Citrus Sinensis ID: 023542

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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-
Protein Sequence
MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFDGE
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHccccHHHHHcccccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHcccccccccccccccEEccccccccEEEEcccccccccccHHHHHcccccccccccccccccccHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccccccccccEEccHHHHHHHHHHHHHHHHccccHHccccccccccHHHcccccccHEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHccEEEEEccccEcEEEHHHccccccEEEcccccccccHcHHHHHHHcccccEEEEEcccccccHHHcccEEEEEEEccccccccc
Coil and Loop (DISEMBL)
MEEETIIISALStltpnklkDLTHTILSLSDHWRRRLSAVISSPILFSLTLHhlhslslpnKTLLIARHLLFSLQLLtqcfprappphsstyqikrrDHDAVLLLLLLCEVHqqdpealsaapqakwpavlgkhfcESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVnamggggvrggekeGRDVAAAVAAVVRlpsvdgagadQCCVICkeemgggrdvcelpckhlfhwlcilpwlkkrntcpccrfrlptddvFGEIERLWDALVKtsgggsfdge
Flexible Loop (DISEMBL)
MEEETIIISALstltpnklkdLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMggggvrggekEGRDVAAAVAAVVrlpsvdgagaDQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVktsgggsfdge
Low Complexity Region (SEG)
MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPIlfsltlhhlhslslPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVllllllCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMggggvrggekegrDvaaavaavvRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFDGE
Disordered region (IsUnstruct)
*****IIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRA******TYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK**********
Disordered Region (DISOPRED)
***ETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQ******************DHDAVLLLLLLCE****************WPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFV************************VVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT**************************
Disordered Region (DISEMBL)
MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKT*********
Disordered Region (DISPRO)
*EEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGG******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFDGE
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	281	2.2.26 [Sep-21-2011]
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.174	0.149	0.571	4e-13
Q9CY62	165	E3 ubiquitin-protein liga	yes	no	0.245	0.418	0.521	3e-12
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.316	0.263	0.375	1e-11
Q8RXD3	310	E3 ubiquitin-protein liga	no	no	0.192	0.174	0.555	2e-11
Q9VE61	147	E3 ubiquitin-protein liga	yes	no	0.274	0.523	0.451	3e-11
Q9P0P0	153	E3 ubiquitin-protein liga	yes	no	0.270	0.496	0.461	7e-11
Q7ZW78	156	E3 ubiquitin-protein liga	yes	no	0.259	0.467	0.480	8e-11
Q9SPL2	334	E3 ubiquitin-protein liga	no	no	0.199	0.167	0.517	2e-10
Q3T0W3	153	E3 ubiquitin-protein liga	yes	no	0.270	0.496	0.468	2e-10
Q6GPV5	156	E3 ubiquitin-protein liga	N/A	no	0.291	0.525	0.459	2e-10

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

 Score = 75.5 bits (184), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 36/49 (73%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
           C +C +E   G DV ++PCKH+FH  C+LPWL+  N+CP CRF LPTDD
Sbjct: 216 CAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPVCRFELPTDD 264

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|Q9CY62|RN181_MOUSE E3 ubiquitin-protein ligase RNF181 OS=Mus musculus GN=Rnf181 PE=2 SV=1

 Score = 72.4 bits (176), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 41/71 (57%), Gaps = 2/71 (2%)

Query: 189 AAVAAVVRLPS--VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTC 246
           AA A V  LP   +  A AD  C +C  E      V E+PC HLFH  CILPWL K N+C
Sbjct: 66  AAKAVVESLPRTVISSAKADLKCPVCLLEFEAEETVIEMPCHHLFHSNCILPWLSKTNSC 125

Query: 247 PCCRFRLPTDD 257
           P CR  LPTDD
Sbjct: 126 PLCRHELPTDD 136

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.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 70.5 bits (171), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 36/96 (37%), Positives = 53/96 (55%), Gaps = 7/96 (7%)

Query: 189 AAVAAVVRLPSVDGAGAD-----QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR 243
           A+ +A+  LP V+   ++       C +C ++   G +  ++PCKHL+H  C+LPWL+  
Sbjct: 199 ASKSAIEALPLVNITKSNLNSEFNQCAVCMDDFEEGTEAKQMPCKHLYHKDCLLPWLELH 258

Query: 244 NTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFD 279
           N+CP CR  LPTDD   + ER       TSGG   D
Sbjct: 259 NSCPVCRHELPTDDP--DYERRVRGAQGTSGGNDGD 292

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|Q8RXD3|AIP2_ARATH E3 ubiquitin-protein ligase AIP2 OS=Arabidopsis thaliana GN=AIP2 PE=1 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 36/54 (66%)

Query: 204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
           GA+  C ICKE +  G  + ELPCKH FH  C+ PWL + N+CP CR  LPTDD
Sbjct: 225 GAEAECCICKENLVIGDKMQELPCKHTFHPPCLKPWLDEHNSCPICRHELPTDD 278

E3 ubiquitin-protein ligase that acts as a negative regulator of abscisic acid (ABA) signaling. Mediates ubiquitination and subsequent proteasomal degradation of the transcription factor ABI3.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9VE61|RN181_DROME E3 ubiquitin-protein ligase RNF181 homolog OS=Drosophila melanogaster GN=CG7694 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/82 (45%), Positives = 47/82 (57%), Gaps = 5/82 (6%)

Query: 189 AAVAAVVRLPSVD----GAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN 244
           A+  A++ LP  +      G D  C +CKE    G+    LPCKH FH  CIL WLKK N
Sbjct: 46  ASKRAILELPVHEIVKSDEGGDLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTN 105

Query: 245 TCPCCRFRLPTDD-VFGEIERL 265
           +CP CR+ L TDD V+ E+ R 
Sbjct: 106 SCPLCRYELETDDPVYEELRRF 127

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.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9P0P0|RN181_HUMAN E3 ubiquitin-protein ligase RNF181 OS=Homo sapiens GN=RNF181 PE=1 SV=1

 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 36/78 (46%), Positives = 43/78 (55%), Gaps = 2/78 (2%)

Query: 189 AAVAAVVRLPS--VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTC 246
           AA   V  LP   + G+ A+  C +C  E        E+PC HLFH  CILPWL K N+C
Sbjct: 54  AAKTVVENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSC 113

Query: 247 PCCRFRLPTDDVFGEIER 264
           P CR+ LPTDD   E  R
Sbjct: 114 PLCRYELPTDDDTYEEHR 131

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.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7ZW78|RN181_DANRE E3 ubiquitin-protein ligase RNF181 OS=Danio rerio GN=rnf181 PE=2 SV=2

 Score = 67.8 bits (164), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 37/77 (48%), Positives = 42/77 (54%), Gaps = 4/77 (5%)

Query: 189 AAVAAVVRLPSV----DGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN 244
           AA A V  LP V    + A     C +C  E      V E+PCKHLFH  CILPWL K N
Sbjct: 55  AAKAVVQSLPVVIISPEQADKGVKCPVCLLEFEEQESVREMPCKHLFHTGCILPWLNKTN 114

Query: 245 TCPCCRFRLPTDDVFGE 261
           +CP CR  LPTD+   E
Sbjct: 115 SCPLCRLELPTDNADYE 131

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.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/56 (51%), Positives = 36/56 (64%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIER 264
           C +CK+ M  G    +LPC H +H  CI+PWL  RN+CP CRF+L TDD   E ER
Sbjct: 257 CAVCKDGMVMGETGKKLPCGHCYHGDCIVPWLGTRNSCPVCRFQLETDDAEYEEER 312

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: -

>sp|Q3T0W3|RN181_BOVIN E3 ubiquitin-protein ligase RNF181 OS=Bos taurus GN=RNF181 PE=2 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 45/79 (56%), Gaps = 3/79 (3%)

Query: 189 AAVAAVVRLPS--VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTC 246
           AA  AV  LP   + G+ A+  C +C  E        E+PC HLFH  CILPWL K N+C
Sbjct: 54  AAKTAVENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSNCILPWLSKTNSC 113

Query: 247 PCCRFRLPT-DDVFGEIER 264
           P CR  LPT DD + E +R
Sbjct: 114 PLCRHELPTDDDTYEEHKR 132

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.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6GPV5|RN181_XENLA E3 ubiquitin-protein ligase RNF181 OS=Xenopus laevis GN=rnf181 PE=2 SV=1

 Score = 66.2 bits (160), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/87 (45%), Positives = 46/87 (52%), Gaps = 5/87 (5%)

Query: 175 GGVRGGEKEGRDVAAAVAAVVR-LPSV----DGAGADQCCVICKEEMGGGRDVCELPCKH 229
           G V   E + R    A   VV  LP V    + A A   C +C  E   G  V +LPC+H
Sbjct: 40  GAVDFTEWDQRLPPPASKKVVESLPKVTVTPEQADAALKCPVCLLEFEEGETVRQLPCEH 99

Query: 230 LFHWLCILPWLKKRNTCPCCRFRLPTD 256
           LFH  CILPWL K N+CP CR  LPTD
Sbjct: 100 LFHSACILPWLGKTNSCPLCRHELPTD 126

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.

Xenopus laevis (taxid: 8355)

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	281
255568472	275	zinc finger protein, putative [Ricinus c	0.943	0.963	0.623	8e-70
224088615	276	predicted protein [Populus trichocarpa]	0.967	0.985	0.607	9e-70
356537435	264	PREDICTED: uncharacterized protein LOC10	0.932	0.992	0.598	2e-66
30679751	283	RING/U-box domain-containing protein [Ar	0.946	0.939	0.515	1e-63
297806207	283	zinc finger family protein [Arabidopsis	0.950	0.943	0.535	2e-63
7413550	274	putative protein [Arabidopsis thaliana]	0.921	0.945	0.510	2e-61
449440361	283	PREDICTED: uncharacterized protein LOC10	0.964	0.957	0.527	1e-55
356548186	260	PREDICTED: uncharacterized protein LOC10	0.918	0.992	0.584	3e-55
224138554	119	predicted protein [Populus trichocarpa]	0.412	0.974	0.644	5e-37
297741510	515	unnamed protein product [Vitis vinifera]	0.323	0.176	0.703	3e-33

>gi|255568472|ref|XP_002525210.1| zinc finger protein, putative [Ricinus communis] gi|223535507|gb|EEF37176.1| zinc finger protein, putative [Ricinus communis]

 Score =  269 bits (688), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 172/276 (62%), Positives = 208/276 (75%), Gaps = 11/276 (3%)

Query: 1   MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLP 60
           ME+ET+I++ALSTLTP +L  LTH+ILS + H    LS+++SSP  FSLTLHHLHSLSLP
Sbjct: 1   MEDETMIMAALSTLTPPQLSHLTHSILSQTLHHHHSLSSLLSSPSSFSLTLHHLHSLSLP 60

Query: 61  NKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEALS 120
           +KTLLIA+HLL SL  LT+ FP   P H S   IK RD DAVLLLLLLC+VHQ +P+ L 
Sbjct: 61  HKTLLIAKHLLSSLHQLTRFFPS--PSHPSA-TIKHRDLDAVLLLLLLCDVHQHNPDLLR 117

Query: 121 AAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVRGG 180
             P+ +W  +L K   ++ L+ SGI  G + G VLLPYVEM+TRC +FV AMGG G    
Sbjct: 118 T-PRDEWRGILTKRCSDTILTHSGI--GVHYGGVLLPYVEMITRCWKFVAAMGGCG---- 170

Query: 181 EKEGRDVAAAVAAVVRLPSVDGAG-ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPW 239
           EKEGR+VAAA +AVV LP+V+  G     C IC+EEM  GRDVCELPC+HLFHW+CILPW
Sbjct: 171 EKEGREVAAAPSAVVALPTVEVTGDVTGECAICREEMREGRDVCELPCQHLFHWMCILPW 230

Query: 240 LKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGG 275
           LKKRNTCPCCRF+LPT+DV GEI+RLW  L+K  GG
Sbjct: 231 LKKRNTCPCCRFQLPTEDVLGEIKRLWSVLMKAGGG 266

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224088615|ref|XP_002308497.1| predicted protein [Populus trichocarpa] gi|222854473|gb|EEE92020.1| predicted protein [Populus trichocarpa]

 Score =  269 bits (688), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 172/283 (60%), Positives = 204/283 (72%), Gaps = 11/283 (3%)

Query: 1   MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLP 60
           MEEETII +ALSTL   +L DLT +ILSL+ H   RLS+++ SP LFSL LHHLHSLSL 
Sbjct: 1   MEEETIITAALSTLASPQLTDLTSSILSLTLHHHSRLSSLLCSPSLFSLALHHLHSLSLA 60

Query: 61  NKTLLIARHLLFSLQLLTQCF--PRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEA 118
           +KTLLIA++LL SL  LT+ F  P   PPH +T  IK RD DA LLL+ LC+VHQ+ PE 
Sbjct: 61  HKTLLIAKYLLSSLHHLTRHFHPPTLIPPHPTT-TIKHRDLDAALLLIFLCDVHQESPEI 119

Query: 119 LSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVR 178
           L   P+  W   L KH+ ++ L  S +  G + G VLLPYVEMV RC RFV  M G  V 
Sbjct: 120 LKT-PRTGWREGLRKHYSKTVLRRSSV--GVHYGGVLLPYVEMVIRCWRFVGVMAGCAV- 175

Query: 179 GGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP 238
              KEGR+VAAA AAVV LP+V+  G    CVIC+E+M GGRDVCELPC+HLFHW+CILP
Sbjct: 176 ---KEGREVAAAPAAVVALPAVEVRGGGGECVICREKMSGGRDVCELPCEHLFHWMCILP 232

Query: 239 WLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFDGE 281
           WLKK NTCPCCRF+LPT+DVF EIERLW AL+K  G G+  GE
Sbjct: 233 WLKKTNTCPCCRFQLPTEDVFCEIERLWSALIKI-GDGALSGE 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356537435|ref|XP_003537233.1| PREDICTED: uncharacterized protein LOC100810879 [Glycine max]

 Score =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 167/279 (59%), Positives = 201/279 (72%), Gaps = 17/279 (6%)

Query: 1   MEEET--IIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLS 58
           MEE T  II+SALSTLTP++  DLT +ILS ++H  RRLS+++S P LFSLTLHHLH+LS
Sbjct: 1   MEETTSAIIMSALSTLTPSQFSDLTRSILSATNHHHRRLSSLLSYPTLFSLTLHHLHTLS 60

Query: 59  LPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEA 118
           LP KTLLIARHLL SL LLT     A  PH ST   ++RD DA LLLLLLCE H  +P A
Sbjct: 61  LPQKTLLIARHLLSSLHLLT-----ATSPHFST-ATRQRDLDAALLLLLLCETHNHNPHA 114

Query: 119 LSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVR 178
           L A P ++W  +L K F +S L+    V  A  G V++P+VE V+RC R V A+  GG  
Sbjct: 115 LEA-PVSEWRKILSKLFSDSLLT----VSLAPLGTVMIPFVETVSRCWRLVGALDCGG-- 167

Query: 179 GGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP 238
              KE  +VAA+ A VV LPSV+     + CVICKEEMG GRDVCELPC+HLFHW+CILP
Sbjct: 168 --GKEAAEVAASAATVVALPSVEVRHDGRECVICKEEMGIGRDVCELPCQHLFHWMCILP 225

Query: 239 WLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGS 277
           WL KRNTCPCCRFRLP+DDVFGEI+RLW+ L+K +   S
Sbjct: 226 WLGKRNTCPCCRFRLPSDDVFGEIQRLWEVLLKMAAKDS 264

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30679751|ref|NP_195895.2| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|26451566|dbj|BAC42880.1| unknown protein [Arabidopsis thaliana] gi|28973295|gb|AAO63972.1| unknown protein [Arabidopsis thaliana] gi|332003130|gb|AED90513.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  249 bits (636), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 147/285 (51%), Positives = 188/285 (65%), Gaps = 19/285 (6%)

Query: 1   MEEE--TIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLS 58
           ME+E  TII+++LS L+P+ L +LTH+ILS+S H RRRL AV+SSP LFSLTL HL SLS
Sbjct: 1   MEDENTTIIMASLSALSPSHLTNLTHSILSISHHHRRRLGAVLSSPTLFSLTLRHLLSLS 60

Query: 59  LPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQI--KRRDHDAVLLLLLLCEVHQQDP 116
           LP+KT     HL+ +  L           H S+Y +  K RD DAV+LLL LCE HQ  P
Sbjct: 61  LPDKT-----HLIANHLLSLLHPLLIHRKHHSSYAVTMKLRDLDAVVLLLFLCETHQLHP 115

Query: 117 EALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGG 176
           + L A+    W  +LG  +  + LS +  +    +  +L+PY+E + RC+RFV+ MGG  
Sbjct: 116 DVLEASAD-NWREILGNTYSNNMLSNNSGLWTC-DAGILMPYIETLVRCKRFVDIMGGYN 173

Query: 177 --VRGGEKEGRDVAAAVAAVVRLP-----SVDGAGADQC-CVICKEEMGGGRDVCELPCK 228
              R  +KEG  V AA AAVV L      +V  + A +  CVICKEEM  GRDVCE+PC+
Sbjct: 174 HLRRRDQKEGYQVPAARAAVVALRAVEVFNVAASNAGEVECVICKEEMSEGRDVCEMPCQ 233

Query: 229 HLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS 273
           H FHW CILPWL K+NTCP CRF+LPTDDVF EI+RLW+ LVK+S
Sbjct: 234 HFFHWKCILPWLSKKNTCPFCRFQLPTDDVFSEIQRLWEILVKSS 278

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806207|ref|XP_002870987.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297316824|gb|EFH47246.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  248 bits (633), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 152/284 (53%), Positives = 191/284 (67%), Gaps = 17/284 (5%)

Query: 1   MEEE--TIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLS 58
           MEE   TII+++LSTL+P+ L +LTH+ILS+S H RRRL+ V+SSP LFSLTL HL SLS
Sbjct: 1   MEEGNITIIMASLSTLSPSHLTNLTHSILSISHHHRRRLATVLSSPTLFSLTLRHLLSLS 60

Query: 59  LPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEA 118
           LP+KT LIA HLL  L  L           SST  +K RD DAV+LLL LCE HQ  P+ 
Sbjct: 61  LPDKTHLIANHLLSLLHPLLIHRKHHS---SSTVTMKLRDLDAVVLLLFLCETHQLHPDV 117

Query: 119 LSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGG-- 176
           L A+    W  +LG  +  + L+ +  +    +  +L+PY+E + RC+RFV+ MGG    
Sbjct: 118 LEASAD-NWREILGNTYSNTMLTNNSGLWTC-DAGILMPYIETLVRCKRFVDIMGGYNHL 175

Query: 177 VRGGEKEGRDVAAAVAAVVRL-------PSVDGAGADQCCVICKEEMGGGRDVCELPCKH 229
            R  +KEG +V AA AAVV L        +   AG  +C VICKEEM  GRDVCE+PC+H
Sbjct: 176 RRRDQKEGYEVPAARAAVVALRAVEVFNAAASNAGEVEC-VICKEEMSEGRDVCEMPCQH 234

Query: 230 LFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS 273
           +FHW CILPWL K+NTCP CRF+LPTDDVF EI+RLW+ LVKTS
Sbjct: 235 VFHWKCILPWLSKKNTCPFCRFQLPTDDVFSEIQRLWEILVKTS 278

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7413550|emb|CAB86029.1| putative protein [Arabidopsis thaliana]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 141/276 (51%), Positives = 181/276 (65%), Gaps = 17/276 (6%)

Query: 8   ISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLPNKTLLIA 67
           +++LS L+P+ L +LTH+ILS+S H RRRL AV+SSP LFSLTL HL SLSLP+KT    
Sbjct: 1   MASLSALSPSHLTNLTHSILSISHHHRRRLGAVLSSPTLFSLTLRHLLSLSLPDKT---- 56

Query: 68  RHLLFSLQLLTQCFPRAPPPHSSTYQI--KRRDHDAVLLLLLLCEVHQQDPEALSAAPQA 125
            HL+ +  L           H S+Y +  K RD DAV+LLL LCE HQ  P+ L A+   
Sbjct: 57  -HLIANHLLSLLHPLLIHRKHHSSYAVTMKLRDLDAVVLLLFLCETHQLHPDVLEASAD- 114

Query: 126 KWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGG--VRGGEKE 183
            W  +LG  +  + LS +  +    +  +L+PY+E + RC+RFV+ MGG     R  +KE
Sbjct: 115 NWREILGNTYSNNMLSNNSGLWTC-DAGILMPYIETLVRCKRFVDIMGGYNHLRRRDQKE 173

Query: 184 GRDVAAAVAAVVRLP-----SVDGAGADQC-CVICKEEMGGGRDVCELPCKHLFHWLCIL 237
           G  V AA AAVV L      +V  + A +  CVICKEEM  GRDVCE+PC+H FHW CIL
Sbjct: 174 GYQVPAARAAVVALRAVEVFNVAASNAGEVECVICKEEMSEGRDVCEMPCQHFFHWKCIL 233

Query: 238 PWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS 273
           PWL K+NTCP CRF+LPTDDVF EI+RLW+ LVK+S
Sbjct: 234 PWLSKKNTCPFCRFQLPTDDVFSEIQRLWEILVKSS 269

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440361|ref|XP_004137953.1| PREDICTED: uncharacterized protein LOC101209757 [Cucumis sativus] gi|449529876|ref|XP_004171924.1| PREDICTED: uncharacterized protein LOC101225495 [Cucumis sativus]

 Score =  223 bits (567), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 153/290 (52%), Positives = 197/290 (67%), Gaps = 19/290 (6%)

Query: 1   MEEETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLSLP 60
           +E  ++I +AL+TL+P +L DL+H+I S     RRRL+ ++SSP LFSLTL HL+SLSL 
Sbjct: 4   LEPPSVITAALATLSPPRLADLSHSIFSEIHQHRRRLTFILSSPTLFSLTLRHLNSLSLS 63

Query: 61  NKTLLIARHLLFSLQLLTQCFPRAP----PPHSSTYQIKRRDHDAVLLLLLLCEVHQQDP 116
           +K+LL+AR LL +L+ L++ F ++P    P H ST  I  +D DA +LLLLLCEV Q +P
Sbjct: 64  HKSLLLARFLLSALRRLSRPF-QSPSKLLPYHPSTAAISPQDLDAAVLLLLLCEVRQHNP 122

Query: 117 EALSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMG--G 174
            AL   P  KW A L K + +S L++SG+  G     +  PY++ V RC +FV  +G  G
Sbjct: 123 AALRT-PITKWRATLCKIYSDSLLTVSGLATGGGGALI--PYIDTVVRCWKFVGFVGSCG 179

Query: 175 GGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQC--CVICKEEMGGGRDVCELPCKHLFH 232
           G VR      R+VAA+  AVV LPSV   G      CVICKEEMG GRD C+LPC HLFH
Sbjct: 180 GKVR------REVAASPMAVVELPSVAVGGGGAAVECVICKEEMGEGRDACKLPCDHLFH 233

Query: 233 WLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKT-SGGGSFDGE 281
           WLCILPWL+KRNTCPCCRF+LPTDDV GEI+RLW+ L K  S   + DG+
Sbjct: 234 WLCILPWLRKRNTCPCCRFQLPTDDVLGEIQRLWEILFKVGSTMCTSDGD 283

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548186|ref|XP_003542484.1| PREDICTED: uncharacterized protein LOC100818800 [Glycine max]

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 163/279 (58%), Positives = 201/279 (72%), Gaps = 21/279 (7%)

Query: 1   MEE--ETIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHLHSLS 58
           MEE   TII++ALSTLTP++  DLT +I+S ++H  RRLS+++SSP LFSLTLHHLH+L+
Sbjct: 1   MEETTSTIIMAALSTLTPSQFSDLTRSIISATNHHHRRLSSLLSSPTLFSLTLHHLHTLT 60

Query: 59  LPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQQDPEA 118
           LP KTLLIARHLL SL LLT       PP S+T   ++RD DA LLLLLLCE H  +P A
Sbjct: 61  LPQKTLLIARHLLSSLHLLTA----TSPPLSTT--TRQRDLDAALLLLLLCETHNHNPHA 114

Query: 119 LSAAPQAKWPAVLGKHFCESALSLSGIVGGAYEGAVLLPYVEMVTRCRRFVNAMGGGGVR 178
           L A P ++W   L K F +S L++S     A  G V++P+VE V+RC R V A+  GG  
Sbjct: 115 LEA-PFSEWRKNLSKVFSDSLLTVSL----APLGTVMIPFVETVSRCWRLVGALNCGG-- 167

Query: 179 GGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP 238
           G E      AA+ A +V LPSV+   + + CVICKEEMG GRDVCELPC+HLFHW+CILP
Sbjct: 168 GKE------AASAAIMVALPSVEVRHSGRECVICKEEMGIGRDVCELPCQHLFHWMCILP 221

Query: 239 WLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGS 277
           WL KRNTCPCCRFRLP+DDVFGEI+RLW+ LVK +   S
Sbjct: 222 WLGKRNTCPCCRFRLPSDDVFGEIQRLWEVLVKMTAKDS 260

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138554|ref|XP_002322843.1| predicted protein [Populus trichocarpa] gi|222867473|gb|EEF04604.1| predicted protein [Populus trichocarpa]

 Score =  160 bits (406), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 78/121 (64%), Positives = 92/121 (76%), Gaps = 5/121 (4%)

Query: 161 MVTRCRRFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGR 220
           M+ RC RFV  M G  VR    EGR++AAA A VV LP+V+  G  + CVIC+EEM  GR
Sbjct: 1   MIIRCWRFVGMMAGCTVR----EGRELAAAPATVVALPAVEVRGGGEECVICREEMREGR 56

Query: 221 DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTSGGGSFDG 280
           DVCELPC+HLFHW+CILPWLKK NTCPCCRF+LPT+DVFGEIERLW  ++K  G G+  G
Sbjct: 57  DVCELPCEHLFHWMCILPWLKKTNTCPCCRFQLPTEDVFGEIERLWSVMIKI-GNGALSG 115

Query: 281 E 281
           E
Sbjct: 116 E 116

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741510|emb|CBI32642.3| unnamed protein product [Vitis vinifera]

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 64/91 (70%), Positives = 75/91 (82%)

Query: 184 GRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR 243
           G+ V A+ A+VV LPSV+ +     CVICKEEM  GRDVCELPC+HLFHW+CILPWL KR
Sbjct: 165 GKFVGASTASVVALPSVEVSDGGVECVICKEEMRQGRDVCELPCEHLFHWMCILPWLVKR 224

Query: 244 NTCPCCRFRLPTDDVFGEIERLWDALVKTSG 274
           NTCPCCRF+LP+DDVF EIERLWD +VK+S 
Sbjct: 225 NTCPCCRFQLPSDDVFAEIERLWDVVVKSSS 255

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	281
TAIR|locus:2151241	283	SGR9 "SHOOT GRAVITROPISM 9" [A	0.943	0.936	0.440	1.9e-53
TAIR|locus:2159320	419	AT5G60820 [Arabidopsis thalian	0.174	0.116	0.632	7.4e-15
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.256	0.219	0.465	1.5e-14
TAIR|locus:1005716857	376	AT5G08139 [Arabidopsis thalian	0.174	0.130	0.591	5.3e-14
DICTYBASE|DDB_G0280089	457	DDB_G0280089 "RING zinc finger	0.206	0.126	0.55	1.9e-13
MGI|MGI:1913760	165	Rnf181 "ring finger protein 18	0.206	0.351	0.534	2.1e-13
FB|FBgn0038627	147	CG7694 [Drosophila melanogaste	0.217	0.414	0.532	5.6e-13
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.206	0.417	0.5	5.6e-13
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.206	0.379	0.5	5.6e-13
TAIR|locus:1006230278	199	AT3G10815 [Arabidopsis thalian	0.224	0.316	0.460	5.6e-13

TAIR|locus:2151241 SGR9 "SHOOT GRAVITROPISM 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 126/286 (44%), Positives = 159/286 (55%)

Query:     1 MEEE--TIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPIXXXXXXXXXXXXX 58
             ME+E  TII+++LS L+P+ L +LTH+ILS+S H RRRL AV+SSP              
Sbjct:     1 MEDENTTIIMASLSALSPSHLTNLTHSILSISHHHRRRLGAVLSSPTLFSLTLRHLLSLS 60

Query:    59 XPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQI--KRRDHDAVXXXXXXCEVHQQDP 116
              P+KT LIA HLL  L  L     R    H S+Y +  K RD DAV      CE HQ  P
Sbjct:    61 LPDKTHLIANHLLSLLHPLL--IHRK---HHSSYAVTMKLRDLDAVVLLLFLCETHQLHP 115

Query:   117 EALSAAPQAKWPAVLGKHFCESALSL-SGIVGGAYEGAVLLPYVEMVTRCRRFVNAMXXX 175
             + L A+    W  +LG  +  + LS  SG+     +  +L+PY+E + RC+RFV+ M   
Sbjct:   116 DVLEASAD-NWREILGNTYSNNMLSNNSGL--WTCDAGILMPYIETLVRCKRFVDIMGGY 172

Query:   176 XXXXXXXXXXD----XXXXXXXXXRLPSVDGAGADQC----CVICKEEMGGGRDVCELPC 227
                                     R   V    A       CVICKEEM  GRDVCE+PC
Sbjct:   173 NHLRRRDQKEGYQVPAARAAVVALRAVEVFNVAASNAGEVECVICKEEMSEGRDVCEMPC 232

Query:   228 KHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS 273
             +H FHW CILPWL K+NTCP CRF+LPTDDVF EI+RLW+ LVK+S
Sbjct:   233 QHFFHWKCILPWLSKKNTCPFCRFQLPTDDVFSEIQRLWEILVKSS 278

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

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

GO:0009501 "amyloplast" evidence=IDA

GO:0009630 "gravitropism" evidence=IMP

TAIR|locus:2159320 AT5G60820 [Arabidopsis thaliana (taxid:3702)]

 Score = 195 (73.7 bits), Expect = 7.4e-15, P = 7.4e-15
 Identities = 31/49 (63%), Positives = 38/49 (77%)

Query:   208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTD 256
             CC +CKEEM  G++V ELPC+H +H  CI+PWL  RNTCP CRF LP+D
Sbjct:   371 CCAVCKEEMIVGKEVAELPCRHKYHSECIVPWLGIRNTCPVCRFELPSD 419

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 189 (71.6 bits), Expect = 1.5e-14, P = 1.5e-14
 Identities = 34/73 (46%), Positives = 45/73 (61%)

Query:   209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDA 268
             C +C +E   G DV ++PCKH+FH  C+LPWL+  N+CP CRF LPTDD   E  R   +
Sbjct:   216 CAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPVCRFELPTDDPDYE-NRSQGS 274

Query:   269 LVKTSGGGSFDGE 281
                  G GS +G+
Sbjct:   275 QGSGDGQGSVEGQ 287

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:1005716857 AT5G08139 [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 5.3e-14, P = 5.3e-14
 Identities = 29/49 (59%), Positives = 35/49 (71%)

Query:   209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
             C +CK+EM  G    +LPC H +H  CI+PWLK RNTCP CR+ LPTDD
Sbjct:   309 CAVCKDEMNIGNKAVQLPCNHKYHSECIVPWLKVRNTCPVCRYELPTDD 357

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

DICTYBASE|DDB_G0280089 DDB_G0280089 "RING zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 183 (69.5 bits), Expect = 1.9e-13, P = 1.9e-13
 Identities = 33/60 (55%), Positives = 40/60 (66%)

Query:   200 VDGAGADQC--CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
             VD    DQ   C +CK+E   G D  ELPC+HL+H  CILPWL++ N+CP CRF L TDD
Sbjct:   345 VDQTIVDQKVDCAVCKDEFKWGDDYIELPCQHLYHPECILPWLEQHNSCPVCRFELKTDD 404

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:1913760 Rnf181 "ring finger protein 181" [Mus musculus (taxid:10090)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 31/58 (53%), Positives = 35/58 (60%)

Query:   200 VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
             +  A AD  C +C  E      V E+PC HLFH  CILPWL K N+CP CR  LPTDD
Sbjct:    79 ISSAKADLKCPVCLLEFEAEETVIEMPCHHLFHSNCILPWLSKTNSCPLCRHELPTDD 136

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

FB|FBgn0038627 CG7694 [Drosophila melanogaster (taxid:7227)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 33/62 (53%), Positives = 39/62 (62%)

Query:   204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD-VFGEI 262
             G D  C +CKE    G+    LPCKH FH  CIL WLKK N+CP CR+ L TDD V+ E+
Sbjct:    65 GGDLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDDPVYEEL 124

Query:   263 ER 264
              R
Sbjct:   125 RR 126

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|C9J1C6 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 29/58 (50%), Positives = 36/58 (62%)

Query:   200 VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
             + G+ A+  C +C  E        E+PC HLFH  CILPWL K N+CP CR+ LPTDD
Sbjct:    67 IRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYELPTDD 124

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9P0P0 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 29/58 (50%), Positives = 36/58 (62%)

Query:   200 VDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
             + G+ A+  C +C  E        E+PC HLFH  CILPWL K N+CP CR+ LPTDD
Sbjct:    67 IRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYELPTDD 124

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

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

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 29/63 (46%), Positives = 38/63 (60%)

Query:   204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIE 263
             G D  C +C+++   G D  ++PCKH++H  CILPWL +RNTCP CR  LP D       
Sbjct:   116 GLDPYCPVCQDQFEIGSDARKMPCKHIYHSECILPWLVQRNTCPVCRKELPQDRNNSRKN 175

Query:   264 RLW 266
              LW
Sbjct:   176 PLW 178

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_VI001434 hypothetical protein (276 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	281
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-14
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-08
smart00184	40	smart00184, RING, Ring finger	6e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	5e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-06
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	4e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	9e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.001
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	0.001
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.002
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.002
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.003

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

 Score = 64.3 bits (157), Expect = 5e-14
 Identities = 21/42 (50%), Positives = 26/42 (61%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
           C IC +E   G +V  LPC H+FH  C+  WL+  NTCP CR
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 53.2 bits (128), Expect = 1e-09
 Identities = 23/55 (41%), Positives = 25/55 (45%), Gaps = 10/55 (18%)

Query: 206 DQCCVICKEEMGGGRDVCELP----------CKHLFHWLCILPWLKKRNTCPCCR 250
           D  C IC+    G    C+ P          C H FH  CI  WLK RNTCP CR
Sbjct: 19  DDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|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 = 52.4 bits (126), Expect = 1e-09
 Identities = 22/44 (50%), Positives = 24/44 (54%), Gaps = 3/44 (6%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCR 250
            C IC EE      V  LPC H+F   CI  WLK  +NTCP CR
Sbjct: 1   ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
           +  C IC + +     V   PC H+F   CIL +LKK++ CP CR
Sbjct: 2   ELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 47.5 bits (113), Expect = 6e-08
 Identities = 20/42 (47%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCC 249
           C IC EE    +D   LPC H F   CI  WL+  N TCP 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|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 50.0 bits (119), Expect = 5e-07
 Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWL-KKRNTCPCCRFRLP 254
           C IC         +  LPC H FH  C+  WL    N CP CR  +P
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372

Length = 374

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

 Score = 48.8 bits (116), Expect = 1e-06
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 10/58 (17%)

Query: 203 AGADQCCVICKEEM----------GGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
             +D+ C IC +EM          G       LPC H+ H  C+  WL+++ TCP CR
Sbjct: 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICR 341

Length = 491

>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 = 43.7 bits (103), Expect = 5e-06
 Identities = 21/68 (30%), Positives = 27/68 (39%), Gaps = 10/68 (14%)

Query: 186 DVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELP---CKHLFHWLCILPWLKK 242
           D+   V A+ R   +        C  C+  M  G D C +    C H FH  CI  WL  
Sbjct: 17  DIPIDVCAICRNHIMG------TCPECQFGMTPG-DECPVVWGVCNHAFHDHCIYRWLDT 69

Query: 243 RNTCPCCR 250
           +  CP  R
Sbjct: 70  KGVCPLDR 77

Length = 88

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 44.3 bits (104), Expect = 4e-05
 Identities = 23/72 (31%), Positives = 29/72 (40%), Gaps = 8/72 (11%)

Query: 196 RLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF---- 251
           ++PS+ G  +   C IC   +      CE  C H F  LCI   L  +  CP CR     
Sbjct: 15  KIPSLKGLDSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71

Query: 252 -RLPTDDVFGEI 262
            RL       EI
Sbjct: 72  SRLRGSSGSREI 83

Length = 391

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

 Score = 35.9 bits (83), Expect = 9e-04
 Identities = 22/42 (52%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCC 249
           C IC EE      V  LPC HLF   CIL WL+  N TCP C
Sbjct: 1   CPICLEEPKDP--VTILPCGHLFCSKCILSWLESGNVTCPLC 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|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 227 CKHLFHWLCILPWLKKRNTCPCCR 250
           C H+F   CI  W K++NTCP CR
Sbjct: 200 CNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 39.5 bits (92), Expect = 0.001
 Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNT--CPCCR 250
           AD  C +C EE          PC HLF   C+L    K+    CP CR
Sbjct: 214 ADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCR 258

Length = 271

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

 Score = 36.3 bits (84), Expect = 0.002
 Identities = 21/58 (36%), Positives = 24/58 (41%), Gaps = 13/58 (22%)

Query: 206 DQCCVICKEEMGGGRDVCELP----------CKHLFHWLCILPWLKKRNT---CPCCR 250
           D  C IC+    G    C+ P          CKH FH  CIL WL    +   CP CR
Sbjct: 21  DDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

 Score = 39.3 bits (91), Expect = 0.002
 Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 2/30 (6%)

Query: 227  CKHLFHWLCILPWLKK--RNTCPCCRFRLP 254
            CK+ FH  C+  W     R+ CP CR  + 
Sbjct: 1494 CKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523

Length = 1525

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 19/46 (41%), Positives = 22/46 (47%), Gaps = 5/46 (10%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCR 250
           D  CVIC E     R+V  LPC HL     C    L+ +  CP CR
Sbjct: 2   DDLCVICLERP---RNVVFLPCGHLCLCEECAK-RLRSKKKCPICR 43

Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	281
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.66
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.48
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.24
PHA02929	238	N1R/p28-like protein; Provisional	99.24
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.22
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.15
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.1
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.02
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.99
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.95
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.94
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.92
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.89
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.88
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.79
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.76
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.74
PHA02926	242	zinc finger-like protein; Provisional	98.74
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.73
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.72
PF14634	44	zf-RING_5: zinc-RING finger domain	98.7
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.66
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.47
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.43
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.41
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.41
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.34
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.32
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.26
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.14
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.13
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.11
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.07
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.98
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.95
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.9
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.79
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.74
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	97.63
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.55
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.53
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.48
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.34
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.34
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.28
KOG2660	331	consensus Locus-specific chromosome binding protei	97.21
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.89
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.76
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.73
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.72
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.69
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.44
COG5152	259	Uncharacterized conserved protein, contains RING a	96.3
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.23
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.16
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.9
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.9
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.84
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.69
PF04641	260	Rtf2: Rtf2 RING-finger	95.63
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.61
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.48
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.43
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.42
PHA02862	156	5L protein; Provisional	95.35
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.29
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.23
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.16
PHA03096	284	p28-like protein; Provisional	95.07
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.98
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.58
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	94.55
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.31
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.18
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.95
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.92
KOG1940	276	consensus Zn-finger protein [General function pred	93.91
KOG4739	233	consensus Uncharacterized protein involved in syna	93.55
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.53
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.26
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	92.24
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.94
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.21
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.9
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.88
COG5236	493	Uncharacterized conserved protein, contains RING Z	90.69
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	90.09
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	89.61
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	89.33
KOG1609	323	consensus Protein involved in mRNA turnover and st	89.2
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.3
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	87.54
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.94
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	86.85
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.53
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	86.42
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	86.36
KOG3002	299	consensus Zn finger protein [General function pred	85.24
KOG3899	381	consensus Uncharacterized conserved protein [Funct	84.8

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

Probab=99.66  E-value=1.4e-16  Score=151.60  Aligned_cols=75  Identities=33%  Similarity=0.644  Sum_probs=64.0

Q ss_pred             CCchhhHHHHhcCCCccCCCCc-----ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCCCCc
Q 023542          185 RDVAAAVAAVVRLPSVDGAGAD-----QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDV  258 (281)
Q Consensus       185 ~~~~as~~~i~~LP~~~~~~~~-----~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~~~  258 (281)
                      +.....+..+.++|...+...+     ..|+||+|+|+.|+++|.|||+|.||..||++||.+++ .||+||+++.+...
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            3566788999999999884432     28999999999999999999999999999999998876 49999999966554


Q ss_pred             h
Q 023542          259 F  259 (281)
Q Consensus       259 ~  259 (281)
                      .
T Consensus       283 ~  283 (348)
T KOG4628|consen  283 S  283 (348)
T ss_pred             C
Confidence            4

>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=99.48  E-value=1.2e-14  Score=99.14  Aligned_cols=43  Identities=53%  Similarity=1.218  Sum_probs=40.3

Q ss_pred             cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCcc
Q 023542          208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR  250 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR  250 (281)
                      +|+||+++|..++.+..++|+|.||.+||.+|++++.+||+||
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            6999999999888999999999999999999999999999997

...

>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=99.24  E-value=5.6e-12  Score=95.38  Aligned_cols=46  Identities=48%  Similarity=1.079  Sum_probs=36.7

Q ss_pred             CcccccccccccCCC----------CceeEcCCCCcccHhhHHHHHhcCCCCCCcc
Q 023542          205 ADQCCVICKEEMGGG----------RDVCELPCKHLFHWLCILPWLKKRNTCPCCR  250 (281)
Q Consensus       205 ~~~~CaICLeef~~~----------~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR  250 (281)
                      .+..|+||++++.+.          ..+...+|+|.||..||.+|++.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            345599999999432          3445558999999999999999999999998

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=6.7e-12  Score=114.64  Aligned_cols=67  Identities=33%  Similarity=0.583  Sum_probs=52.5

Q ss_pred             hhhHHHHhcCCCccC-------CCCcccccccccccCCCCc----eeEc-CCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          188 AAAVAAVVRLPSVDG-------AGADQCCVICKEEMGGGRD----VCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       188 ~as~~~i~~LP~~~~-------~~~~~~CaICLeef~~~~~----vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +.++.-++.+|.+..       ..++.+|+||++++.++..    +..+ +|+|.||..||.+|++.+.+||+||..+.
T Consensus       149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            346777788887753       2347889999999875431    2334 69999999999999999999999999874

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

Probab=99.22  E-value=6e-12  Score=117.38  Aligned_cols=53  Identities=36%  Similarity=0.774  Sum_probs=47.8

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPT  255 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~  255 (281)
                      ...+.+|+|||++|..+++++.+||.|.||..|+++|+.. +..||+||..+++
T Consensus       320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3457999999999988889999999999999999999995 5589999999875

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

Probab=99.15  E-value=6.4e-11  Score=109.83  Aligned_cols=54  Identities=33%  Similarity=0.886  Sum_probs=47.5

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  259 (281)
                      ...+..|.+||+...++.   .+||||.|||.||..|......||+||..+.+.++.
T Consensus       236 ~~a~~kC~LCLe~~~~pS---aTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPS---ATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI  289 (293)
T ss_pred             CCCCCceEEEecCCCCCC---cCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence            455788999999887665   789999999999999999999999999999877653

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

Probab=99.10  E-value=4.9e-11  Score=113.89  Aligned_cols=51  Identities=35%  Similarity=0.906  Sum_probs=43.8

Q ss_pred             CCCcccccccccc-cCCC---------CceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          203 AGADQCCVICKEE-MGGG---------RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       203 ~~~~~~CaICLee-f~~~---------~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      ..+|..|.||+|+ |+.+         .+...+||||.||.+|++.|++++++||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            4568889999999 4444         2446889999999999999999999999999996

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.02  E-value=1.6e-10  Score=102.33  Aligned_cols=53  Identities=30%  Similarity=0.744  Sum_probs=43.1

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc----------------CCCCCCccccCCCCCch
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK----------------RNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~----------------~~tCPlCR~~l~~~~~~  259 (281)
                      .++.+|+||++.++++.   .++|||.||+.||.+|+..                ...||+||..+...+..
T Consensus        16 ~~~~~CpICld~~~dPV---vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv   84 (193)
T PLN03208         16 GGDFDCNICLDQVRDPV---VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV   84 (193)
T ss_pred             CCccCCccCCCcCCCcE---EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence            45788999999987553   6789999999999999852                24799999999766544

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

Probab=98.99  E-value=2.2e-10  Score=103.50  Aligned_cols=52  Identities=33%  Similarity=0.790  Sum_probs=42.5

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC---CCCCCccccCCCCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR---NTCPCCRFRLPTDD  257 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~l~~~~  257 (281)
                      +....+|.||+|--+++.   ++.|||.|||.||.+||..+   +.||+||..|..+.
T Consensus        44 ~~~~FdCNICLd~akdPV---vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPV---VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCCCE---EeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            456899999999866544   66799999999999999853   36899999996554

>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=98.95  E-value=5.9e-10  Score=77.91  Aligned_cols=46  Identities=43%  Similarity=0.834  Sum_probs=39.1

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +..|.||++...   .+..+||||. ||..|+.+|+++...||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            568999999864   4667899999 999999999999999999999874

...

>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=98.94  E-value=7.7e-10  Score=73.10  Aligned_cols=44  Identities=50%  Similarity=1.021  Sum_probs=36.5

Q ss_pred             cccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccC
Q 023542          208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRL  253 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l  253 (281)
                      +|+||++.+.  +.....+|+|.||..|++.|++. +..||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983  34445569999999999999987 77899999764

>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=98.92  E-value=8.4e-10  Score=73.42  Aligned_cols=39  Identities=41%  Similarity=0.912  Sum_probs=33.1

Q ss_pred             ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlC  249 (281)
                      |+||++.+.+  .+..++|||.||.+|+.+|++.+.+||+|
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            8999999875  44578999999999999999998899998

>smart00504 Ubox Modified RING finger domain

Probab=98.89  E-value=1.9e-09  Score=77.75  Aligned_cols=60  Identities=25%  Similarity=0.283  Sum_probs=47.7

Q ss_pred             ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHH
Q 023542          207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALV  270 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~  270 (281)
                      ..|+||.+.+.++.   .++|||.|++.||.+|++++.+||+|+..+..++.. ....+.+.++
T Consensus         2 ~~Cpi~~~~~~~Pv---~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~-~~~~l~~~i~   61 (63)
T smart00504        2 FLCPISLEVMKDPV---ILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI-PNLALKSAIQ   61 (63)
T ss_pred             cCCcCCCCcCCCCE---ECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce-eCHHHHHHHH
Confidence            46999999998753   679999999999999999988999999998655533 3445555444

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

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

Probab=98.88  E-value=1.4e-09  Score=84.64  Aligned_cols=51  Identities=37%  Similarity=0.837  Sum_probs=39.4

Q ss_pred             CcccccccccccCC--------CC--ceeEcCCCCcccHhhHHHHHhc---CCCCCCccccCCC
Q 023542          205 ADQCCVICKEEMGG--------GR--DVCELPCKHLFHWLCILPWLKK---RNTCPCCRFRLPT  255 (281)
Q Consensus       205 ~~~~CaICLeef~~--------~~--~vr~LPC~H~FH~~CI~~WL~~---~~tCPlCR~~l~~  255 (281)
                      ++..|.||...|+.        |+  .+..-.|+|.||..||.+|+++   +.+||+||+.+.-
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            47779999999862        22  3333369999999999999985   4589999998753

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

Probab=98.79  E-value=3.2e-09  Score=72.27  Aligned_cols=38  Identities=34%  Similarity=0.761  Sum_probs=29.5

Q ss_pred             ccccccccCCCCceeEcCCCCcccHhhHHHHHhcC----CCCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR----NTCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~----~tCPlC  249 (281)
                      |+||++.|+++.   .++|||.||..||.+|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv---~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPV---SLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEE---E-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcc---ccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999998665   88999999999999999753    369988

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

Probab=98.76  E-value=3.7e-09  Score=92.29  Aligned_cols=53  Identities=28%  Similarity=0.597  Sum_probs=43.9

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      ++.+.|+|||+.+..... ..+.|||+||..||+.-++....||+||..|..+.
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            346889999999975443 34679999999999999999999999998876554

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.74  E-value=1.1e-08  Score=99.62  Aligned_cols=57  Identities=30%  Similarity=0.526  Sum_probs=46.6

Q ss_pred             CCccCCCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          198 PSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       198 P~~~~~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      |....-.+...|+||++.|.++.   .++|+|.||..||..|+.....||+||..+....
T Consensus        18 ~~l~~Le~~l~C~IC~d~~~~Pv---itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~   74 (397)
T TIGR00599        18 PSLYPLDTSLRCHICKDFFDVPV---LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK   74 (397)
T ss_pred             ccccccccccCCCcCchhhhCcc---CCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence            33333455789999999997654   6799999999999999998889999999886543

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

>PHA02926 zinc finger-like protein; Provisional

Probab=98.74  E-value=6e-09  Score=94.04  Aligned_cols=52  Identities=35%  Similarity=0.750  Sum_probs=39.0

Q ss_pred             CCCcccccccccccCCC-----CceeEc-CCCCcccHhhHHHHHhcC------CCCCCccccCC
Q 023542          203 AGADQCCVICKEEMGGG-----RDVCEL-PCKHLFHWLCILPWLKKR------NTCPCCRFRLP  254 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~-----~~vr~L-PC~H~FH~~CI~~WL~~~------~tCPlCR~~l~  254 (281)
                      ...+.+|+||+|..-++     ..-..+ +|+|.||..||..|.+.+      .+||+||..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            34578899999986432     112344 699999999999999753      35999998763

>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=98.73  E-value=7.2e-09  Score=69.07  Aligned_cols=39  Identities=38%  Similarity=0.873  Sum_probs=33.5

Q ss_pred             ccccccccCCCCceeEcCCCCcccHhhHHHHHh--cCCCCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--KRNTCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlC  249 (281)
                      |+||++.+.++.  ..++|+|.||..|+.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999987533  5779999999999999999  45589998

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 ....

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

Probab=98.72  E-value=4.2e-09  Score=106.34  Aligned_cols=50  Identities=42%  Similarity=1.022  Sum_probs=44.3

Q ss_pred             CcccccccccccCCCCc--eeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGGGRD--VCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~--vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .+..|+||+|++..+.+  ...+||+|.||..|+..|+++.++||+||..+.
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            47889999999987654  668899999999999999999999999999553

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.70  E-value=1.3e-08  Score=69.56  Aligned_cols=44  Identities=32%  Similarity=0.594  Sum_probs=38.3

Q ss_pred             cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542          208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF  251 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~  251 (281)
                      .|+||.+.|.+......++|||.||..|+..+......||+||+
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            49999999955567778899999999999999866779999984

>smart00184 RING Ring finger

Probab=98.66  E-value=2.1e-08  Score=63.86  Aligned_cols=38  Identities=55%  Similarity=1.179  Sum_probs=32.7

Q ss_pred             ccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlC  249 (281)
                      |+||++..   .....++|+|.||..|++.|++ .+..||+|
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            78999883   4566789999999999999998 66789988

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)

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

Probab=98.47  E-value=7.1e-08  Score=88.82  Aligned_cols=52  Identities=40%  Similarity=0.776  Sum_probs=43.6

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHH-HHhcCCC-CCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP-WLKKRNT-CPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~-WL~~~~t-CPlCR~~l~~~~~  258 (281)
                      ..+..|+||+++.+.+.   .+||||.||+.||.. |=.++.. ||+||+.+..+++
T Consensus       213 ~~d~kC~lC~e~~~~ps---~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVPS---CTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCcc---cccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            55899999999876544   779999999999999 8776664 9999999877765

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

Probab=98.43  E-value=1.2e-07  Score=72.96  Aligned_cols=32  Identities=38%  Similarity=0.777  Sum_probs=28.7

Q ss_pred             CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          226 PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       226 PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      -|+|.||..||.+||.++..||++|+.+.-.+
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~   84 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD   84 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence            59999999999999999999999999875443

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

Probab=98.41  E-value=8.2e-08  Score=73.24  Aligned_cols=51  Identities=39%  Similarity=0.895  Sum_probs=37.6

Q ss_pred             CCcccccccccccCCCCceeEc----------CCCCcccHhhHHHHHhc---CCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCEL----------PCKHLFHWLCILPWLKK---RNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L----------PC~H~FH~~CI~~WL~~---~~tCPlCR~~l~  254 (281)
                      ..+..|.||+-.|...-....+          -|.|.||..||.+|+..   +..||+||+.+.
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3456899999888532222221          38999999999999974   448999999874

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

Probab=98.41  E-value=2.1e-07  Score=70.18  Aligned_cols=63  Identities=27%  Similarity=0.330  Sum_probs=45.3

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      +...|+||.+-|.++.   .+||||.|.+.||..|+++ +.+||+|+..+...+. ..+..+...++.
T Consensus         3 ~~f~CpIt~~lM~dPV---i~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l-~pn~~Lk~~I~~   66 (73)
T PF04564_consen    3 DEFLCPITGELMRDPV---ILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL-IPNRALKSAIEE   66 (73)
T ss_dssp             GGGB-TTTSSB-SSEE---EETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS-EE-HHHHHHHHH
T ss_pred             cccCCcCcCcHhhCce---eCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc-eECHHHHHHHHH
Confidence            4678999999998666   7799999999999999998 8899999998876543 345555555554

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 ....

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

Probab=98.34  E-value=1e-07  Score=88.12  Aligned_cols=58  Identities=29%  Similarity=0.798  Sum_probs=46.8

Q ss_pred             CCcccccccccccCCCC-------ceeEcCCCCcccHhhHHHHHh--cCCCCCCccccCCCCCchhH
Q 023542          204 GADQCCVICKEEMGGGR-------DVCELPCKHLFHWLCILPWLK--KRNTCPCCRFRLPTDDVFGE  261 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~-------~vr~LPC~H~FH~~CI~~WL~--~~~tCPlCR~~l~~~~~~~e  261 (281)
                      -++..|+||-..+...+       +.-.+.|+|+||..||+.|--  +.++||.||..+..+....+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn  288 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN  288 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence            35778999998886544       677889999999999999974  67899999999866655443

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

Probab=98.32  E-value=3.6e-07  Score=62.63  Aligned_cols=38  Identities=39%  Similarity=0.761  Sum_probs=22.6

Q ss_pred             ccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcC----CCCC
Q 023542          209 CVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKR----NTCP  247 (281)
Q Consensus       209 CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~----~tCP  247 (281)
                      |+||.+ |.+.+ ....|+|||+|+.+|++++++++    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 86644 45678999999999999999853    2676

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

Probab=98.27  E-value=3.9e-07  Score=90.41  Aligned_cols=52  Identities=31%  Similarity=0.614  Sum_probs=41.8

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----CCCCCCccccCCCCCchh
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----RNTCPCCRFRLPTDDVFG  260 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~~~  260 (281)
                      +..|+||+++...+.   .+.|||+||..||..++..     ...||+||..|..+++..
T Consensus       186 ~~~CPICL~~~~~p~---~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p  242 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPV---RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP  242 (513)
T ss_pred             CCcCCcccCCCCccc---ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence            788999999865433   3459999999999999874     358999999998877543

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

Probab=98.26  E-value=3.9e-07  Score=86.69  Aligned_cols=54  Identities=30%  Similarity=0.532  Sum_probs=45.9

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  259 (281)
                      -.+-..|-||.+-|..+.   .+||+|.||.-||...|..+..||.|+..+.+.+..
T Consensus        20 lD~lLRC~IC~eyf~ip~---itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPM---ITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR   73 (442)
T ss_pred             hHHHHHHhHHHHHhcCce---eccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence            344577999999997655   779999999999999999999999999988766543

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

Probab=98.24  E-value=4e-07  Score=80.26  Aligned_cols=46  Identities=30%  Similarity=0.602  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF  251 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~  251 (281)
                      ..+...|+||++.|.++   ..+||+|.||..|+..++.....||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            34578899999999877   58899999999999999995568999994

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

Probab=98.14  E-value=9.9e-07  Score=82.53  Aligned_cols=55  Identities=33%  Similarity=0.575  Sum_probs=44.5

Q ss_pred             CCCccCCCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          197 LPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       197 LP~~~~~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +|....-..-..|-||-+.|..+.   .++|||.||.-||.+.|..+..||+||.+..
T Consensus        16 IPSL~~LDs~lrC~IC~~~i~ip~---~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          16 IPSLKGLDSMLRCRICDCRISIPC---ETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             CcchhcchhHHHhhhhhheeecce---ecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            344433334567999999987554   6789999999999999999999999999874

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.13  E-value=3e-06  Score=80.26  Aligned_cols=53  Identities=23%  Similarity=0.426  Sum_probs=38.7

Q ss_pred             Cccccccccccc-CCCC-ceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCC
Q 023542          205 ADQCCVICKEEM-GGGR-DVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef-~~~~-~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~  257 (281)
                      ++..|++|..+- -.+. ++..-+|||.||..|++..+. ....||.|+..+...+
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            356799999963 2333 222237999999999999765 4568999998886555

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).

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

Probab=98.11  E-value=2.5e-06  Score=59.93  Aligned_cols=42  Identities=33%  Similarity=0.899  Sum_probs=32.5

Q ss_pred             cccccccccCCCCceeEcCCC-----CcccHhhHHHHHhc--CCCCCCcc
Q 023542          208 CCVICKEEMGGGRDVCELPCK-----HLFHWLCILPWLKK--RNTCPCCR  250 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR  250 (281)
                      .|.||+++ .+++.....||.     |.||..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48999993 344455577975     88999999999965  44899995

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

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

Probab=98.07  E-value=1.4e-06  Score=86.26  Aligned_cols=50  Identities=36%  Similarity=0.870  Sum_probs=39.2

Q ss_pred             cccccccccccCC-----CCc---------eeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCC
Q 023542          206 DQCCVICKEEMGG-----GRD---------VCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPT  255 (281)
Q Consensus       206 ~~~CaICLeef~~-----~~~---------vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~  255 (281)
                      ...|+|||.++.-     +..         -..+||.|.||..|+.+|....+ .||+||.+++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            5679999998742     111         12349999999999999999655 99999999874

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

Probab=97.98  E-value=2.6e-06  Score=83.50  Aligned_cols=48  Identities=29%  Similarity=0.840  Sum_probs=39.5

Q ss_pred             CcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +-..|+|||+.+.... .+....|.|.||..|+.+|  ...+||+||....
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             cCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence            4567999999996544 3455579999999999999  6779999998766

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

Probab=97.95  E-value=2.3e-06  Score=89.95  Aligned_cols=51  Identities=29%  Similarity=0.742  Sum_probs=37.8

Q ss_pred             CCcccccccccccC-CCC--ceeEcC-CCCcccHhhHHHHHhc--CCCCCCccccCC
Q 023542          204 GADQCCVICKEEMG-GGR--DVCELP-CKHLFHWLCILPWLKK--RNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~-~~~--~vr~LP-C~H~FH~~CI~~WL~~--~~tCPlCR~~l~  254 (281)
                      ++..+|+||..... .+.  .-...| |.|.||..|+.+|++.  +++||+||..++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34788999988764 111  111223 9999999999999985  568999998775

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

Probab=97.90  E-value=6.4e-06  Score=66.33  Aligned_cols=50  Identities=34%  Similarity=0.686  Sum_probs=37.5

Q ss_pred             CcccccccccccCC-----------C-C--ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGG-----------G-R--DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~-----------~-~--~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .-..|+||+.-+-+           . +  .+.---|+|.||..||.+||++++.||+|.+++.
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            35679998764411           1 1  2333359999999999999999999999988764

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

Probab=97.79  E-value=4.4e-06  Score=62.77  Aligned_cols=49  Identities=27%  Similarity=0.592  Sum_probs=22.9

Q ss_pred             cccccccccccC-CCCcee-Ec---CCCCcccHhhHHHHHhc---C--------CCCCCccccCC
Q 023542          206 DQCCVICKEEMG-GGRDVC-EL---PCKHLFHWLCILPWLKK---R--------NTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~-~~~~vr-~L---PC~H~FH~~CI~~WL~~---~--------~tCPlCR~~l~  254 (281)
                      +.+|.||.+.+. +++... .-   .|+..||..|+.+||..   .        .+||.|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            467999999875 333211 22   39999999999999973   1        25999998874

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

Probab=97.74  E-value=1.9e-05  Score=76.45  Aligned_cols=48  Identities=27%  Similarity=0.794  Sum_probs=37.2

Q ss_pred             cccccccccccCCCCceeEcC-CCCcccHhhHHHHHhc---CCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKK---RNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~---~~tCPlCR~~l  253 (281)
                      ...|.||.+-+-...++..+. |||+||..|+..|+..   +++||+||-.+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            467999955554455666664 9999999999999984   46899999444

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

Probab=97.70  E-value=2.3e-05  Score=75.08  Aligned_cols=47  Identities=38%  Similarity=0.775  Sum_probs=40.5

Q ss_pred             CcccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .+.+|.||+.+-   +.+..|||.|. -|..|.+..--.++.||+||+++.
T Consensus       289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            378899999974   56679999999 999999997777889999999873

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

Probab=97.67  E-value=7.2e-06  Score=78.46  Aligned_cols=51  Identities=29%  Similarity=0.606  Sum_probs=41.2

Q ss_pred             CcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  258 (281)
                      .++.|+||++-++.   .+..+ |.|.||.+||.+-++. +++||.||..+.++..
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs   94 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS   94 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence            37889999998853   33444 9999999999999975 7799999999866553

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

Probab=97.63  E-value=2.9e-05  Score=73.06  Aligned_cols=51  Identities=31%  Similarity=0.672  Sum_probs=41.4

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCch
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~  259 (281)
                      ..+|+||......+   ..++|+|.||..||+.-.+. ..+|++||+++++.-.+
T Consensus         7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~   58 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF   58 (324)
T ss_pred             CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence            56899999976544   47889999999999998865 55799999999765444

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

Probab=97.55  E-value=6.6e-05  Score=73.44  Aligned_cols=66  Identities=26%  Similarity=0.488  Sum_probs=51.7

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      .++..|++|...+.++...  ..|+|.||..|+..|+..+..||.|+..+............+..+.+
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~   84 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLK   84 (391)
T ss_pred             cccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHh
Confidence            4478899999999876632  57999999999999999999999999988766655544444444443

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

Probab=97.53  E-value=2.8e-05  Score=57.67  Aligned_cols=50  Identities=28%  Similarity=0.555  Sum_probs=24.4

Q ss_pred             ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchh
Q 023542          207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFG  260 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~  260 (281)
                      ..|++|.+-++++  +....|.|.||+.||..-+.  ..||+|+.+--.+|...
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~   57 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQI   57 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS---
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHh
Confidence            4699999988754  34457999999999988554  35999998877777653

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

Probab=97.48  E-value=8.1e-05  Score=72.57  Aligned_cols=49  Identities=33%  Similarity=0.710  Sum_probs=38.7

Q ss_pred             CcccccccccccCCCCcee--EcCCCCcccHhhHHHHHhc--CCCCCCccccC
Q 023542          205 ADQCCVICKEEMGGGRDVC--ELPCKHLFHWLCILPWLKK--RNTCPCCRFRL  253 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr--~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l  253 (281)
                      .+..|+||+++++.+.+-|  .+.|+|.|-..||.+||.+  ...||.|..+-
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            3678999999998755444  3469999999999999963  33799997654

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

Probab=97.39  E-value=7.9e-05  Score=71.75  Aligned_cols=50  Identities=32%  Similarity=0.768  Sum_probs=38.4

Q ss_pred             CCcccccccccccCCCC----ceeEcC-CCCcccHhhHHHHHh--c-----CCCCCCccccC
Q 023542          204 GADQCCVICKEEMGGGR----DVCELP-CKHLFHWLCILPWLK--K-----RNTCPCCRFRL  253 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~----~vr~LP-C~H~FH~~CI~~WL~--~-----~~tCPlCR~~l  253 (281)
                      ..+.+|.||++...+..    .-..+| |.|.||..||+.|-+  +     .+.||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45788999999875422    123445 999999999999983  3     46899999876

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

Probab=97.34  E-value=6.9e-05  Score=77.60  Aligned_cols=51  Identities=22%  Similarity=0.535  Sum_probs=41.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCch
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~  259 (281)
                      -..|++|-..+++   +....|+|.||..|+.+-+. +++.||.|...+...|+.
T Consensus       643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            4679999877653   33556999999999999997 577999999999877764

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

Probab=97.34  E-value=4.2e-05  Score=79.40  Aligned_cols=51  Identities=22%  Similarity=0.403  Sum_probs=43.9

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      ....|++|+..+.++......+|+|.||..||..|-+...+||+||..+..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            456799999999877665566899999999999999999999999998743

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

Probab=97.33  E-value=0.0002  Score=70.19  Aligned_cols=52  Identities=25%  Similarity=0.503  Sum_probs=44.1

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ..+.+|.||..-+..+.   .+||||.||..||++-+.....||.||..+..-.+
T Consensus        82 ~sef~c~vc~~~l~~pv---~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~  133 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPV---VTPCGHSFCLECLDRSLDQETECPLCRDELVELPA  133 (398)
T ss_pred             cchhhhhhhHhhcCCCc---cccccccccHHHHHHHhccCCCCcccccccccchH
Confidence            45899999999887555   66999999999999988888899999999976443

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

Probab=97.30  E-value=0.00033  Score=63.81  Aligned_cols=70  Identities=30%  Similarity=0.653  Sum_probs=51.2

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--------CCCCCCccccCC--CCCchhHHHHHHHHH--HHhc
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--------RNTCPCCRFRLP--TDDVFGEIERLWDAL--VKTS  273 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--------~~tCPlCR~~l~--~~~~~~e~~rl~~~l--~~~~  273 (281)
                      +..|..|--.++.|+.+| +-|-|.|||+|++.|-..        ...||.|..+|-  ...+....+.+.+.+  ++|+
T Consensus        50 ~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~qvNWa  128 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQVNWA  128 (299)
T ss_pred             CCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHhhhHH
Confidence            567999999998888665 459999999999999863        237999999883  333444566666666  3455


Q ss_pred             CCC
Q 023542          274 GGG  276 (281)
Q Consensus       274 ~~~  276 (281)
                      ++|
T Consensus       129 Rag  131 (299)
T KOG3970|consen  129 RAG  131 (299)
T ss_pred             hhc
Confidence            544

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

Probab=97.28  E-value=6.5e-05  Score=54.16  Aligned_cols=45  Identities=31%  Similarity=0.660  Sum_probs=35.2

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHh-cCCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLK-KRNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~-~~~tCPlCR~~l  253 (281)
                      +.+|.||.|.-   .+-...-|||. .|.+|..+-++ .+..||+||+++
T Consensus         7 ~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            47899998753   33334469998 89999888776 688999999976

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

Probab=97.21  E-value=0.00015  Score=68.99  Aligned_cols=48  Identities=23%  Similarity=0.617  Sum_probs=39.9

Q ss_pred             cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTD  256 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~  256 (281)
                      -..|.+|-.-|-+..   ++ -|-|.||+.||.+.|..+.+||+|...+-..
T Consensus        15 ~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   15 HITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ceehhhccceeecch---hHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            567999998886544   33 4999999999999999999999998887433

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

Probab=96.89  E-value=0.00034  Score=68.07  Aligned_cols=46  Identities=35%  Similarity=0.879  Sum_probs=38.8

Q ss_pred             cccccccccccCC-CCceeEcCCCCcccHhhHHHHHhcCC--CCCCccc
Q 023542          206 DQCCVICKEEMGG-GRDVCELPCKHLFHWLCILPWLKKRN--TCPCCRF  251 (281)
Q Consensus       206 ~~~CaICLeef~~-~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlCR~  251 (281)
                      +..|..|-+.+.. ++.+..+||.|+||..|+...|.++.  +||.||.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            6679999999854 34777889999999999999997654  7999983

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

Probab=96.76  E-value=0.00054  Score=66.88  Aligned_cols=46  Identities=37%  Similarity=0.840  Sum_probs=37.9

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCCccccCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l~  254 (281)
                      ...|.||-|.   .+.++.-||||..|..|+..|-..  .++||.||.+|.
T Consensus       369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            4569999774   356667799999999999999854  569999999984

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

Probab=96.73  E-value=0.00042  Score=65.40  Aligned_cols=49  Identities=29%  Similarity=0.748  Sum_probs=41.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----------------------CCCCCCccccCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----------------------RNTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----------------------~~tCPlCR~~l~  254 (281)
                      ..+|.|||--|.++.....++|-|.||..|+.++|..                       ...||+||..|.
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            4569999999999888888899999999999988751                       136999999884

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

Probab=96.72  E-value=0.00094  Score=48.37  Aligned_cols=41  Identities=24%  Similarity=0.503  Sum_probs=28.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPC  248 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPl  248 (281)
                      ...|+|.+..|++  .++...|+|.|-++.|..|+++  ...||+
T Consensus        11 ~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            6789999999985  4556689999999999999954  347998

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

Probab=96.69  E-value=0.0013  Score=72.21  Aligned_cols=65  Identities=31%  Similarity=0.715  Sum_probs=47.0

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC----------CCCCCccccCCC---CCchhHHHHHHHHH
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR----------NTCPCCRFRLPT---DDVFGEIERLWDAL  269 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~----------~tCPlCR~~l~~---~~~~~e~~rl~~~l  269 (281)
                      .|..|.||.-|--.......+.|+|.||..|..+.|+++          -.||+|+.++..   +|....+.++++.+
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkDLldPiKel~edV 3562 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKDLLDPIKELYEDV 3562 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHHHHHHHHHHHHHH
Confidence            477899998876555677788899999999999888653          179999998843   34443444444433

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

Probab=96.44  E-value=0.0012  Score=63.73  Aligned_cols=56  Identities=25%  Similarity=0.412  Sum_probs=44.7

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEI  262 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~  262 (281)
                      .++..|+||..   .+......||+|.-|..||.+-+...+.|=.|+..+.....+.+.
T Consensus       420 sEd~lCpICyA---~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ld~~~  475 (489)
T KOG4692|consen  420 SEDNLCPICYA---GPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVILDKEE  475 (489)
T ss_pred             cccccCcceec---ccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeeehhccccc
Confidence            45788999955   344455679999999999999999999999999998765544443

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

Probab=96.30  E-value=0.002  Score=57.77  Aligned_cols=44  Identities=27%  Similarity=0.533  Sum_probs=38.3

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCcccc
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFR  252 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~  252 (281)
                      ...|.||.++|+.+.   ...|||.||..|.-+=.+...+|-+|-..
T Consensus       196 PF~C~iCKkdy~spv---vt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYESPV---VTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccchh---hhhcchhHHHHHHHHHhccCCcceecchh
Confidence            567999999998665   66799999999999988999999999654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.23  E-value=0.004  Score=57.54  Aligned_cols=54  Identities=17%  Similarity=0.321  Sum_probs=48.3

Q ss_pred             CcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ..+.|+||.+.+.+......| ||||+|+.+|..+.+..-..||+|-.++...|.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence            467899999999998888888 799999999999999999999999988876664

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

Probab=96.16  E-value=0.017  Score=55.38  Aligned_cols=49  Identities=14%  Similarity=0.425  Sum_probs=38.5

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      ..+...|+||+....++..+.  --|-+||..||-..+.++++||+-..+.
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHhccCCCceEE--ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345678999999876655221  2699999999999999999999876554

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

Probab=96.08  E-value=0.0054  Score=57.37  Aligned_cols=50  Identities=24%  Similarity=0.448  Sum_probs=37.9

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--CCCCCccccCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--NTCPCCRFRLP  254 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--~tCPlCR~~l~  254 (281)
                      ...+.+|++|-+.=..+-  ...+|+|+||.-||..=....  .+||.|-.++.
T Consensus       236 ~t~~~~C~~Cg~~PtiP~--~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPH--VIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCe--eeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            445889999987643332  234699999999999977643  69999988775

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

Probab=95.90  E-value=0.0075  Score=59.19  Aligned_cols=47  Identities=30%  Similarity=0.526  Sum_probs=36.9

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--------CCCCCccc
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--------NTCPCCRF  251 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--------~tCPlCR~  251 (281)
                      .-..|.||.++.....-...+||+|+||+.|...++...        -.||-|+-
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            467899999998655677788999999999999998631        26876543

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

Probab=95.90  E-value=0.0039  Score=62.95  Aligned_cols=53  Identities=28%  Similarity=0.606  Sum_probs=40.8

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----CCCCCCccccCCCCCc
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~  258 (281)
                      +.+..+|.+|-++-++..   ...|.|.||+.||..+...     +-+||+|-..+.-+..
T Consensus       533 nk~~~~C~lc~d~aed~i---~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls  590 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYI---ESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS  590 (791)
T ss_pred             ccCceeecccCChhhhhH---hhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence            456788999998755433   5569999999999999863     4489999888765543

>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=95.84  E-value=0.0034  Score=49.22  Aligned_cols=34  Identities=26%  Similarity=0.731  Sum_probs=27.2

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILP  238 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~  238 (281)
                      .++..|++|-..+.. ......||||.||..|+++
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~r  109 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIKR  109 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEecccccC
Confidence            346679999999976 4556679999999999763

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 [].

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.69  E-value=0.011  Score=51.40  Aligned_cols=47  Identities=28%  Similarity=0.674  Sum_probs=34.6

Q ss_pred             CCcccccccccccCCCCceeEcCCCC-----cccHhhHHHHHhc--CCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKH-----LFHWLCILPWLKK--RNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H-----~FH~~CI~~WL~~--~~tCPlCR~~l~  254 (281)
                      ..+.+|-||.++-.  ..  .-||..     .-|.+|+.+|+..  ...|++|+++..
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            44778999998843  22  237554     4599999999975  447999988873

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.63  E-value=0.023  Score=52.59  Aligned_cols=53  Identities=25%  Similarity=0.520  Sum_probs=41.8

Q ss_pred             CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      .....|+|...+|........+ ||||+|...++..- .....||+|-.++...|
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            4578899999999554444444 89999999999997 33568999999886655

>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=95.61  E-value=0.0065  Score=51.31  Aligned_cols=37  Identities=19%  Similarity=0.395  Sum_probs=29.8

Q ss_pred             CcccccccccccCCCCceeEcCCC------CcccHhhHHHHHh
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCK------HLFHWLCILPWLK  241 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~------H~FH~~CI~~WL~  241 (281)
                      ...+|+||++.+.+.+.+..++|+      |.||.+|+.+|-+
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            367899999999874455566776      8899999999943

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.

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

Probab=95.48  E-value=0.011  Score=55.89  Aligned_cols=45  Identities=24%  Similarity=0.461  Sum_probs=39.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      ...|-||.+.|..+.   ...|+|.||..|...-+++...|++|-++.
T Consensus       241 Pf~c~icr~~f~~pV---vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPV---VTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccch---hhcCCceeehhhhccccccCCcceeccccc
Confidence            456999999998766   667999999999999999999999997765

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

Probab=95.43  E-value=0.0051  Score=53.65  Aligned_cols=31  Identities=32%  Similarity=0.789  Sum_probs=28.1

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccH
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHW  233 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~  233 (281)
                      +.+..+|.||+|+++.++.+..|||-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            4457899999999999999999999999996

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

Probab=95.42  E-value=0.018  Score=56.04  Aligned_cols=70  Identities=20%  Similarity=0.434  Sum_probs=46.2

Q ss_pred             hhhHHHHhcCCCccCC---CCcccccccccccCCCCcee--------------Ec----C--CCCcccHhhHHHHHhc--
Q 023542          188 AAAVAAVVRLPSVDGA---GADQCCVICKEEMGGGRDVC--------------EL----P--CKHLFHWLCILPWLKK--  242 (281)
Q Consensus       188 ~as~~~i~~LP~~~~~---~~~~~CaICLeef~~~~~vr--------------~L----P--C~H~FH~~CI~~WL~~--  242 (281)
                      .+=++.++..|.....   .+...|--|+..-.+ .++.              ..    +  |.-.+|.+|+-+|+..  
T Consensus       250 e~F~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~-vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQ  328 (358)
T PF10272_consen  250 EAFKEQVEQNPRYSYPESGQELEPCIGCMQAQPN-VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQ  328 (358)
T ss_pred             HHHHHHHHhCCccccCCCccccCCccccccCCCC-cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcC
Confidence            3446677777777665   556778888875421 1111              01    2  4556789999999963  


Q ss_pred             -----------CCCCCCccccCCCCCc
Q 023542          243 -----------RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       243 -----------~~tCPlCR~~l~~~~~  258 (281)
                                 +.+||+||+.++--|+
T Consensus       329 d~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  329 DQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             CCCChhhhhcCCCCCCCCcccceeeee
Confidence                       2379999999876664

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

>PHA02862 5L protein; Provisional

Probab=95.35  E-value=0.013  Score=50.23  Aligned_cols=48  Identities=19%  Similarity=0.606  Sum_probs=35.2

Q ss_pred             cccccccccccCCCCceeEcCCC-----CcccHhhHHHHHhc--CCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCK-----HLFHWLCILPWLKK--RNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR~~l~~~~  257 (281)
                      +..|-||.++-+  +.  .-||.     ..-|.+|+.+|++.  +.+|++||.+..-+.
T Consensus         2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~   56 (156)
T PHA02862          2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK   56 (156)
T ss_pred             CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence            356999999843  22  24654     46899999999974  458999999885433

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

Probab=95.29  E-value=0.014  Score=40.54  Aligned_cols=40  Identities=28%  Similarity=0.757  Sum_probs=26.6

Q ss_pred             ccccccccCCCCceeEcCCC--C---cccHhhHHHHHhc--CCCCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCK--H---LFHWLCILPWLKK--RNTCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~--H---~FH~~CI~~WL~~--~~tCPlC  249 (281)
                      |-||+++-.+.. .-..||.  -   ..|..|+.+|+..  +.+|++|
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            779999876544 2345754  3   6799999999974  5579987

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

Probab=95.23  E-value=0.022  Score=53.03  Aligned_cols=47  Identities=28%  Similarity=0.499  Sum_probs=38.5

Q ss_pred             ccccccccccCCCC---ceeEcCCCCcccHhhHHHHHhcCC-CCCCccccC
Q 023542          207 QCCVICKEEMGGGR---DVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRL  253 (281)
Q Consensus       207 ~~CaICLeef~~~~---~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l  253 (281)
                      .+|-||-++|..++   ..+.+.|||.||..|+.+-+.... .||.||...
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            46999999998753   445566999999999999887544 799999985

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

Probab=95.16  E-value=0.017  Score=40.62  Aligned_cols=44  Identities=27%  Similarity=0.594  Sum_probs=21.5

Q ss_pred             ccccccccCCCCceeEc--CCCCcccHhhHHHHHh-cCCCCCCccccC
Q 023542          209 CVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRL  253 (281)
Q Consensus       209 CaICLeef~~~~~vr~L--PC~H~FH~~CI~~WL~-~~~tCPlCR~~l  253 (281)
                      |++|.+++.. ......  +|+...|+.|-.+-++ .+..||-||.+.
T Consensus         1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999833 222344  4899999999888775 477999999864

>PHA03096 p28-like protein; Provisional

Probab=95.07  E-value=0.011  Score=55.75  Aligned_cols=36  Identities=31%  Similarity=0.594  Sum_probs=27.8

Q ss_pred             ccccccccccCCCC----ceeEcC-CCCcccHhhHHHHHhc
Q 023542          207 QCCVICKEEMGGGR----DVCELP-CKHLFHWLCILPWLKK  242 (281)
Q Consensus       207 ~~CaICLeef~~~~----~vr~LP-C~H~FH~~CI~~WL~~  242 (281)
                      ..|.||++......    .-..++ |.|.||..||..|-..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            67999999876431    222455 9999999999999864

>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=94.98  E-value=0.014  Score=39.93  Aligned_cols=41  Identities=29%  Similarity=0.735  Sum_probs=24.3

Q ss_pred             ccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC--CCCCc
Q 023542          209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN--TCPCC  249 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlC  249 (281)
                      |.+|.+-...|..-..-.|+-.+|..|+..+++.++  .||.|
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            778888877666433334999999999999998765  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.58  E-value=0.0078  Score=56.86  Aligned_cols=41  Identities=34%  Similarity=0.685  Sum_probs=33.1

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      +..|+||++.   +.....|+|||. -|.+|..+    -+.||+||+.+
T Consensus       300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            6679999985   456678899997 78889766    34899999865

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

Probab=94.55  E-value=0.019  Score=55.48  Aligned_cols=43  Identities=35%  Similarity=0.776  Sum_probs=31.7

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      ....|.||+++.++   ...+||||.-|  |..-- +...+||+||+.+
T Consensus       304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI  346 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI  346 (355)
T ss_pred             CCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence            35679999998765   44789999966  65443 3345699999876

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

Probab=94.31  E-value=0.024  Score=59.93  Aligned_cols=49  Identities=31%  Similarity=0.747  Sum_probs=37.2

Q ss_pred             CCCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcC-------CCCCCccc
Q 023542          203 AGADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKR-------NTCPCCRF  251 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~-------~tCPlCR~  251 (281)
                      ..+.++|.||.+.+.....+-.- .|-|+||..||.+|-+..       -.||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            45688999999998765533333 388999999999998641       16999974

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

Probab=94.18  E-value=0.054  Score=51.53  Aligned_cols=45  Identities=29%  Similarity=0.535  Sum_probs=34.8

Q ss_pred             cccccccccccCCCCceeEcC-CCCcccHhhHHHHHh-cCCCCCCc-cccC
Q 023542          206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLK-KRNTCPCC-RFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~-~~~tCPlC-R~~l  253 (281)
                      ...|+.|..-..++.   .+| |+|.||.+||..-|. ....||.| |.++
T Consensus       274 ~LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdv  321 (427)
T COG5222         274 SLKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDV  321 (427)
T ss_pred             cccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCcccccc
Confidence            367999988876555   346 899999999998775 56689999 4444

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.95  E-value=0.038  Score=53.35  Aligned_cols=55  Identities=22%  Similarity=0.486  Sum_probs=37.8

Q ss_pred             CcccccccccccCCCCc-eeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCch
Q 023542          205 ADQCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~-vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~  259 (281)
                      ++..|+.|++++...++ -.-.|||-..|.-|-..--+ -+..||-||+....+.+.
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            34559999999976553 33346887777766443322 367899999988777654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.92  E-value=0.032  Score=40.25  Aligned_cols=47  Identities=36%  Similarity=0.605  Sum_probs=33.9

Q ss_pred             ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ..|-.|...   +.+-..+||+|..+..|.+-+  +-+-||.|-+++..++.
T Consensus         8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             eeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCCC
Confidence            345555543   334447799999999997764  67789999988876553

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

Probab=93.91  E-value=0.068  Score=50.31  Aligned_cols=63  Identities=29%  Similarity=0.493  Sum_probs=47.0

Q ss_pred             CCcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHHhc
Q 023542          204 GADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVKTS  273 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~~~  273 (281)
                      .....|+||.+.+.... .+..++|+|.-|..|.......+-+||+|.. +      .+..+.|+.+++.-
T Consensus       156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~------~d~~~~~~~~d~~l  219 (276)
T KOG1940|consen  156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-P------GDMSHYFRKLDKEL  219 (276)
T ss_pred             cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-h------HHHHHHHHHHHHHH
Confidence            34556999999887655 4556689999999999999888899999976 3      23445666665543

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

Probab=93.55  E-value=0.026  Score=51.85  Aligned_cols=46  Identities=20%  Similarity=0.439  Sum_probs=34.2

Q ss_pred             ccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542          207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      .-|..|... ..++....+.|+|+||..|...-.  ...||+||..+..
T Consensus         4 VhCn~C~~~-~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRF-PSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRI   49 (233)
T ss_pred             EEecccccc-CCCCceeeeechhhhhhhhcccCC--ccccccccceeee
Confidence            458877554 447778888999999999976532  2289999998743

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

Probab=93.53  E-value=0.0079  Score=58.70  Aligned_cols=52  Identities=25%  Similarity=0.591  Sum_probs=44.0

Q ss_pred             cccccccccccCCC-CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGG-RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~-~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      ...|+||.+.++.. +++..+-|+|.+|.+|+.+||.+...||.||+.++...
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG  248 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence            56799999998754 45666679999999999999999999999999986543

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=92.26  E-value=0.16  Score=47.96  Aligned_cols=47  Identities=21%  Similarity=0.393  Sum_probs=33.9

Q ss_pred             cccccccccC-CCC-ceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCC
Q 023542          208 CCVICKEEMG-GGR-DVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLP  254 (281)
Q Consensus       208 ~CaICLeef~-~~~-~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~  254 (281)
                      .|++|..+.. +++ ....=+|+|.-|..|.+.-+..+ ..||.|-..+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            4899986543 333 22222899999999999999764 58999976653

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

Probab=92.24  E-value=0.095  Score=55.53  Aligned_cols=58  Identities=22%  Similarity=0.627  Sum_probs=42.8

Q ss_pred             CCCCcccccccccccCCCCceeEcCCCCc-----ccHhhHHHHHhc--CCCCCCccccCCCCCchh
Q 023542          202 GAGADQCCVICKEEMGGGRDVCELPCKHL-----FHWLCILPWLKK--RNTCPCCRFRLPTDDVFG  260 (281)
Q Consensus       202 ~~~~~~~CaICLeef~~~~~vr~LPC~H~-----FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~~  260 (281)
                      .++|+..|-||..+=..++++. -||...     -|.+|+.+|+.-  ...|-+|+.++.-++.+.
T Consensus         8 mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~   72 (1175)
T COG5183           8 MNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK   72 (1175)
T ss_pred             CCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence            3667889999999876655443 377643     799999999974  447999999885555443

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

Probab=91.94  E-value=0.04  Score=57.66  Aligned_cols=50  Identities=24%  Similarity=0.578  Sum_probs=39.1

Q ss_pred             ccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--CCCCCCccccCCCCCchh
Q 023542          207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--RNTCPCCRFRLPTDDVFG  260 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~~  260 (281)
                      ..|.||++ .   +.....+|+|.||.+|+..-+..  ...||.||..+..++.+.
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            78999999 2   44556789999999999998874  336999999886555443

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=91.23  E-value=0.12  Score=47.78  Aligned_cols=47  Identities=23%  Similarity=0.526  Sum_probs=34.6

Q ss_pred             CcccccccccccC-CCC-ceeEcC-CCCcccHhhHHHHHhc-CCCCC--Cccc
Q 023542          205 ADQCCVICKEEMG-GGR-DVCELP-CKHLFHWLCILPWLKK-RNTCP--CCRF  251 (281)
Q Consensus       205 ~~~~CaICLeef~-~~~-~vr~LP-C~H~FH~~CI~~WL~~-~~tCP--lCR~  251 (281)
                      .+..|+||..+.. +++ +...-| |-|.-|..|.++-+.+ ...||  -|..
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            3668999987653 344 222237 9999999999999975 66899  7843

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

Probab=91.21  E-value=0.12  Score=55.04  Aligned_cols=44  Identities=25%  Similarity=0.591  Sum_probs=33.8

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      ...|..|--..+-  .....-|+|.||.+|..   .+...||-|+.+..
T Consensus       840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR  883 (933)
T ss_pred             eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence            3579999887754  33455699999999998   45678999988553

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

Probab=90.90  E-value=0.19  Score=44.75  Aligned_cols=31  Identities=29%  Similarity=0.909  Sum_probs=25.3

Q ss_pred             cCCCCcccHhhHHHHHhc-----C------CCCCCccccCCC
Q 023542          225 LPCKHLFHWLCILPWLKK-----R------NTCPCCRFRLPT  255 (281)
Q Consensus       225 LPC~H~FH~~CI~~WL~~-----~------~tCPlCR~~l~~  255 (281)
                      ..|+..||.-|+..||+.     +      ..||.|-.++.-
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            369999999999999973     1      269999888753

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

Probab=90.88  E-value=0.1  Score=49.86  Aligned_cols=42  Identities=29%  Similarity=0.624  Sum_probs=29.5

Q ss_pred             cccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      .|--|-..+.  ..-|.+||.|+||.+|...  ..-+.||.|-..|
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            4666644433  3455779999999999764  3356899997655

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

Probab=90.69  E-value=0.22  Score=48.36  Aligned_cols=48  Identities=23%  Similarity=0.536  Sum_probs=38.0

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh--cCCCCCCccccC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--KRNTCPCCRFRL  253 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlCR~~l  253 (281)
                      +++...|-||-+...   -...+||+|.-|-.|.-+.-.  ....||+||..+
T Consensus        58 DEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345667999987653   566889999999999877543  577899999987

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

Probab=90.09  E-value=0.28  Score=41.61  Aligned_cols=52  Identities=27%  Similarity=0.457  Sum_probs=39.1

Q ss_pred             CCcccccccccccCCCCceeEc-C---CCCcccHhhHHHHHh---cCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-P---CKHLFHWLCILPWLK---KRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-P---C~H~FH~~CI~~WL~---~~~tCPlCR~~l~~~~~  258 (281)
                      ..-.+|.||.|.-.+..   -+ |   ||-.-|..|-...++   .+..||+|+..+.+...
T Consensus        78 ~~lYeCnIC~etS~ee~---FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~  136 (140)
T PF05290_consen   78 PKLYECNICKETSAEER---FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS  136 (140)
T ss_pred             CCceeccCcccccchhh---cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence            35789999999765433   44 4   999999998777665   46789999999866543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=89.61  E-value=0.38  Score=34.64  Aligned_cols=40  Identities=23%  Similarity=0.537  Sum_probs=31.1

Q ss_pred             CcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcCCCCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPC  248 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPl  248 (281)
                      ....|.+|-+.|++++.+.+-| |+-.+|+.|-++    ...|-.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            3567999999998878777777 999999999433    455544

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

Probab=89.33  E-value=0.32  Score=47.78  Aligned_cols=53  Identities=26%  Similarity=0.495  Sum_probs=37.0

Q ss_pred             CcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcC------CCCC--CccccCCCCC
Q 023542          205 ADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKR------NTCP--CCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~------~tCP--lCR~~l~~~~  257 (281)
                      ...+|.||..+....+ .-...-|+|.||.+|..+.++.+      -+||  .|...++.++
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~  206 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES  206 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence            3678999995554443 33344699999999999988732      2676  5777776555

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

Probab=89.20  E-value=0.16  Score=46.97  Aligned_cols=57  Identities=23%  Similarity=0.447  Sum_probs=40.2

Q ss_pred             cccccccccccCCCCc-eeEcCCC-----CcccHhhHHHHHh--cCCCCCCccccCCCCCchhHH
Q 023542          206 DQCCVICKEEMGGGRD-VCELPCK-----HLFHWLCILPWLK--KRNTCPCCRFRLPTDDVFGEI  262 (281)
Q Consensus       206 ~~~CaICLeef~~~~~-vr~LPC~-----H~FH~~CI~~WL~--~~~tCPlCR~~l~~~~~~~e~  262 (281)
                      +..|-||.++...... .-..||.     ...|+.|++.|+.  .+.+|.+|.............
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~  142 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKP  142 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecc
Confidence            5789999998754322 3355764     4579999999998  456899998877555444333

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

Probab=88.30  E-value=0.15  Score=56.28  Aligned_cols=46  Identities=24%  Similarity=0.454  Sum_probs=37.8

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      -..|.||++.+..-.  ....|+|.+|..|+..|+..+..||+|+...
T Consensus      1153 ~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             ccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence            347999999987322  2456999999999999999999999998544

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

Probab=87.54  E-value=0.27  Score=44.38  Aligned_cols=38  Identities=37%  Similarity=0.754  Sum_probs=28.8

Q ss_pred             ccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccC
Q 023542          209 CVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRL  253 (281)
Q Consensus       209 CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l  253 (281)
                      |-.|.+.   +..|..+||.|. +|..|-..    -.+||+|+...
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK  199 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence            8888664   456778899987 99999654    44699998765

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.94  E-value=0.27  Score=45.91  Aligned_cols=50  Identities=26%  Similarity=0.755  Sum_probs=34.1

Q ss_pred             CCcccccccccccCCCCce-eEcCCC-----CcccHhhHHHHHhcCC--------CCCCccccC
Q 023542          204 GADQCCVICKEEMGGGRDV-CELPCK-----HLFHWLCILPWLKKRN--------TCPCCRFRL  253 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~v-r~LPC~-----H~FH~~CI~~WL~~~~--------tCPlCR~~l  253 (281)
                      +.+..|-||..-=++...- -+-||.     |..|..|+.+|+..+.        +||.|+.+.
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            4478899998754332211 122663     7899999999995321        699998876

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

Probab=86.85  E-value=0.31  Score=52.12  Aligned_cols=37  Identities=22%  Similarity=0.530  Sum_probs=28.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK  241 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~  241 (281)
                      +.+..|.+|...+-. +.-...||||.||++|+.+-..
T Consensus       815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence            346789999988754 3444569999999999987653

>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=86.53  E-value=0.3  Score=34.39  Aligned_cols=44  Identities=27%  Similarity=0.585  Sum_probs=25.5

Q ss_pred             cccccccccCCCCceeEcCCC-CcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542          208 CCVICKEEMGGGRDVCELPCK-HLFHWLCILPWLKKRNTCPCCRFRLPTD  256 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~  256 (281)
                      .|.-|..+.+  .   ...|. |-.|..|+...+.+...||+|..+++++
T Consensus         4 nCKsCWf~~k--~---Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFANK--G---LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S--S--S---EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcCC--C---eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            4666665432  2   33576 8899999999999999999999998764

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.

>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=86.42  E-value=0.68  Score=40.30  Aligned_cols=37  Identities=24%  Similarity=0.361  Sum_probs=22.0

Q ss_pred             CcccccccccccCCCCcee---------EcCCCCc-ccHhhHHHHHh
Q 023542          205 ADQCCVICKEEMGGGRDVC---------ELPCKHL-FHWLCILPWLK  241 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr---------~LPC~H~-FH~~CI~~WL~  241 (281)
                      ++..|+||||-=.+..-+.         -.-|+-. -|..|+++.-+
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            4678999999644332111         1115544 47789998864

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.

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

Probab=86.36  E-value=0.36  Score=50.19  Aligned_cols=43  Identities=23%  Similarity=0.412  Sum_probs=32.1

Q ss_pred             cccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccc
Q 023542          206 DQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRF  251 (281)
Q Consensus       206 ~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~  251 (281)
                      -..|.||+.+|.... ..+.+.|||..|+.|...-  -+.+|| |++
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence            457999999986544 3345569999999998875  467899 543

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

Probab=85.24  E-value=0.78  Score=43.70  Aligned_cols=49  Identities=20%  Similarity=0.307  Sum_probs=36.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      .+-.+|+||.+.+..+.  .+-+=||.-|..|-.+   ..+.||.||.++..-.
T Consensus        46 ~~lleCPvC~~~l~~Pi--~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~~R   94 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPI--FQCDNGHLACSSCRTK---VSNKCPTCRLPIGNIR   94 (299)
T ss_pred             hhhccCchhhccCcccc--eecCCCcEehhhhhhh---hcccCCccccccccHH
Confidence            44678999999987543  2223369999999763   5788999999998443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.80  E-value=0.4  Score=45.62  Aligned_cols=33  Identities=27%  Similarity=0.636  Sum_probs=26.0

Q ss_pred             CCCcccHhhHHHHHhc-------------CCCCCCccccCCCCCch
Q 023542          227 CKHLFHWLCILPWLKK-------------RNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       227 C~H~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~~~  259 (281)
                      |.-.+|.+|+.+|+..             +.+||+||+.++..|+-
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~  370 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH  370 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence            5677899999999852             35899999998766653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	281
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-08
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		7e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		8e-05

>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 = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 31/45 (68%)
Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253
           C +CKE+   G  V +LPC HLFH  CI+PWL++ ++CP CR  L
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

>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 = 51.2 bits (121), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 27/53 (50%)
Query: 202 GAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254
             G + CC IC  E   G    ELPC H FH  C+  WL+K  TCP CR   P
Sbjct: 36  AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 24/45 (53%)
Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253
           C IC   +  G DV  LPC HLFH +C+  WL     CP CR  +
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	281
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-24
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	1e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-15
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-15
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	4e-14
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-11
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-11
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	8e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-09
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	8e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	9e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	7e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-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 = 93.6 bits (233), Expect = 1e-24
 Identities = 27/73 (36%), Positives = 34/73 (46%), Gaps = 6/73 (8%)

Query: 189 AAVAAVVRLPSV------DGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK 242
           A+  ++  LP +         G + CC IC  E   G    ELPC H FH  C+  WL+K
Sbjct: 17  ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76

Query: 243 RNTCPCCRFRLPT 255
             TCP CR   P 
Sbjct: 77  SGTCPVCRCMFPP 89

>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 = 92.5 bits (230), Expect = 2e-24
 Identities = 24/66 (36%), Positives = 37/66 (56%)

Query: 192 AAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251
            +     + +  G+   C +CKE+   G  V +LPC HLFH  CI+PWL++ ++CP CR 
Sbjct: 1   GSSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRK 60

Query: 252 RLPTDD 257
            L   +
Sbjct: 61  SLTGQN 66

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

 Score = 73.3 bits (180), Expect = 3e-17
 Identities = 16/52 (30%), Positives = 25/52 (48%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
            + C +C E+     ++   PCKH FH  C++ WL+ R  CP C   +    
Sbjct: 15  HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66

>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 = 72.0 bits (177), Expect = 1e-16
 Identities = 20/57 (35%), Positives = 26/57 (45%)

Query: 201 DGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
                ++ C IC   +  G DV  LPC HLFH +C+  WL     CP CR  +    
Sbjct: 9   TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

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

 Score = 70.1 bits (172), Expect = 5e-16
 Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 4/66 (6%)

Query: 192 AAVVRLPSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRF 251
            +      V     ++ C IC +    GR    LPC H F   CI  W  +   CP CR 
Sbjct: 1   GSSGSSGRVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRL 56

Query: 252 RLPTDD 257
           ++   +
Sbjct: 57  QMTGAN 62

>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 = 68.8 bits (169), Expect = 1e-15
 Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 202 GAGADQCCVICKEEMGGGRDVC-ELPCKHLFHWLCILPWLKKRNTCPCCRF 251
           G+     C IC E++   R V   LPC HL H  C    LK+   CP C  
Sbjct: 1   GSSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

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

 Score = 68.9 bits (169), Expect = 2e-15
 Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 5/73 (6%)

Query: 189 AAVAAVVRLPSV-----DGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR 243
            +  +  +LPS      +       CV+C  +    + +  LPC H FH  C+  WLK  
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 244 NTCPCCRFRLPTD 256
            TCP CR      
Sbjct: 61  RTCPICRADSGPS 73

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

 Score = 67.8 bits (166), Expect = 3e-15
 Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
           A   + C IC E+         LPC H F ++CI  W+++  TCP C+
Sbjct: 2   ATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47

>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 = 66.0 bits (161), Expect = 2e-14
 Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 209 CVIC----KEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF 259
           C IC     E +  GR +    C H+F   C+   LK  NTCP CR ++      
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 67

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

 Score = 65.7 bits (160), Expect = 2e-14
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 209 CVIC----KEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253
           C IC     E +  GR +    C H+F   C+   LK  NTCP CR ++
Sbjct: 18  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 64.8 bits (158), Expect = 4e-14
 Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 4/60 (6%)

Query: 204 GADQCCVIC----KEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF 259
           GA   C IC     E +  GR +    C H+F   C+   LK  NTCP CR ++      
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 60

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

 Score = 58.3 bits (141), Expect = 1e-11
 Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 5/65 (7%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDA 268
           C IC++     ++     C+H F   C L   +    C  C    PT  +F   + L   
Sbjct: 18  CFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYIC--DQPTGGIFNPAKELMAK 72

Query: 269 LVKTS 273
           L K+ 
Sbjct: 73  LQKSG 77

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

 Score = 56.8 bits (138), Expect = 2e-11
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 202 GAGADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRFRL 253
                  C +C  E+  G +   LP C H FH  C+  WL   +TCP CR  +
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 56.4 bits (136), Expect = 8e-11
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCR 250
              C+ C+ E      V     C H FH  C+  W+K+ N CP C+
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 53.7 bits (129), Expect = 5e-10
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 3/59 (5%)

Query: 198 PSVDGAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTD 256
            +   +     C IC +          LPCKH+F +LC+         C  CR  +P D
Sbjct: 7   GNTAPSLTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED 62

>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 = 53.0 bits (127), Expect = 2e-09
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 5/52 (9%)

Query: 209 CVICKEEMGGGRDVCELP-CKHLFHWLCILPWL-KKRNTCPCCRFRLPTDDV 258
           C IC E++   RD    P C  L  + CI  WL ++R  CP CR  L   ++
Sbjct: 25  CFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL 73

>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 = 3e-09
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 4/55 (7%)

Query: 205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDV 258
             Q C IC E     +DV   PC HL    C+  W +     CP CR  +   + 
Sbjct: 331 TFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP 382

>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 = 51.0 bits (121), Expect = 1e-08
 Identities = 16/60 (26%), Positives = 19/60 (31%), Gaps = 15/60 (25%)

Query: 206 DQCCVICKEEM---------------GGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
              C IC+  +                    V    C H FH+ CI  WLK R  CP   
Sbjct: 48  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 50.6 bits (120), Expect = 2e-08
 Identities = 16/60 (26%), Positives = 20/60 (33%), Gaps = 15/60 (25%)

Query: 206 DQCCVICKEEMGGGRDVCE---------------LPCKHLFHWLCILPWLKKRNTCPCCR 250
              C IC+  +      C+                 C H FH+ CI  WLK R  CP   
Sbjct: 37  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 48.0 bits (114), Expect = 5e-08
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 4/50 (8%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN--TCPCCRFRLPTD 256
           C IC   +  G+  CE  C    H  C+  + +      CP C    P +
Sbjct: 18  CNICHSLLIQGQ-SCE-TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 65

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

 Score = 47.8 bits (114), Expect = 7e-08
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 209 CVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKKRNTCPCCRFRL 253
           C ICK  +    D      C H F   CI+      N CP C   +
Sbjct: 18  CSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

>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 = 48.7 bits (115), Expect = 8e-08
 Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 20/65 (30%)

Query: 206 DQCCVICKEEM---------------GGGRDVCELPCKHLFHWLCILPWLKKRN-----T 245
           ++ C+IC E++               G         C H FH LC+L      N      
Sbjct: 25  EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 246 CPCCR 250
           CP C+
Sbjct: 85  CPSCK 89

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

 Score = 49.3 bits (117), Expect = 1e-07
 Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 3/67 (4%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERL 265
           +  C+IC E      +   L C H F   CI  W+K++  CP CR  + +      ++  
Sbjct: 64  ELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNC 120

Query: 266 WDALVKT 272
            + +V  
Sbjct: 121 INKMVNN 127

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

 Score = 46.3 bits (110), Expect = 2e-07
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 4/53 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDVF 259
            C  C   +       +  C H F   C+   L   +  C  C+  +  D VF
Sbjct: 17  KCEKCHLVL---CSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKVF 66

>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 = 46.0 bits (109), Expect = 9e-07
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDVF 259
            C IC   +   R+  + PC H F   CI+  ++     CP     L  + +F
Sbjct: 20  ECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

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

 Score = 45.9 bits (108), Expect = 1e-06
 Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 4/64 (6%)

Query: 209 CVIC----KEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIER 264
           C IC     E +  GR +    C H+F   C+   LK  NTCP CR ++           
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYIG 69

Query: 265 LWDA 268
               
Sbjct: 70  SGTV 73

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

 Score = 44.4 bits (104), Expect = 5e-06
 Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 209 CVIC----KEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258
           C IC     E +  GR +    C H+F   C+   LK  NTCP CR ++     
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128

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

 Score = 45.9 bits (108), Expect = 5e-06
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 9/63 (14%)

Query: 207 QCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN--TCPCCRFRLPTDDVFGEIER 264
           + C IC   +  G   CE  C    H  C+  + +      CP C    P      EI +
Sbjct: 181 KICNICHSLLIQG-QSCE-TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP-----HEIPK 233

Query: 265 LWD 267
           ++D
Sbjct: 234 VFD 236

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

 Score = 43.4 bits (102), Expect = 7e-06
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF 259
            C IC+  +    D  E  CKHLF  +CIL  LK   + CP CR+     D+ 
Sbjct: 25  SCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

>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 = 1e-05
 Identities = 17/73 (23%), Positives = 23/73 (31%), Gaps = 4/73 (5%)

Query: 186 DVAAAVAAVVRLPSVDGAGADQCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKKRN 244
           D  A       L  +        C IC E        +    C H +  LCI  +L  + 
Sbjct: 2   DSLAESRWPPGLAVMKTIDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKT 58

Query: 245 TCPCCRFRLPTDD 257
            CP C   +   D
Sbjct: 59  QCPTCCVTVTEPD 71

>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 = 43.5 bits (102), Expect = 2e-05
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 4/53 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDVF 259
            C IC   +   R+  + PC H F   CI+  ++   + CP     L  + +F
Sbjct: 20  ECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 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 = 42.1 bits (99), Expect = 2e-05
 Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 4/44 (9%)

Query: 208 CCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKKRNTCPCCR 250
            CV+C        D    + C H F   CI+ +L+    CP C 
Sbjct: 17  MCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICD 57

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A Length = 61

 Score = 39.6 bits (93), Expect = 4e-05
 Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 4/55 (7%)

Query: 204 GADQCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD 257
           G+   C I  +     R  V     + +F    +  ++K     P     L  ++
Sbjct: 1   GSHMLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 52

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

 Score = 39.3 bits (91), Expect = 8e-05
 Identities = 12/55 (21%), Positives = 16/55 (29%), Gaps = 2/55 (3%)

Query: 206 DQCCVICKEEM-GGGRDVCELPCKHLFHWLCILPWLKKRNT-CPCCRFRLPTDDV 258
              C +C E +     +     C +     C        N  CP CR   P D  
Sbjct: 11  PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA 65

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

 Score = 42.1 bits (98), Expect = 1e-04
 Identities = 13/58 (22%), Positives = 18/58 (31%), Gaps = 16/58 (27%)

Query: 209 CVICKEEMGGGRD----VCE-LPCKHLFHWLCILPWLKKRN-----------TCPCCR 250
           C IC      G +     C+   C    H +C+  W K               CP C+
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCK 368

>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 = 38.8 bits (90), Expect = 3e-04
 Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 4/48 (8%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLP 254
            C+ C+E +          C+H     C+    + +  +CP CR+ L 
Sbjct: 54  QCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

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

 Score = 38.6 bits (89), Expect = 5e-04
 Identities = 9/51 (17%), Positives = 16/51 (31%), Gaps = 4/51 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDD 257
            C  C+  +   R   +  C H +   C+   L      C  C      ++
Sbjct: 33  LCSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE 80

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	281
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.69
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.59
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.51
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.51
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.47
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.46
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.44
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.43
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.42
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.4
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.37
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.33
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.33
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.33
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.32
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.32
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.31
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.31
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.31
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.3
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.28
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.28
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.28
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.28
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.27
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.27
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.26
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.24
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.23
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.23
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.22
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.22
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.22
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.21
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.2
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.2
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.19
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.19
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.15
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.12
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.08
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.08
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.03
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.97
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.97
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.93
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.92
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.9
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.9
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.87
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.85
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.78
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.78
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.76
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.71
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.7
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.62
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.57
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.53
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.48
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.4
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.31
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.09
3nw0_A	238	Non-structural maintenance of chromosomes element	97.93
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.23
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.3
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.3
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	92.13
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	91.22
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	90.68
1we9_A	64	PHD finger family protein; structural genomics, PH	89.86
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	88.21
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	84.51
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	84.03
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	83.6
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	83.58
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	82.95
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	81.29
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	80.64

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

Probab=99.69  E-value=3.1e-17  Score=126.60  Aligned_cols=75  Identities=35%  Similarity=0.718  Sum_probs=65.5

Q ss_pred             CCCCCCchhhHHHHhcCCCccCCC------CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          181 EKEGRDVAAAVAAVVRLPSVDGAG------ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       181 ~~~~~~~~as~~~i~~LP~~~~~~------~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .......+++++.++.+|...+..      ++..|+||+++|..++.++.+||+|.||..||++|++.+.+||+||..+.
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCCcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            344467889999999999887632      46779999999998888889999999999999999999999999999986


Q ss_pred             C
Q 023542          255 T  255 (281)
Q Consensus       255 ~  255 (281)
                      .
T Consensus        89 ~   89 (91)
T 2l0b_A           89 P   89 (91)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.59  E-value=1.6e-16  Score=117.80  Aligned_cols=62  Identities=34%  Similarity=0.673  Sum_probs=52.6

Q ss_pred             hcCCCccC-----CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542          195 VRLPSVDG-----AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTD  256 (281)
Q Consensus       195 ~~LP~~~~-----~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~  256 (281)
                      +.+|...+     ..++.+|+||+++|..++.++.+||+|.||..||.+|++.+.+||+||+.+...
T Consensus         7 ~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            7 GQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            44555544     235778999999999988888999999999999999999999999999998764

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

Probab=99.53  E-value=3.7e-15  Score=103.61  Aligned_cols=51  Identities=35%  Similarity=0.811  Sum_probs=46.4

Q ss_pred             CCcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +++.+|+||+++|.+++.+..++ |+|.||..||.+|++++.+||+||+++.
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            34678999999999988888887 9999999999999999999999999874

>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=1.2e-14  Score=105.71  Aligned_cols=54  Identities=37%  Similarity=0.892  Sum_probs=48.4

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      .++..|+||++.|..++.+..+||+|.||..||.+|++.+.+||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            446789999999988888889999999999999999999999999999986543

>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=9.7e-15  Score=108.55  Aligned_cols=56  Identities=43%  Similarity=1.003  Sum_probs=50.4

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  259 (281)
                      .++.+|+||+++|.+++.+..++|+|.||..||.+|++.+.+||+||..+..++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   68 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA   68 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccC
Confidence            44778999999999888888899999999999999999999999999999776654

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

Probab=99.51  E-value=1.4e-14  Score=106.63  Aligned_cols=54  Identities=30%  Similarity=0.787  Sum_probs=48.5

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      .++.+|+||+++|..++.+..+||+|.||..||.+|++.+.+||+||..+....
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            446789999999999888888899999999999999999999999999986543

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

Probab=99.47  E-value=2.9e-14  Score=107.89  Aligned_cols=59  Identities=25%  Similarity=0.518  Sum_probs=46.5

Q ss_pred             CCccCCCCcccccccccccCC-----------CCceeEcC-CCCcccHhhHHHHHhcCCCCCCccccCCCC
Q 023542          198 PSVDGAGADQCCVICKEEMGG-----------GRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRFRLPTD  256 (281)
Q Consensus       198 P~~~~~~~~~~CaICLeef~~-----------~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~  256 (281)
                      +....+.++..|+||+++|.+           ++.++.++ |+|.||..||++|++++.+||+||+++..+
T Consensus         7 ~~w~~~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A            7 GMWSWDVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCCCCSCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             EEeeecCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            334445567789999999864           34455664 999999999999999999999999998644

>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=99.46  E-value=4.7e-14  Score=111.98  Aligned_cols=66  Identities=21%  Similarity=0.466  Sum_probs=47.8

Q ss_pred             HHHHhcCCCccCCCCcccccccccccCCCC---------------ceeEcCCCCcccHhhHHHHH-----hcCCCCCCcc
Q 023542          191 VAAVVRLPSVDGAGADQCCVICKEEMGGGR---------------DVCELPCKHLFHWLCILPWL-----KKRNTCPCCR  250 (281)
Q Consensus       191 ~~~i~~LP~~~~~~~~~~CaICLeef~~~~---------------~vr~LPC~H~FH~~CI~~WL-----~~~~tCPlCR  250 (281)
                      ++.+...........+.+|+||+++|.++.               .++.++|+|.||..||.+|+     ..+.+||+||
T Consensus        10 ~~~i~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR   89 (114)
T 1v87_A           10 EQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK   89 (114)
T ss_dssp             HHHHHHHEEECSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTC
T ss_pred             HHHHHHHHHhccCCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCC
Confidence            344444333332344678999999997653               34467999999999999999     4567999999


Q ss_pred             ccCCCC
Q 023542          251 FRLPTD  256 (281)
Q Consensus       251 ~~l~~~  256 (281)
                      ..+...
T Consensus        90 ~~~~~~   95 (114)
T 1v87_A           90 TIYGEK   95 (114)
T ss_dssp             CBSSSC
T ss_pred             CccCCC
Confidence            988543

>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=99.44  E-value=6.6e-14  Score=97.05  Aligned_cols=51  Identities=33%  Similarity=0.645  Sum_probs=44.3

Q ss_pred             CCcccccccccccCCCC-ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGR-DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .++.+|+||+++|.+++ .+..++|+|.||..||.+|++.+.+||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            35678999999996543 5677899999999999999999999999999874

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

Probab=99.43  E-value=5.1e-14  Score=102.34  Aligned_cols=55  Identities=29%  Similarity=0.594  Sum_probs=47.2

Q ss_pred             CCcccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      .++.+|+||+++|.++    +....++|||.||..||.+|++.+.+||+||..+..++.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            4578899999999753    445678999999999999999999999999999987654

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

Probab=99.42  E-value=6.1e-14  Score=99.64  Aligned_cols=54  Identities=31%  Similarity=0.596  Sum_probs=46.7

Q ss_pred             CcccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ++.+|+||++++.++    +.+..++|||.||..|+.+|++++.+||+||..+..++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            467899999999753    344677999999999999999999999999999987664

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

Probab=99.40  E-value=1.5e-13  Score=98.94  Aligned_cols=52  Identities=31%  Similarity=0.634  Sum_probs=44.6

Q ss_pred             CCcccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542          204 GADQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       204 ~~~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      .++.+|+||++.|.++    ..+..++|+|.||..||.+|++.+.+||+||..+..
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            4577899999999764    334678999999999999999999999999998864

>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=99.37  E-value=3.6e-13  Score=107.59  Aligned_cols=52  Identities=31%  Similarity=0.580  Sum_probs=44.7

Q ss_pred             CCCcccccccccccCCCC---------------ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          203 AGADQCCVICKEEMGGGR---------------DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~---------------~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +.++..|+||+++|.++.               .+..++|+|.||..||++||+++.+||+||+.+.
T Consensus        34 d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           34 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            456788999999998652               3566799999999999999999999999999874

>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=99.33  E-value=2e-14  Score=117.07  Aligned_cols=52  Identities=31%  Similarity=0.580  Sum_probs=2.4

Q ss_pred             CCCcccccccccccCCCC---------------ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          203 AGADQCCVICKEEMGGGR---------------DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~---------------~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +.++..|+||+++|+++.               .+..++|+|.||..||++||+.+.+||+||+++.
T Consensus        45 d~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           45 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCCC---------------------------------------------------------------
T ss_pred             cCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            556788999999997532               2233489999999999999999999999999874

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

Probab=99.33  E-value=3.2e-13  Score=98.26  Aligned_cols=51  Identities=29%  Similarity=0.763  Sum_probs=44.8

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.+.+    ..+||+|.||..||.+|++++.+||+||..+...+.
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            457789999999875    578999999999999999999999999999976553

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

Probab=99.33  E-value=1.1e-12  Score=96.22  Aligned_cols=54  Identities=24%  Similarity=0.449  Sum_probs=45.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  259 (281)
                      .++..|+||++.+.++  +..++|+|.||..||.+|++.+.+||+||..+...+..
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSC
T ss_pred             CCCCCCCCCChHHHCc--CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccccc
Confidence            4477899999999753  33349999999999999999999999999999776654

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

Probab=99.32  E-value=8e-13  Score=95.47  Aligned_cols=50  Identities=32%  Similarity=0.859  Sum_probs=43.2

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      .++.+|+||++.+.+  .+..+||+|.||..|+.+|++.+.+||+||..+..
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            446789999999864  34678999999999999999999999999998853

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

Probab=99.32  E-value=1e-12  Score=94.80  Aligned_cols=52  Identities=21%  Similarity=0.461  Sum_probs=44.4

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.+.++.   .++|||.||..||.+|++ .+.+||+||..+..++.
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK---QTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCEECTTTCCEESSCC---CCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             CcCCCCCCCChHhcCee---ECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            45788999999998665   479999999999999995 56799999999987664

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

Probab=99.31  E-value=6.3e-13  Score=109.60  Aligned_cols=51  Identities=31%  Similarity=0.736  Sum_probs=44.2

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCch
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVF  259 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  259 (281)
                      +..|+||++.|.++   ..+||||.||..||..|+..+.+||+||.++......
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  103 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS  103 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEEC
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCc
Confidence            56799999999754   4789999999999999999999999999999765543

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

Probab=99.31  E-value=1e-12  Score=98.46  Aligned_cols=63  Identities=22%  Similarity=0.450  Sum_probs=48.6

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      .+...|+||++.|.++.   .++|+|.||..||.+|++...+||+||..+.  ..+.....+.+.+++
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~--~~~~~~~~l~~~~~~   75 (81)
T 2csy_A           13 EIPFRCFICRQAFQNPV---VTKCRHYFCESCALEHFRATPRCYICDQPTG--GIFNPAKELMAKLQK   75 (81)
T ss_dssp             CCCSBCSSSCSBCCSEE---ECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC--SCCEECHHHHHHHSS
T ss_pred             CCCCCCcCCCchhcCee---EccCCCHhHHHHHHHHHHCCCcCCCcCcccc--ccCCcHHHHHHHHHh
Confidence            34678999999996543   6899999999999999999999999999986  333344444444443

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

Probab=99.31  E-value=1.6e-12  Score=97.97  Aligned_cols=54  Identities=22%  Similarity=0.344  Sum_probs=46.0

Q ss_pred             CCcccccccccccCCCCc-eeEcCCCCcccHhhHHHHHhcC---CCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKKR---NTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~-vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~l~~~~  257 (281)
                      .+..+|+||++.|.+.+. ...++|||.||..|+.+|++.+   .+||+||..+...+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            457789999999987553 6678999999999999999875   79999999987654

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

Probab=99.30  E-value=6.3e-13  Score=97.36  Aligned_cols=49  Identities=31%  Similarity=0.622  Sum_probs=42.6

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      .++..|+||++.+.++   ..+||+|.||..||.+|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            4467899999998654   467999999999999999999999999999853

>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=99.28  E-value=1.7e-12  Score=104.82  Aligned_cols=68  Identities=21%  Similarity=0.334  Sum_probs=54.7

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCCCCchhHHHHHHHHHHHhcCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDVFGEIERLWDALVKTSGGG  276 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~~~~~e~~rl~~~l~~~~~~~  276 (281)
                      +..|+||++.|.++.   .+||||.||..||..|+..+. +||+||..+...........+.+.+++.-+|-
T Consensus        52 ~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~~  120 (124)
T 3fl2_A           52 TFQCICCQELVFRPI---TTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPGY  120 (124)
T ss_dssp             HTBCTTTSSBCSSEE---ECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTTT
T ss_pred             CCCCCcCChHHcCcE---EeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHcccc
Confidence            578999999997543   679999999999999998554 89999999987555666667777777765553

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

Probab=99.28  E-value=2.8e-12  Score=97.99  Aligned_cols=55  Identities=27%  Similarity=0.530  Sum_probs=44.1

Q ss_pred             CCcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcC--CCCCCccccCCCCCchhH
Q 023542          204 GADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKR--NTCPCCRFRLPTDDVFGE  261 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~--~tCPlCR~~l~~~~~~~e  261 (281)
                      .++..|+||++.|.++.   .+| |||.||..||..|+..+  .+||+||..+...+....
T Consensus        11 ~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~   68 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIA   68 (92)
T ss_dssp             CTTTEETTTTEECSSCE---ECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEE
T ss_pred             CcCCCCCCCChhhcCce---ECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCc
Confidence            34788999999997654   789 99999999999999754  589999999854443333

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

Probab=99.28  E-value=2.2e-12  Score=94.22  Aligned_cols=52  Identities=21%  Similarity=0.493  Sum_probs=43.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh---cCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK---KRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~---~~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.+.++   ..++|+|.||..||.+|++   .+.+||+||..+..++.
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            4578899999998753   3669999999999999997   45589999999876653

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

Probab=99.28  E-value=2.9e-12  Score=94.99  Aligned_cols=52  Identities=21%  Similarity=0.280  Sum_probs=44.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.|.++.   .++|||.||+.||.+|++. +.+||+||..+..++.
T Consensus         6 ~~~~~C~IC~~~~~~Pv---~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l   58 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPV---IVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             SSSSSCTTTSCCCSSEE---EETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             cccCCCCCccccccCCE---EcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhC
Confidence            34778999999997654   5699999999999999987 7799999999976553

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

Probab=99.27  E-value=2.2e-12  Score=98.12  Aligned_cols=54  Identities=24%  Similarity=0.707  Sum_probs=45.0

Q ss_pred             CCCcccccccccccCCCCceeEcCCC-----CcccHhhHHHHHhcC--CCCCCccccCCCCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCK-----HLFHWLCILPWLKKR--NTCPCCRFRLPTDD  257 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~-----H~FH~~CI~~WL~~~--~tCPlCR~~l~~~~  257 (281)
                      ..++..|.||+++|++++.+ .+||+     |.||..||++|+..+  .+||+||+.+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            34567899999999877665 58996     999999999999865  48999999996554

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

Probab=99.27  E-value=2.5e-12  Score=95.10  Aligned_cols=52  Identities=29%  Similarity=0.577  Sum_probs=43.3

Q ss_pred             CCcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcC--CCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKR--NTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~--~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.|.++.   .++ |+|.||..||.+|++.+  .+||+||..+...+.
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2yur_A           13 PDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA   67 (74)
T ss_dssp             CGGGSCSSSCCCCTTCE---ECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTT
T ss_pred             CCCCCCcCCChHHhCCe---EcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccc
Confidence            34788999999997644   688 99999999999999865  689999998765543

>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=99.26  E-value=1.9e-12  Score=101.25  Aligned_cols=67  Identities=25%  Similarity=0.477  Sum_probs=49.9

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCCCCCchh--HHHHHHHHHHHhcC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDDVFG--EIERLWDALVKTSG  274 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~~~~~--e~~rl~~~l~~~~~  274 (281)
                      +..|+||++.|.++  +..++|||.||..||.+|+... .+||+||..+..++...  ..+.+.+.++++..
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~~~~~~l~~   91 (100)
T 3lrq_A           22 VFRCFICMEKLRDA--RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVTQQLDTLQL   91 (100)
T ss_dssp             HTBCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHHHHHHHHCC
T ss_pred             CCCCccCCccccCc--cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHHHHHHHHHH
Confidence            67899999999743  2237999999999999999987 69999999997655322  24445555555443

>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=99.24  E-value=4.9e-12  Score=99.73  Aligned_cols=51  Identities=24%  Similarity=0.586  Sum_probs=43.6

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      ++..|+||++.|.++  +...+|||.||..||..|+..+.+||+||..+....
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR   64 (108)
T ss_dssp             GGTBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSC
T ss_pred             CcCCCccCChHHhCc--CEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccC
Confidence            467899999999753  333499999999999999999999999999998653

>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=99.23  E-value=3.5e-12  Score=107.75  Aligned_cols=67  Identities=22%  Similarity=0.440  Sum_probs=50.7

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHHHHHHHHhcC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERLWDALVKTSG  274 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl~~~l~~~~~  274 (281)
                      +..|+||++.|.+  .+..++|||.||..||.+|+.. +.+||+||..+...+.......+.+.++++.+
T Consensus        54 ~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~  121 (165)
T 2ckl_B           54 ELMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYP  121 (165)
T ss_dssp             HHBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC-
T ss_pred             CCCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHc
Confidence            5689999999975  3334599999999999999997 77899999999766655444455555554433

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

Probab=99.23  E-value=3.7e-12  Score=102.10  Aligned_cols=55  Identities=29%  Similarity=0.594  Sum_probs=47.2

Q ss_pred             CCcccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      .++.+|+||++.|.++    +.+..++|||.||..||.+|++.+.+||+||..+..++.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            4578899999999764    345678999999999999999999999999999976654

>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=99.22  E-value=5.8e-12  Score=105.89  Aligned_cols=68  Identities=25%  Similarity=0.309  Sum_probs=54.8

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCCCCchhHHHHHHHHHHHhcCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDVFGEIERLWDALVKTSGGG  276 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~~~~~e~~rl~~~l~~~~~~~  276 (281)
                      ...|+||++.|.++.   .+||+|.||..||..|+.... +||+||..+.....+.....+.+.+++.-++.
T Consensus        78 ~~~C~IC~~~~~~pv---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~~  146 (150)
T 1z6u_A           78 SFMCVCCQELVYQPV---TTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPGY  146 (150)
T ss_dssp             HTBCTTTSSBCSSEE---ECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTTT
T ss_pred             CCEeecCChhhcCCE---EcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhHh
Confidence            568999999997544   589999999999999998765 89999999988766666666666666665544

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

Probab=99.22  E-value=7.7e-12  Score=93.11  Aligned_cols=52  Identities=27%  Similarity=0.612  Sum_probs=44.2

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc------CCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK------RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~------~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.|.++.   .++|+|.||..|+..|+..      ...||+||..+..++.
T Consensus        17 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           17 KEEVTCPICLELLKEPV---SADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CTTTSCTTTCSCCSSCE---ECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             ccCCCCcCCChhhCcce---eCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            34678999999997654   6799999999999999987      6689999999876543

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

Probab=99.22  E-value=5e-12  Score=98.07  Aligned_cols=50  Identities=28%  Similarity=0.519  Sum_probs=42.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      +..|+||++.|.++.  ...+|||.||..||.+|+..+.+||+||..+...+
T Consensus        22 ~~~C~IC~~~~~~p~--~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           22 LLRCGICFEYFNIAM--IIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HTBCTTTCSBCSSEE--ECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCcccCChhhCCcC--EECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            578999999997533  23489999999999999999999999999987644

>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=99.21  E-value=1.8e-11  Score=96.30  Aligned_cols=49  Identities=27%  Similarity=0.639  Sum_probs=41.9

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC---CCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN---TCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~---tCPlCR~~l~~~~  257 (281)
                      ...|+||++.|.++.   .++|||.||..||..|+..+.   +||+||..+...+
T Consensus        21 ~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKEPV---STKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSSCC---BCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcCeE---ECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            567999999997654   579999999999999998654   8999999987654

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

Probab=99.20  E-value=3.2e-12  Score=94.56  Aligned_cols=51  Identities=25%  Similarity=0.548  Sum_probs=43.5

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-------CCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-------RNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-------~~tCPlCR~~l~~~~  257 (281)
                      .++..|+||++.|.++.   .+||||.||..||.+|++.       ..+||+||..+..++
T Consensus        10 ~~~~~C~IC~~~~~~p~---~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           10 QEEVTCPICLELLTEPL---SLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCEETTTTEECSSCC---CCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             ccCCCCcCCCcccCCee---ECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            45788999999997654   5799999999999999986       568999999987654

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

Probab=99.20  E-value=9.6e-12  Score=92.60  Aligned_cols=52  Identities=29%  Similarity=0.648  Sum_probs=44.1

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc------CCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK------RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~------~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.+.++.   .++|+|.||..|+..|++.      ...||+||..+..++.
T Consensus        17 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           17 KEEVTCPICLELLTQPL---SLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCTTTCSCCSSCB---CCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             cCCCCCCCCCcccCCce---eCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            44778999999997654   5699999999999999987      7799999999876543

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

Probab=99.19  E-value=1.3e-11  Score=92.71  Aligned_cols=54  Identities=22%  Similarity=0.502  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--CCCCCccccCCCCC
Q 023542          202 GAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--NTCPCCRFRLPTDD  257 (281)
Q Consensus       202 ~~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--~tCPlCR~~l~~~~  257 (281)
                      +.+...+|+||.+.+..+++..  .|+|.||..||.+||+++  .+||+||.++..+.
T Consensus        11 y~~~i~~C~IC~~~i~~g~~C~--~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSEECS--SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             ccCCCCcCcchhhHcccCCccC--CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            3455678999999998765332  799999999999999987  79999999987554

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

Probab=99.19  E-value=1.4e-11  Score=88.57  Aligned_cols=54  Identities=22%  Similarity=0.385  Sum_probs=43.7

Q ss_pred             Cccccccccc-ccCCCCce-eEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKE-EMGGGRDV-CELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLe-ef~~~~~v-r~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  258 (281)
                      ++..|+||++ .+.++... ..++|||.||..||.+|+.+ +.+||+||..+..++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            3578999999 78766533 45699999999999999765 4689999999976654

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

Probab=99.15  E-value=2.3e-11  Score=86.71  Aligned_cols=44  Identities=25%  Similarity=0.510  Sum_probs=37.2

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh---cCCCCCCc
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK---KRNTCPCC  249 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~---~~~tCPlC  249 (281)
                      ..++..|+||++.|.++.   .++|||.||..||.+|++   .+.+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPV---TIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCE---ECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeE---EeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            345788999999997543   669999999999999998   45689998

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

Probab=99.14  E-value=1.4e-11  Score=98.72  Aligned_cols=56  Identities=29%  Similarity=0.587  Sum_probs=47.7

Q ss_pred             CCCcccccccccccCCC----CceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          203 AGADQCCVICKEEMGGG----RDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ..++..|+||++.|.++    .....++|||.||..||++|++.+.+||+||..+..++.
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~  128 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY  128 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcc
Confidence            56688899999999753    334677999999999999999999999999999987654

>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=99.12  E-value=1.7e-11  Score=97.63  Aligned_cols=61  Identities=33%  Similarity=0.689  Sum_probs=47.6

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHHHHHH
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERLWDAL  269 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl~~~l  269 (281)
                      +..|+||++.+.++.   .++|||.||..||.+|+.. +.+||+||..+...+.......+.+.+
T Consensus        23 ~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i   84 (116)
T 1rmd_A           23 SISCQICEHILADPV---ETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNIL   84 (116)
T ss_dssp             HTBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHH
T ss_pred             CCCCCCCCcHhcCcE---EcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHH
Confidence            578999999997543   5799999999999999987 779999999998766444333333333

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

Probab=99.11  E-value=3.5e-11  Score=83.83  Aligned_cols=43  Identities=28%  Similarity=0.736  Sum_probs=36.4

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHh---cCCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK---KRNTCPCC  249 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~---~~~tCPlC  249 (281)
                      .++..|+||++.+.++.   .++|+|.||..||.+|+.   .+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEPV---IIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSCC---CCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCccE---eCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34678999999998654   579999999999999954   56789998

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

Probab=99.11  E-value=3.8e-11  Score=91.62  Aligned_cols=50  Identities=20%  Similarity=0.106  Sum_probs=44.7

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      +...|+||++.|+++.   .++|||.|++.||.+|+..+.+||+||..+...+
T Consensus        13 ~~~~CpI~~~~m~dPV---~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDPV---RLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESM   62 (85)
T ss_dssp             TTTBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             hheECcccCchhcCCe---ECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHh
Confidence            4788999999998765   7799999999999999999999999999987654

>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=99.08  E-value=8.3e-12  Score=99.35  Aligned_cols=48  Identities=31%  Similarity=0.630  Sum_probs=41.3

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPT  255 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~  255 (281)
                      ++..|+||++.|.++.   .++|||.||..||.+|+.. +.+||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVEPV---TLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSSCE---ECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCcee---EcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4678999999997544   6799999999999999976 6689999999853

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

Probab=99.08  E-value=6.4e-11  Score=93.32  Aligned_cols=64  Identities=17%  Similarity=0.127  Sum_probs=50.8

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      .+...|+||++.|.++.   .+||||.|++.||.+|+..+.+||+||..+...+. ..+..+.+.++.
T Consensus        27 p~~~~CpI~~~~m~dPV---~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L-~pn~~Lk~~I~~   90 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDPV---RLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESML-EPVPELKEQIQA   90 (100)
T ss_dssp             STTTBCTTTCSBCSSEE---EETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSS-EECHHHHHHHHH
T ss_pred             cHhhCCcCccCcccCCe---ECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhc-eECHHHHHHHHH
Confidence            34788999999998766   77899999999999999988999999999987553 333444444444

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.07  E-value=8.6e-11  Score=92.25  Aligned_cols=52  Identities=21%  Similarity=0.094  Sum_probs=45.8

Q ss_pred             CCcccccccccccCCCCceeEcCCC-CcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCK-HLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.|+++.   .++|| |.|++.||.+|+..+.+||+||..+...+.
T Consensus        20 p~~~~CpI~~~~m~dPV---~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L   72 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPV---VLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CTTTBCTTTCSBCSSEE---ECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             cHhcCCcCccccccCCe---ECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhc
Confidence            34788999999998765   78999 999999999999998999999999987653

>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=99.03  E-value=7.8e-11  Score=94.42  Aligned_cols=53  Identities=25%  Similarity=0.539  Sum_probs=44.5

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCCCCch
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDVF  259 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~~~~  259 (281)
                      .++..|+||++.+.++   ..++|||.||..||.+|++... +||+||..+...+..
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   69 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF   69 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCE
T ss_pred             CCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcc
Confidence            4578899999999755   3579999999999999998765 999999999776533

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

Probab=98.97  E-value=3.4e-10  Score=85.43  Aligned_cols=54  Identities=20%  Similarity=0.427  Sum_probs=42.4

Q ss_pred             CCcccccccccccCCCCceeEc--CCCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542          204 GADQCCVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L--PC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  258 (281)
                      .++..|+||++.+...+ ...+  +|||.||..|+.+|++. +..||+||..+.....
T Consensus         9 ~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            45788999999986433 2234  49999999999999854 5689999999976554

>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=98.97  E-value=1.9e-10  Score=83.22  Aligned_cols=48  Identities=29%  Similarity=0.601  Sum_probs=40.5

Q ss_pred             CCcccccccccccCCCCceeEc--CCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCEL--PCKHL-FHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L--PC~H~-FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .++.+|.||++.+.+   ...+  ||||. ||..|+.+|.+.+..||+||+++.
T Consensus         6 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            346789999998754   2344  99999 899999999999999999999884

>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=98.93  E-value=2.3e-10  Score=91.50  Aligned_cols=47  Identities=23%  Similarity=0.456  Sum_probs=40.7

Q ss_pred             cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      ...|+||++.|.++.   .+ +|||.||..||..|+.  ..||+||..+...+
T Consensus        22 ~~~C~IC~~~~~~pv---~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (117)
T 1jm7_B           22 LLRCSRCTNILREPV---CLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (117)
T ss_dssp             TTSCSSSCSCCSSCB---CCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             CCCCCCCChHhhCcc---EeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccc
Confidence            678999999997654   56 8999999999999998  88999999986544

>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=98.92  E-value=6.5e-10  Score=99.29  Aligned_cols=66  Identities=15%  Similarity=0.038  Sum_probs=50.9

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCCCCCchhHHHHHHHHHHHhc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDDVFGEIERLWDALVKTS  273 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~~~~~e~~rl~~~l~~~~  273 (281)
                      .+...|+||++.|.++.   .+||||+||+.||.+|+..+ .+||+||.++...+ ...+..+.+.++.+.
T Consensus       206 ~~~~~c~i~~~~~~dPv---~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~-l~~n~~l~~~i~~~~  272 (281)
T 2c2l_A          206 PDYLCGKISFELMREPC---ITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ-LIPNLAMKEVIDAFI  272 (281)
T ss_dssp             CSTTBCTTTCSBCSSEE---ECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG-CEECHHHHHHHHHHH
T ss_pred             CcccCCcCcCCHhcCCe---ECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc-CcccHHHHHHHHHHH
Confidence            35788999999998665   78999999999999999864 45999999996554 334445555555543

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

Probab=98.92  E-value=3e-10  Score=79.82  Aligned_cols=48  Identities=25%  Similarity=0.436  Sum_probs=40.0

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      .+...|+||++.|.++.   .+||+|.||..|+..|   ...||+||..+...+
T Consensus         4 ~~~~~C~IC~~~~~~p~---~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPK---LLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCCS---CSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCeE---EcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            45678999999998654   7899999999999884   678999999986543

>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=98.90  E-value=3e-10  Score=94.47  Aligned_cols=49  Identities=18%  Similarity=0.426  Sum_probs=41.7

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC-CCCCccccCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPT  255 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~-tCPlCR~~l~~  255 (281)
                      .++..|+||++.+.++.   .++|||.||..||.+|++... +||+||.++..
T Consensus        29 ~~~~~C~IC~~~~~~pv---~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPF---QAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCcE---ECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            45788999999997653   579999999999999998665 89999998643

>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=98.90  E-value=7.6e-10  Score=85.72  Aligned_cols=64  Identities=27%  Similarity=0.422  Sum_probs=46.0

Q ss_pred             CCcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcC------CCCCC--cccc-CCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKR------NTCPC--CRFR-LPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~------~tCPl--CR~~-l~~~~~~~e~~rl~~~l~~  271 (281)
                      .+...|+||++.|.++.   .++ |||.|++.||.+|+..+      .+||+  |+.. +...+. .....+.+.++.
T Consensus         5 ~~~~~CPI~~~~~~dPV---~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L-~pn~~L~~~I~~   78 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPV---KNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDL-IQDEALRRAIEN   78 (94)
T ss_dssp             SSCCBCTTTCSBCSSEE---EESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGE-EECHHHHHHHHH
T ss_pred             CcEeECcCcCchhcCCE---EcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhC-cCCHHHHHHHHH
Confidence            34678999999998655   665 99999999999999864      48999  9876 554442 233334444433

>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=98.87  E-value=9.4e-10  Score=105.66  Aligned_cols=49  Identities=33%  Similarity=0.713  Sum_probs=42.0

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~  257 (281)
                      ..+|+||++.+.+   ...+||||.||..|+..|+. .+.+||+||..+....
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            4689999999854   45789999999999999998 6889999999986543

>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=98.85  E-value=7.4e-10  Score=79.87  Aligned_cols=49  Identities=20%  Similarity=0.462  Sum_probs=39.7

Q ss_pred             CcccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      .+.+|.||++...+.. +..+||||. ||..|+.+|.+++..||+||+++.
T Consensus         6 ~~~~C~IC~~~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN-IIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEE-EEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCeE-EEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3678999999765322 122399998 999999999998899999999884

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

Probab=98.78  E-value=5.6e-09  Score=77.27  Aligned_cols=44  Identities=25%  Similarity=0.529  Sum_probs=36.4

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLPTD  256 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~~~  256 (281)
                      +.+|+||++.+.+.   ..+||||. ||..|+.+    ...||+||..+...
T Consensus        25 ~~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCCE---EEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            56799999988653   36899999 99999964    47899999998653

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

Probab=98.78  E-value=9.7e-10  Score=81.41  Aligned_cols=43  Identities=26%  Similarity=0.591  Sum_probs=37.0

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      +..|+||++.+.+   ...+||||. ||..|+..|    .+||+||..+..
T Consensus        24 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            5689999998754   447799999 999999999    899999998853

>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=98.76  E-value=2.7e-09  Score=90.24  Aligned_cols=53  Identities=25%  Similarity=0.531  Sum_probs=44.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCCCCCch
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDDVF  259 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~~~~  259 (281)
                      .++..|+||++.|.++.   .++|||.||..||.+|++.. .+||+||..+..++..
T Consensus        16 ~~~~~C~IC~~~~~~pv---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   69 (170)
T 3hcs_A           16 ESKYECPICLMALREAV---QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF   69 (170)
T ss_dssp             CGGGBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCE
T ss_pred             CCCCCCCCCChhhcCcE---ECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhh
Confidence            45788999999997653   57999999999999999864 4999999999776543

>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=98.71  E-value=4.9e-09  Score=80.63  Aligned_cols=54  Identities=20%  Similarity=0.504  Sum_probs=42.4

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc--------CCCCCC--cccc--CCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK--------RNTCPC--CRFR--LPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~--------~~tCPl--CR~~--l~~~~  257 (281)
                      .+..+|+||++++..++.....+|+|.||..|+..+++.        .-.||.  ||..  +..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~   68 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENE   68 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHH
Confidence            346789999999976655544589999999999999963        137999  9998  65544

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

Probab=98.70  E-value=6.5e-09  Score=90.21  Aligned_cols=64  Identities=17%  Similarity=0.062  Sum_probs=49.3

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      .+...|+||++.|.++.   .+||||.|++.||.+|+..+ .+||+||.++...+. ..+..+.+.++.
T Consensus       104 p~~f~CPI~~elm~DPV---~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L-~pN~~Lk~~Ie~  168 (179)
T 2f42_A          104 PDYLCGKISFELMREPC---ITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQL-IPNLAMKEVIDA  168 (179)
T ss_dssp             CGGGBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC-EECHHHHHHHHH
T ss_pred             cHhhcccCccccCCCCe---ECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhC-cchHHHHHHHHH
Confidence            45788999999998655   67999999999999999864 479999999876543 333445555544

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

Probab=98.62  E-value=4.6e-09  Score=99.46  Aligned_cols=52  Identities=29%  Similarity=0.666  Sum_probs=40.4

Q ss_pred             CCcccccccccccCCCC----ceeE-cCCCCcccHhhHHHHHhcC-----------CCCCCccccCCC
Q 023542          204 GADQCCVICKEEMGGGR----DVCE-LPCKHLFHWLCILPWLKKR-----------NTCPCCRFRLPT  255 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~----~vr~-LPC~H~FH~~CI~~WL~~~-----------~tCPlCR~~l~~  255 (281)
                      .+..+|+||++.+.++.    +.+. .+|+|.||..|+.+|+++.           .+||.||.++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            35678999999997722    2232 3699999999999999752           479999998853

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

Probab=98.57  E-value=4.4e-08  Score=70.37  Aligned_cols=48  Identities=27%  Similarity=0.619  Sum_probs=37.6

Q ss_pred             CCcccccccccccCCCCceeEcCCC--C---cccHhhHHHHHhc--CCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCK--H---LFHWLCILPWLKK--RNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~--H---~FH~~CI~~WL~~--~~tCPlCR~~l~  254 (281)
                      ++...|.||+++..  +.+ ..||.  +   .||..|+.+|+..  +.+||+||+.+.
T Consensus         4 ~~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            45678999999842  333 57855  4   8999999999974  678999999875

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

Probab=98.53  E-value=4.5e-08  Score=71.66  Aligned_cols=46  Identities=26%  Similarity=0.582  Sum_probs=37.8

Q ss_pred             CCCcccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      ..++..|.||++...   .+..+||+|. ||..|+..    ...||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           12 EENSKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCCSSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            345778999999764   4558899999 99999984    5799999998854

>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=98.48  E-value=3.4e-08  Score=71.09  Aligned_cols=50  Identities=12%  Similarity=0.166  Sum_probs=42.7

Q ss_pred             cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ...|+||++.|+++.   .. +|||.|.+.||.+|++++.+||+++.++..++.
T Consensus         3 ~~~CpIs~~~m~dPV---~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVPRRPV---LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCCSSEE---EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             eEEecCCCCCCCCCE---EeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            457999999998653   55 799999999999999988899999999876653

>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=98.47  E-value=2.5e-08  Score=75.01  Aligned_cols=43  Identities=30%  Similarity=0.631  Sum_probs=36.0

Q ss_pred             cccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      +..|.||++.+.   ....+||||. ||..|+..|    ..||+||..+..
T Consensus        18 ~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCEeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            567999999864   4557899999 999999987    499999998843

>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=98.40  E-value=1.7e-07  Score=85.77  Aligned_cols=52  Identities=21%  Similarity=0.383  Sum_probs=42.7

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC--CCCCC--ccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR--NTCPC--CRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~--~tCPl--CR~~l~~~~  257 (281)
                      ..+..|+||++.|.++.  ....|||.||+.||..|++.+  .+||+  ||..+...+
T Consensus       179 ~~el~CPIcl~~f~DPV--ts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          179 KIELTCPITCKPYEAPL--ISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             BCCSBCTTTSSBCSSEE--EESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             ceeeECcCccCcccCCe--eeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            34778999999997544  445899999999999999864  47999  999886655

>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=98.31  E-value=1e-07  Score=90.21  Aligned_cols=44  Identities=27%  Similarity=0.648  Sum_probs=37.4

Q ss_pred             CcccccccccccCCCCceeEcCCCCc-ccHhhHHHHHhcCCCCCCccccCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHL-FHWLCILPWLKKRNTCPCCRFRLPT  255 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~l~~  255 (281)
                      ++..|+||++.+.+   ...+||||. ||..|+..|    ..||+||..+..
T Consensus       294 ~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            36789999998854   447799999 999999998    789999998853

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

Probab=98.09  E-value=2e-06  Score=67.91  Aligned_cols=45  Identities=27%  Similarity=0.555  Sum_probs=37.8

Q ss_pred             cccccccccCCCCceeEcCCCCcccHhhHHHHHh-cCCCCCCccccCC
Q 023542          208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLP  254 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~l~  254 (281)
                      -|.+|--.+.  ...|.+||+|.||.+|+..|.+ +.++||+|+.++.
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            3788877765  5778889999999999999985 4679999999883

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

Probab=97.93  E-value=5.3e-06  Score=74.66  Aligned_cols=52  Identities=23%  Similarity=0.549  Sum_probs=42.1

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCC--CCCCccccCCCCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN--TCPCCRFRLPTDD  257 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlCR~~l~~~~  257 (281)
                      ++-.+|.||.+-...|....  .|+|.||..|+.+|++++.  .||.|+..++.+.
T Consensus       178 ~~i~~C~iC~~iv~~g~~C~--~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          178 DAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             TTCCBCTTTCSBCSSCEECS--SSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             CCCCcCcchhhHHhCCcccC--ccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            34678999999988665322  2999999999999998754  8999999997654

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

Probab=95.23  E-value=0.012  Score=44.86  Aligned_cols=35  Identities=11%  Similarity=0.275  Sum_probs=26.8

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHH
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPW  239 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~W  239 (281)
                      ++..|.||.+++..+....-++|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            46789999987543333334789999999999984

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.30  E-value=0.13  Score=37.05  Aligned_cols=45  Identities=27%  Similarity=0.645  Sum_probs=32.7

Q ss_pred             CcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCC----CCCCccccC
Q 023542          205 ADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRN----TCPCCRFRL  253 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~----tCPlCR~~l  253 (281)
                      .+..|.||.+.   ++ +..- -|...||..|+++.+....    .||.|+...
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            35679999753   33 3333 5999999999998886532    799997654

>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=92.13  E-value=0.084  Score=45.52  Aligned_cols=50  Identities=22%  Similarity=0.414  Sum_probs=35.2

Q ss_pred             cccccccccccCCCCc---eeEc-CCCCcccHhhHHHH------Hh-----cCCCCCCccccCCC
Q 023542          206 DQCCVICKEEMGGGRD---VCEL-PCKHLFHWLCILPW------LK-----KRNTCPCCRFRLPT  255 (281)
Q Consensus       206 ~~~CaICLeef~~~~~---vr~L-PC~H~FH~~CI~~W------L~-----~~~tCPlCR~~l~~  255 (281)
                      +..|+||...|.+++.   .... -|...||..|..--      +.     ..-.||.|+..-..
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            4569999999977652   4344 49999999998531      11     15689999876543

>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=91.22  E-value=0.25  Score=37.74  Aligned_cols=31  Identities=26%  Similarity=0.640  Sum_probs=23.3

Q ss_pred             CcccccccccccCCCCceeEcC---CCCcccHhhHHHH
Q 023542          205 ADQCCVICKEEMGGGRDVCELP---CKHLFHWLCILPW  239 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LP---C~H~FH~~CI~~W  239 (281)
                      .|..|.||- .|..++   .+|   |+-+||..|+.+-
T Consensus        14 ~D~~C~VC~-~~t~~~---l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCE-VWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTC-CCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCccc-cccccc---eeccccccccccHhhcccc
Confidence            478899995 344434   334   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=90.68  E-value=0.18  Score=53.28  Aligned_cols=64  Identities=20%  Similarity=0.109  Sum_probs=49.6

Q ss_pred             CCcccccccccccCCCCceeEcCCC-CcccHhhHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCK-HLFHWLCILPWLKKRNTCPCCRFRLPTDDVFGEIERLWDALVK  271 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~~e~~rl~~~l~~  271 (281)
                      .+...|+|-.+-|.++.   .+|-| +.|=+.+|.+|+.++.+||+=|.++...+.. .+..+.+.++.
T Consensus       889 P~~F~cPIs~~lM~DPV---ilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~li-PN~~Lk~~I~~  953 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDPV---ILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVT-PNEELRQKILC  953 (968)
T ss_dssp             CGGGBCTTTCSBCSSEE---ECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCE-ECHHHHHHHHH
T ss_pred             cHHhCCcchhhHHhCCe---EcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccccc-ccHHHHHHHHH
Confidence            34778999999998766   78987 6899999999999999999999999766533 23344444433

>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=89.86  E-value=0.081  Score=37.36  Aligned_cols=49  Identities=24%  Similarity=0.460  Sum_probs=34.4

Q ss_pred             CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHh-----cCCCCCCcccc
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLK-----KRNTCPCCRFR  252 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~-----~~~tCPlCR~~  252 (281)
                      .++..|+||...+.++.....- .|...||..|+.---.     ....||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            4567799999988654433333 5999999999875432     24479999754

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=88.21  E-value=0.42  Score=36.79  Aligned_cols=47  Identities=23%  Similarity=0.371  Sum_probs=31.1

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc---CCCCCCcccc
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK---RNTCPCCRFR  252 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~---~~tCPlCR~~  252 (281)
                      +...| ||......+..+.--.|.-.||..|+..-...   .-.||.|+..
T Consensus        27 d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           27 DVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             CBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             CCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            34567 89877655443332259999999998764332   3379999743

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=84.51  E-value=0.18  Score=39.43  Aligned_cols=48  Identities=21%  Similarity=0.336  Sum_probs=33.3

Q ss_pred             cccccccccccCCCCceeEc--CCCCcccHhhHHHHHh----------cCCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLK----------KRNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~L--PC~H~FH~~CI~~WL~----------~~~tCPlCR~~l  253 (281)
                      ...|.||...+.+.......  .|...||..|+.---.          ..-.||.|+..-
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~   62 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTK   62 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcC
Confidence            45699999998665444343  4899999999853211          234799997655

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=84.03  E-value=0.48  Score=33.34  Aligned_cols=45  Identities=24%  Similarity=0.752  Sum_probs=31.3

Q ss_pred             CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhc----CCCCCCcccc
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKK----RNTCPCCRFR  252 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~----~~tCPlCR~~  252 (281)
                      ..+..|.||.+.   ++ +..- .|.-.||..|+..-+..    .-.||.|+..
T Consensus         9 ~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            346779999863   33 3333 59999999999986543    2279999653

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=83.60  E-value=0.3  Score=35.45  Aligned_cols=49  Identities=20%  Similarity=0.508  Sum_probs=33.6

Q ss_pred             CcccccccccccCCCCceeEc-CCCCcccHhhHHHHHhc----CCCCCCccccCC
Q 023542          205 ADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKK----RNTCPCCRFRLP  254 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~----~~tCPlCR~~l~  254 (281)
                      +...|.||.... +++....- .|.-.||..|+..-...    .-.||.|+..+.
T Consensus        17 ~~~~C~~C~~~~-~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPD-DGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCC-SSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCC-CCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            355699998765 34333333 49999999999865542    337999977653

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=83.58  E-value=0.84  Score=33.53  Aligned_cols=49  Identities=20%  Similarity=0.407  Sum_probs=32.4

Q ss_pred             CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHh-----cCCCCCCccccC
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLK-----KRNTCPCCRFRL  253 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~-----~~~tCPlCR~~l  253 (281)
                      .+...| ||...+.++.....- -|...||..|+.---.     ....||.|+...
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            345567 999887533433333 5999999999863222     244799998654

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=82.95  E-value=0.57  Score=31.39  Aligned_cols=43  Identities=26%  Similarity=0.679  Sum_probs=28.6

Q ss_pred             cccccccccCCCCceeEc-CCCCcccHhhHHHHHhcC----CCCCCccc
Q 023542          208 CCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKR----NTCPCCRF  251 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~----~tCPlCR~  251 (281)
                      .|.||.+.-.. ..+..- .|...||..|+++=+...    -.||.|+.
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            48899875322 233333 599999999998655432    26999965

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=81.29  E-value=3.6  Score=33.93  Aligned_cols=45  Identities=33%  Similarity=0.599  Sum_probs=31.5

Q ss_pred             CCCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHh---------c--CCCCCCccc
Q 023542          203 AGADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLK---------K--RNTCPCCRF  251 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~---------~--~~tCPlCR~  251 (281)
                      ++.+..|.||.+   .|+ +... .|--.||..|+++-+.         .  .=.||+|+.
T Consensus        60 Dg~~d~C~vC~~---GG~-LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAE---GGN-LICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCC---CSS-EEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCC---CCc-EEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            344677999976   334 3333 5999999999998763         1  227999974

>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=80.64  E-value=0.45  Score=33.46  Aligned_cols=48  Identities=27%  Similarity=0.587  Sum_probs=31.9

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC----CCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR----NTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~----~tCPlCR~~l~  254 (281)
                      ..+..|.||.+.   ++.+.--.|...||..|+.+-+...    -.||.|+....
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            346679999762   3322222499999999998755432    26999976543

---

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	281
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	7e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 61.8 bits (150), Expect = 2e-13
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 206 DQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRFRL 253
              C +C  E+  G +   LP C H FH  C+  WL   +TCP CR  +
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 59.6 bits (144), Expect = 1e-12
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 203 AGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPT 255
           A   + C IC E+         LPC H F ++CI  W+++  TCP C+  + +
Sbjct: 2   ATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.1 bits (140), Expect = 5e-12
 Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDD 257
            Q C IC E     +DV   PC HL    C+  W +     CP CR  +   +
Sbjct: 23  FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 72

>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 = 55.9 bits (134), Expect = 5e-11
 Identities = 16/60 (26%), Positives = 19/60 (31%), Gaps = 15/60 (25%)

Query: 206 DQCCVICKEEM---------------GGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCR 250
              C IC+  +                    V    C H FH+ CI  WLK R  CP   
Sbjct: 21  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>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 = 48.6 bits (115), Expect = 1e-08
 Identities = 12/56 (21%), Positives = 16/56 (28%), Gaps = 3/56 (5%)

Query: 206 DQCCVICKEEMGGGRDVCEL--PCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDV 258
           DQ C  CK        +  +   C H     C+          CP C   L   + 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF 58

>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 = 46.8 bits (111), Expect = 5e-08
 Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 6/46 (13%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP 254
           C  C+ E    +    LPC H     C+         CP C+   P
Sbjct: 9   CQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>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 = 45.9 bits (108), Expect = 8e-08
 Identities = 10/50 (20%), Positives = 14/50 (28%), Gaps = 2/50 (4%)

Query: 209 CVICKEEM-GGGRDVCELPCKHLFHWLCILPWLKKRNTCPC-CRFRLPTD 256
           C +C E +     +     C +     C        N     CR   P D
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 45.2 bits (106), Expect = 2e-07
 Identities = 14/54 (25%), Positives = 16/54 (29%), Gaps = 4/54 (7%)

Query: 206 DQCCVICKEEMGGG--RDVCELPCKHLFHWLCILPWLKKR--NTCPCCRFRLPT 255
              C IC EE+G    R           H  C+  WL       C  C     T
Sbjct: 6   VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT 59

>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 = 46.6 bits (109), Expect = 2e-07
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 5/50 (10%)

Query: 206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-----TCPCCR 250
               +   + +G         C H FH LC+L      N      CP C+
Sbjct: 40  GYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 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 = 45.7 bits (108), Expect = 2e-07
 Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN-TCPCCRFRLPTDDV 258
            C IC+  +    D  E  CKHLF  +CIL  LK     CP CR+     D+
Sbjct: 25  SCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL 73

>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 = 45.8 bits (108), Expect = 2e-07
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 6/53 (11%)

Query: 209 CVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRN---TCPCCRFRLPTDDV 258
           C IC E +   ++     C H+F   C+L  L ++     CP C+  +    +
Sbjct: 24  CPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

>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 = 39.7 bits (92), Expect = 3e-05
 Identities = 13/72 (18%), Positives = 24/72 (33%), Gaps = 8/72 (11%)

Query: 202 GAGADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK--------KRNTCPCCRFRL 253
           G+     C +C  E    +      C+ +F  LC+  +++           +CP      
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPK 60

Query: 254 PTDDVFGEIERL 265
                  EIE +
Sbjct: 61  QGHLQENEIECM 72

>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 = 37.8 bits (87), Expect = 7e-05
 Identities = 8/51 (15%), Positives = 17/51 (33%), Gaps = 2/51 (3%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258
            C I  +     R V     + +F    +  ++K     P     L  +++
Sbjct: 2   LCAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI 50

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (87), Expect = 2e-04
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 4/51 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV 258
            C  C   +     +    C+H+F   C+   +     CP C       D+
Sbjct: 24  RCSRCTNILREPVCLG--GCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL 70

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 12/52 (23%), Positives = 17/52 (32%), Gaps = 4/52 (7%)

Query: 208 CCVICKEEMGGGRDVCELPCKHLFHWLCILPWLK-KRNTCPCCRFRLPTDDV 258
            C I  E M   +D   +     +    I  WL     TCP  +  L    +
Sbjct: 10  RCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL 58

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	281
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.65
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.45
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.42
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.41
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.4
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.36
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.32
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.25
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.19
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.18
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.14
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.04
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.04
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.03
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.03
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.86
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.48
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.97
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.54
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	88.49
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	86.34
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	82.07
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	81.23

>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=3e-17  Score=115.08  Aligned_cols=51  Identities=35%  Similarity=0.811  Sum_probs=46.3

Q ss_pred             CCcccccccccccCCCCceeEcC-CCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          204 GADQCCVICKEEMGGGRDVCELP-CKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +++.+|+||+++|.+++.+..++ |+|.||..||.+|++++++||+||+++.
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            35678999999999999888885 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=99.45  E-value=1.7e-14  Score=104.45  Aligned_cols=47  Identities=34%  Similarity=0.910  Sum_probs=41.7

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      ..+|+||++.|.+  .++.+||+|.||..||.+|++.+.+||+||+++.
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            5679999999864  4567899999999999999999999999999874

>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=99.42  E-value=2.8e-14  Score=98.37  Aligned_cols=50  Identities=22%  Similarity=0.438  Sum_probs=41.4

Q ss_pred             ccccccccccCCCCc-eeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCC
Q 023542          207 QCCVICKEEMGGGRD-VCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTD  256 (281)
Q Consensus       207 ~~CaICLeef~~~~~-vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~  256 (281)
                      .+|+||+++|..++. +..++|+|.||..|+++|++. +.+||+||+++.++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            379999999987654 344589999999999999986 45799999998653

>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=99.41  E-value=6.6e-14  Score=106.09  Aligned_cols=52  Identities=31%  Similarity=0.580  Sum_probs=43.4

Q ss_pred             CCCcccccccccccCCCC---------------ceeEcCCCCcccHhhHHHHHhcCCCCCCccccCC
Q 023542          203 AGADQCCVICKEEMGGGR---------------DVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLP  254 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~---------------~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~  254 (281)
                      +.++.+|+||++++.+..               .+..++|+|.||..||.+||+.+++||+||+++.
T Consensus        18 d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          18 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cCCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            345667999999886533               3566789999999999999999999999999875

>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=99.40  E-value=8.3e-14  Score=109.48  Aligned_cols=54  Identities=26%  Similarity=0.574  Sum_probs=42.1

Q ss_pred             CCCcccccccccccCCC---------------CceeEcCCCCcccHhhHHHHHhcC-----CCCCCccccCCCC
Q 023542          203 AGADQCCVICKEEMGGG---------------RDVCELPCKHLFHWLCILPWLKKR-----NTCPCCRFRLPTD  256 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~---------------~~vr~LPC~H~FH~~CI~~WL~~~-----~tCPlCR~~l~~~  256 (281)
                      ...+..|+||++++..+               ..++.++|+|.||..||..|++..     .+||+||+.+..+
T Consensus        22 ~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            33466799999998542               245667899999999999999743     3799999988544

>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=99.36  E-value=1.5e-13  Score=98.66  Aligned_cols=53  Identities=23%  Similarity=0.406  Sum_probs=42.5

Q ss_pred             CcccccccccccCCCC--ceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCC
Q 023542          205 ADQCCVICKEEMGGGR--DVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef~~~~--~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  257 (281)
                      ++..|+||++++..+.  .+...+|+|.||..||.+|+++ +.+||+||..+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            4678999999864332  4455689999999999999965 558999999987655

>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=99.32  E-value=4.6e-13  Score=99.63  Aligned_cols=51  Identities=31%  Similarity=0.670  Sum_probs=42.3

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  258 (281)
                      +...|+||++++.+   .+.+||||.||..||.+|+.. +++||+||..+...+.
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            34569999998854   557899999999999999975 5689999999976543

>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=99.25  E-value=8.2e-13  Score=100.18  Aligned_cols=57  Identities=33%  Similarity=0.721  Sum_probs=45.4

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHH
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERL  265 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl  265 (281)
                      ...|+||++.|.++   ..++|||.||+.||.+|++. +.+||+||.++...+.....+..
T Consensus        23 ~l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~   80 (86)
T d1rmda2          23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSF   80 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHH
T ss_pred             CcCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHH
Confidence            46799999998654   47899999999999999975 56899999998766655433333

>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=99.19  E-value=1.4e-11  Score=95.17  Aligned_cols=49  Identities=27%  Similarity=0.640  Sum_probs=41.5

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC---CCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR---NTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~l~~~~  257 (281)
                      ..+|+||++.|.++.   .++|||.||..||.+|++..   ..||+||..+...+
T Consensus        21 ~l~CpIC~~~~~~pv---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKEPV---STKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSSCC---BCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCCeE---EcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            567999999997654   67999999999999999764   38999999986555

>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=99.18  E-value=2.9e-12  Score=89.25  Aligned_cols=48  Identities=13%  Similarity=0.177  Sum_probs=41.6

Q ss_pred             cccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          208 CCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      .|+||++.|+++.   .+ .|||.||++||.+|++++.+||+||.++..++.
T Consensus         2 ~C~Ic~~~~~~Pv---~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRPV---LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSEE---EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhcC---ccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            5999999997543   45 599999999999999999999999999877654

>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=99.14  E-value=3.5e-12  Score=89.20  Aligned_cols=47  Identities=26%  Similarity=0.482  Sum_probs=39.6

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      +..+|+||++.|.++.   .+||||.||..||++|   +.+||+||++++...
T Consensus         5 ~~l~C~IC~~~~~~p~---~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCPK---LLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCCS---CSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCCE---EecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            3568999999997654   7799999999999876   678999999997554

>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=99.04  E-value=7.1e-11  Score=82.83  Aligned_cols=50  Identities=28%  Similarity=0.571  Sum_probs=39.1

Q ss_pred             CCCcccccccccccCCCCceeEcC-----CCCcccHhhHHHHHh--cCCCCCCccccCCC
Q 023542          203 AGADQCCVICKEEMGGGRDVCELP-----CKHLFHWLCILPWLK--KRNTCPCCRFRLPT  255 (281)
Q Consensus       203 ~~~~~~CaICLeef~~~~~vr~LP-----C~H~FH~~CI~~WL~--~~~tCPlCR~~l~~  255 (281)
                      +++...|.||++++.++.   ..|     |+|.||..|+.+|++  .+.+||+||+++..
T Consensus         3 ded~~~C~IC~~~~~~~~---~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNER---FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCC---CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCce---eEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            355778999999986543   233     459999999999995  45689999998753

>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=99.04  E-value=5.8e-11  Score=87.74  Aligned_cols=62  Identities=16%  Similarity=0.106  Sum_probs=47.7

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-CCCCCCccccCCCCCchhHHHHHHHHHH
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-RNTCPCCRFRLPTDDVFGEIERLWDALV  270 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~~e~~rl~~~l~  270 (281)
                      ++..|+||++.|.++.   .++|||.||+.||.+|+.+ +.+||.||.++..++.. .+..+.+.++
T Consensus         6 ~~l~CpIc~~l~~dPv---~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~-pN~~L~~~I~   68 (80)
T d2c2la2           6 DYLCGKISFELMREPC---ITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI-PNLAMKEVID   68 (80)
T ss_dssp             STTBCTTTCSBCSSEE---ECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE-ECHHHHHHHH
T ss_pred             ccccCcCcCchhhhhc---ccCCcCeecHHHHHHHHhcCCccCCCccccccccccc-cHHHHHHHHH
Confidence            5788999999998654   6799999999999999975 55899999998765533 2333444444

>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=99.03  E-value=4.1e-11  Score=91.57  Aligned_cols=48  Identities=23%  Similarity=0.470  Sum_probs=39.6

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhcCCCCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKRNTCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  257 (281)
                      ...|+||++.|.++.  ...+|||.||..||.+|+.  ++||.||..+...+
T Consensus        22 ~l~C~IC~~~~~~pv--~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          22 LLRCSRCTNILREPV--CLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             TTSCSSSCSCCSSCB--CCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             cCCCccCCchhhcCc--eeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            567999999998654  3347999999999999984  45999999887655

>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=99.03  E-value=4.9e-11  Score=87.65  Aligned_cols=51  Identities=22%  Similarity=0.286  Sum_probs=44.0

Q ss_pred             CcccccccccccCCCCceeEcCCCCcccHhhHHHHHhcC-CCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKKR-NTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~~~  258 (281)
                      ++..|+||++.|.++.   .++|||.||+.||.+|++.+ .+||.||..+...+.
T Consensus         7 ~~l~CpIc~~~m~dPV---~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l   58 (78)
T d1t1ha_           7 EYFRCPISLELMKDPV---IVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             SSSSCTTTSCCCSSEE---EETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             ccCCCcCcCchhhCce---EccCCCcchHHHHHHHHHHCCCCCCcccccCCcccc
Confidence            5788999999998654   67999999999999999864 579999999977664

>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=98.86  E-value=8.6e-10  Score=84.74  Aligned_cols=51  Identities=22%  Similarity=0.109  Sum_probs=44.3

Q ss_pred             CcccccccccccCCCCceeEcCCC-CcccHhhHHHHHhcCCCCCCccccCCCCCc
Q 023542          205 ADQCCVICKEEMGGGRDVCELPCK-HLFHWLCILPWLKKRNTCPCCRFRLPTDDV  258 (281)
Q Consensus       205 ~~~~CaICLeef~~~~~vr~LPC~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  258 (281)
                      ++..|+||.+.|.++.   .++|+ |.|++.||.+|++++.+||+||.++..++.
T Consensus        21 ~~f~CPI~~~lm~dPV---~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          21 DEFLDPIMSTLMCDPV---VLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             TTTBCTTTCSBCSSEE---ECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             HHhCCcCchhHHHHHH---hcccccchhhHHHHHHHHHhcCCcccccccccchhh
Confidence            4789999999998665   77865 589999999999999999999999977663

>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=98.48  E-value=4e-08  Score=73.71  Aligned_cols=48  Identities=19%  Similarity=0.429  Sum_probs=37.5

Q ss_pred             CCcccccccccccCCCCceeEcCCCCcccHhhHHHHHhc-----C---CCCCCccc
Q 023542          204 GADQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK-----R---NTCPCCRF  251 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~-----~---~tCPlCR~  251 (281)
                      .+..+|+||++++...+....++|+|.||..|+..|++.     .   -+||.|+-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            456789999999976555556689999999999999962     1   16998643

>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=90.97  E-value=0.046  Score=35.35  Aligned_cols=43  Identities=26%  Similarity=0.679  Sum_probs=29.9

Q ss_pred             cccccccccCCCCceeEc-CCCCcccHhhHHHHHhcC----CCCCCccc
Q 023542          208 CCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKR----NTCPCCRF  251 (281)
Q Consensus       208 ~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~----~tCPlCR~  251 (281)
                      .|.||...-.. ..+..- .|...||..|++.-+...    -.||.||.
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            58899765433 333333 499999999999876542    26999975

>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=90.54  E-value=0.03  Score=37.97  Aligned_cols=50  Identities=24%  Similarity=0.437  Sum_probs=34.9

Q ss_pred             CCcccccccccccCCCCceeEc-CCCCcccHhhHHHHHh-----cCCCCCCccccC
Q 023542          204 GADQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLK-----KRNTCPCCRFRL  253 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~-----~~~tCPlCR~~l  253 (281)
                      .....|.||.+.+.+++....- .|+..||..|+..-..     ..-.||.|+..-
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~   59 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcC
Confidence            3467899999887665544444 4999999999864221     234799997643

>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=88.49  E-value=0.2  Score=36.32  Aligned_cols=32  Identities=28%  Similarity=0.611  Sum_probs=25.2

Q ss_pred             CCcccccccccccCCCCceeEcC---CCCcccHhhHHHH
Q 023542          204 GADQCCVICKEEMGGGRDVCELP---CKHLFHWLCILPW  239 (281)
Q Consensus       204 ~~~~~CaICLeef~~~~~vr~LP---C~H~FH~~CI~~W  239 (281)
                      ..|..|.|| +.|....   .+|   |+-+||..|+.+-
T Consensus        13 ~~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            457889999 7776544   345   8899999999997

>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=86.34  E-value=0.08  Score=36.59  Aligned_cols=48  Identities=25%  Similarity=0.617  Sum_probs=31.9

Q ss_pred             cccccccccccCCCCceeEc-CCCCcccHhhHHHHHhcCC----CCCCccccCCCCC
Q 023542          206 DQCCVICKEEMGGGRDVCEL-PCKHLFHWLCILPWLKKRN----TCPCCRFRLPTDD  257 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~WL~~~~----tCPlCR~~l~~~~  257 (281)
                      ...|.||.+   .++ +..- .|...||..|+.+.+....    .||.|+..-..++
T Consensus         7 c~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~~~~   59 (70)
T d1fp0a1           7 ATICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLKE   59 (70)
T ss_dssp             SSCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSSCC
T ss_pred             CCCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCccCc
Confidence            455777754   233 3233 5999999999998875432    6999976554433

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {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 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.07  E-value=1.3  Score=30.67  Aligned_cols=46  Identities=22%  Similarity=0.447  Sum_probs=30.6

Q ss_pred             ccccccccccCCCCceeEc-CCCCcccHhhHHH--HH-hc--CCCCCCccccC
Q 023542          207 QCCVICKEEMGGGRDVCEL-PCKHLFHWLCILP--WL-KK--RNTCPCCRFRL  253 (281)
Q Consensus       207 ~~CaICLeef~~~~~vr~L-PC~H~FH~~CI~~--WL-~~--~~tCPlCR~~l  253 (281)
                      ..| ||.+.+..++....- .|.-.||..|+.-  .- ..  +-.||.|+...
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            446 999876554434334 4999999999852  21 22  35899998654

>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=81.23  E-value=0.2  Score=33.50  Aligned_cols=45  Identities=29%  Similarity=0.680  Sum_probs=30.3

Q ss_pred             cccccccccccCCCCceeEcCCCCcccHhhHHHHHhc----CCCCCCccccC
Q 023542          206 DQCCVICKEEMGGGRDVCELPCKHLFHWLCILPWLKK----RNTCPCCRFRL  253 (281)
Q Consensus       206 ~~~CaICLeef~~~~~vr~LPC~H~FH~~CI~~WL~~----~~tCPlCR~~l  253 (281)
                      +..|.||.+.   ++.+.--.|.-.||..|+...+..    .-.||.|+..-
T Consensus         9 ~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           9 MEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            4569999752   332222249999999999876653    23799997654