eEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3579999852   2 333333 9999999999877653    22699997643

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.79  E-value=0.11  Score=38.23  Aligned_cols=45  Identities=27%  Similarity=0.643  Sum_probs=29.9

Q ss_pred             ccccccccccccCC-cceeec-cCceechhhHHHHhh-----c---CCCCCCCCC
Q 045745          197 CHCAVCKEAFELGN-EAREMP-CKHIYHEDCILPWLK-----M---RNSCPVCRQ  241 (351)
Q Consensus       197 ~~C~ICle~~~~g~-~~~~lp-C~H~FH~~CI~~WL~-----~---~~sCP~CR~  241 (351)
                      ..|.||........ .++... |...||..|+.+.+.     .   .-.||.|..
T Consensus        17 ~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          17 LACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             CSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             CCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            57999987544322 233333 899999999886542     1   236999954