Citrus Sinensis ID: 026323

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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
Protein Sequence
MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHccccccccccccccccccccccEEccccccccHHHHHHHHHHcccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHHHHHccccccccccccccccccccEEEEEEHccccccEEEcccccccHHHHHHHHHccccccccccccccccEEEEEccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MAFEQYFAREWKSIASAatgsenyngcfdcnicldfaydpvvtlcghlycwpciYKWLHvqsaslasdehpqcpvckadishttmvplygrgqtptesepegkvshrgtvipprppafgnqallyptsntgqqlpyrnpyqsqnydphgqhsyggfegnspspllnlggtalsgfqhpvvgMFGEMVYASVfgnseslytypnsyhsnprlrRHEMQAVKSLNRISIFLFCCFLLCLIVF
Flexible Loop (DISEMBL)
MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF
Low Complexity Region (SEG)
MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIflfccfllclIVF
Disordered region (IsUnstruct)
****QYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY**************************************************************************LLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHS***LRRHEMQAVKSLNRISIFLFCCFLLCLIV*
Disordered Region (DISOPRED)
*****************************CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG*************************************************************SYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLY**********************LNRISIFLFCCFLLCLIVF
Disordered Region (DISEMBL)
MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG**************RGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF
Disordered Region (DISPRO)
************************NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG****************************************QLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHi
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF
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	240	2.2.26 [Sep-21-2011]
Q6R567	252	E3 ubiquitin-protein liga	N/A	no	0.912	0.869	0.495	3e-54
O64425	249	E3 ubiquitin-protein liga	yes	no	0.904	0.871	0.401	2e-40
Q8GUK7	243	E3 ubiquitin-protein liga	no	no	0.854	0.843	0.427	4e-40
P93030	193	E3 ubiquitin-protein liga	no	no	0.704	0.875	0.376	6e-31
Q5ZIR9	194	E3 ubiquitin-protein liga	yes	no	0.358	0.443	0.44	7e-18
Q91YT2	192	E3 ubiquitin-protein liga	yes	no	0.370	0.463	0.436	9e-18
Q568Y3	192	E3 ubiquitin-protein liga	yes	no	0.337	0.421	0.452	3e-17
Q96GF1	192	E3 ubiquitin-protein liga	yes	no	0.337	0.421	0.452	4e-17
Q5RFK9	192	E3 ubiquitin-protein liga	yes	no	0.337	0.421	0.452	5e-17
Q99942	180	E3 ubiquitin-protein liga	no	no	0.370	0.494	0.431	5e-17

>sp|Q6R567|RMA1_CAPAN E3 ubiquitin-protein ligase RMA1H1 OS=Capsicum annuum GN=RMA1H1 PE=1 SV=1

 Score =  211 bits (538), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 120/242 (49%), Positives = 151/242 (62%), Gaps = 23/242 (9%)

Query: 10  EWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASL--AS 67
           +WKS+       EN +G FDCNICLD  ++PV+TLCGHLYCWPCIYKW++ QS S   + 
Sbjct: 23  KWKSMNDEV--EENISGGFDCNICLDCVHEPVITLCGHLYCWPCIYKWIYFQSVSSENSD 80

Query: 68  DEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPA--FGNQALLY 125
            + PQCPVCKA++S  T++PLYGRG   T+   EGK  + G VIP RPP+   G   LL 
Sbjct: 81  QQQPQCPVCKAEVSEKTLIPLYGRGGQSTKPS-EGKAPNLGIVIPQRPPSPRCGGHFLLP 139

Query: 126 PTSNTGQQLPYRNPY--QSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMF 183
            T +   QL  R  Y  QSQ   P  Q SY        SP+L+ GG   +  QH    M 
Sbjct: 140 TTDSNPSQLLQRRGYQQQSQTRQPAYQGSYMS------SPMLSPGGATANMLQH---SMI 190

Query: 184 GEMVYASVFGNSE-SLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLCLI 238
           GE+ YA +FGNS  ++YTYPNSY+    S+PR+RR   QA +SL RI  FLFCCF+ CLI
Sbjct: 191 GEVAYARIFGNSSTTMYTYPNSYNLAISSSPRMRRQLSQADRSLGRICFFLFCCFVTCLI 250

Query: 239 VF 240
           +F
Sbjct: 251 LF 252

E3 ubiquitin-protein ligase required for aquaporin levels regulation.
Capsicum annuum (taxid: 4072)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|O64425|RMA1_ARATH E3 ubiquitin-protein ligase RMA1 OS=Arabidopsis thaliana GN=RMA1 PE=1 SV=1

 Score =  165 bits (418), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 98/244 (40%), Positives = 136/244 (55%), Gaps = 27/244 (11%)

Query: 6   YFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASL 65
           + +++ + I  +    +  +  FDCNICLD   +PVVTLCGHL+CWPCI+KWL VQS S 
Sbjct: 24  FKSKKPEPITVSVPSDDTDDSNFDCNICLDSVQEPVVTLCGHLFCWPCIHKWLDVQSFS- 82

Query: 66  ASDE---HPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQA 122
            SDE   H QCPVCK+ +SH+T+VPLYGRG+  T+ E +  V  R     P  P +  + 
Sbjct: 83  TSDEYQRHRQCPVCKSKVSHSTLVPLYGRGRCTTQEEGKNSVPKR-----PVGPVYRLEM 137

Query: 123 LLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSP-SPLLNLGGTALSGFQHPVVG 181
              P ++T  +L  R  + S              EG  P S +++    + S    PV+ 
Sbjct: 138 PNSPYASTDLRLSQRVHFNSPQ------------EGYYPVSGVMSSNSLSYSAVLDPVMV 185

Query: 182 MFGEMVYASVFGNS-ESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           M GEMV   +FG      + YP++Y+    S PR+RR  MQA KSL RI  F  CC +LC
Sbjct: 186 MVGEMVATRLFGTRVMDRFAYPDTYNLAGTSGPRMRRRIMQADKSLGRIFFFFMCCVVLC 245

Query: 237 LIVF 240
           L++F
Sbjct: 246 LLLF 249

E3 ubiquitin-protein ligase that promotes the ubiquitination and proteasomal degradation of aquaporin PIP2-1. Forms a ubiquitin ligase complex in cooperation with the E2 enzymes UCB8/UCB10.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8GUK7|RMA3_ARATH E3 ubiquitin-protein ligase RMA3 OS=Arabidopsis thaliana GN=RMA3 PE=1 SV=1

 Score =  164 bits (416), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 97/227 (42%), Positives = 134/227 (59%), Gaps = 22/227 (9%)

Query: 6   YFAREWKSIASAAT-GSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSAS 64
           + A++  ++ +A T G  N +GCFDCNICLD A+DPVVTLCGHL+CWPCIYKWLHVQ +S
Sbjct: 19  FIAKQKPNLTTAPTAGQANESGCFDCNICLDTAHDPVVTLCGHLFCWPCIYKWLHVQLSS 78

Query: 65  LASDEHP-QCPVCKADISHTTMVPLYGRG-QTPTESEPEGKVSHRGTVIPPRPPAFGNQA 122
           ++ D+H   CPVCK++I+ T++VPLYGRG  +P+ +    K     T IP RP      A
Sbjct: 79  VSVDQHQNNCPVCKSNITITSLVPLYGRGMSSPSSTFGSKKQDALSTDIPRRP---APSA 135

Query: 123 LLYPTSNTGQQLPYRNPYQSQNYDP---HGQHSYGGFEGNSPSPLLNLGGTALSGFQHPV 179
           L  P ++     P     Q Q   P   + Q+S  GF     + L N     +  F +PV
Sbjct: 136 LRNPITSASSLNP---SLQHQTLSPSFHNHQYSPRGFTTTESTDLAN---AVMMSFLYPV 189

Query: 180 VGMFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRIS 226
           +GMFG++VY  +FG      T+ N+  + P   +  MQ  KSLNR+S
Sbjct: 190 IGMFGDLVYTRIFG------TFTNTI-AQPYQSQRMMQREKSLNRVS 229

E3 ubiquitin-protein ligase.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P93030|RMA2_ARATH E3 ubiquitin-protein ligase RMA2 OS=Arabidopsis thaliana GN=RMA2 PE=1 SV=1

 Score =  134 bits (337), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 84/223 (37%), Positives = 111/223 (49%), Gaps = 54/223 (24%)

Query: 26  GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLA-------SDEHPQCPVCKA 78
           G FDCNICLD   DPVVTLCGHL+CWPCI+KW +  + S           E P+CPVCK+
Sbjct: 17  GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76

Query: 79  DISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRN 138
           D+S  T+VP+YGRGQ   +S         G+ +P RP        +Y     GQ+L    
Sbjct: 77  DVSEATLVPIYGRGQKAPQS---------GSNVPSRP-----TGPVYDLRGVGQRL---G 119

Query: 139 PYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSES- 197
             +SQ Y                          +     PV+G+  EMVY  +FG S S 
Sbjct: 120 EGESQRY--------------------------MYRMPDPVMGVVCEMVYRRLFGESSSN 153

Query: 198 LYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF 240
           +  Y +    N R RR  MQA +SL+R+ +FL C   +CL +F
Sbjct: 154 MAPYRD---MNVRSRRRAMQAEESLSRVYLFLLCFMFMCLFLF 193

E3 ubiquitin-protein ligase that promotes the ubiquitination and proteasomal degradation of the auxin-binding protein ERABP1.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5ZIR9|RN185_CHICK E3 ubiquitin-protein ligase RNF185 OS=Gallus gallus GN=RNF185 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 44/100 (44%), Positives = 59/100 (59%), Gaps = 14/100 (14%)

Query: 16  SAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV 75
           + A  + N +  F+CNICLD A D V++LCGHL+CWPC+++WL  +           CPV
Sbjct: 27  NGAGDNTNQDNTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQV------CPV 80

Query: 76  CKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
           CKA IS   ++PLYGRG T  + +P  K        PPRP
Sbjct: 81  CKAGISRDKVIPLYGRGST-GQQDPREKT-------PPRP 112

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q91YT2|RN185_MOUSE E3 ubiquitin-protein ligase RNF185 OS=Mus musculus GN=Rnf185 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 48/110 (43%), Positives = 61/110 (55%), Gaps = 21/110 (19%)

Query: 13  SIASAATGSENYNG-------CFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASL 65
           S A   +GS N  G        F+CNICLD A D V++LCGHL+CWPC+++WL  +    
Sbjct: 15  SNAGGPSGSSNGTGESGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRP--- 71

Query: 66  ASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
                  CPVCKA IS   ++PLYGRG T  + +P  K        PPRP
Sbjct: 72  ---NRQVCPVCKAGISRDKVIPLYGRGST-GQQDPREKT-------PPRP 110

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q568Y3|RN185_RAT E3 ubiquitin-protein ligase RNF185 OS=Rattus norvegicus GN=Rnf185 PE=2 SV=1

 Score = 88.6 bits (218), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 43/95 (45%), Positives = 56/95 (58%), Gaps = 14/95 (14%)

Query: 21  SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
           S   +  F+CNICLD A D V++LCGHL+CWPC+++WL  +           CPVCKA I
Sbjct: 30  SGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQV------CPVCKAGI 83

Query: 81  SHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
           S   ++PLYGRG T  + +P  K        PPRP
Sbjct: 84  SRDKVIPLYGRGST-GQQDPREKT-------PPRP 110

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q96GF1|RN185_HUMAN E3 ubiquitin-protein ligase RNF185 OS=Homo sapiens GN=RNF185 PE=1 SV=1

 Score = 88.6 bits (218), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 43/95 (45%), Positives = 56/95 (58%), Gaps = 14/95 (14%)

Query: 21  SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
           S   +  F+CNICLD A D V++LCGHL+CWPC+++WL  +           CPVCKA I
Sbjct: 30  SGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQV------CPVCKAGI 83

Query: 81  SHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
           S   ++PLYGRG T  + +P  K        PPRP
Sbjct: 84  SRDKVIPLYGRGST-GQQDPREKT-------PPRP 110

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RFK9|RN185_PONAB E3 ubiquitin-protein ligase RNF185 OS=Pongo abelii GN=RNF185 PE=2 SV=1

 Score = 88.2 bits (217), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 43/95 (45%), Positives = 56/95 (58%), Gaps = 14/95 (14%)

Query: 21  SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
           S   +  F+CNICLD A D V++LCGHL+CWPC+++WL  +           CPVCKA I
Sbjct: 30  SGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQV------CPVCKAGI 83

Query: 81  SHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
           S   ++PLYGRG T  + +P  K        PPRP
Sbjct: 84  SRDKVIPLYGRGST-GQQDPREKT-------PPRP 110

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q99942|RNF5_HUMAN E3 ubiquitin-protein ligase RNF5 OS=Homo sapiens GN=RNF5 PE=1 SV=1

 Score = 88.2 bits (217), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 47/109 (43%), Positives = 62/109 (56%), Gaps = 20/109 (18%)

Query: 28  FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
           F+CNICL+ A + VV++CGHLYCWPC+++WL  +       E  +CPVCKA IS   +VP
Sbjct: 25  FECNICLETAREAVVSVCGHLYCWPCLHQWLETRP------ERQECPVCKAGISREKVVP 78

Query: 88  LYGRG-QTPTESEPEGKVSHRGTVIPPRP----PAFGNQALLYPTSNTG 131
           LYGRG Q P +              PPRP    PA  ++    P  +TG
Sbjct: 79  LYGRGSQKPQDPR---------LKTPPRPQGQRPAPESRGGFQPFGDTG 118

Has E2-dependent E3 ubiquitin-protein ligase activity. May function together with E2 ubiquitin-conjugating enzymes UBE2D1/UBCH5A and UBE2D2/UBC4. Mediates ubiquitination of PXN/paxillin and Salmonella type III secreted protein sopA. May be involved in regulation of cell motility and localization of PXN/paxillin. Mediates the 'Lys-63'-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD; the ubiquitination appears to involve E2 ubiquitin-conjugating enzyme UBE2N. Mediates the 'Lys-48'-linked polyubiquitination of TMEM173 at 'Lys-150' leading to its proteasomal degradation; the ubiquitination occurrs in mitochondria after viral transfection and regulates antiviral responses.

Homo sapiens (taxid: 9606)

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	240
255556043	241	rnf5, putative [Ricinus communis] gi|223	0.987	0.983	0.762	1e-95
449433843	257	PREDICTED: E3 ubiquitin-protein ligase R	0.975	0.910	0.680	3e-90
449433845	238	PREDICTED: E3 ubiquitin-protein ligase R	0.975	0.983	0.680	5e-90
225468785	240	PREDICTED: E3 ubiquitin-protein ligase R	0.929	0.929	0.709	1e-89
329757897	240	ubiquitin ligase protein [Vitis pseudore	0.929	0.929	0.705	8e-89
224125502	233	predicted protein [Populus trichocarpa]	0.954	0.982	0.709	3e-85
22795037	233	putative RING protein [Populus tremula x	0.954	0.982	0.704	4e-85
224077116	233	predicted protein [Populus trichocarpa]	0.9	0.927	0.683	9e-85
356521355	248	PREDICTED: E3 ubiquitin-protein ligase R	0.983	0.951	0.658	5e-79
356555252	232	PREDICTED: E3 ubiquitin-protein ligase R	0.895	0.926	0.640	1e-74

>gi|255556043|ref|XP_002519056.1| rnf5, putative [Ricinus communis] gi|223541719|gb|EEF43267.1| rnf5, putative [Ricinus communis]

 Score =  354 bits (909), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 186/244 (76%), Positives = 203/244 (83%), Gaps = 7/244 (2%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           M FE+YF REWKSIASAATGSE+++GCFDCNIC DFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MDFERYFPREWKSIASAATGSESFSGCFDCNICFDFAHEPVVTLCGHLYCWPCIYKWLHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSAS+ASDEHPQCPVCKADISHTTMVPLYGRGQ P E+E EGK S RGT IPPRP A G 
Sbjct: 61  QSASIASDEHPQCPVCKADISHTTMVPLYGRGQAPAEAEIEGKASCRGTAIPPRPSACGA 120

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           QAL+    +T QQLPY NPYQ+ NY P     Y  FE  S SPLLNLGG+A++GF HP V
Sbjct: 121 QALISSPQHTAQQLPYHNPYQNHNYTP---DPYSSFEEASQSPLLNLGGSAVTGFHHPFV 177

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           GMFGEMVYA VFGNS+SLY Y NSYH    ++PRLRR EMQA KSLNRISIFLFCCFLLC
Sbjct: 178 GMFGEMVYARVFGNSDSLYAYRNSYHLMGSNSPRLRRQEMQADKSLNRISIFLFCCFLLC 237

Query: 237 LIVF 240
           LIVF
Sbjct: 238 LIVF 241

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433843|ref|XP_004134706.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 1 [Cucumis sativus] gi|449479346|ref|XP_004155575.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 1 [Cucumis sativus]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 166/244 (68%), Positives = 187/244 (76%), Gaps = 10/244 (4%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           MAFEQYFA+ WK ++   T  ENY GCFDCNICLDFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 20  MAFEQYFAQGWKHVS--GTERENYKGCFDCNICLDFAHEPVVTLCGHLYCWPCIYKWLHV 77

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLA DEHPQCPVCKADISHTTMVPLYGRGQT  E EPE K  H    IPPRP A GN
Sbjct: 78  QSASLAIDEHPQCPVCKADISHTTMVPLYGRGQTAEEVEPEDKAMHHDINIPPRPSACGN 137

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           Q L  P+++  QQLPYRNPYQ  N+DP     +  +E +S SPLLNL  T+ S F HPVV
Sbjct: 138 QILATPSTHQ-QQLPYRNPYQRPNHDP---LLFANYEEDSASPLLNLARTSFSSFHHPVV 193

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           GM G+ V+A VFGNS++LY+Y NSY     S  RLRR EMQ  KSLNRISIFLFCC +LC
Sbjct: 194 GMIGDFVHARVFGNSDNLYSYRNSYQLTGSSRNRLRRQEMQVDKSLNRISIFLFCCVILC 253

Query: 237 LIVF 240
           ++VF
Sbjct: 254 VLVF 257

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433845|ref|XP_004134707.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 2 [Cucumis sativus] gi|449479350|ref|XP_004155576.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 2 [Cucumis sativus]

 Score =  336 bits (862), Expect = 5e-90,   Method: Compositional matrix adjust.
 Identities = 166/244 (68%), Positives = 187/244 (76%), Gaps = 10/244 (4%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           MAFEQYFA+ WK ++   T  ENY GCFDCNICLDFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MAFEQYFAQGWKHVS--GTERENYKGCFDCNICLDFAHEPVVTLCGHLYCWPCIYKWLHV 58

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLA DEHPQCPVCKADISHTTMVPLYGRGQT  E EPE K  H    IPPRP A GN
Sbjct: 59  QSASLAIDEHPQCPVCKADISHTTMVPLYGRGQTAEEVEPEDKAMHHDINIPPRPSACGN 118

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           Q L  P+++  QQLPYRNPYQ  N+DP     +  +E +S SPLLNL  T+ S F HPVV
Sbjct: 119 QILATPSTHQ-QQLPYRNPYQRPNHDP---LLFANYEEDSASPLLNLARTSFSSFHHPVV 174

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           GM G+ V+A VFGNS++LY+Y NSY     S  RLRR EMQ  KSLNRISIFLFCC +LC
Sbjct: 175 GMIGDFVHARVFGNSDNLYSYRNSYQLTGSSRNRLRRQEMQVDKSLNRISIFLFCCVILC 234

Query: 237 LIVF 240
           ++VF
Sbjct: 235 VLVF 238

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225468785|ref|XP_002262822.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1 isoform 1 [Vitis vinifera] gi|359497380|ref|XP_003635497.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1 isoform 2 [Vitis vinifera] gi|359497382|ref|XP_003635498.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1 isoform 3 [Vitis vinifera] gi|147810574|emb|CAN63097.1| hypothetical protein VITISV_013326 [Vitis vinifera]

 Score =  335 bits (858), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 164/231 (70%), Positives = 184/231 (79%), Gaps = 8/231 (3%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           MA EQYFA +W+S+++AAT +EN N  F+CNIC D A DPVVTLCGHLYCWPC+YKW HV
Sbjct: 1   MAIEQYFAHDWRSVSAAATEAENLNDSFECNICFDSARDPVVTLCGHLYCWPCVYKWFHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLASDEHPQCPVCKA+ISHTT+VPLYGRGQTP+E+E EGK    G  IPPRPPA G 
Sbjct: 61  QSASLASDEHPQCPVCKAEISHTTLVPLYGRGQTPSETELEGKTHCFGMAIPPRPPACGT 120

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           QAL+  TS+ GQQL YRNPYQ+Q YDP   H Y  +E +SPS L N+GG+  + F HP V
Sbjct: 121 QALINATSHNGQQLQYRNPYQNQQYDP---HPYNDYEHDSPSSLFNMGGSTATSFFHP-V 176

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISI 227
           GMFGEMVYA VFGNSESLY YPNSYH    S PRLRR EMQA KSLNRISI
Sbjct: 177 GMFGEMVYARVFGNSESLYAYPNSYHLTGSSTPRLRRQEMQADKSLNRISI 227

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|329757897|gb|AEC04825.1| ubiquitin ligase protein [Vitis pseudoreticulata]

 Score =  332 bits (851), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 163/231 (70%), Positives = 183/231 (79%), Gaps = 8/231 (3%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           MA EQYFA +W+S+++AAT +EN N  F+CNIC D A DPVVTLCGHLYCWPC+YKW HV
Sbjct: 1   MAIEQYFAHDWRSVSAAATEAENLNDSFECNICFDSARDPVVTLCGHLYCWPCVYKWFHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLASDEHPQCPVCKA+ISHTT+VPLYGRGQTP+E+E EGK    G  IPPRPPA G 
Sbjct: 61  QSASLASDEHPQCPVCKAEISHTTLVPLYGRGQTPSETELEGKTHCFGMAIPPRPPACGT 120

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           QAL+  TS+ GQQL YRNPYQ+Q YDP   H Y  +E +SPS L N+GG+  + F HP V
Sbjct: 121 QALINATSHNGQQLQYRNPYQNQQYDP---HPYNDYEHDSPSSLFNMGGSTATSFFHP-V 176

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISI 227
           GMFGEMVYA VFGNSESLY YPNSYH    S PRLR  EMQA KSLNRISI
Sbjct: 177 GMFGEMVYARVFGNSESLYAYPNSYHLTGSSTPRLRTQEMQADKSLNRISI 227

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125502|ref|XP_002329821.1| predicted protein [Populus trichocarpa] gi|118484396|gb|ABK94075.1| unknown [Populus trichocarpa] gi|222870883|gb|EEF08014.1| predicted protein [Populus trichocarpa]

 Score =  320 bits (820), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 173/244 (70%), Positives = 194/244 (79%), Gaps = 15/244 (6%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           M FE+Y  + WKS++SAAT SEN +GCFDCNIC DFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MEFEKYVTQGWKSVSSAATDSENPSGCFDCNICFDFAHEPVVTLCGHLYCWPCIYKWLHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLASDEHPQCPVCKADISHTTMVPLYGRGQ  TE+  EGK  +RG +IPPRP A G 
Sbjct: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQGSTEA--EGKTPYRGMIIPPRPSACGA 118

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           Q ++  TSNTGQ+LPYRNPY+S NY+    + YG FE  SPSPLLNLG   ++G Q PVV
Sbjct: 119 QGVVSNTSNTGQRLPYRNPYRSHNYN---ANPYGSFEEASPSPLLNLGDPTMTGLQQPVV 175

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           GMF EMVYA VFG       +PNSYH     +PRLRRHE+ A KSLNRISIFLFCCFLLC
Sbjct: 176 GMFREMVYARVFG------PFPNSYHLMGTGSPRLRRHELMADKSLNRISIFLFCCFLLC 229

Query: 237 LIVF 240
           LIVF
Sbjct: 230 LIVF 233

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22795037|gb|AAN05420.1| putative RING protein [Populus tremula x Populus alba]

 Score =  320 bits (819), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 172/244 (70%), Positives = 195/244 (79%), Gaps = 15/244 (6%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           M FE+YF + WKS++SAA+ SEN +GCFDCNIC DFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MEFEKYFTQGWKSVSSAASDSENPSGCFDCNICFDFAHEPVVTLCGHLYCWPCIYKWLHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLASDEHPQCPVCKADISHTTMVPLYGRGQ  TE+  EGK  +RG +IPPRP A G 
Sbjct: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQGSTEA--EGKTPYRGMIIPPRPSACGA 118

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           Q ++  TSNTGQ+LPYRNPY++ NY+    + YG FE  SPSPLLNLG  A++G Q P V
Sbjct: 119 QGVVSNTSNTGQRLPYRNPYRNHNYN---ANPYGSFEEASPSPLLNLGDPAMTGLQQPAV 175

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISIFLFCCFLLC 236
           GMF EMVYA VFG       +PNSYH     +PRLRRHE+ A KSLNRISIFLFCCFLLC
Sbjct: 176 GMFREMVYARVFG------PFPNSYHLMGTGSPRLRRHELMADKSLNRISIFLFCCFLLC 229

Query: 237 LIVF 240
           LIVF
Sbjct: 230 LIVF 233

Source: Populus tremula x Populus alba

Species: Populus tremula x Populus alba

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077116|ref|XP_002305139.1| predicted protein [Populus trichocarpa] gi|222848103|gb|EEE85650.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (816), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 158/231 (68%), Positives = 180/231 (77%), Gaps = 15/231 (6%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           M FE+YFA+ WKS++SAA  SE+++GCFDCNIC DFA +PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MDFERYFAQGWKSVSSAAADSESFSGCFDCNICFDFANEPVVTLCGHLYCWPCIYKWLHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QSASLASDEHPQCPVCKADISH TMVPLYGRGQ  TE+  EGK  +RG +IPPRP A G 
Sbjct: 61  QSASLASDEHPQCPVCKADISHATMVPLYGRGQGSTEA--EGKAPYRGMIIPPRPSACGA 118

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           Q ++  TSNT Q+LPYRNPYQS NY+    + YG FE  SPSPLLNLG   ++G Q PVV
Sbjct: 119 QGVMSNTSNTSQRLPYRNPYQSHNYN---SNPYGSFEEASPSPLLNLGDPTMTGLQEPVV 175

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISI 227
           GM  EMVYA VFG       +P+SYH    S+PR+RRHEM A KSLNRISI
Sbjct: 176 GMLREMVYARVFG------AFPSSYHLTGTSSPRIRRHEMLAAKSLNRISI 220

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521355|ref|XP_003529322.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like [Glycine max]

 Score =  299 bits (766), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 166/252 (65%), Positives = 193/252 (76%), Gaps = 16/252 (6%)

Query: 1   MAFEQYFAREWKSIASAA----TGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYK 56
           MA E Y ++EWK+  S +    T +EN +GCFDCNICLDFA++PVVTLCGHLYCWPCIYK
Sbjct: 1   MALEHYLSQEWKTSPSPSPSPMTVTENLDGCFDCNICLDFAHEPVVTLCGHLYCWPCIYK 60

Query: 57  WLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKV-SHRGTVIPPRP 115
           WLHVQSASLA DEHPQCPVCK DI HTTMVPLYGRGQ    S+ +GK  S+RG+ IPPRP
Sbjct: 61  WLHVQSASLAPDEHPQCPVCKDDICHTTMVPLYGRGQGIAHSDRDGKASSYRGSFIPPRP 120

Query: 116 PAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALS-G 174
           PA G Q+L+  +S + QQLPYRNPYQ+Q+++P         E  S S +LN G   ++ G
Sbjct: 121 PALGAQSLMSTSSQSAQQLPYRNPYQNQHFNPPLYQD----EDESSSQMLNPGANMVAPG 176

Query: 175 FQHPVVGMFGEMVYASVFGNSESLYTYPNSYH------SNPRLRRHEMQAVKSLNRISIF 228
           F H VVGMFGEM+YA VFGNSE+LY YPNSYH      ++PRLRR EMQA KSLNRISIF
Sbjct: 177 FPHLVVGMFGEMLYARVFGNSENLYNYPNSYHLGGSNNNSPRLRRQEMQANKSLNRISIF 236

Query: 229 LFCCFLLCLIVF 240
           LFCCFLLCLIVF
Sbjct: 237 LFCCFLLCLIVF 248

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555252|ref|XP_003545948.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like [Glycine max]

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/231 (64%), Positives = 165/231 (71%), Gaps = 16/231 (6%)

Query: 1   MAFEQYFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV 60
           MAF+ Y +R+ K+I +AAT +EN NGCFDCNICLDFA++PVVTLCGHLYCWPCIYKWLHV
Sbjct: 1   MAFQHYISRDLKTIPNAATETENSNGCFDCNICLDFAHEPVVTLCGHLYCWPCIYKWLHV 60

Query: 61  QSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGN 120
           QS SLA DEHPQCPVCKADIS++TMVPLYGRG   T    EGK S     IPPRP A   
Sbjct: 61  QSDSLAPDEHPQCPVCKADISNSTMVPLYGRGHAATA---EGKTSSCDVFIPPRPSASCV 117

Query: 121 QALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVV 180
           QALL  +S  GQ LPYRNPYQ   +  H        E ++ S +LNLG        HPV 
Sbjct: 118 QALLATSSQRGQHLPYRNPYQGHYFSSHPYQE----EDDATSQMLNLG-----SHHHPVT 168

Query: 181 GMFGEMVYASVFGNSESLYTYPNSYH----SNPRLRRHEMQAVKSLNRISI 227
           GMFGEMVYA VFGN E+LY YPNSY     + PRLRR EMQA KSLNRISI
Sbjct: 169 GMFGEMVYARVFGNPENLYAYPNSYQLMGSATPRLRRQEMQAHKSLNRISI 219

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	240
UNIPROTKB|Q6R567	252	RMA1H1 "E3 ubiquitin-protein l	0.858	0.817	0.488	1.1e-48
TAIR|locus:2124004	243	RMA3 "RING membrane-anchor 3"	0.866	0.855	0.429	6.6e-42
TAIR|locus:2128746	249	RMA1 "RING membrane-anchor 1"	0.787	0.759	0.437	6.5e-35
TAIR|locus:2016437	226	AT1G19310 [Arabidopsis thalian	0.454	0.482	0.462	6.8e-24
TAIR|locus:2037294	137	AT1G74990 [Arabidopsis thalian	0.337	0.591	0.544	1e-22
TAIR|locus:2049023	227	AT2G23780 [Arabidopsis thalian	0.391	0.414	0.466	3.4e-22
TAIR|locus:2123663	193	RMA2 "RING membrane-anchor 2"	0.429	0.533	0.440	4.3e-22
TAIR|locus:2064584	425	AT2G42030 [Arabidopsis thalian	0.462	0.261	0.444	1.3e-20
TAIR|locus:2095833	436	AT3G58030 [Arabidopsis thalian	0.466	0.256	0.392	1.9e-20
UNIPROTKB|Q5ZIR9	194	RNF185 "E3 ubiquitin-protein l	0.370	0.458	0.436	1.9e-19

UNIPROTKB|Q6R567 RMA1H1 "E3 ubiquitin-protein ligase RMA1H1" [Capsicum annuum (taxid:4072)]

 Score = 508 (183.9 bits), Expect = 1.1e-48, P = 1.1e-48
 Identities = 110/225 (48%), Positives = 140/225 (62%)

Query:    10 EWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLA-SD 68
             +WKS+       EN +G FDCNICLD  ++PV+TLCGHLYCWPCIYKW++ QS S   SD
Sbjct:    23 KWKSMNDEV--EENISGGFDCNICLDCVHEPVITLCGHLYCWPCIYKWIYFQSVSSENSD 80

Query:    69 EH-PQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPA--FGNQALLY 125
             +  PQCPVCKA++S  T++PLYGRG   T+   EGK  + G VIP RPP+   G   LL 
Sbjct:    81 QQQPQCPVCKAEVSEKTLIPLYGRGGQSTKPS-EGKAPNLGIVIPQRPPSPRCGGHFLLP 139

Query:   126 PTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGE 185
              T +   QL  R  YQ Q+     Q +Y G      SP+L+ GG   +  QH    M GE
Sbjct:   140 TTDSNPSQLLQRRGYQQQSQTR--QPAYQG--SYMSSPMLSPGGATANMLQH---SMIGE 192

Query:   186 MVYASVFGNSES-LYTYPNSYH----SNPRLRRHEMQAVKSLNRI 225
             + YA +FGNS + +YTYPNSY+    S+PR+RR   QA +SL RI
Sbjct:   193 VAYARIFGNSSTTMYTYPNSYNLAISSSPRMRRQLSQADRSLGRI 237

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

GO:0005515 "protein binding" evidence=IPI

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0006970 "response to osmotic stress" evidence=IEP

GO:0009409 "response to cold" evidence=IEP

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

GO:0009611 "response to wounding" evidence=IEP

GO:0009723 "response to ethylene stimulus" evidence=IEP

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

TAIR|locus:2124004 RMA3 "RING membrane-anchor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 6.6e-42, P = 6.6e-42
 Identities = 97/226 (42%), Positives = 137/226 (60%)

Query:     6 YFAREWKSIASAAT-GSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSAS 64
             + A++  ++ +A T G  N +GCFDCNICLD A+DPVVTLCGHL+CWPCIYKWLHVQ +S
Sbjct:    19 FIAKQKPNLTTAPTAGQANESGCFDCNICLDTAHDPVVTLCGHLFCWPCIYKWLHVQLSS 78

Query:    65 LASDEHPQ-CPVCKADISHTTMVPLYGRGQT-PTESEPEGKVSHRGTVIPPRPPAFGNQA 122
             ++ D+H   CPVCK++I+ T++VPLYGRG + P+ +    K     T IP RP      A
Sbjct:    79 VSVDQHQNNCPVCKSNITITSLVPLYGRGMSSPSSTFGSKKQDALSTDIPRRPAP---SA 135

Query:   123 LLYPTSNTGQQLP-YRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVG 181
             L  P ++     P  ++   S ++  H Q+S  GF     + L N     +  F +PV+G
Sbjct:   136 LRNPITSASSLNPSLQHQTLSPSFHNH-QYSPRGFTTTESTDLAN---AVMMSFLYPVIG 191

Query:   182 MFGEMVYASVFGNSESLYTYPNSYHSNPRLRRHEMQAVKSLNRISI 227
             MFG++VY  +FG      T+ N+  + P   +  MQ  KSLNR+SI
Sbjct:   192 MFGDLVYTRIFG------TFTNTI-AQPYQSQRMMQREKSLNRVSI 230

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2128746 RMA1 "RING membrane-anchor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 98/224 (43%), Positives = 126/224 (56%)

Query:    13 SIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDE--- 69
             S+ S  T   N    FDCNICLD   +PVVTLCGHL+CWPCI+KWL VQS S  SDE   
Sbjct:    35 SVPSDDTDDSN----FDCNICLDSVQEPVVTLCGHLFCWPCIHKWLDVQSFS-TSDEYQR 89

Query:    70 HPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP--PAFGNQALLYPT 127
             H QCPVCK+ +SH+T+VPLYGRG+  T+ E  GK S     +P RP  P +  +    P 
Sbjct:    90 HRQCPVCKSKVSHSTLVPLYGRGRCTTQEE--GKNS-----VPKRPVGPVYRLEMPNSPY 142

Query:   128 SNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSP-SPLLNLGGTALSGFQHPVVGMFGEM 186
             ++T  +L  R  + S    P         EG  P S +++    + S    PV+ M GEM
Sbjct:   143 ASTDLRLSQRVHFNS----PQ--------EGYYPVSGVMSSNSLSYSAVLDPVMVMVGEM 190

Query:   187 VYASVFGNSE-SLYTYPNSYH----SNPRLRRHEMQAVKSLNRI 225
             V   +FG      + YP++Y+    S PR+RR  MQA KSL RI
Sbjct:   191 VATRLFGTRVMDRFAYPDTYNLAGTSGPRMRRRIMQADKSLGRI 234

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0032527 "protein exit from endoplasmic reticulum" evidence=IMP

GO:0016020 "membrane" evidence=IDA

GO:0032940 "secretion by cell" evidence=IGI

TAIR|locus:2016437 AT1G19310 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 6.8e-24, P = 6.8e-24
 Identities = 56/121 (46%), Positives = 73/121 (60%)

Query:    14 IASAATGSENYNGC---FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEH 70
             + S ++G++  N     F+CNICLD A DP+VTLCGHL+CWPC+YKWLH+ S S   D  
Sbjct:     4 VPSCSSGNDTNNNDSSNFECNICLDLAQDPIVTLCGHLFCWPCLYKWLHLHSQS--KD-- 59

Query:    71 PQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNT 130
               CPVCKA I    +VPLYGRG++   ++P  K S  G  +P RP     +    P  N 
Sbjct:    60 --CPVCKAVIEEDRLVPLYGRGKS--SADPRSK-SIPGLEVPNRPSGQRPETAQPPDPNH 114

Query:   131 G 131
             G
Sbjct:   115 G 115

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2037294 AT1G74990 [Arabidopsis thaliana (taxid:3702)]

 Score = 263 (97.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 49/90 (54%), Positives = 62/90 (68%)

Query:    28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
             F CNICL+ A +P+VTLCGHL+CWPC+YKWLH  S S     H  CPVCKA +   T+VP
Sbjct:    17 FGCNICLELAREPIVTLCGHLFCWPCLYKWLHYHSKS----NH--CPVCKALVKEDTLVP 70

Query:    88 LYGRGQTPTESEPEGKVSHRGTVIPPRPPA 117
             LYG G+ P+ S+P  K++  G  +P RP A
Sbjct:    71 LYGMGK-PS-SDPRSKLNS-GVTVPNRPAA 97

GO:0005737 "cytoplasm" evidence=ISM

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

TAIR|locus:2049023 AT2G23780 [Arabidopsis thaliana (taxid:3702)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 48/103 (46%), Positives = 64/103 (62%)

Query:    13 SIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQ 72
             S + +   + +  G F+CNIC + A DP+VTLCGHL+CWPC+Y+WLH  S S       +
Sbjct:    11 SYSDSNNDTNDQGGDFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHS------QE 64

Query:    73 CPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
             CPVCKA +    +VPLYGRG+  T+  P  K  + G  IP RP
Sbjct:    65 CPVCKAVVQDDKLVPLYGRGKNQTD--PRSK-RYPGLRIPNRP 104

GO:0005634 "nucleus" evidence=ISM

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

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

TAIR|locus:2123663 RMA2 "RING membrane-anchor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 56/127 (44%), Positives = 73/127 (57%)

Query:    26 GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLAS-DEH------PQCPVCKA 78
             G FDCNICLD   DPVVTLCGHL+CWPCI+KW +  + S    D++      P+CPVCK+
Sbjct:    17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76

Query:    79 DISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRN 138
             D+S  T+VP+YGRGQ   +S         G+ +P RP        +Y     GQ+L    
Sbjct:    77 DVSEATLVPIYGRGQKAPQS---------GSNVPSRPTG-----PVYDLRGVGQRL---G 119

Query:   139 PYQSQNY 145
               +SQ Y
Sbjct:   120 EGESQRY 126

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2064584 AT2G42030 [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 56/126 (44%), Positives = 71/126 (56%)

Query:    10 EWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDE 69
             E K     + GS+     FDC ICLD + DPVVT CGHLYCW C+Y+WL V  A      
Sbjct:   123 EEKRDVEKSVGSDG--SFFDCYICLDLSKDPVVTNCGHLYCWSCLYQWLQVSEAK----- 175

Query:    70 HPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSN 129
               +CPVCK ++S  T+ P+YGRG    ESE   +VS+  T IP RP A   ++L   T N
Sbjct:   176 --ECPVCKGEVSVKTVTPIYGRGIQKRESE---EVSN--TKIPSRPQARRTESLR-TTLN 227

Query:   130 TGQQLP 135
                 +P
Sbjct:   228 RSGHIP 233

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2095833 AT3G58030 [Arabidopsis thaliana (taxid:3702)]

 Score = 246 (91.7 bits), Expect = 1.9e-20, P = 1.9e-20
 Identities = 51/130 (39%), Positives = 73/130 (56%)

Query:    12 KSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHP 71
             K+    ++GS+     FDCNICLD + +PV+T CGHLYCWPC+Y+WL +  A        
Sbjct:   123 KADVEKSSGSDG--NFFDCNICLDLSKEPVLTCCGHLYCWPCLYQWLQISDAK------- 173

Query:    72 QCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTG 131
             +CPVCK +++  T+ P+YGRG    E E         T +P RP A   ++L     NT 
Sbjct:   174 ECPVCKGEVTSKTVTPIYGRGNHKREIEES-----LDTKVPMRPHARRIESL----RNTI 224

Query:   132 QQLPYRNPYQ 141
             Q+ P+  P +
Sbjct:   225 QRSPFTIPME 234

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|Q5ZIR9 RNF185 "E3 ubiquitin-protein ligase RNF185" [Gallus gallus (taxid:9031)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 45/103 (43%), Positives = 61/103 (59%)

Query:    13 SIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQ 72
             S ++ A  + N +  F+CNICLD A D V++LCGHL+CWPC+++WL  +           
Sbjct:    24 SSSNGAGDNTNQDNTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRP------NRQV 77

Query:    73 CPVCKADISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRP 115
             CPVCKA IS   ++PLYGRG T  + +P  K        PPRP
Sbjct:    78 CPVCKAGISRDKVIPLYGRGSTG-QQDPREKT-------PPRP 112

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O64425	RMA1_ARATH	6, ., 3, ., 2, ., -	0.4016	0.9041	0.8714	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_Genewise1_v1.C_1240101 SubName- Full=Putative uncharacterized protein; (233 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	240
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	2e-39
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-10
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	8e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-08
smart00184	40	smart00184, RING, Ring finger	2e-08
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-06
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	2e-06
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	2e-06
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	3e-04
smart00504	63	smart00504, Ubox, Modified RING finger domain	0.001
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.001

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score =  134 bits (339), Expect = 2e-39
 Identities = 84/223 (37%), Positives = 110/223 (49%), Gaps = 54/223 (24%)

Query: 26  GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLA-------SDEHPQCPVCKA 78
           G FDCNICLD   DPVVTLCGHL+CWPCI+KW +  + S           E P+CPVCK+
Sbjct: 17  GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76

Query: 79  DISHTTMVPLYGRGQTPTESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRN 138
           D+S  T+VP+YGRGQ         K    G+ +P RP        +Y     GQ+L    
Sbjct: 77  DVSEATLVPIYGRGQ---------KAPQSGSNVPSRP-----SGPVYDLRGVGQRL---G 119

Query: 139 PYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMFGEMVYASVFGNSES- 197
             +SQ Y                          +     PV+G+  EMVY  +FG S S 
Sbjct: 120 EGESQRY--------------------------MYRMPDPVMGVVCEMVYRRLFGESSSN 153

Query: 198 LYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF 240
           +  Y +    N R RR  MQA +SL+R+ +FL C   +CL +F
Sbjct: 154 MAPYRD---MNVRSRRRAMQAEESLSRVYLFLLCFMFMCLFLF 193

Length = 193

>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 = 53.2 bits (128), Expect = 5e-10
 Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 9/53 (16%)

Query: 29 DCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
          +C ICL+   +PVV L CGH++C  CI KWL              CP+C+  I
Sbjct: 1  ECPICLEEFREPVVLLPCGHVFCRSCIDKWL--------KSGKNTCPLCRTPI 45

Length = 45

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

 Score = 54.1 bits (130), Expect = 8e-09
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 7/51 (13%)

Query: 28  FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
           + C +CL+    P  T CGHL+C  C+     + S +    E   CP+C+A
Sbjct: 216 YKCFLCLEEPEVPSCTPCGHLFCLSCL-----LISWTKKKYEF--CPLCRA 259

Length = 271

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

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 10/52 (19%)

Query: 28 FDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
           +C ICLD   DPVV   CGH++C  CI ++L             +CP+C+ 
Sbjct: 3  LECPICLDLLRDPVVLTPCGHVFCRECILRYLKK---------KSKCPICRT 45

Length = 45

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

 Score = 48.7 bits (116), Expect = 2e-08
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 9/48 (18%)

Query: 30 CNICLD-FAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
          C ICL+ +  DPV+  CGH +C  CI KWL           +  CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWL--------ESGNNTCPIC 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|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 45.1 bits (107), Expect = 4e-07
 Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 12/55 (21%)

Query: 28 FDCNICLD--FAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
           +C ICLD     + VV L CGH++   C+ KWL              CP+C+A 
Sbjct: 1  DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRS---------SNTCPLCRAP 46

Length = 46

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

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 20/48 (41%), Positives = 24/48 (50%), Gaps = 9/48 (18%)

Query: 30 CNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
          C ICL+   DPV  L CGHL+C  CI  WL           +  CP+C
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCILSWL--------ESGNVTCPLC 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|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 47.8 bits (113), Expect = 2e-06
 Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
          C IC      P  T CGH +C  CI + L            P CPVC+ D
Sbjct: 28 CRICDCRISIPCETTCGHTFCSLCIRRHL---------GTQPFCPVCRED 68

Length = 391

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 47.7 bits (113), Expect = 2e-06
 Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 9/51 (17%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
            C+IC DF   PV+T C H +C  CI + L            P+CP+C+A
Sbjct: 27 LRCHICKDFFDVPVLTSCSHTFCSLCIRRCL---------SNQPKCPLCRA 68

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 40.4 bits (94), Expect = 3e-04
 Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 12/70 (17%)

Query: 29  DCNICLDFAYDP---------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
           +C IC +  Y           ++  C H++C  CI  W   +  + ASD    CP+C+  
Sbjct: 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASD---NCPICRTR 228

Query: 80  ISHTTMVPLY 89
             + TM   Y
Sbjct: 229 FRNITMSKFY 238

Length = 242

>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 9/62 (14%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          F C I L+   DPV+   G  Y    I KWL           H   PV    ++H  ++P
Sbjct: 2  FLCPISLEVMKDPVILPSGQTYERSAIEKWL---------LSHGTDPVTGQPLTHEDLIP 52

Query: 88 LY 89
            
Sbjct: 53 NL 54

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination. Length = 63

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

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 11/55 (20%)

Query: 30 CNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
          C ICL+   + V   CGHL  C  C  +               +CP+C+  I   
Sbjct: 5  CVICLERPRNVVFLPCGHLCLCEECAKRLR----------SKKKCPICRQPIESV 49

Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	240
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	100.0
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.35
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.27
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.22
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.11
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.1
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.03
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.02
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.01
PHA02929	238	N1R/p28-like protein; Provisional	98.98
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.9
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.89
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.85
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.83
PHA02926	242	zinc finger-like protein; Provisional	98.78
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.72
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.72
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.69
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.67
PF14634	44	zf-RING_5: zinc-RING finger domain	98.6
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.58
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.54
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.5
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.36
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.34
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.31
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.1
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
COG5152	259	Uncharacterized conserved protein, contains RING a	97.98
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.92
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.64
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.62
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.56
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.53
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.52
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.51
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.44
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.43
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.41
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.35
KOG2660	331	consensus Locus-specific chromosome binding protei	97.32
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.29
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.22
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.1
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.05
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.0
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	96.9
PF04641	260	Rtf2: Rtf2 RING-finger	96.87
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.84
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.74
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.74
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.67
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.62
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.47
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	96.42
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.21
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.17
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.97
KOG4367	699	consensus Predicted Zn-finger protein [Function un	95.74
KOG4739	233	consensus Uncharacterized protein involved in syna	95.43
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	95.16
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	94.93
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	94.59
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.52
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	94.42
KOG3002	299	consensus Zn finger protein [General function pred	94.26
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.24
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	93.98
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	93.88
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.62
KOG4445	368	consensus Uncharacterized conserved protein, conta	93.34
PHA03096	284	p28-like protein; Provisional	93.19
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	92.51
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	92.11
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	91.94
PHA02825	162	LAP/PHD finger-like protein; Provisional	91.74
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	91.64
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.38
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.25
KOG3039	303	consensus Uncharacterized conserved protein [Funct	91.09
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.93
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	90.46
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.42
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	89.61
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	88.97
COG5109	396	Uncharacterized conserved protein, contains RING Z	88.87
PHA02862	156	5L protein; Provisional	88.25
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	86.48
KOG1940	276	consensus Zn-finger protein [General function pred	86.31
KOG3113	293	consensus Uncharacterized conserved protein [Funct	86.11
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	86.03
KOG3053	293	consensus Uncharacterized conserved protein [Funct	85.85
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	84.7
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	84.67
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.4
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	83.52
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	80.34
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	80.16

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=100.00  E-value=2.3e-49  Score=335.07  Aligned_cols=172  Identities=47%  Similarity=0.936  Sum_probs=139.3

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhcccc-------CCCCCCCCCCccCCCCcCcceeccCCCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASL-------ASDEHPQCPVCKADISHTTMVPLYGRGQTP   95 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~-------~~~~~~~CPvCr~~v~~~~l~p~~~~g~~~   95 (240)
                      +..++++|+||++.+++|++++|||+|||.||.+|+...+.+.       ...+...||+||..++..+++|+|++|.. 
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~~-   92 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQK-   92 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCCC-
Confidence            4456799999999999999999999999999999997543221       12345799999999999999999999986 


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCcccccc
Q 026323           96 TESEPEGKVSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGF  175 (240)
Q Consensus        96 ~~~~~~~k~~~~~~~iP~RP~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (240)
                              +...+..+|+||.+++.+.     ++..+++.++   ++|+|+                         + ++
T Consensus        93 --------~~~~~~~iP~rp~~~~~~~-----~~~~~~~~~~---~~~~~~-------------------------~-~~  130 (193)
T PLN03208         93 --------APQSGSNVPSRPSGPVYDL-----RGVGQRLGEG---ESQRYM-------------------------Y-RM  130 (193)
T ss_pred             --------CCCCCCCCCcCCCCCccCC-----CCcccccccc---ccceee-------------------------e-cc
Confidence                    2344567999998876552     2222222222   112221                         1 67


Q ss_pred             cCcccccccchhhhhccCCCC-CCCCCCCCCCCCchhhhHhHHHHHhhhHHHHHHHHHHHHHHhhC
Q 026323          176 QHPVVGMFGEMVYASVFGNSE-SLYTYPNSYHSNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF  240 (240)
Q Consensus       176 ~~~~~g~f~~~~~~~~~g~~~-~~~~~~~~~~~~~r~~~~~~q~~~~l~~~~~f~~~~~~l~l~~f  240 (240)
                      ++|++||||||||+|+||++. |+|+|||+   +||||||+||+|||||||+|||||||+||||||
T Consensus       131 ~~p~~g~~~~~~~~r~fg~~~~~~~~~~~~---~~r~r~~~~q~~~sl~r~~~f~~c~~~~~~~~f  193 (193)
T PLN03208        131 PDPVMGVVCEMVYRRLFGESSSNMAPYRDM---NVRSRRRAMQAEESLSRVYLFLLCFMFMCLFLF  193 (193)
T ss_pred             CCccccchhhhhhhhhhCCccccccccccC---chHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhC
Confidence            889999999999999999999 99999985   899999999999999999999999999999998

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

Probab=100.00  E-value=2.3e-37  Score=266.45  Aligned_cols=185  Identities=39%  Similarity=0.765  Sum_probs=135.4

Q ss_pred             CCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCCCCCCCCCCCC
Q 026323           24 YNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQTPTESEPEGK  103 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~~~~~~~~~~k  103 (240)
                      ....|+|+||+|..+|||+|.|||+|||+||++||+.+.      ....|||||..++.++++|+|++|+..  ....+|
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~------~~~~cPVCK~~Vs~~~vvPlYGrG~~~--~~~~~~  115 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRP------NSKECPVCKAEVSIDTVVPLYGRGSKK--PSDPRK  115 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcC------CCeeCCccccccccceEEeeeccCCCC--CCCccc
Confidence            457899999999999999999999999999999999875      448899999999999999999999962  222223


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCcccccccCcccccc
Q 026323          104 VSHRGTVIPPRPPAFGNQALLYPTSNTGQQLPYRNPYQSQNYDPHGQHSYGGFEGNSPSPLLNLGGTALSGFQHPVVGMF  183 (240)
Q Consensus       104 ~~~~~~~iP~RP~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~f  183 (240)
                      +.     +|+||+++|.++.+...+....          .++...  +...++ +....-|.+.|...+   -++++|||
T Consensus       116 ~~-----vP~RP~~~R~e~~~p~~~~~~~----------~g~r~~--g~~~~~-~~~~~f~~s~~i~~~---~~~v~~~~  174 (230)
T KOG0823|consen  116 KD-----VPPRPAGQRYESKRPTPQNRGN----------HGFRFF--GFRLGE-ESSNRFMYSFGIGLF---GDPVMGLF  174 (230)
T ss_pred             cc-----CCCCCCCccccccCCCCccccc----------cccccc--cccccc-cCCcceeEEeecccC---CCceeeec
Confidence            22     9999999998877544332110          111100  000100 000112233333222   16889999


Q ss_pred             cchhhhhccCCCC-CCCCCCCCCC-CCchhhhHhHHHHHhhhHHHHHHHHHHHHHHhhC
Q 026323          184 GEMVYASVFGNSE-SLYTYPNSYH-SNPRLRRHEMQAVKSLNRISIFLFCCFLLCLIVF  240 (240)
Q Consensus       184 ~~~~~~~~~g~~~-~~~~~~~~~~-~~~r~~~~~~q~~~~l~~~~~f~~~~~~l~l~~f  240 (240)
                      ++++++++||+.+ .+ +  .+++ ..+|.++++||.+++|+|+.+|++|++++||+++
T Consensus       175 p~~~~~~lf~~~~~~~-~--~~~~~~~~~~~~r~~q~e~~ls~~f~~~~~~~~~~l~~~  230 (230)
T KOG0823|consen  175 PFGLYTRLFGTDETFP-A--DTPRPSPARPLGRQMQRENSLSRVFLFLACFFVSWLLVI  230 (230)
T ss_pred             cccceeeecCCCCCcc-c--cCCCCCCCccccccchhhcccccchhhhhhhheeeeeeC
Confidence            9999999999888 44 3  3333 4578888999999999999999999999999864

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

Probab=99.35  E-value=4.8e-13  Score=119.20  Aligned_cols=58  Identities=29%  Similarity=0.914  Sum_probs=51.2

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      ..+....|.+|+|...+|..|+|||+|||.||..|+...         ..||+||..+++.+++-++
T Consensus       235 i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek---------~eCPlCR~~~~pskvi~Lr  292 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEK---------AECPLCREKFQPSKVICLR  292 (293)
T ss_pred             CCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccc---------cCCCcccccCCCcceeeec
Confidence            345678999999999999999999999999999999955         6699999999998877553

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

Probab=99.27  E-value=3.7e-12  Score=83.39  Aligned_cols=42  Identities=40%  Similarity=0.940  Sum_probs=31.9

Q ss_pred             cccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |+||++++++||.++|||+||..||.+|++...     .....||+|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~-----~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPS-----GSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSS-----SST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccC-----CcCCCCcCC
Confidence            899999999999999999999999999998432     222789987

>smart00504 Ubox Modified RING finger domain

Probab=99.22  E-value=1.6e-11  Score=85.89  Aligned_cols=56  Identities=30%  Similarity=0.519  Sum_probs=50.0

Q ss_pred             ccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           27 CFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ++.|+||.+.+.+||+++|||+||..||.+|++.+         ..||+|+..+..++++++...
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~---------~~cP~~~~~~~~~~l~~~~~l   56 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSH---------GTDPVTGQPLTHEDLIPNLAL   56 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHC---------CCCCCCcCCCChhhceeCHHH
Confidence            36799999999999999999999999999999842         789999999988888887543

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

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

Probab=99.14  E-value=2.5e-11  Score=101.58  Aligned_cols=57  Identities=39%  Similarity=0.937  Sum_probs=49.4

Q ss_pred             CCCccccccccccCCC--cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           24 YNGCFDCNICLDFAYD--PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~--pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      -++.+.|+||++.+.+  ||.|+|||+||..||+..++..         .+||+|++.+..+.+.++|
T Consensus       128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~---------~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT---------NKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             cccccCCCceecchhhccccccccchhHHHHHHHHHHHhC---------CCCCCcccccchhhheecc
Confidence            3466999999999865  5669999999999999999854         8999999999988888776

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

Probab=99.14  E-value=2.9e-11  Score=114.87  Aligned_cols=79  Identities=28%  Similarity=0.700  Sum_probs=65.8

Q ss_pred             hhHHHHHHHhhhhcCCCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323            6 YFAREWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus         6 ~~~~~~ks~~~~~~~~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      ....+|+.+..+-..+     +..||||++...-|+.|.|||+||++||..++...    .......||+|+..+..+++
T Consensus       170 D~p~~~e~i~qv~~~t-----~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s----~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  170 DAPVDWEDIFQVYGST-----DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYS----AIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             ccccchHHhhhhhcCc-----CCcCCcccCCCCcccccccCceeeHHHHHHHHhhh----cccCCccCCchhhhccccce
Confidence            3446688877765533     67899999999999999999999999999999854    24567899999999999999


Q ss_pred             eeccCCCC
Q 026323           86 VPLYGRGQ   93 (240)
Q Consensus        86 ~p~~~~g~   93 (240)
                      .+.+.+..
T Consensus       241 ~pv~~e~~  248 (513)
T KOG2164|consen  241 LPVFIEDD  248 (513)
T ss_pred             eeeeeccc
Confidence            99887765

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.11  E-value=3.2e-11  Score=113.17  Aligned_cols=70  Identities=30%  Similarity=0.732  Sum_probs=57.5

Q ss_pred             HHHHHHhhhhcCCCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323            9 REWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus         9 ~~~ks~~~~~~~~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      -+|...+....  +.++..+.|+||++.+.+|++++|||.||..||..|+...         ..||+|+..+...++..+
T Consensus        10 tDw~~t~~~~l--~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~---------~~CP~Cr~~~~~~~Lr~N   78 (397)
T TIGR00599        10 SDWLTTPIPSL--YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ---------PKCPLCRAEDQESKLRSN   78 (397)
T ss_pred             hhhccCCcccc--cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC---------CCCCCCCCccccccCccc
Confidence            56777664444  5677889999999999999999999999999999999842         689999998876555544


Q ss_pred             c
Q 026323           89 Y   89 (240)
Q Consensus        89 ~   89 (240)
                      +
T Consensus        79 ~   79 (397)
T TIGR00599        79 W   79 (397)
T ss_pred             h
Confidence            3

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

>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=99.10  E-value=4.7e-11  Score=76.58  Aligned_cols=38  Identities=61%  Similarity=1.300  Sum_probs=32.8

Q ss_pred             cccccccCCCc-EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYDP-VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~p-v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |+||++.+.+| ++++|||+||+.|+.+|++.+         .+||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~---------~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN---------PKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT---------SB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc---------CCCcCC
Confidence            89999999999 678999999999999999842         899987

>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=99.03  E-value=1.6e-10  Score=77.92  Aligned_cols=47  Identities=34%  Similarity=0.851  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ++..|.||++...+.+.++|||. ||..|+.+|++..         ..||+||+.+.
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~---------~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRK---------KKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTT---------SBBTTTTBB-S
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccC---------CCCCcCChhhc
Confidence            35789999999999999999999 9999999999833         89999999875

...

>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=99.02  E-value=1.3e-10  Score=76.33  Aligned_cols=40  Identities=40%  Similarity=0.999  Sum_probs=34.1

Q ss_pred             ccccccccCC---CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCcc
Q 026323           29 DCNICLDFAY---DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK   77 (240)
Q Consensus        29 ~C~ICle~~~---~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr   77 (240)
                      +|+||++.+.   ..+.++|||.||..||.+|++..         .+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~---------~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN---------NSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS---------SB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC---------CcCCccC
Confidence            6999999984   45778999999999999999854         6999997

...

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

Probab=99.01  E-value=2e-10  Score=83.64  Aligned_cols=58  Identities=26%  Similarity=0.468  Sum_probs=46.8

Q ss_pred             CccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      +.+.|+|+.+++.+||++++||+|+..||.+|++..        ...||.|+..+..++++++...
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~--------~~~~P~t~~~l~~~~l~pn~~L   60 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQN--------GGTDPFTRQPLSESDLIPNRAL   60 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT--------SSB-TTT-SB-SGGGSEE-HHH
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC--------CCCCCCCCCcCCcccceECHHH
Confidence            578999999999999999999999999999999952        3899999999999999988643

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.98  E-value=4.4e-10  Score=99.07  Aligned_cols=48  Identities=31%  Similarity=0.917  Sum_probs=40.3

Q ss_pred             CCccccccccccCCCc--------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDP--------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~p--------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..+.+|+||++.+.++        ++++|||.||..||.+|++.+         .+||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~---------~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK---------NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC---------CCCCCCCCEee
Confidence            4568999999987653        556899999999999999843         79999998875

>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=98.90  E-value=1.3e-09  Score=70.19  Aligned_cols=40  Identities=45%  Similarity=1.145  Sum_probs=35.9

Q ss_pred             cccccccCCCcE-EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYDPV-VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~pv-~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |+||++.+.+++ +++|||.||..||.+|++..       +...||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~-------~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS-------GSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT-------SSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhc-------CCccCCcC
Confidence            899999999999 88999999999999999942       44789987

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 ....

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

Probab=98.89  E-value=7.7e-10  Score=97.79  Aligned_cols=54  Identities=30%  Similarity=0.832  Sum_probs=47.1

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHH-HHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYK-WLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~-wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      ..++.|.||++....|..++|||+|||.||.. |-..+.        ..||+||+.+..++++
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~--------~~CplCRak~~pk~vi  267 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY--------EFCPLCRAKVYPKKVI  267 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc--------ccCchhhhhccchhhh
Confidence            45788999999999999999999999999999 877553        5699999998877763

>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=98.85  E-value=2.9e-09  Score=68.17  Aligned_cols=44  Identities=48%  Similarity=1.210  Sum_probs=37.0

Q ss_pred             ccccccccCCCcEEcC-CCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           29 DCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        29 ~C~ICle~~~~pv~t~-CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      +|+||++.+.+++.+. |||.||..|+..|++..        ...||+|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~--------~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG--------KNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC--------cCCCCCCCCcC
Confidence            5999999997777665 99999999999999852        37899998753

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

Probab=98.83  E-value=3.8e-10  Score=102.75  Aligned_cols=59  Identities=29%  Similarity=0.750  Sum_probs=52.0

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG   90 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~   90 (240)
                      .++..+.|-||.|++..|++|+|+|+||.-||..+|..+         ..||.|+..+.+.+++.++.
T Consensus        19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~---------p~CP~C~~~~~Es~Lr~n~i   77 (442)
T KOG0287|consen   19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYK---------PQCPTCCVTVTESDLRNNRI   77 (442)
T ss_pred             hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccC---------CCCCceecccchhhhhhhhH
Confidence            445678999999999999999999999999999999854         89999999999877776644

>PHA02926 zinc finger-like protein; Provisional

Probab=98.78  E-value=4.4e-09  Score=91.20  Aligned_cols=55  Identities=24%  Similarity=0.814  Sum_probs=42.6

Q ss_pred             CCCccccccccccCCC---------cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAYD---------PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~---------pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+.+.+|+||+|...+         ++..+|+|.||..||..|.+.+.   +.+....||+||..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~---~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRR---ETGASDNCPICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhcc---ccCcCCcCCCCcceee
Confidence            4457889999998643         35569999999999999998532   2344578999998875

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

Probab=98.73  E-value=2.7e-08  Score=91.80  Aligned_cols=47  Identities=36%  Similarity=0.733  Sum_probs=39.6

Q ss_pred             cccccccccCCCc---EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           28 FDCNICLDFAYDP---VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        28 ~~C~ICle~~~~p---v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      +.|.||+|.+++.   ++++|.|.|+..||..||...        ...||+||..+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--------r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--------RTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--------CccCCCCCCcCCC
Confidence            6999999999765   568999999999999999843        2569999987643

>smart00184 RING Ring finger

Probab=98.72  E-value=1.3e-08  Score=62.95  Aligned_cols=39  Identities=51%  Similarity=1.255  Sum_probs=34.6

Q ss_pred             cccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |+||++...+++.++|||.||..|+..|++..        ...||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~--------~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSG--------NNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhC--------cCCCCCC
Confidence            89999999999999999999999999999822        3779987

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)

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

Probab=98.72  E-value=8.3e-09  Score=67.87  Aligned_cols=39  Identities=33%  Similarity=0.858  Sum_probs=23.6

Q ss_pred             cccccccCCC----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCC
Q 026323           30 CNICLDFAYD----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCP   74 (240)
Q Consensus        30 C~ICle~~~~----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CP   74 (240)
                      |+||.| +.+    |++++|||+||..||.++++...     .+..+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~-----~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD-----RNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S------S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC-----CCeeeCc
Confidence            899999 777    99999999999999999998431     2346776

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

Probab=98.69  E-value=4e-09  Score=94.47  Aligned_cols=71  Identities=30%  Similarity=0.655  Sum_probs=54.1

Q ss_pred             HHHHHHhhhhcCCCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323            9 REWKSIASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus         9 ~~~ks~~~~~~~~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      .+|.+..-...  ..+...+.|-||.+.+..|+.|+|||+||.-||.+.|..+         .-||+||.+....-++..
T Consensus         9 SD~~~T~IPSL--~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~q---------p~CP~Cr~~~~esrlr~~   77 (391)
T COG5432           9 SDWNQTKIPSL--KGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQ---------PFCPVCREDPCESRLRGS   77 (391)
T ss_pred             cccccccCcch--hcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCC---------CCCccccccHHhhhcccc
Confidence            45555432222  3445678899999999999999999999999999999855         899999988766554444


Q ss_pred             cC
Q 026323           89 YG   90 (240)
Q Consensus        89 ~~   90 (240)
                      .+
T Consensus        78 s~   79 (391)
T COG5432          78 SG   79 (391)
T ss_pred             hh
Confidence            33

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

Probab=98.67  E-value=5.6e-08  Score=89.75  Aligned_cols=56  Identities=32%  Similarity=0.712  Sum_probs=45.4

Q ss_pred             hhcCCCCCCCccccccccccC-CC------------cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           17 AATGSENYNGCFDCNICLDFA-YD------------PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        17 ~~~~~~~~~~~~~C~ICle~~-~~------------pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+.++....++..|.||.|.+ +.            |..++|||.++..|++.|++.+         .+||+||.++-
T Consensus       277 t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq---------QTCPICr~p~i  345 (491)
T COG5243         277 TATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ---------QTCPICRRPVI  345 (491)
T ss_pred             hhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc---------cCCCcccCccc
Confidence            344444567789999999984 32            4788999999999999999965         89999999854

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.60  E-value=2.6e-08  Score=65.50  Aligned_cols=41  Identities=37%  Similarity=0.996  Sum_probs=34.5

Q ss_pred             ccccccccC---CCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC
Q 026323           29 DCNICLDFA---YDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA   78 (240)
Q Consensus        29 ~C~ICle~~---~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~   78 (240)
                      .|+||++.+   ..+++++|||+||..|+..+..         ....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~---------~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG---------KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC---------CCCCCcCCCC
Confidence            499999998   3578899999999999998872         3389999974

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

Probab=98.58  E-value=2.9e-09  Score=75.33  Aligned_cols=54  Identities=28%  Similarity=0.694  Sum_probs=28.6

Q ss_pred             CCccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           25 NGCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      ++...|++|.+.+++||. ..|.|.||+.||..-+.           ..||+|+.+....|++-|.
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~-----------~~CPvC~~Paw~qD~~~Nr   59 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG-----------SECPVCHTPAWIQDIQINR   59 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT-----------TB-SSS--B-S-SS----H
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC-----------CCCCCcCChHHHHHHHhhh
Confidence            346789999999999986 59999999999976544           5699999988877776654

>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=98.54  E-value=5.6e-08  Score=70.83  Aligned_cols=41  Identities=39%  Similarity=1.035  Sum_probs=32.6

Q ss_pred             cccccccccCCCc-------------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCcc
Q 026323           28 FDCNICLDFAYDP-------------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK   77 (240)
Q Consensus        28 ~~C~ICle~~~~p-------------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr   77 (240)
                      ..|.||++.+.++             +...|||.|+..||.+|++..         ..||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~---------~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN---------NTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS---------SB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC---------CcCCCCC
Confidence            3499999999332             334899999999999999854         6999997

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

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

Probab=98.50  E-value=1.9e-08  Score=99.78  Aligned_cols=59  Identities=25%  Similarity=0.682  Sum_probs=53.4

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      ...+-+.|++|.+.+++.|++.|||.||..|+...+..+.        .+||.|...+..+|+.++|
T Consensus       639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRq--------RKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQ--------RKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhc--------CCCCCCCCCCCcccccccC
Confidence            3456789999999999999999999999999999999765        9999999999999998876

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

Probab=98.49  E-value=3.5e-08  Score=85.29  Aligned_cols=47  Identities=34%  Similarity=0.896  Sum_probs=41.6

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCcc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK   77 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr   77 (240)
                      ....+.+.|+||++.+.+|++++|||+||..||..++. .        ...||.||
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~--------~~~Cp~cr   54 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-G--------PLSCPVCR   54 (386)
T ss_pred             hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-C--------CcCCcccC
Confidence            34567899999999999998889999999999999987 2        28999999

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

Probab=98.36  E-value=2.2e-07  Score=83.87  Aligned_cols=48  Identities=33%  Similarity=0.730  Sum_probs=40.3

Q ss_pred             CccccccccccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           26 GCFDCNICLDFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        26 ~~~~C~ICle~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ...+|.||++.+.+   -+++||.|.|+..|+.+|+..-+        .+||+||.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~--------~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS--------NKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc--------ccCCccCCCCC
Confidence            34889999999854   36789999999999999998433        89999998764

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

Probab=98.34  E-value=3.6e-07  Score=68.36  Aligned_cols=50  Identities=38%  Similarity=0.713  Sum_probs=37.2

Q ss_pred             ccccccccccCC-----------C-cEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           27 CFDCNICLDFAY-----------D-PVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        27 ~~~C~ICle~~~-----------~-pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      +..|.||...+.           + |++. .|+|.|+..||.+|++.++      ....||.||+....
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~------~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS------SKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc------CCCCCCCcCCeeee
Confidence            556777776653           2 4443 8999999999999999653      34799999987653

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

Probab=98.31  E-value=1.8e-07  Score=91.52  Aligned_cols=51  Identities=27%  Similarity=0.632  Sum_probs=44.1

Q ss_pred             CCccccccccccCCC-----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCc
Q 026323           25 NGCFDCNICLDFAYD-----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT   84 (240)
Q Consensus        25 ~~~~~C~ICle~~~~-----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~   84 (240)
                      ..+..|.||.|.+..     +..++|||.||..|+++|++.+         ..||.||..+....
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~---------qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ---------QTCPTCRTVLYDYV  344 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh---------CcCCcchhhhhccc
Confidence            347889999999988     7899999999999999999965         89999998554433

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.10  E-value=2.4e-06  Score=77.86  Aligned_cols=51  Identities=24%  Similarity=0.589  Sum_probs=38.1

Q ss_pred             cccccccccc-CCCcE----EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           27 CFDCNICLDF-AYDPV----VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        27 ~~~C~ICle~-~~~pv----~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +..||||... ...|.    +..|||.||..|+...+..        +...||.|+..+...++
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~--------~~~~CP~C~~~lrk~~f   58 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR--------GSGSCPECDTPLRKNNF   58 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC--------CCCCCCCCCCccchhhc
Confidence            4679999985 23332    2279999999999997753        23689999998877654

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).

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

Probab=98.00  E-value=3.5e-06  Score=79.48  Aligned_cols=50  Identities=34%  Similarity=0.956  Sum_probs=44.0

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ....++.|.||...+.+||+++|||.||..||.+-+.         ....||.||..+.
T Consensus        80 ~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld---------~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD---------QETECPLCRDELV  129 (398)
T ss_pred             cccchhhhhhhHhhcCCCccccccccccHHHHHHHhc---------cCCCCcccccccc
Confidence            4467899999999999999999999999999988665         3389999998876

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

Probab=97.98  E-value=2.3e-06  Score=73.29  Aligned_cols=63  Identities=32%  Similarity=0.553  Sum_probs=47.2

Q ss_pred             HHHHHHhhhh-cCCC-CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323            9 REWKSIASAA-TGSE-NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus         9 ~~~ks~~~~~-~~~~-~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      ++|.+--+++ ..+. ...-.|.|-||.+.+..||++.|||.||..|..+-.+.         ...|-+|.+..
T Consensus       176 ~EWnA~~Ee~~v~~~~~e~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k---------g~~C~~Cgk~t  240 (259)
T COG5152         176 QEWNAEYEEAPVISGPGEKIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQK---------GDECGVCGKAT  240 (259)
T ss_pred             hhhcchhhhcccccCCCCCCceeehhchhhccchhhhhcchhHHHHHHHHHhcc---------CCcceecchhh
Confidence            5676533322 2222 23346899999999999999999999999999887763         37899998764

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

Probab=97.92  E-value=6.3e-06  Score=77.01  Aligned_cols=53  Identities=34%  Similarity=0.761  Sum_probs=45.0

Q ss_pred             cccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      -.|.||-|.-++-.+-+|||+.|..|+..|.+.+       +...||.||.+++..+-+.
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd-------~gq~CPFCRcEIKGte~vi  422 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD-------EGQTCPFCRCEIKGTEPVI  422 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccC-------CCCCCCceeeEecccccee
Confidence            4699999999998888999999999999998743       3589999999998765443

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

Probab=97.85  E-value=6.1e-06  Score=74.52  Aligned_cols=49  Identities=31%  Similarity=0.635  Sum_probs=42.5

Q ss_pred             ccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           27 CFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      ..+|.||+....-||.+.|+|.||..||+--.+.+.        ..|++||.++..+
T Consensus         7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk--------~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDK--------KTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCCcCccccccchhhhhhhcchhhcCC--------CCCceecCCCCcc
Confidence            467999999999999999999999999987776443        7799999998754

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

Probab=97.85  E-value=1.4e-06  Score=79.99  Aligned_cols=51  Identities=29%  Similarity=0.753  Sum_probs=43.0

Q ss_pred             CCCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+...+.|+||+++++....+ .|+|-||..||..-+..        +...||.||+.+.
T Consensus        39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~--------gn~ecptcRk~l~   90 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS--------GNNECPTCRKKLV   90 (381)
T ss_pred             HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh--------cCCCCchHHhhcc
Confidence            455779999999999988776 79999999999887774        3489999998764

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

Probab=97.76  E-value=6.2e-06  Score=56.66  Aligned_cols=49  Identities=33%  Similarity=0.836  Sum_probs=40.5

Q ss_pred             CCccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +.+.+|.||.|...+.|...|||. .|..|-.+.++.        .+..||+||++++
T Consensus         5 ~~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~--------~~g~CPiCRapi~   54 (62)
T KOG4172|consen    5 QWSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKA--------LHGCCPICRAPIK   54 (62)
T ss_pred             ccccceeeeccCcchHHHHHcchHHhHHHHHHHHHHc--------cCCcCcchhhHHH
Confidence            344789999999999999999995 589998877662        3489999999874

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

Probab=97.76  E-value=6.8e-06  Score=74.06  Aligned_cols=66  Identities=32%  Similarity=0.609  Sum_probs=49.7

Q ss_pred             hHHHHHHHhhhhcC--CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323            7 FAREWKSIASAATG--SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus         7 ~~~~~ks~~~~~~~--~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ++.+|++..+..-.  .+...-.|.|-||...+.+||++.|||.||..|..+-++.         ...|.+|.+.+.
T Consensus       219 i~~e~d~~ke~~~~~~~D~~~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk---------~~~c~vC~~~t~  286 (313)
T KOG1813|consen  219 IEFEWDSAKEKKRVKIEDIELLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK---------GEKCYVCSQQTH  286 (313)
T ss_pred             eehhhhccccccceecCCcccCCccccccccccccchhhcCCceeehhhhcccccc---------CCcceecccccc
Confidence            45778887743322  2233345789999999999999999999999998776663         378999987653

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=2e-05  Score=69.54  Aligned_cols=83  Identities=18%  Similarity=0.304  Sum_probs=62.3

Q ss_pred             chhhhHHHHHHHhhhhcCC--CCCCCccccccccccCCCc----EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323            3 FEQYFAREWKSIASAATGS--ENYNGCFDCNICLDFAYDP----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus         3 ~~~~~~~~~ks~~~~~~~~--~~~~~~~~C~ICle~~~~p----v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      ++++|++.+..+..+.++.  ..-+..+.|+||.+.+.+.    +.-+|||++|..|+.+.+..+         ..||+|
T Consensus       195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D---------~v~pv~  265 (303)
T KOG3039|consen  195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD---------MVDPVT  265 (303)
T ss_pred             hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc---------ccccCC
Confidence            4566666655544433322  1223679999999999874    344999999999999999866         899999


Q ss_pred             cCCCCcCcceeccCCCCC
Q 026323           77 KADISHTTMVPLYGRGQT   94 (240)
Q Consensus        77 r~~v~~~~l~p~~~~g~~   94 (240)
                      ..+++..+|+.+..-|..
T Consensus       266 d~plkdrdiI~LqrGGTG  283 (303)
T KOG3039|consen  266 DKPLKDRDIIGLQRGGTG  283 (303)
T ss_pred             CCcCcccceEeeeccccc
Confidence            999999999998655544

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

Probab=97.62  E-value=2.6e-05  Score=54.29  Aligned_cols=44  Identities=30%  Similarity=0.594  Sum_probs=31.1

Q ss_pred             CCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPV   75 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPv   75 (240)
                      .-.+.|||.+..+++||.. .|||+|....|..|++..       ....||+
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~-------~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN-------GSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT-------S-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc-------CCCCCCC
Confidence            4468999999999999885 999999999999999422       4589998

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

Probab=97.56  E-value=5.3e-05  Score=68.65  Aligned_cols=53  Identities=30%  Similarity=0.681  Sum_probs=42.1

Q ss_pred             cccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC-CCCcCcceec
Q 026323           28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA-DISHTTMVPL   88 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~-~v~~~~l~p~   88 (240)
                      +.|+.|..++..|+.| .|||.||..||...|-...        +.||.|.. .+..+.+.|.
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD--------f~CpnC~rkdvlld~l~pD  329 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD--------FKCPNCSRKDVLLDGLTPD  329 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc--------ccCCCcccccchhhccCcc
Confidence            8899999999999999 6899999999987776332        99999965 3444444443

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

Probab=97.53  E-value=2.9e-05  Score=56.16  Aligned_cols=56  Identities=30%  Similarity=0.699  Sum_probs=26.7

Q ss_pred             ccccccccccCC-C---cEEc----CCCCcccHHHHHHHHHhhccccCCC--CCCCCCCccCCCCc
Q 026323           27 CFDCNICLDFAY-D---PVVT----LCGHLYCWPCIYKWLHVQSASLASD--EHPQCPVCKADISH   82 (240)
Q Consensus        27 ~~~C~ICle~~~-~---pv~t----~CGH~FC~~CI~~wl~~~s~~~~~~--~~~~CPvCr~~v~~   82 (240)
                      +.+|.||++... +   |++.    .|+..|+..||++|+.....+...-  ...+||.|+.+++-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            468999998864 2   3332    7999999999999998654221111  12579999988753

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

Probab=97.52  E-value=4.7e-05  Score=73.44  Aligned_cols=58  Identities=28%  Similarity=0.681  Sum_probs=48.6

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      +...++..|.+|.|..++++.+.|.|.||..||.+++..-+    .....+||+|...++.+
T Consensus       531 ~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~----~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFM----ENNNVTCPVCHIGLSID  588 (791)
T ss_pred             ccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhh----cccCCCCcccccccccc
Confidence            34567899999999999999999999999999999998543    23449999998887655

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

Probab=97.51  E-value=4.3e-05  Score=72.20  Aligned_cols=56  Identities=34%  Similarity=0.866  Sum_probs=47.8

Q ss_pred             CCCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           23 NYNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      ..+++..|+||...+.+|+.+ .|||.||..|+..|+..         +..||+|+..+...+.++
T Consensus        17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~---------~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN---------HQKCPVCRQELTQAEELP   73 (391)
T ss_pred             CCcccccCccccccccCCCCCCCCCCcccccccchhhcc---------CcCCcccccccchhhccC
Confidence            357789999999999999995 99999999999999984         389999988776655543

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

Probab=97.48  E-value=7.9e-05  Score=68.80  Aligned_cols=48  Identities=35%  Similarity=0.739  Sum_probs=40.2

Q ss_pred             CCccccccccccCCCcEEcCCCCcc-cHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLY-CWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~F-C~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +...+|-||+...++-+++||.|+. |..|.+... .+.        ..||+||..+.
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~--------n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQT--------NNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHH-Hhh--------cCCCccccchH
Confidence            4468899999999999999999974 999987655 332        89999999884

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

Probab=97.44  E-value=4.3e-05  Score=72.32  Aligned_cols=47  Identities=30%  Similarity=0.754  Sum_probs=39.9

Q ss_pred             CCCccccccccccCCCcE----EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAYDPV----VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv----~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .-+.-+|+||+|.+.+.+    .+.|.|.|+..|+.+|..           ..||+||...+
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~-----------~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD-----------SSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhccc-----------CcChhhhhhcC
Confidence            346789999999997654    469999999999999998           88999997655

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

Probab=97.43  E-value=0.00013  Score=65.42  Aligned_cols=52  Identities=27%  Similarity=0.639  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ....+.+|++|-+....|.+. +|||.||..||..-...+       ....||.|...+.
T Consensus       235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~-------asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWD-------ASFTCPLCGENVE  287 (298)
T ss_pred             cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcch-------hhcccCccCCCCc
Confidence            445679999999999999776 699999999998776643       3489999987653

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

Probab=97.41  E-value=7.9e-05  Score=71.36  Aligned_cols=50  Identities=26%  Similarity=0.735  Sum_probs=39.5

Q ss_pred             CCCccccccccccCC-----------------CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAY-----------------DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~-----------------~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+...+|+||...+.                 +-.++||.|.|+..|+.+|.+.-+        ..||+||..+.
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk--------l~CPvCR~pLP  634 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK--------LICPVCRCPLP  634 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc--------ccCCccCCCCC
Confidence            345688999997652                 124569999999999999998542        69999998764

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

Probab=97.35  E-value=8e-05  Score=69.85  Aligned_cols=61  Identities=34%  Similarity=0.699  Sum_probs=49.5

Q ss_pred             CccccccccccCCCc-----EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCC
Q 026323           26 GCFDCNICLDFAYDP-----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQ   93 (240)
Q Consensus        26 ~~~~C~ICle~~~~p-----v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~   93 (240)
                      ....|+||+|.+.-+     |.+.|||.|-..||.+||. +.      ....||.|+......++.+.|....
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~------~~~~cp~c~~katkr~i~~e~alR~   68 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK------TKMQCPLCSGKATKRQIRPEYALRV   68 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh------hhhhCcccCChhHHHHHHHHHHHHH
Confidence            357899999998765     5568999999999999997 32      4589999998888888888776543

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

Probab=97.32  E-value=6.1e-05  Score=68.88  Aligned_cols=51  Identities=31%  Similarity=0.730  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .......|.+|..++.|+.+ +.|-|+||..||.+++...         ..||.|...+-.
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~---------~~CP~C~i~ih~   62 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES---------KYCPTCDIVIHK   62 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh---------ccCCccceeccC
Confidence            45567899999999999865 4899999999999999953         899999876644

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

Probab=97.29  E-value=0.00029  Score=47.42  Aligned_cols=42  Identities=31%  Similarity=0.789  Sum_probs=33.4

Q ss_pred             ccccccc--cCCCcEEcCCC-----CcccHHHHHHHHHhhccccCCCCCCCCCCcc
Q 026323           29 DCNICLD--FAYDPVVTLCG-----HLYCWPCIYKWLHVQSASLASDEHPQCPVCK   77 (240)
Q Consensus        29 ~C~ICle--~~~~pv~t~CG-----H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr   77 (240)
                      .|-||++  ...++.+.||.     |.++..|+.+|+...       ....||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~-------~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINES-------GNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHc-------CCCcCCCCC
Confidence            4889997  44567788985     789999999999865       236899995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

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

Probab=97.22  E-value=0.00026  Score=65.52  Aligned_cols=51  Identities=25%  Similarity=0.528  Sum_probs=44.6

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ...++..|+||.--....|..||+|.-|..||.+.+-         +.+.|-.||..+..
T Consensus       418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlm---------N~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLM---------NCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecccchhhccCCCCchHHHHHHHHHh---------cCCeeeEecceeee
Confidence            4467899999999999999999999999999999887         44899999987753

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

Probab=97.10  E-value=0.00032  Score=65.15  Aligned_cols=55  Identities=27%  Similarity=0.751  Sum_probs=42.8

Q ss_pred             CCccccccccccCCCcE-----E---cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPV-----V---TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv-----~---t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..+..|-||+|...+..     .   .+|.|.||..||..|-+...  .+....+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q--~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQ--FESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhc--cccccccCCCcccCccc
Confidence            45789999999987765     3   57999999999999986442  13344699999997654

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

Probab=97.05  E-value=0.00021  Score=72.93  Aligned_cols=52  Identities=29%  Similarity=0.889  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCC--C---c--EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAY--D---P--VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~--~---p--v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..++.-+|+||+..+.  +   |  ..-.|.|.|+..|+++|.+..       +..+||+||..+.
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss-------~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS-------ARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc-------CCCCCCccccccc
Confidence            4567788999998874  2   2  223699999999999999954       5689999997764

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

Probab=97.00  E-value=0.00017  Score=64.59  Aligned_cols=57  Identities=25%  Similarity=0.466  Sum_probs=44.7

Q ss_pred             CCccccccccccCCCcE----------EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323           25 NGCFDCNICLDFAYDPV----------VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv----------~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      .++..|.||-..+...+          .+.|+|+|+-.||.-|.-..       ...+||.||..+..+.+..|
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG-------KkqtCPYCKekVdl~rmfsn  288 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG-------KKQTCPYCKEKVDLKRMFSN  288 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec-------CCCCCchHHHHhhHhhhccC
Confidence            46788999997774433          46899999999999998743       45899999998876666554

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

Probab=96.90  E-value=0.00076  Score=49.88  Aligned_cols=29  Identities=31%  Similarity=0.878  Sum_probs=26.1

Q ss_pred             CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           44 LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        44 ~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .|.|.|+..||++||.++         ..||.+++...
T Consensus        53 ~CnHaFH~HCI~rWL~Tk---------~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTK---------GVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhC---------CCCCCCCceeE
Confidence            799999999999999965         89999998764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.87  E-value=0.00054  Score=61.25  Aligned_cols=61  Identities=21%  Similarity=0.437  Sum_probs=48.3

Q ss_pred             CCCCccccccccccCCCc---EEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDP---VVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQ   93 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~p---v~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~   93 (240)
                      .....+.|||....+..-   |.+ +|||+|+..+|...-  .        ...||+|-.++...|++++.....
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~--------~~~Cp~c~~~f~~~DiI~Lnp~~e  173 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--K--------SKKCPVCGKPFTEEDIIPLNPPEE  173 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--c--------cccccccCCccccCCEEEecCCcc
Confidence            346789999999998542   333 999999999998763  1        167999999999999998876554

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

Probab=96.84  E-value=0.00015  Score=65.47  Aligned_cols=42  Identities=36%  Similarity=0.777  Sum_probs=34.6

Q ss_pred             ccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           27 CFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ...|.||+|...|-+.++|||. -|..|=.+             ...||+||+.+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr-------------m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR-------------MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc-------------cccCchHHHHHH
Confidence            6789999999999999999995 48888543             257999997653

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

Probab=96.76  E-value=0.00064  Score=62.94  Aligned_cols=47  Identities=38%  Similarity=0.808  Sum_probs=37.2

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+.....|.||++...+.+.++|||.-|  |..-..+.          .+||+||..+.
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l----------~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL----------PQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCccceeeecCCcEEE--chHHHhhC----------CCCchhHHHHH
Confidence            3445688999999999999999999977  76554442          66999998764

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

Probab=96.74  E-value=0.00081  Score=61.66  Aligned_cols=57  Identities=26%  Similarity=0.667  Sum_probs=46.7

Q ss_pred             CCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccC
Q 026323           25 NGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG   90 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~   90 (240)
                      .+...|+||+....+|.++ --|-+||++|+..++..         +..||+-..+...++++.++.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~---------~~~CPVT~~p~~v~~l~rl~~  355 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN---------YGHCPVTGYPASVDHLIRLFN  355 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh---------cCCCCccCCcchHHHHHHHhc
Confidence            3557899999999998776 56999999999999984         489999988887777766543

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

Probab=96.74  E-value=0.0014  Score=52.88  Aligned_cols=52  Identities=27%  Similarity=0.648  Sum_probs=43.7

Q ss_pred             CccccccccccCCCcEEc----CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           26 GCFDCNICLDFAYDPVVT----LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t----~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      .-.+|+||.|.-.|...+    -||-..|-.|-...++..+      -.+.||+|+..++.+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~------~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN------LYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc------cCCCCCccccccccc
Confidence            568999999999888776    4999999999988888653      669999999887654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.67  E-value=0.00089  Score=46.12  Aligned_cols=48  Identities=25%  Similarity=0.442  Sum_probs=38.8

Q ss_pred             CccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCc
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT   84 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~   84 (240)
                      ....|-.|...-...++++|||..|..|..-+-.           ..||.|..++...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY-----------ngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY-----------NGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhhc-----------cCCCCCCCcccCCC
Confidence            4566888888888889999999999999755433           88999999886654

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

Probab=96.62  E-value=0.00038  Score=69.93  Aligned_cols=52  Identities=21%  Similarity=0.549  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcEE---cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           26 GCFDCNICLDFAYDPVV---TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~---t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      ..-.|++|+..+.+..+   .+|+|.||..||..|-...         .+||+||..+...++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a---------qTCPiDR~EF~~v~V~  176 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA---------QTCPVDRGEFGEVKVL  176 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc---------ccCchhhhhhheeeee
Confidence            44678999887765433   4899999999999999854         8999999887654433

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

Probab=96.47  E-value=0.0014  Score=61.29  Aligned_cols=48  Identities=25%  Similarity=0.798  Sum_probs=34.5

Q ss_pred             cccccccccCCCc---EEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           28 FDCNICLDFAYDP---VVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        28 ~~C~ICle~~~~p---v~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      -.|.||.|....-   -.+ .|||+|+..|+..|++...      ..+.||.|+-.+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P------s~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDP------SNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCC------ccCCCCceeeccc
Confidence            4699996655322   112 5999999999999999653      2279999994333

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

Probab=96.42  E-value=0.00091  Score=49.08  Aligned_cols=32  Identities=34%  Similarity=0.895  Sum_probs=27.6

Q ss_pred             CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           44 LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        44 ~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .|.|.|+..||.+|+..++      ....||.||+...
T Consensus        50 ~C~h~fh~hCI~~wl~~~t------sq~~CPmcRq~~~   81 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPT------SQGQCPMCRQTWQ   81 (84)
T ss_pred             HHHHHHHHHHHHHHhcCcc------ccccCCcchheeE
Confidence            7999999999999999664      4489999998764

>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=96.21  E-value=0.0074  Score=50.19  Aligned_cols=61  Identities=23%  Similarity=0.568  Sum_probs=41.0

Q ss_pred             CccccccccccCCCcEEcCCC------------Ccc-cHHHHHHHHHhhcccc----------------------CCCCC
Q 026323           26 GCFDCNICLDFAYDPVVTLCG------------HLY-CWPCIYKWLHVQSASL----------------------ASDEH   70 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CG------------H~F-C~~CI~~wl~~~s~~~----------------------~~~~~   70 (240)
                      ++..|+||+|..++.|.|.|.            ..| +..||.++-+......                      .....
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            357899999999999998643            222 4578888766321111                      01125


Q ss_pred             CCCCCccCCCCcCcce
Q 026323           71 PQCPVCKADISHTTMV   86 (240)
Q Consensus        71 ~~CPvCr~~v~~~~l~   86 (240)
                      ..||+||..|....++
T Consensus        81 L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   81 LACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccCccccCceeceEEc
Confidence            7899999998766544

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.

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

Probab=96.17  E-value=0.0027  Score=59.82  Aligned_cols=65  Identities=25%  Similarity=0.492  Sum_probs=42.7

Q ss_pred             HHhhhhcCCCCCCCccccccccccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC
Q 026323           13 SIASAATGSENYNGCFDCNICLDFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA   78 (240)
Q Consensus        13 s~~~~~~~~~~~~~~~~C~ICle~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~   78 (240)
                      +.++.+....=....++|.||.+....   -+.++|+|.||..|+..+...+. .+..-...+||-++.
T Consensus       170 ~~deea~~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i-~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  170 QFDEEATLEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQI-QEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhhHHHHHHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhh-hcceeeeecCCCCCC
Confidence            334444333334567999999998754   35689999999999999988542 112223467876653

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

Probab=95.97  E-value=0.0017  Score=65.30  Aligned_cols=52  Identities=29%  Similarity=0.743  Sum_probs=43.7

Q ss_pred             cccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      ..|.||.+ ...++.+.|||.||..|+...+...       +...||.|+..+..+++..
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~-------~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQS-------ENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccc-------cCCCCcHHHHHHHHHHHhh
Confidence            79999999 8888999999999999999888744       2348999999887766554

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

Probab=95.74  E-value=0.021  Score=54.56  Aligned_cols=36  Identities=25%  Similarity=0.641  Sum_probs=32.4

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHh
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHV   60 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~   60 (240)
                      ++++.|+||...+.+|++++|+|..|..|....+..
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            567899999999999999999999999999876653

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

Probab=95.43  E-value=0.0044  Score=54.64  Aligned_cols=53  Identities=32%  Similarity=0.765  Sum_probs=37.1

Q ss_pred             cccccccccCC-Cc-EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           28 FDCNICLDFAY-DP-VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        28 ~~C~ICle~~~-~p-v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ..|+.|..... ++ ..|.|+|+||..|...-.           ...||.|++.+....+..++..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~-----------~~~C~lCkk~ir~i~l~~slp~   58 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS-----------PDVCPLCKKSIRIIQLNRSLPT   58 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCC-----------ccccccccceeeeeecccccch
Confidence            56888876653 33 457999999999974321           1399999999876666555443

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

Probab=95.16  E-value=0.013  Score=45.40  Aligned_cols=27  Identities=30%  Similarity=0.984  Sum_probs=24.4

Q ss_pred             CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCC
Q 026323           44 LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD   79 (240)
Q Consensus        44 ~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~   79 (240)
                      .|.|.|+..||.+||++.         ..||+|.++
T Consensus        80 ~CNHaFH~hCisrWlktr---------~vCPLdn~e  106 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTR---------NVCPLDNKE  106 (114)
T ss_pred             ecchHHHHHHHHHHHhhc---------CcCCCcCcc
Confidence            699999999999999965         899999765

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

Probab=94.93  E-value=0.013  Score=55.08  Aligned_cols=70  Identities=20%  Similarity=0.497  Sum_probs=49.2

Q ss_pred             HHHHHHhhhhcCCC-----CCCCccccccccccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323            9 REWKSIASAATGSE-----NYNGCFDCNICLDFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus         9 ~~~ks~~~~~~~~~-----~~~~~~~C~ICle~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      .+|.+..+-..+.+     ....-|.|||=.+.-.+   |+.+.|||+.|..-|.+..+..+      ...+||.|-...
T Consensus       311 ~~W~~~deLPveIeL~~~~~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~------~sfKCPYCP~e~  384 (394)
T KOG2817|consen  311 GEWNTKDELPVEIELGKEYHFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS------QSFKCPYCPVEQ  384 (394)
T ss_pred             cCccccccCccceeccccccccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC------eeeeCCCCCccc
Confidence            45877765444433     23456999998777643   79999999999999988766322      248999997665


Q ss_pred             CcCc
Q 026323           81 SHTT   84 (240)
Q Consensus        81 ~~~~   84 (240)
                      ...+
T Consensus       385 ~~~~  388 (394)
T KOG2817|consen  385 LASD  388 (394)
T ss_pred             CHHh
Confidence            4443

>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=94.59  E-value=0.012  Score=47.81  Aligned_cols=33  Identities=30%  Similarity=0.768  Sum_probs=26.5

Q ss_pred             ccccccccccCCC--cEE-cCCC------CcccHHHHHHHHH
Q 026323           27 CFDCNICLDFAYD--PVV-TLCG------HLYCWPCIYKWLH   59 (240)
Q Consensus        27 ~~~C~ICle~~~~--pv~-t~CG------H~FC~~CI~~wl~   59 (240)
                      ..+|.||++.+.+  .|+ +.||      |.||..|+.+|-.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            4779999999977  554 4666      6899999999954

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.

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

Probab=94.52  E-value=0.036  Score=51.58  Aligned_cols=52  Identities=21%  Similarity=0.599  Sum_probs=40.7

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      +.++++-.|-||-+-+.-..++||+|..|.-|-.+.-..=       ..+.|+.||.+-
T Consensus        56 dtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY-------~~K~C~~CrTE~  107 (493)
T COG5236          56 DTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALY-------MQKGCPLCRTET  107 (493)
T ss_pred             ccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHH-------hccCCCcccccc
Confidence            3456678899999999988899999999999986643211       238999998653

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

Probab=94.42  E-value=0.038  Score=48.65  Aligned_cols=54  Identities=26%  Similarity=0.565  Sum_probs=38.6

Q ss_pred             cccccccccCC--CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           28 FDCNICLDFAY--DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        28 ~~C~ICle~~~--~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      -.|.+|...+.  |.+.+-|-|+|+|+|+.+|...-.. .......+||.|..+|-.
T Consensus        51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPa-nTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPA-NTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCC-cCCCCcccCCCCCCccCC
Confidence            45788887774  4577899999999999999873211 111234799999988753

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

Probab=94.26  E-value=0.031  Score=51.22  Aligned_cols=46  Identities=30%  Similarity=0.662  Sum_probs=36.8

Q ss_pred             CCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..+-++||||.+.+..|+.= .=||+-|..|-.+..            ..||.|+..+.
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~------------~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS------------NKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhhhhc------------ccCCccccccc
Confidence            45679999999999999543 458999999975322            78999998876

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

Probab=94.24  E-value=0.028  Score=50.67  Aligned_cols=46  Identities=33%  Similarity=0.652  Sum_probs=37.0

Q ss_pred             ccccccccccCC------CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           27 CFDCNICLDFAY------DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        27 ~~~C~ICle~~~------~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      ...|.||-+.+.      .|.++.|||.+|..|+.+.+...        ...||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~--------~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS--------RILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCc--------eeeccCCCCcc
Confidence            357999998874      47888999999999998877633        37789999874

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

Probab=93.98  E-value=0.026  Score=37.90  Aligned_cols=43  Identities=26%  Similarity=0.566  Sum_probs=20.9

Q ss_pred             cccccccCCCc--EEc--CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           30 CNICLDFAYDP--VVT--LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        30 C~ICle~~~~p--v~t--~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      |++|.+.+...  ...  +||+-.|..|..+.++.        ....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~--------~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN--------EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS--------S-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc--------cCCCCCCCCCCC
Confidence            78898887332  222  78999999998877652        348999999763

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

Probab=93.88  E-value=0.024  Score=56.38  Aligned_cols=43  Identities=35%  Similarity=0.783  Sum_probs=34.1

Q ss_pred             CCccccccccccC----CCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCC
Q 026323           25 NGCFDCNICLDFA----YDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD   79 (240)
Q Consensus        25 ~~~~~C~ICle~~----~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~   79 (240)
                      .+-..|+||+..+    ..||.+-|||+.|..|+.....           ..|| |+.+
T Consensus         9 ~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn-----------~scp-~~~D   55 (861)
T KOG3161|consen    9 VLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN-----------ASCP-TKRD   55 (861)
T ss_pred             HHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh-----------ccCC-CCcc
Confidence            3457799997766    4689999999999999987666           7898 6543

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

Probab=93.62  E-value=0.026  Score=53.18  Aligned_cols=47  Identities=19%  Similarity=0.460  Sum_probs=37.4

Q ss_pred             CccccccccccCCC-c---EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCC
Q 026323           26 GCFDCNICLDFAYD-P---VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD   79 (240)
Q Consensus        26 ~~~~C~ICle~~~~-p---v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~   79 (240)
                      -++.|..|-+.+-. +   ..++|.|+|+..|++++|...       ....||.||+-
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n-------~~rsCP~Crkl  414 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN-------GTRSCPNCRKL  414 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC-------CCCCCccHHHH
Confidence            35789999998732 1   347999999999999999744       45899999843

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

Probab=93.34  E-value=0.038  Score=50.47  Aligned_cols=60  Identities=28%  Similarity=0.546  Sum_probs=40.5

Q ss_pred             CCCCccccccccccCCCc---EEcCCCCcccHHHHHHHHHhh---------cc-c----cCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFAYDP---VVTLCGHLYCWPCIYKWLHVQ---------SA-S----LASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~p---v~t~CGH~FC~~CI~~wl~~~---------s~-~----~~~~~~~~CPvCr~~v~~   82 (240)
                      +....-+|.||+--+.+.   ++|.|-|-++..|+.++|..-         .. .    ........||+||..+..
T Consensus       111 nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  111 NNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            444567899999877542   678999999999998887610         00 0    001122569999988764

>PHA03096 p28-like protein; Provisional

Probab=93.19  E-value=0.053  Score=49.37  Aligned_cols=50  Identities=20%  Similarity=0.355  Sum_probs=34.5

Q ss_pred             cccccccccCCCc--------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           28 FDCNICLDFAYDP--------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        28 ~~C~ICle~~~~p--------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      -.|.||++...+-        +...|.|.||..|+..|.....   .....+.||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~---~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL---YKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh---hcccCccccchhhHH
Confidence            6799999987532        3347999999999999998542   223335555555433

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

Probab=92.51  E-value=0.084  Score=35.56  Aligned_cols=46  Identities=24%  Similarity=0.617  Sum_probs=25.2

Q ss_pred             cccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC
Q 026323           28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA   78 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~   78 (240)
                      +.|+|....+..|+.. .|.|.-|.+ +..|++...    ..+...||+|.+
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~----~~~~W~CPiC~~   49 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQ----RTPKWKCPICNK   49 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHH----HS---B-TTT--
T ss_pred             eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhh----ccCCeECcCCcC
Confidence            6799999999999875 899998865 456666432    124489999975

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

>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=92.11  E-value=0.067  Score=40.46  Aligned_cols=32  Identities=28%  Similarity=0.602  Sum_probs=26.1

Q ss_pred             CCCccccccccccCCCcE--EcCCCCcccHHHHH
Q 026323           24 YNGCFDCNICLDFAYDPV--VTLCGHLYCWPCIY   55 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv--~t~CGH~FC~~CI~   55 (240)
                      ..++..|++|...+...+  +.||||.++..|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            356778999999997663  45999999999975

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 [].

>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=91.94  E-value=0.12  Score=46.98  Aligned_cols=46  Identities=26%  Similarity=0.712  Sum_probs=34.5

Q ss_pred             ccccccccC-CCc----EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           29 DCNICLDFA-YDP----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        29 ~C~ICle~~-~~p----v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .|++|.... ..|    .+-+|||..|-.|+.+.....        ...||.|-..+..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g--------~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG--------PAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcC--------CCCCCcccchhhh
Confidence            489998653 344    122899999999999988754        4899999776654

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=91.74  E-value=0.22  Score=41.62  Aligned_cols=50  Identities=20%  Similarity=0.444  Sum_probs=37.0

Q ss_pred             CCCccccccccccCCCcEEcCCCC-----cccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAYDPVVTLCGH-----LYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~CGH-----~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ...+..|-||.+...+ ...||.-     .-+..|+.+|+...       +...|+.|+....
T Consensus         5 s~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s-------~~~~CeiC~~~Y~   59 (162)
T PHA02825          5 SLMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTS-------KNKSCKICNGPYN   59 (162)
T ss_pred             CCCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcC-------CCCcccccCCeEE
Confidence            3456789999988643 3456664     33889999999843       5589999988764

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=91.64  E-value=0.037  Score=55.51  Aligned_cols=52  Identities=29%  Similarity=0.742  Sum_probs=41.8

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .-..+|+||.+...+|+.+.|-|.||..|+...+....      +...||+|+..+..
T Consensus        19 ~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~------~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   19 QKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKK------GPKQCALCKSDIEK   70 (684)
T ss_pred             hhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccC------ccccchhhhhhhhh
Confidence            34678999999999999999999999999876665332      25899999966543

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

Probab=91.38  E-value=0.16  Score=51.97  Aligned_cols=43  Identities=30%  Similarity=0.709  Sum_probs=35.4

Q ss_pred             CccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           26 GCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      ....|..|--.+.-|++ ..|||.|+..|+.   .         ....||.|+.+.
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~---------~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---D---------KEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---c---------CcccCCccchhh
Confidence            34689999999999965 6999999999986   1         348999998744

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

Probab=91.25  E-value=0.026  Score=59.87  Aligned_cols=48  Identities=40%  Similarity=0.882  Sum_probs=40.8

Q ss_pred             CCCCccccccccccCC-CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCC
Q 026323           23 NYNGCFDCNICLDFAY-DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD   79 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~-~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~   79 (240)
                      +..+...|.||++.+. ...+..|||.+|..|+..|+..+         ..||.|+..
T Consensus      1149 ~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~---------s~~~~~ksi 1197 (1394)
T KOG0298|consen 1149 NLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYAS---------SRCPICKSI 1197 (1394)
T ss_pred             HhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHh---------ccCcchhhh
Confidence            3456679999999998 56778999999999999999965         789999843

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.09  E-value=0.18  Score=44.93  Aligned_cols=40  Identities=25%  Similarity=0.381  Sum_probs=33.4

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhh
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQ   61 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~   61 (240)
                      +...+-..|.+|+....+||+++=||+||..||.+++-.+
T Consensus        38 DsiK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaq   77 (303)
T KOG3039|consen   38 DSIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQ   77 (303)
T ss_pred             cccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence            3445556679999999999999999999999998887643

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

Probab=90.93  E-value=0.19  Score=42.85  Aligned_cols=58  Identities=26%  Similarity=0.557  Sum_probs=36.9

Q ss_pred             CCccccccccccCCCcEE-------cCCCCcccHHHHHHHHHhhccccCCC--CCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVV-------TLCGHLYCWPCIYKWLHVQSASLASD--EHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~-------t~CGH~FC~~CI~~wl~~~s~~~~~~--~~~~CPvCr~~v~~   82 (240)
                      ++.-.|-||+-+--+...       ..||..|+.-|+..||..-..+...-  --..||.|..++..
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            344567777765433322       37999999999999998432211111  12689999887643

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

Probab=90.46  E-value=0.22  Score=33.07  Aligned_cols=40  Identities=25%  Similarity=0.857  Sum_probs=25.4

Q ss_pred             cccccccCCC--cEEcCCCC-----cccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYD--PVVTLCGH-----LYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~--pv~t~CGH-----~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |-||++.-.+  +.+.+|.-     ..+..|+.+|+...       +..+|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~-------~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRES-------GNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHH-------T-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhc-------CCCcCCCC
Confidence            6788877543  56777763     44889999999964       34678887

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.42  E-value=0.2  Score=46.63  Aligned_cols=51  Identities=18%  Similarity=0.400  Sum_probs=33.1

Q ss_pred             ccccccccccCCC--cEE--cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           27 CFDCNICLDFAYD--PVV--TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        27 ~~~C~ICle~~~~--pv~--t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +..|++|.|.+..  --.  -+||-..|.-|....-+.        -...||.||+....+.+
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~--------lngrcpacrr~y~denv   68 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN--------LNGRCPACRRKYDDENV   68 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhh--------ccCCChHhhhhccccce
Confidence            3449999998743  222  378877777775543331        22789999987765543

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

Probab=89.61  E-value=0.24  Score=50.80  Aligned_cols=55  Identities=27%  Similarity=0.651  Sum_probs=40.7

Q ss_pred             CCccccccccccCCC--cEE--cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYD--PVV--TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~--pv~--t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+.++|-||.|.+..  |+-  ..|=|+|+..||.+|.....  ........||.|.....
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~e--k~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSE--KTGQDGWRCPACQSVSK  247 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhh--hccCccccCCcccchhc
Confidence            456899999999854  332  26889999999999998521  23346699999986543

>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=88.97  E-value=0.41  Score=31.22  Aligned_cols=40  Identities=25%  Similarity=0.629  Sum_probs=23.9

Q ss_pred             cccccccCCCcEEc---CCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           30 CNICLDFAYDPVVT---LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        30 C~ICle~~~~pv~t---~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      |.+|.+++...+.=   .|+-.++..|+..++..++       ...||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~-------~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS-------NPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S-------S-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC-------CCCCcCC
Confidence            78899998887663   4998999999999998552       2379987

; PDB: 3NW0_A 2CT0_A.

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

Probab=88.87  E-value=0.16  Score=46.78  Aligned_cols=71  Identities=15%  Similarity=0.363  Sum_probs=48.3

Q ss_pred             HHHHHHhhhhcC-----CCCCCCccccccccccCC---CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323            9 REWKSIASAATG-----SENYNGCFDCNICLDFAY---DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus         9 ~~~ks~~~~~~~-----~~~~~~~~~C~ICle~~~---~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      .+|++-.+..-+     .-....-|.||+=.+...   .|+.+.|||+.-..-+...-+..+      ...+||.|-..-
T Consensus       313 vdWT~~~eLP~eIklp~~~hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~------~~FKCPYCP~~~  386 (396)
T COG5109         313 VDWTDDSELPMEIKLPKGRHFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV------LSFKCPYCPEMS  386 (396)
T ss_pred             cCccCCCCCceEEecCCcccccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc------EEeeCCCCCcch
Confidence            557765553332     124456799999877764   379999999999988877655332      349999997665


Q ss_pred             CcCcc
Q 026323           81 SHTTM   85 (240)
Q Consensus        81 ~~~~l   85 (240)
                      ...++
T Consensus       387 ~~~~~  391 (396)
T COG5109         387 KYENI  391 (396)
T ss_pred             hhhhh
Confidence            54443

>PHA02862 5L protein; Provisional

Probab=88.25  E-value=0.45  Score=39.21  Aligned_cols=46  Identities=24%  Similarity=0.647  Sum_probs=34.9

Q ss_pred             cccccccccCCCcEEcCCCC-----cccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           28 FDCNICLDFAYDPVVTLCGH-----LYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t~CGH-----~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..|=||.+.-.+. ..||.-     .-+..|+.+|+...       +...|+.|+.+..
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S-------~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYS-------KKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcC-------CCcCccCCCCeEE
Confidence            4699999987655 467653     45789999999742       5689999998764

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

Probab=86.48  E-value=0.51  Score=51.37  Aligned_cols=58  Identities=24%  Similarity=0.469  Sum_probs=39.8

Q ss_pred             CCccccccccccC---CCcEEcCCCCcccHHHHHHHHHhhcccc-CCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFA---YDPVVTLCGHLYCWPCIYKWLHVQSASL-ASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~---~~pv~t~CGH~FC~~CI~~wl~~~s~~~-~~~~~~~CPvCr~~v~~   82 (240)
                      +.+..|-||+...   ...+.+.|+|.|+..|..+.|+.+=... -.-+-..||+|+..+..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            4567899999764   2347789999999999988877431000 00012689999998864

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

Probab=86.31  E-value=0.38  Score=43.61  Aligned_cols=43  Identities=30%  Similarity=0.783  Sum_probs=34.1

Q ss_pred             ccccccccccCC----CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC
Q 026323           27 CFDCNICLDFAY----DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA   78 (240)
Q Consensus        27 ~~~C~ICle~~~----~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~   78 (240)
                      ...||||.+.+.    .+.+++|||.....|+......        + -.||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~--------~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE--------G-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc--------C-CCCCcccc
Confidence            455999998874    4677899999998888776652        3 99999988

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.11  E-value=0.75  Score=41.23  Aligned_cols=56  Identities=18%  Similarity=0.321  Sum_probs=43.1

Q ss_pred             CCccccccccccCCCc----EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           25 NGCFDCNICLDFAYDP----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        25 ~~~~~C~ICle~~~~p----v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ...|.|+|---.+..-    ..-.|||+|-..-+.+.-.           ..|++|.+.+..++++.+.+.
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeika-----------s~C~~C~a~y~~~dvIvlNg~  168 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA-----------SVCHVCGAAYQEDDVIVLNGT  168 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHhhh-----------ccccccCCcccccCeEeeCCC
Confidence            4568999877666543    3349999999887766443           789999999999998887664

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

Probab=86.03  E-value=0.6  Score=43.85  Aligned_cols=40  Identities=20%  Similarity=0.623  Sum_probs=27.7

Q ss_pred             CCcccHHHHHHHHHhhccccCC----CCCCCCCCccCCCCcCcc
Q 026323           46 GHLYCWPCIYKWLHVQSASLAS----DEHPQCPVCKADISHTTM   85 (240)
Q Consensus        46 GH~FC~~CI~~wl~~~s~~~~~----~~~~~CPvCr~~v~~~~l   85 (240)
                      ....|..|+-+|+..+.+....    .+...||+||+.+...|+
T Consensus       312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            3445889999999865433222    255899999998865543

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

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.85  E-value=0.59  Score=41.98  Aligned_cols=59  Identities=20%  Similarity=0.437  Sum_probs=41.8

Q ss_pred             CCCCCCccccccccccCCCcEE----cCCC-----CcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           21 SENYNGCFDCNICLDFAYDPVV----TLCG-----HLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~----t~CG-----H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      +++.+.+-.|-||+..-+|-..    -||.     |..+..|+++|++++.. ........||.|+.+.
T Consensus        14 ~~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~-~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   14 SDNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQR-GNPLQTVSCPQCQTEY   81 (293)
T ss_pred             CCccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhc-CCCCceeechhhcchh
Confidence            4556677889999988766432    2553     67788999999997642 2334557899998653

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

Probab=84.70  E-value=1.1  Score=42.95  Aligned_cols=63  Identities=27%  Similarity=0.554  Sum_probs=42.3

Q ss_pred             CCccccccccccCCC-cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCC--CccCCCCcCcceec
Q 026323           25 NGCFDCNICLDFAYD-PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCP--VCKADISHTTMVPL   88 (240)
Q Consensus        25 ~~~~~C~ICle~~~~-pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CP--vCr~~v~~~~l~p~   88 (240)
                      .....|-||.+.... .+.+.|||.||..|+..++...=....... .+||  -|.+.+..+++..+
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~-i~cp~~~C~a~v~~~~i~~~  133 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAK-IKCPAHGCPALVGEDTVEKL  133 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeecccccc-ccCCCCCccccCCCceeeee
Confidence            445899999999885 566799999999999999885421111111 3454  56666665554443

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

Probab=84.67  E-value=0.36  Score=44.45  Aligned_cols=41  Identities=22%  Similarity=0.617  Sum_probs=26.5

Q ss_pred             cccccccC-CCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           30 CNICLDFA-YDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        30 C~ICle~~-~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      |.-|---+ .-...++|.|+||.+|..  ++         ..+.||.|...+.
T Consensus        93 Cd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~---------~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   93 CDRCDFPIAIYGRMIPCKHVFCLECAR--SD---------SDKICPLCDDRVQ  134 (389)
T ss_pred             ecccCCcceeeecccccchhhhhhhhh--cC---------ccccCcCcccHHH
Confidence            44454333 234567999999999964  22         2378999966543

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

Probab=84.40  E-value=0.96  Score=42.87  Aligned_cols=54  Identities=28%  Similarity=0.648  Sum_probs=37.0

Q ss_pred             Ccccccccc-ccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCC--ccCCCCc
Q 026323           26 GCFDCNICL-DFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV--CKADISH   82 (240)
Q Consensus        26 ~~~~C~ICl-e~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPv--Cr~~v~~   82 (240)
                      ...+|.||. +....   -.+..|+|.||..|+.+.++++   ...+....||.  |...+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~---~~~~~~~~C~~~~C~~~l~~  204 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK---LLSGTVIRCPHDGCESRLTL  204 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh---hccCCCccCCCCCCCccCCH
Confidence            367899999 44322   1356899999999999999866   23345577763  5555543

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=83.52  E-value=0.83  Score=41.64  Aligned_cols=39  Identities=28%  Similarity=0.654  Sum_probs=32.5

Q ss_pred             CccccccccccCCCcEEcCC----CCcccHHHHHHHHHhhccc
Q 026323           26 GCFDCNICLDFAYDPVVTLC----GHLYCWPCIYKWLHVQSAS   64 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~C----GH~FC~~CI~~wl~~~s~~   64 (240)
                      +.+.|.+|.|.+.|--...|    .|.||.+|-.+.++.+..+
T Consensus       267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~s  309 (352)
T KOG3579|consen  267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGAS  309 (352)
T ss_pred             CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCC
Confidence            45889999999999866666    5999999999999977533

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

Probab=80.34  E-value=0.9  Score=46.96  Aligned_cols=36  Identities=22%  Similarity=0.472  Sum_probs=28.0

Q ss_pred             CCCccccccccccC-CCc-EEcCCCCcccHHHHHHHHH
Q 026323           24 YNGCFDCNICLDFA-YDP-VVTLCGHLYCWPCIYKWLH   59 (240)
Q Consensus        24 ~~~~~~C~ICle~~-~~p-v~t~CGH~FC~~CI~~wl~   59 (240)
                      .+....|.+|...+ ..| ++.+|||.|++.||.+-..
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            34567899998776 345 5669999999999987655

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

Probab=80.16  E-value=0.7  Score=40.19  Aligned_cols=39  Identities=23%  Similarity=0.588  Sum_probs=29.6

Q ss_pred             cccccccCCCcEEcCCCC-cccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           30 CNICLDFAYDPVVTLCGH-LYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        30 C~ICle~~~~pv~t~CGH-~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      |-+|.+.-..-+.+||.| .+|..|=..             ...||+|+....
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-------------~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES-------------LRICPICRSPKT  200 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc-------------CccCCCCcChhh
Confidence            889998888767789998 458778432             377999987653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	240
1jm7_A	112	Solution Structure Of The Brca1/bard1 Ring-domain H		2e-05
2ecj_A	58	Solution Structure Of The Ring Domain Of The Human		5e-04

>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain Heterodimer Length = 112

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 6/58 (10%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM 85
           +C ICL+   +PV T C H++C  C+ K L+ +          QCP+CK DI+  ++
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGP------SQCPLCKNDITKRSL 73

>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human Tripartite Motif-Containing Protein 39 Length = 58

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 7/63 (11%)
Query: 15 ASAATGS-ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQC 73
          +S ++G+ EN      C++CL++  +PV+  CGH +C  CI +W       L  D    C
Sbjct: 2  SSGSSGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWE----DLERDF--PC 55
Query: 74 PVC 76
          PVC
Sbjct: 56 PVC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	240
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-18
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-17
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-17
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-16
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-15
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-15
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-14
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-12
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-12
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-12
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-11
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	8e-11
1z6u_A	150	NP95-like ring finger protein isoform B; structura	9e-11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-10
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-10
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-10
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	2e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	5e-10
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	5e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-10
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-09
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-09
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	4e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-08
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	1e-08
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-08
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-08
2ect_A	78	Ring finger protein 126; metal binding protein, st	9e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-07
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-07
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-06
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	1e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-06
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-06
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-06
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-06
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	3e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-06
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	8e-06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	1e-05
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	2e-05
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	3e-05
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	7e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	8e-05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-04
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	2e-04
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	5e-04

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

 Score = 76.0 bits (187), Expect = 2e-18
 Identities = 18/65 (27%), Positives = 25/65 (38%), Gaps = 9/65 (13%)

Query: 16 SAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV 75
           ++ GSE     F C IC     +PVVT C H +C  C  +              P+C +
Sbjct: 4  GSSGGSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHF---------RATPRCYI 54

Query: 76 CKADI 80
          C    
Sbjct: 55 CDQPT 59

>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 = 73.4 bits (180), Expect = 3e-17
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 9/63 (14%)

Query: 28 FDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
          F C IC++   D  +   C  L C+ CI +WL        +++  QCP C+A +    +V
Sbjct: 23 FRCFICMEKLRDARLCPHCSKLCCFSCIRRWL--------TEQRAQCPHCRAPLQLRELV 74

Query: 87 PLY 89
             
Sbjct: 75 NCR 77

>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 = 78.3 bits (192), Expect = 6e-17
 Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 8/69 (11%)

Query: 21  SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
            E  +    C IC +   D  +  CGHL C  C+  W   +           CP C+ +I
Sbjct: 326 CEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG--------QGCPFCRCEI 377

Query: 81  SHTTMVPLY 89
             T  + + 
Sbjct: 378 KGTEPIVVD 386

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

 Score = 71.0 bits (174), Expect = 1e-16
 Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 9/78 (11%)

Query: 15 ASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCP 74
          + ++  +       +C ICL     PV   C H++C+ C+                 +C 
Sbjct: 3  SGSSGNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGAS---------WLGKRCA 53

Query: 75 VCKADISHTTMVPLYGRG 92
          +C+ +I    +      G
Sbjct: 54 LCRQEIPEDFLDSGPSSG 71

>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 = 67.6 bits (165), Expect = 2e-15
 Identities = 21/79 (26%), Positives = 30/79 (37%), Gaps = 16/79 (20%)

Query: 18 ATGSENYNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEH 70
           T     +G   C IC+D   +        V T CGH++C  C+   L            
Sbjct: 1  GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK---------NA 51

Query: 71 PQCPVCKADISHTTMVPLY 89
            CP C+  I+H    P+Y
Sbjct: 52 NTCPTCRKKINHKRYHPIY 70

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

 Score = 66.3 bits (162), Expect = 6e-15
 Identities = 19/71 (26%), Positives = 27/71 (38%), Gaps = 16/71 (22%)

Query: 26 GCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
              C IC+D   +        V T CGH++C  C+   L              CP C+ 
Sbjct: 2  AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK---------NANTCPTCRK 52

Query: 79 DISHTTMVPLY 89
           I+H    P+Y
Sbjct: 53 KINHKRYHPIY 63

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

 Score = 66.2 bits (161), Expect = 5e-14
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 9/54 (16%)

Query: 28  FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
             C IC ++  + V   C H +C  CI +W+             +CP+C+ DI 
Sbjct: 65  LQCIICSEYFIEAVTLNCAHSFCSYCINEWM---------KRKIECPICRKDIK 109

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

 Score = 63.3 bits (154), Expect = 9e-14
 Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 8/54 (14%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
          + C  C      P  T CGH +C  C+   L        S   P+C  C+  I 
Sbjct: 16 YKCEKCHLVLCSPKQTECGHRFCESCMAALL--------SSSSPKCTACQESIV 61

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

 Score = 60.3 bits (146), Expect = 1e-12
 Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 16/75 (21%)

Query: 15 ASAATGSENYNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLAS 67
          + ++      +G   C IC+D   +        V T CGH++C  C+   L         
Sbjct: 3  SGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL--------- 53

Query: 68 DEHPQCPVCKADISH 82
               CP C+  I+H
Sbjct: 54 KNANTCPTCRKKINH 68

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

 Score = 61.7 bits (150), Expect = 1e-12
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 6/51 (11%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
           +C ICL+   +PV T C H++C  C+ K L+ +          QCP+CK 
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQK------KGPSQCPLCKN 66

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

 Score = 59.3 bits (144), Expect = 3e-12
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 10/54 (18%)

Query: 30 CNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH 82
          C ICL+   +  + L C H +C+ CI +W+          ++P CP+CK  +  
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWI---------RQNPTCPLCKVPVES 52

>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 = 57.7 bits (139), Expect = 5e-11
 Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 8/54 (14%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
          F C  C +  + P+ T+C H  C  C+ +    Q           CP C+ D+ 
Sbjct: 53 FQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQV--------FSCPACRYDLG 98

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

 Score = 56.8 bits (137), Expect = 7e-11
 Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 8/60 (13%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
            C IC++   +PV   C H  C PC    +   S          CP C+  +S  T   
Sbjct: 16 CQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKAS--------LCCPFCRRRVSSWTRYH 67

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

 Score = 56.3 bits (136), Expect = 8e-11
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 10/59 (16%)

Query: 30 CNICLDFAYDPV-VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          C IC ++    + +  C H YC  CI K+L             QCP C   ++   +  
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFL---------SYKTQCPTCCVTVTEPDLKN 74

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

 Score = 57.3 bits (138), Expect = 9e-11
 Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 8/56 (14%)

Query: 28  FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
           F C  C +  Y PV T C H  C  C+ +    Q  S        CP C+ D+   
Sbjct: 79  FMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFS--------CPACRHDLGQN 126

>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 = 56.5 bits (136), Expect = 1e-10
 Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 8/50 (16%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK 77
            C IC     DPV T C HL+C  CI + L V            CP C+
Sbjct: 24 ISCQICEHILADPVETSCKHLFCRICILRCLKVMG--------SYCPSCR 65

>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 = 56.4 bits (136), Expect = 1e-10
 Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 8/60 (13%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          ++C ICL    + V T CGH +C  CI K +             +CPV    +    + P
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAG--------HKCPVDNEILLENQLFP 70

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

 Score = 54.7 bits (132), Expect = 2e-10
 Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 3/49 (6%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
          C ICL+   +PV   C H +C  CI            +D    CPVC+ 
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNR---NTDGKGNCPVCRV 67

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

 Score = 54.6 bits (132), Expect = 2e-10
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 2/49 (4%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
          C ICL+   +P+   CGH  C  CI         S+       CPVC  
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSM--GGKSSCPVCGI 61

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

 Score = 53.5 bits (129), Expect = 3e-10
 Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 10/53 (18%)

Query: 29 DCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
          +C IC+D     ++  C H +C  CI KW          D H  CP+C+  ++
Sbjct: 17 ECCICMDG-RADLILPCAHSFCQKCIDKWS---------DRHRNCPICRLQMT 59

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

 Score = 53.2 bits (128), Expect = 5e-10
 Identities = 16/72 (22%), Positives = 25/72 (34%), Gaps = 14/72 (19%)

Query: 17 AATGS----ENYNGCFDCNICLDFAYDPV-VTLCGHLYCWPCIYKWLHVQSASLASDEHP 71
           ++GS            C+IC  +  D   +T C H +C  CI +               
Sbjct: 1  GSSGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHF---------YYSN 51

Query: 72 QCPVCKADISHT 83
          +CP C   +  T
Sbjct: 52 RCPKCNIVVHQT 63

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

 Score = 53.1 bits (128), Expect = 5e-10
 Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 6/62 (9%)

Query: 15 ASAATGSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCP 74
          + ++   EN      C++CL++  +PV+  CGH +C  CI +W               CP
Sbjct: 3  SGSSGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERD------FPCP 56

Query: 75 VC 76
          VC
Sbjct: 57 VC 58

>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 = 53.7 bits (129), Expect = 8e-10
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 10/60 (16%)

Query: 25 NGCFDCNICLDFAYDPV-VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
          N    C +C  +  D   +  C H +C  CI ++L         +    CP+C   +  T
Sbjct: 13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL---------ETSKYCPICDVQVHKT 63

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

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 17/51 (33%), Positives = 21/51 (41%), Gaps = 6/51 (11%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
            C ICLD    PV   CGH +C  CI +               +CP+CK 
Sbjct: 21 VICPICLDILQKPVTIDCGHNFCLKCITQIGETS------CGFFKCPLCKT 65

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

 Score = 52.3 bits (126), Expect = 2e-09
 Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
          C ICL+    P+   CGH +C  C+                  CPVC+ 
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKSM---LDKGESSCPVCRI 67

>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 = 53.2 bits (127), Expect = 3e-09
 Identities = 12/57 (21%), Positives = 18/57 (31%), Gaps = 8/57 (14%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT 84
          + C+ C +    P    CGH YC  C+   L              C  C  +  +  
Sbjct: 32 YLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGP--------QNCAACVHEGIYEE 80

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 50.8 bits (122), Expect = 4e-09
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 6/49 (12%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
            C ICLD    PV   CGH +C  CI +               +CP+C
Sbjct: 21 VICPICLDILQKPVTIDCGHNFCLKCITQIGETS------CGFFKCPLC 63

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

 Score = 52.1 bits (124), Expect = 6e-09
 Identities = 18/97 (18%), Positives = 29/97 (29%), Gaps = 11/97 (11%)

Query: 17  AATGSENYNGCFDCNICLDFAYD-------PVVTLCGHLYCWPCIYKWLHVQSASLASDE 69
            A GS        C IC+D   +        V T CGH++C  C+   L   +      +
Sbjct: 1   GAMGSGT----VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56

Query: 70  HPQCPVCKADISHTTMVPLYGRGQTPTESEPEGKVSH 106
                        +  V         +E    G++  
Sbjct: 57  KINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIV 93

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

 Score = 45.2 bits (106), Expect = 2e-06
 Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 16/74 (21%)

Query: 23  NYNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV 75
             +G   C IC+D   +        V T CGH++C  C+   L              CP 
Sbjct: 68  IGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---------KNANTCPT 118

Query: 76  CKADISHTTMVPLY 89
           C+  I+H    P+Y
Sbjct: 119 CRKKINHKRYHPIY 132

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

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 17/52 (32%), Positives = 19/52 (36%), Gaps = 8/52 (15%)

Query: 28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
            C IC D   D VV   CG+ YC  CI          L   +   CP C  
Sbjct: 14 LLCLICKDIMTDAVVIPCCGNSYCDECIRTA-------LLESDEHTCPTCHQ 58

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

 Score = 51.9 bits (124), Expect = 1e-08
 Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 9/58 (15%)

Query: 25  NGCFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           +    C ICLD   + + T  C H +C  CI   L           + +CP C+  + 
Sbjct: 52  HSELMCPICLDMLKNTMTTKECLHRFCADCIITAL--------RSGNKECPTCRKKLV 101

>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 = 51.6 bits (123), Expect = 2e-08
 Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 8/60 (13%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          ++C ICL    + V T CGH +C  CI K +             +CPV    +    + P
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAG--------HKCPVDNEILLENQLFP 70

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

 Score = 49.0 bits (117), Expect = 2e-08
 Identities = 17/55 (30%), Positives = 20/55 (36%), Gaps = 8/55 (14%)

Query: 28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
            C IC D   D VV   CG+ YC  CI          L   +   CP C  +  
Sbjct: 16 LLCLICKDIMTDAVVIPCCGNSYCDECIRTA-------LLESDEHTCPTCHQNDV 63

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

 Score = 50.3 bits (120), Expect = 2e-08
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 12/50 (24%)

Query: 30 CNICLDFAYDPV-VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
          C+ C +   +PV +  C H++C  C+   +              CPVC  
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDCI-----------GTGCPVCYT 63

>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 = 47.4 bits (113), Expect = 9e-08
 Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 13/70 (18%)

Query: 15 ASAATGSENYNGC-FDCNICL-DFAYDPVVTL--CGHLYCWPCIYKWLHVQSASLASDEH 70
          +S ++G+E + G   +C +C  D+A    V    C HL+   CI  WL          +H
Sbjct: 2  SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLE---------QH 52

Query: 71 PQCPVCKADI 80
            CPVC+  +
Sbjct: 53 DSCPVCRKSL 62

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

 Score = 50.6 bits (120), Expect = 1e-07
 Identities = 20/81 (24%), Positives = 27/81 (33%), Gaps = 10/81 (12%)

Query: 12  KSIASAATGSENYNGCFDCNICLDFAYD----PVVTL----CGHLYCWPCIYKWLHVQSA 63
              +      E  N    CNIC  +  D    P+V+     C       C+ +W      
Sbjct: 293 PDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMD 352

Query: 64  SLASDE--HPQCPVCKADISH 82
                E    QCP CKA +S 
Sbjct: 353 GKTFLEVSFGQCPFCKAKLST 373

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

 Score = 45.9 bits (109), Expect = 3e-07
 Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 15/71 (21%)

Query: 15 ASAATGSENYNGCFD-CNICLDFAY---DPVVTL-CGHLYCWPCIYKWLHVQSASLASDE 69
          +S ++G        + C +CL+  +   D +    C H +   C+ KWL         + 
Sbjct: 2  SSGSSGKVKELNLHELCAVCLE-DFKPRDELGICPCKHAFHRKCLIKWL---------EV 51

Query: 70 HPQCPVCKADI 80
             CP+C   +
Sbjct: 52 RKVCPLCNMPV 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 = 43.8 bits (104), Expect = 1e-06
 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 13/57 (22%)

Query: 29 DCNICLD--FAYDPVVTL--CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           C ICL+       V  +  CGHL    C  + L          E  +CP+C    S
Sbjct: 7  GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK---------EGYRCPLCSGPSS 54

>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 = 43.9 bits (104), Expect = 1e-06
 Identities = 7/63 (11%), Positives = 20/63 (31%), Gaps = 10/63 (15%)

Query: 28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
            C I       PV++     ++    + +++          +    P+    +S   +V
Sbjct: 4  MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYV---------KDTGNDPITNEPLSIEEIV 54

Query: 87 PLY 89
           + 
Sbjct: 55 EIV 57

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

 Score = 43.1 bits (102), Expect = 2e-06
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 12/52 (23%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
          C  C   A  P +  C H  C  C+      +++ +      QCP+C+A   
Sbjct: 9  CQQCQAEAKCPKLLPCLHTLCSGCL------EASGM------QCPICQAPWP 48

>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 = 43.5 bits (103), Expect = 2e-06
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 14/57 (24%)

Query: 29 DCNICLDFAY---DPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           C ICL       + V  L C HL+   C+ +WL           + +CP+C+ DI 
Sbjct: 16 KCTICLS-ILEEGEDVRRLPCMHLFHQVCVDQWLI---------TNKKCPICRVDIE 62

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

 Score = 43.5 bits (103), Expect = 3e-06
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 12/55 (21%)

Query: 29 DCNICLD-FAYDPVVTL--CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
           C IC   +    V T   C H +  PC+  WL          +   CPVC+   
Sbjct: 42 CCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ---------KSGTCPVCRCMF 87

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

 Score = 43.1 bits (102), Expect = 3e-06
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 12/56 (21%)

Query: 29 DCNICL-DFAYDPVVTL--CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           C +C+ DF    ++ +  C H +   C+ KWL           +  CP+C+AD  
Sbjct: 25 LCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLK---------ANRTCPICRADSG 71

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2 Length = 78

 Score = 42.9 bits (102), Expect = 3e-06
 Identities = 20/68 (29%), Positives = 26/68 (38%), Gaps = 8/68 (11%)

Query: 20 GSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
          GS  +   F C I L+   DPV+   G  Y    I KWL           H  CP  +  
Sbjct: 1  GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWL--------DAGHKTCPKSQET 52

Query: 80 ISHTTMVP 87
          + H  + P
Sbjct: 53 LLHAGLTP 60

>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 = 42.6 bits (100), Expect = 4e-06
 Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 9/70 (12%)

Query: 15 ASAATGSENY-NGCFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQ 72
          +S ++G E Y +    CNIC            CG     PC+ K+    +        P+
Sbjct: 2  SSGSSGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAE-------PR 54

Query: 73 CPVCKADISH 82
          CP C     H
Sbjct: 55 CPHCNDYWPH 64

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 44.9 bits (105), Expect = 8e-06
 Identities = 12/63 (19%), Positives = 18/63 (28%), Gaps = 10/63 (15%)

Query: 28  FDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV--CKADISHTT 84
             C I       P++   C H++    I  +       L       CP   C   +S   
Sbjct: 182 LTCPITCKPYEAPLISRKCNHVFDRDGIQNY-------LQGYTTRDCPQAACSQVVSMRD 234

Query: 85  MVP 87
            V 
Sbjct: 235 FVR 237

>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 Length = 100

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 10/60 (16%), Positives = 18/60 (30%), Gaps = 9/60 (15%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          F   +      DPV    G +     I + L            P  P  +  ++ + + P
Sbjct: 30 FRDPLMDTLMTDPVRLPSGTIMDRSIILRHL---------LNSPTDPFNRQTLTESMLEP 80

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 41.5 bits (97), Expect = 2e-05
 Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 7/64 (10%)

Query: 28 FDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV---CKADISHT 83
          F C I  +    PV   +CGH Y    I + +    +     +   CP       DI  +
Sbjct: 8  FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMI---ESRQKRKKKAYCPQIGCSHTDIRKS 64

Query: 84 TMVP 87
           ++ 
Sbjct: 65 DLIQ 68

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus} Length = 85

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 10/60 (16%), Positives = 18/60 (30%), Gaps = 9/60 (15%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          F   +      DPV    G +     I + L            P  P  +  ++ + + P
Sbjct: 15 FRDPLMDTLMTDPVRLPSGTVMDRSIILRHL---------LNSPTDPFNRQMLTESMLEP 65

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C Length = 179

 Score = 41.5 bits (97), Expect = 7e-05
 Identities = 10/60 (16%), Positives = 20/60 (33%), Gaps = 8/60 (13%)

Query: 28  FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
               I  +   +P +T  G  Y    I + L               PV ++ ++   ++P
Sbjct: 107 LCGKISFELMREPCITPSGITYDRKDIEEHL--------QRVGHFDPVTRSPLTQDQLIP 158

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 39.3 bits (92), Expect = 8e-05
 Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 13/69 (18%)

Query: 15 ASAATGS-ENYNGCFDCNICLDFAYD-----PVVTLCGHLYCWPCIYKWLHVQSASLASD 68
          +S ++G+ +      +C IC++  +      P +  CGH  C  C+ K L       +S 
Sbjct: 2  SSGSSGNLDALREVLECPICMES-FTEEQLRPKLLHCGHTICRQCLEKLLA------SSI 54

Query: 69 EHPQCPVCK 77
             +CP C 
Sbjct: 55 NGVRCPFCS 63

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

 Score = 38.3 bits (90), Expect = 1e-04
 Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 13/56 (23%)

Query: 29 DCNICL-DFAYDPVVTL---CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
          +C +CL +            CGH +   C+  WL           H  CP+C+  +
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG---------SHSTCPLCRLTV 53

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

 Score = 40.9 bits (95), Expect = 1e-04
 Identities = 14/59 (23%), Positives = 19/59 (32%), Gaps = 8/59 (13%)

Query: 25  NGCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH 82
           +    CNIC            CG     PC+ K+    +        P+CP C     H
Sbjct: 178 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAE-------PRCPHCNDYWPH 229

>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 Length = 968

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 8/61 (13%), Positives = 13/61 (21%), Gaps = 10/61 (16%)

Query: 28  FDCNICLDFAYDPVVTLC-GHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
           F   +      DPV+            I   L               P  +  +    + 
Sbjct: 892 FLDPLMYTIMKDPVILPASKMNIDRSTIKAHL---------LSDSTDPFNRMPLKLEDVT 942

Query: 87  P 87
           P
Sbjct: 943 P 943

>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 = 37.9 bits (87), Expect = 5e-04
 Identities = 14/68 (20%), Positives = 20/68 (29%), Gaps = 22/68 (32%)

Query: 29 DCNICLDFAYDP------------------VVTLCGHLYCWPCIYKWLHVQSASLASDEH 70
          DC IC++                        +T C H +   C+       +     D  
Sbjct: 27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK----DGS 82

Query: 71 PQCPVCKA 78
           QCP CK 
Sbjct: 83 LQCPSCKT 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	240
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.53
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.53
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.49
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.48
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.48
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.47
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.46
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.45
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.45
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.45
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.45
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.45
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.44
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.42
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.42
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.42
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.42
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.4
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.39
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.39
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.38
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.38
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.37
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.37
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.36
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.34
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.32
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.32
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.31
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.31
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.31
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.3
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.29
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.28
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.28
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.28
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.27
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.26
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.26
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.26
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.25
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.25
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.24
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.23
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.23
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.19
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.19
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.18
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.18
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.15
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.12
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.1
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.04
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.02
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.0
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.96
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.93
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.92
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.85
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.81
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.79
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.74
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.69
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.66
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.5
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.35
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.15
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.97
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.66
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	97.16
3nw0_A	238	Non-structural maintenance of chromosomes element	96.82
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.26
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	92.96
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	92.74
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	91.39
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	91.17
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	85.34

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

Probab=99.53  E-value=9.9e-15  Score=103.99  Aligned_cols=61  Identities=21%  Similarity=0.501  Sum_probs=52.5

Q ss_pred             CCCCCCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           20 GSENYNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        20 ~~~~~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      +.+..++.+.|+||++.+.+|+++ +|||.||..||.+|++.+         ..||+||..+..+++..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~~~~   69 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS---------NRCPKCNIVVHQTQPLSGP   69 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHC---------SSCTTTCCCCCSSCSCCCC
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcC---------CcCCCcCcccCcccccccC
Confidence            345667889999999999999997 999999999999999853         8999999999887766553

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

Probab=99.53  E-value=7.8e-15  Score=105.74  Aligned_cols=63  Identities=30%  Similarity=0.632  Sum_probs=54.6

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      +...+++.|+||++.+.+|++++|||+||..||.+|++..        ...||+|+..+...++.++....
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~--------~~~CP~C~~~~~~~~l~~n~~l~   65 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG--------HKTCPKSQETLLHAGLTPNYVLK   65 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTT--------CCBCTTTCCBCSSCCCEECTTTH
T ss_pred             cCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHC--------cCCCCCCcCCCChhhCccCHHHH
Confidence            4556789999999999999999999999999999999842        38899999999888888776543

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

Probab=99.49  E-value=1.2e-14  Score=102.58  Aligned_cols=58  Identities=34%  Similarity=0.813  Sum_probs=51.4

Q ss_pred             CCCCccccccccccCCCc-------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           23 NYNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~p-------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      ..+++..|+||++.+.++       +.++|||.||..||.+|++.+         ..||+||..+..+++.++|
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC---------SBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC---------CCCCCCCCccChhheeecc
Confidence            445678999999999887       889999999999999999854         7999999999988888776

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

Probab=99.48  E-value=5.3e-14  Score=102.02  Aligned_cols=71  Identities=25%  Similarity=0.556  Sum_probs=58.1

Q ss_pred             CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCCC
Q 026323           21 SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQT   94 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~~   94 (240)
                      .+..++.+.|+||++.+.+|++++|||.||..||..|+....   .......||+||..+..+++.+++.....
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~   83 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNR---NTDGKGNCPVCRVPYPFGNLKPNLHVANI   83 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSB---CTTSCBCCTTTCCCCCTTCCEECSCCCSS
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhcc---CCCCCCCCCCCCCcCCHHhCCcCHHHHHh
Confidence            345677899999999999999999999999999999998631   11235899999999998888887665543

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

Probab=99.48  E-value=3.9e-14  Score=105.16  Aligned_cols=65  Identities=28%  Similarity=0.499  Sum_probs=53.2

Q ss_pred             CCCCCCCccccccccccCCCcEEcC-CCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC-CcCcceeccCC
Q 026323           20 GSENYNGCFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI-SHTTMVPLYGR   91 (240)
Q Consensus        20 ~~~~~~~~~~C~ICle~~~~pv~t~-CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v-~~~~l~p~~~~   91 (240)
                      +.+...+++.|+||++.+.+|++++ |||+||..||..|+...       +...||+||..+ ..+++.+++..
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-------~~~~CP~Cr~~~~~~~~~~~n~~l   72 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES-------DEHTCPTCHQNDVSPDALIANKFL   72 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHC-------TTCCCTTTCCSSCCTTSCEECHHH
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhc-------CCCcCcCCCCcCCCccccCcCHHH
Confidence            3456678899999999999999999 99999999999999743       237999999997 45566665443

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

Probab=99.47  E-value=4e-14  Score=101.54  Aligned_cols=55  Identities=31%  Similarity=0.611  Sum_probs=47.2

Q ss_pred             CCCCCCCccccccccccCCCcEEcC-CCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           20 GSENYNGCFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        20 ~~~~~~~~~~C~ICle~~~~pv~t~-CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +.+...+++.|+||++.+.+|++++ |||.||..||.+|++..       +...||+||+.+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-------~~~~CP~Cr~~~~   63 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES-------DEHTCPTCHQNDV   63 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHS-------SSSCCSSSCCSSC
T ss_pred             ccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhc-------CCCcCCCCCCcCC
Confidence            3456678899999999999999999 99999999999999843       2368999999754

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

Probab=99.46  E-value=5.2e-14  Score=104.09  Aligned_cols=60  Identities=17%  Similarity=0.192  Sum_probs=53.8

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ...+++.|+||++.+++||+++|||+||..||.+|+...         ..||+|+..+...+++++...
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~---------~~cP~~~~~l~~~~l~pn~~L   69 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNS---------PTDPFNRQMLTESMLEPVPEL   69 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHC---------SBCTTTCCBCCGGGCEECHHH
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcC---------CCCCCCcCCCChHhcchHHHH
Confidence            456789999999999999999999999999999999842         789999999998888888654

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

Probab=99.45  E-value=4.7e-14  Score=100.10  Aligned_cols=58  Identities=29%  Similarity=0.678  Sum_probs=49.2

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +..++.+.|+||++.+.+|++++|||.||..||.+|++..      .....||+||..+..+++
T Consensus        15 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~------~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETS------CGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSS------CSCCCCSSSCCCCCCCCC
T ss_pred             HhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcC------CCCCCCCCCCCcCCcccC
Confidence            4566789999999999999999999999999999999731      234799999999876654

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

Probab=99.45  E-value=1.4e-14  Score=104.20  Aligned_cols=72  Identities=25%  Similarity=0.465  Sum_probs=57.7

Q ss_pred             CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCCC
Q 026323           21 SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQT   94 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~~   94 (240)
                      .+..++++.|+||++.+.+|++++|||.||..||.+|++...  ........||+||..+...++.+++.....
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~--~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~l   77 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAV--TSMGGKSSCPVCGISYSFEHLQANQHLANI   77 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCS--SSCCCCCCCSSSCCCCCSSGGGTCSSSCCC
T ss_pred             HhhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcc--cCCCCCCcCCCCCCcCCHhhCCcCHHHHHh
Confidence            346678899999999999999999999999999999998421  011235899999999988888877665543

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

Probab=99.45  E-value=1.7e-14  Score=102.52  Aligned_cols=56  Identities=23%  Similarity=0.617  Sum_probs=48.5

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      +...+.+.|+||++.+.+|+.++|||.||..||.+|+...         ..||+||..+..++++
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~   65 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG---------KRCALCRQEIPEDFLD   65 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCS---------SBCSSSCCBCCHHHHS
T ss_pred             ccCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCC---------CcCcCcCchhCHhhcc
Confidence            3455678999999999999999999999999999999833         7999999998766554

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

Probab=99.45  E-value=8.6e-14  Score=100.87  Aligned_cols=70  Identities=23%  Similarity=0.523  Sum_probs=57.1

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCCCC
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRGQT   94 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g~~   94 (240)
                      +..++.+.|+||++.+.+|+.++|||.||..||..|+....   .......||+||..+...++.+++.....
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~   83 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSM---LDKGESSCPVCRISYQPENIRPNRHVANI   83 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHH---HTTSCCCCTTTCCSSCSSSCCCSCCCCCC
T ss_pred             HHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhh---cCCCCCcCCCCCCccCHHhcCccHHHHHh
Confidence            45667899999999999999999999999999999998631   11235899999999988888777665543

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

Probab=99.45  E-value=4.1e-14  Score=98.97  Aligned_cols=56  Identities=25%  Similarity=0.661  Sum_probs=48.3

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +..++.+.|+||++.+.+|+.++|||.||..||.+|++.        ....||+||+.+..+++
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--------~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSS--------SSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTT--------SSCCCTTTCCCCCTTTC
T ss_pred             hcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHh--------CcCCCCCCCcCCChhhc
Confidence            355678999999999999999999999999999999962        23789999999876654

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

Probab=99.44  E-value=8.2e-14  Score=101.25  Aligned_cols=52  Identities=33%  Similarity=0.717  Sum_probs=46.3

Q ss_pred             CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           21 SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+..++.+.|+||++.+.+|++++|||.||..||.+|++..         ..||+||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---------~~CP~Cr~~~~   60 (81)
T 2csy_A            9 SEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRAT---------PRCYICDQPTG   60 (81)
T ss_dssp             SSCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHC---------SBCSSSCCBCC
T ss_pred             cccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCC---------CcCCCcCcccc
Confidence            34556789999999999999999999999999999999843         79999999885

>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=99.42  E-value=1.8e-14  Score=109.86  Aligned_cols=61  Identities=16%  Similarity=0.203  Sum_probs=54.2

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      ...+.+.|+||++.+.+||+++|||+||..||.+|+..         ...||+|+..+...+++++....
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~---------~~~cP~~~~~l~~~~L~pn~~Lk   85 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLN---------SPTDPFNRQTLTESMLEPVPELK   85 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTS---------CSBCSSSCCBCCTTSSEECHHHH
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHc---------CCCCCCCCCCCChhhceECHHHH
Confidence            45678999999999999999999999999999999983         37999999999998999886543

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

Probab=99.42  E-value=6.2e-14  Score=96.63  Aligned_cols=55  Identities=35%  Similarity=0.829  Sum_probs=49.4

Q ss_pred             CccccccccccCCCc-------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           26 GCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        26 ~~~~C~ICle~~~~p-------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      +++.|+||++.+.++       +.++|||.||..||.+|++..         ..||+||..+..+++.++|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC---------SBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC---------CCCCCCCccCCccceeeee
Confidence            467899999999887       789999999999999999853         7999999999998888876

>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=99.42  E-value=8.5e-14  Score=105.54  Aligned_cols=61  Identities=31%  Similarity=0.724  Sum_probs=52.8

Q ss_pred             CCCCccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           23 NYNGCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      .+++++.|+||++.+.+|+. ++|||.||..||.+|+....        ..||+||..+..+++++++..
T Consensus        18 ~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~--------~~CP~Cr~~~~~~~l~~~~~~   79 (100)
T 3lrq_A           18 SIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR--------AQCPHCRAPLQLRELVNCRWA   79 (100)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTC--------SBCTTTCCBCCGGGCEECTTH
T ss_pred             cCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCc--------CCCCCCCCcCCHHHhHhhHHH
Confidence            44567899999999999999 99999999999999999542        689999999988888776543

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

Probab=99.42  E-value=2.8e-13  Score=99.20  Aligned_cols=60  Identities=25%  Similarity=0.627  Sum_probs=50.2

Q ss_pred             CCCCCCCccccccccccCCC----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           20 GSENYNGCFDCNICLDFAYD----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        20 ~~~~~~~~~~C~ICle~~~~----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +.+..++.+.|+||++.+.+    |++++|||.||..||.+|++...      ....||+||..+...++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~------~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A            8 NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI------NGVRCPFCSKITRITSL   71 (88)
T ss_dssp             SCCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS------SCBCCTTTCCCBCCSST
T ss_pred             ChhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC------CCcCCCCCCCcccchhH
Confidence            34566788999999999998    99999999999999999998541      34799999998876543

>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=99.42  E-value=1e-13  Score=105.33  Aligned_cols=61  Identities=16%  Similarity=0.087  Sum_probs=54.2

Q ss_pred             CCCCccccccccccCCCcEEcCCC-CcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCG-HLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CG-H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      ...+++.|+||++++++||+++|| |+||..||.+|+..         ...||+|+..+...+++++....
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~---------~~~cP~~~~~l~~~~L~pn~~Lk   79 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS---------DQTDPFNRSPLTMDQIRPNTELK   79 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT---------SCBCTTTCSBCCTTTSEECHHHH
T ss_pred             cCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh---------CCCCCCCCCCCChhhceEcHHHH
Confidence            445789999999999999999999 99999999999983         27899999999998999886544

>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=99.40  E-value=7.4e-14  Score=106.83  Aligned_cols=60  Identities=33%  Similarity=0.800  Sum_probs=50.5

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccC
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG   90 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~   90 (240)
                      .+.+.|+||++.+.+|+.++|||.||..||.+|+....      ....||+||..+...++.++..
T Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~------~~~~CP~Cr~~~~~~~~~~~~~   78 (112)
T 1jm7_A           19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK------GPSQCPLCKNDITKRSLQESTR   78 (112)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS------SSCCCTTTSCCCCTTTCBCCCS
T ss_pred             cCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCC------CCCCCcCCCCcCCHhhcCccHH
Confidence            45688999999999999999999999999999998431      3368999999998777666544

>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=99.39  E-value=1.4e-13  Score=107.77  Aligned_cols=56  Identities=27%  Similarity=0.693  Sum_probs=47.6

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc-Ccceec
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH-TTMVPL   88 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~-~~l~p~   88 (240)
                      ++++.|+||++.+.+|+.++|||+||..||..|+...        ...||+||..+.. .++.++
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--------~~~CP~Cr~~~~~~~~~~~n  106 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQ--------VFSCPACRYDLGRSYAMQVN  106 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTT--------CCBCTTTCCBCCTTCCCCCC
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHC--------cCCCCCCCccCCCCCCCCCC
Confidence            4568999999999999999999999999999999843        2699999999876 444444

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

Probab=99.39  E-value=2.7e-13  Score=97.57  Aligned_cols=60  Identities=23%  Similarity=0.555  Sum_probs=48.7

Q ss_pred             CCCCCCCccccccccccCCCc---EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323           20 GSENYNGCFDCNICLDFAYDP---VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus        20 ~~~~~~~~~~C~ICle~~~~p---v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      +.+...+...|+||++.+.++   ++++|||.||..||.+|++..         ..||+||+.+...++.++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH---------DSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT---------CSCTTTCCCCCCSCSCCC
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC---------CcCcCcCCccCCcccCCC
Confidence            344556789999999999765   557999999999999999843         799999999877665544

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

Probab=99.38  E-value=4.1e-13  Score=92.90  Aligned_cols=49  Identities=33%  Similarity=0.725  Sum_probs=42.6

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      +..++++.|+||++.+.+|++++|||.||..||.+|++..      .....||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~------~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETS------CGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHC------SSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcC------CCCCcCcCC
Confidence            4567789999999999999999999999999999999842      134789998

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

Probab=99.38  E-value=3e-13  Score=94.28  Aligned_cols=56  Identities=21%  Similarity=0.509  Sum_probs=47.8

Q ss_pred             Cccccccccc-cCCCc----EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           26 GCFDCNICLD-FAYDP----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        26 ~~~~C~ICle-~~~~p----v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      ++..|+||++ .+.+|    ++++|||.||..||.+|+...        ...||+||+.+..++++++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~--------~~~CP~Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG--------AGNCPECGTPLRKSNFRVQL   62 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT--------SSSCTTTCCCCSSCCCEEEC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcC--------CCcCCCCCCccccccceeec
Confidence            3678999999 88888    568999999999999998733        37899999999988887764

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

Probab=99.37  E-value=9e-14  Score=104.74  Aligned_cols=60  Identities=25%  Similarity=0.626  Sum_probs=51.4

Q ss_pred             CCCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ..++.+.|+||++.+.+|+++ +|||.||..||.+|+...         ..||+||..+...++.+++..
T Consensus        18 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---------~~CP~Cr~~~~~~~l~~n~~l   78 (99)
T 2y43_A           18 TIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK---------TQCPTCCVTVTEPDLKNNRIL   78 (99)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC---------CBCTTTCCBCCGGGCEECHHH
T ss_pred             hCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCC---------CCCCCCCCcCChhhCCcCHHH
Confidence            345678999999999999998 899999999999999832         799999999988777776543

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

Probab=99.37  E-value=2.1e-13  Score=95.27  Aligned_cols=53  Identities=34%  Similarity=0.775  Sum_probs=45.8

Q ss_pred             CCCCCCccccccccccCCCc-------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           21 SENYNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~p-------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .+...+...|+||++.+.++       +.++|||.||..||.+|++..         ..||+||..+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~   68 (69)
T 2ea6_A            9 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCPTCRKKINH   68 (69)
T ss_dssp             CCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC---------SSCTTTCCCCCC
T ss_pred             ccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC---------CCCCCCCCccCc
Confidence            34566789999999999887       889999999999999999853         799999988753

>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=99.36  E-value=1.5e-13  Score=111.82  Aligned_cols=58  Identities=31%  Similarity=0.715  Sum_probs=48.8

Q ss_pred             CCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC-cceecc
Q 026323           24 YNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT-TMVPLY   89 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~-~l~p~~   89 (240)
                      ..+.+.|+||++.+.+|++++|||+||..||..|+...        ...||+||..+... .+.+++
T Consensus        75 l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~--------~~~CP~Cr~~~~~~~~l~~n~  133 (150)
T 1z6u_A           75 LEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQ--------VFSCPACRHDLGQNYIMIPNE  133 (150)
T ss_dssp             HHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTT--------CCBCTTTCCBCCTTCCCCBCH
T ss_pred             CccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhC--------CCcCCCCCccCCCCCCCCCCH
Confidence            34678999999999999999999999999999999843        26899999998766 455443

>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=99.34  E-value=9e-13  Score=102.54  Aligned_cols=59  Identities=29%  Similarity=0.607  Sum_probs=51.7

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      +..++.+.|+||++.+.+|+.++|||.||..||.+|+....        ..||+||..+..+++.++
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--------~~CP~Cr~~~~~~~~~~~   71 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG--------HKCPVDNEILLENQLFPD   71 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC--------SBCTTTCCBCCGGGCEEC
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCC--------CCCCCCCCCcCHHhcccC
Confidence            46677899999999999999999999999999999998653        489999999987766554

>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=99.32  E-value=1.4e-12  Score=113.68  Aligned_cols=62  Identities=16%  Similarity=0.258  Sum_probs=53.5

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      ...+.+.|+||++.+.+||+++|||+||..||.+|+....        ..||+|+..+...+++|+....
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~--------~~cP~~~~~~~~~~l~~n~~l~  265 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG--------HFNPVTRSPLTQEQLIPNLAMK  265 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC--------SSCTTTCCCCCGGGCEECHHHH
T ss_pred             CCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCC--------CCCcCCCCCCchhcCcccHHHH
Confidence            3457899999999999999999999999999999998532        4599999999988998886543

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

Probab=99.32  E-value=2.4e-13  Score=95.90  Aligned_cols=54  Identities=30%  Similarity=0.791  Sum_probs=46.5

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +...+...|+||++.+.+ +.++|||.||..||.+|++.         ...||+||..+...+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~---------~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDR---------HRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCC---------CSSCHHHHHCTTCCCC
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHC---------cCcCCCcCCcccCCCc
Confidence            455678999999999999 89999999999999999983         3899999998875543

>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=99.31  E-value=1.6e-12  Score=97.56  Aligned_cols=66  Identities=21%  Similarity=0.410  Sum_probs=53.7

Q ss_pred             CCCccccccccccCCCcEEcC-CCCcccHHHHHHHHHhhccccCCCCCCCCCC--ccCC-CCcCcceeccCCC
Q 026323           24 YNGCFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPV--CKAD-ISHTTMVPLYGRG   92 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~-CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPv--Cr~~-v~~~~l~p~~~~g   92 (240)
                      ..+++.|+||++.+.+||+++ |||+||..||.+|+....   .......||+  |+.. +...+++++....
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~---~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~   73 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQ---KRKKKAYCPQIGCSHTDIRKSDLIQDEALR   73 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHH---TTTCCBCCCSTTCCCCCBCGGGEEECHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHcc---CcCCCCCCCcCcCcccccCHhhCcCCHHHH
Confidence            356799999999999999995 999999999999998541   1123479999  9887 8888898886544

>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=4.8e-13  Score=106.89  Aligned_cols=49  Identities=31%  Similarity=0.900  Sum_probs=43.9

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++++.|+||++.+.+|++++|||.||..||..|+...         ..||+||..+..
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~   99 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK---------IECPICRKDIKS   99 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTC---------SBCTTTCCBCCC
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcC---------CcCCCCCCcCCC
Confidence            4567899999999999999999999999999999843         789999998864

>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=99.31  E-value=1.6e-12  Score=91.42  Aligned_cols=52  Identities=31%  Similarity=0.705  Sum_probs=43.3

Q ss_pred             CCCCCccccccccccCC---CcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           22 ENYNGCFDCNICLDFAY---DPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~---~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      +..++...|+||++.+.   .++.++|||.||..||.+|++..         ..||+||..+..
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~   63 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN---------KKCPICRVDIEA   63 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHC---------SBCTTTCSBSCS
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcC---------CCCcCcCccccC
Confidence            44566789999999884   45778999999999999999854         679999988754

>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=99.30  E-value=1.2e-12  Score=100.19  Aligned_cols=51  Identities=27%  Similarity=0.731  Sum_probs=45.5

Q ss_pred             CCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           24 YNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      .++++.|+||++.+.+|+.+ +|||.||..||..|+...         ..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---------~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS---------KYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSC---------SBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhC---------CcCcCCCcccccc
Confidence            35678999999999999997 999999999999999832         8999999998764

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

Probab=99.29  E-value=1.4e-12  Score=88.32  Aligned_cols=50  Identities=36%  Similarity=0.936  Sum_probs=42.4

Q ss_pred             CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCc
Q 026323           21 SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC   76 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvC   76 (240)
                      .+..++.+.|+||++.+.+|++++|||.||..||.+|++..      .....||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~------~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDL------ERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSS------CCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhc------CCCCCCCCC
Confidence            34566789999999999999999999999999999997631      134899998

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

Probab=99.28  E-value=4.3e-12  Score=106.40  Aligned_cols=63  Identities=16%  Similarity=0.248  Sum_probs=54.9

Q ss_pred             CCCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           21 SENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        21 ~~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      .....+.+.||||++.+.+||+++|||+||..||..|+....        ..||+|+..+...+++||...
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~--------~tcP~t~~~l~~~~L~pN~~L  162 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG--------HFDPVTRSPLTQDQLIPNLAM  162 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC--------SBCTTTCCBCCGGGCEECHHH
T ss_pred             ccCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCC--------CCCCCCcCCCChhhCcchHHH
Confidence            345678899999999999999999999999999999998531        369999999998899988654

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

Probab=99.28  E-value=1.5e-12  Score=101.51  Aligned_cols=58  Identities=34%  Similarity=0.797  Sum_probs=51.6

Q ss_pred             CCccccccccccCCCc-------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           25 NGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        25 ~~~~~C~ICle~~~~p-------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      .+++.|+||++.+.+|       +.++|||.||+.||.+|++.+         ..||+||+.+..+++.+++..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~~~l~~l~i~   69 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCPTCRKKINHKRYHPIYIG   69 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC---------SBCTTTCCBCTTTCEEECBCS
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhC---------CCCCCCCCcCccccccccccC
Confidence            4678999999999988       899999999999999999843         799999999998888887654

>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=99.28  E-value=8.5e-13  Score=102.07  Aligned_cols=56  Identities=34%  Similarity=0.743  Sum_probs=48.4

Q ss_pred             CCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           24 YNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      ..+++.|+||++.+.+|+.++|||.||..||.+|+....        ..||+||..+...++.+
T Consensus        20 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--------~~CP~Cr~~~~~~~~~~   75 (116)
T 1rmd_A           20 FVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMG--------SYCPSCRYPCFPTDLES   75 (116)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC--------SBCTTTCCBCCGGGCBC
T ss_pred             ccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCc--------CcCCCCCCCCCHhhccc
Confidence            345789999999999999999999999999999998532        78999999988766543

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

Probab=99.27  E-value=3.3e-12  Score=90.92  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=43.2

Q ss_pred             CCCCCccccccccccCCCcE---EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           22 ENYNGCFDCNICLDFAYDPV---VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv---~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++.+++..|+||++.+.++.   +++|||.||..||.+|++.+         ..||+||..+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~---------~~CP~Cr~~~~~   64 (74)
T 2ep4_A           10 KELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR---------KVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC---------SBCTTTCCBCSS
T ss_pred             ccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC---------CcCCCcCccccc
Confidence            35567889999999997663   34999999999999999854         689999988753

>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=99.26  E-value=3.7e-12  Score=85.36  Aligned_cols=47  Identities=34%  Similarity=0.665  Sum_probs=41.2

Q ss_pred             CccccccccccCCC----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           26 GCFDCNICLDFAYD----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        26 ~~~~C~ICle~~~~----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ++..|+||++.+.+    +++++|||.||..||.+|++..         ..||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG---------YRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT---------CCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC---------CcCCCCCCcCC
Confidence            46789999999865    7788999999999999999854         89999998764

>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=99.26  E-value=2.9e-13  Score=105.19  Aligned_cols=57  Identities=21%  Similarity=0.521  Sum_probs=49.5

Q ss_pred             CCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           24 YNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      +.+.+.|+||++.+.+|+++ +|||+||..||..|+.           ..||+||..+...++.+++..
T Consensus        19 l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-----------~~CP~Cr~~~~~~~~~~n~~l   76 (117)
T 1jm7_B           19 LEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-----------TGCPVCYTPAWIQDLKINRQL   76 (117)
T ss_dssp             HHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-----------TBCSSSCCBCSCSSCCCCHHH
T ss_pred             chhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc-----------CCCcCCCCcCccccccccHHH
Confidence            35678999999999999999 9999999999999986           689999999877777666543

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

Probab=99.26  E-value=2.8e-12  Score=91.70  Aligned_cols=51  Identities=27%  Similarity=0.600  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCCCc---EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFAYDP---VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~p---v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ..++...|+||++.+.++   +.++|||.||..||.+|++..         ..||+||+.+..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~---------~~CP~Cr~~~~~   72 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN---------RTCPICRADSGP   72 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC---------SSCTTTCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC---------CcCcCcCCcCCC
Confidence            345678999999999877   678999999999999999854         789999988754

>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=99.25  E-value=2.1e-12  Score=105.87  Aligned_cols=57  Identities=28%  Similarity=0.669  Sum_probs=46.9

Q ss_pred             CCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc-Ccceec
Q 026323           24 YNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH-TTMVPL   88 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~-~~l~p~   88 (240)
                      ..+.+.|+||++.+.+|+.+ +|||.||..||.+|+...        ...||+||..+.. ..+.++
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~--------~~~CP~Cr~~~~~~~~l~~~  109 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSG--------NKECPTCRKKLVSKRSLRPD  109 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTT--------CCBCTTTCCBCCSGGGEEEC
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhC--------cCCCCCCCCcCCCcccCCcC
Confidence            34568999999999999987 999999999999999842        3789999999853 344443

>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=99.25  E-value=5.4e-13  Score=103.05  Aligned_cols=53  Identities=26%  Similarity=0.650  Sum_probs=46.0

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ....+++.|+||++.+.+|++++|||+||..||.+|+...        ...||+||..+..
T Consensus        10 ~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--------~~~CP~Cr~~~~~   62 (115)
T 3l11_A           10 IPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKA--------SLCCPFCRRRVSS   62 (115)
T ss_dssp             CCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTT--------TSBCTTTCCBCHH
T ss_pred             cCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHC--------cCCCCCCCcccCc
Confidence            3455689999999999999999999999999999999742        3789999998863

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

Probab=99.24  E-value=4.2e-12  Score=94.55  Aligned_cols=50  Identities=26%  Similarity=0.616  Sum_probs=42.9

Q ss_pred             CCCccccccccccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           24 YNGCFDCNICLDFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ..++..|+||++.+.+   ++.++|||.||..||.+|++..         ..||+||..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~---------~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS---------GTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT---------CBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC---------CcCcCcCccCCC
Confidence            4567899999999877   6778999999999999999843         799999988753

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

Probab=99.23  E-value=4.6e-12  Score=84.99  Aligned_cols=48  Identities=27%  Similarity=0.746  Sum_probs=41.0

Q ss_pred             CCccccccccccCCC---cEEcC-CCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYD---PVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~---pv~t~-CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +++..|+||++.+.+   ++.++ |||.||..||.+|++..         ..||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---------~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH---------STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC---------CSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcC---------CcCcCCCCEeE
Confidence            456789999999977   67776 99999999999999743         78999998763

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

Probab=99.23  E-value=6.4e-12  Score=87.86  Aligned_cols=48  Identities=31%  Similarity=0.883  Sum_probs=42.2

Q ss_pred             CCccccccccccCCCc-EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDP-VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~p-v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +++..|+||++.+.++ +.++|||.||..|+.+|++..         ..||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---------~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN---------PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS---------CSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCc---------CcCcCCChhhH
Confidence            3467899999999997 778999999999999999843         79999998875

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

Probab=99.19  E-value=1.4e-11  Score=101.22  Aligned_cols=59  Identities=29%  Similarity=0.607  Sum_probs=51.6

Q ss_pred             CCCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceec
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL   88 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~   88 (240)
                      +..++.+.|+||++.+.+|+.++|||+||..||.+|+....        ..||+||..+..+++.++
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~--------~~CP~Cr~~~~~~~~~~~   71 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG--------HKCPVDNEILLENQLFPD   71 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC--------SBCTTTCCBCCGGGCEEC
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCC--------CCCCCCccCcchhhhhhh
Confidence            46678899999999999999999999999999999998653        599999999987766554

>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=99.19  E-value=2e-11  Score=93.78  Aligned_cols=53  Identities=26%  Similarity=0.495  Sum_probs=41.9

Q ss_pred             CccccccccccCCCcE------------------EcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           26 GCFDCNICLDFAYDPV------------------VTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv------------------~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .+..|+||++.+.+++                  .++|||.||..||.+|+....    ......||+||+.+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~----~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN----KDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTC----CSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHccc----CCCCCcCCCCCCccCC
Confidence            4568999999997654                  679999999999999996321    1234799999988754

>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=99.18  E-value=3.4e-12  Score=102.82  Aligned_cols=51  Identities=24%  Similarity=0.580  Sum_probs=45.1

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ..++.+.|+||++.+.+|+.++|||.||..||.+|+...        ...||+||..+.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~--------~~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSG--------PQNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGS--------CEECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcC--------CCCCCCCCCccc
Confidence            556789999999999999999999999999999999743        268999998764

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

Probab=99.18  E-value=7.6e-12  Score=97.51  Aligned_cols=57  Identities=35%  Similarity=0.820  Sum_probs=51.2

Q ss_pred             CCCccccccccccCCCc-------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           24 YNGCFDCNICLDFAYDP-------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~p-------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      .++...|+||++.+.++       +.++|||.||..||.+|++..         ..||+||+.+..+++.++|
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC---------SBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC---------CCCCCCCCcCChhcceeee
Confidence            35678899999999876       889999999999999999854         7999999999999998887

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

Probab=99.15  E-value=1.9e-11  Score=89.04  Aligned_cols=56  Identities=20%  Similarity=0.449  Sum_probs=44.2

Q ss_pred             CCCCCccccccccccCC--CcEEcC--CCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcc
Q 026323           22 ENYNGCFDCNICLDFAY--DPVVTL--CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM   85 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~--~pv~t~--CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l   85 (240)
                      +..++++.|+||++.+.  +++.++  |||.||..|+.+++..        ....||+||+.+....+
T Consensus         6 ~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~--------~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            6 DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD--------ENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS--------SCSBCTTTCCBCSSCSS
T ss_pred             cccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc--------CCCCCCCCCCccCCCch
Confidence            45677899999999884  455555  9999999999998752        23799999999876544

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

Probab=99.12  E-value=8.2e-12  Score=84.96  Aligned_cols=47  Identities=28%  Similarity=0.498  Sum_probs=40.6

Q ss_pred             CCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           24 YNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ..+.+.|+||++.+.+|++++|||+||..||..|            ...||+||+.+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~------------~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS------------GMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS------------SSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHccC------------CCCCCcCCcEeec
Confidence            3567899999999999999999999999998762            2789999988753

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

Probab=99.10  E-value=6.2e-11  Score=82.48  Aligned_cols=55  Identities=13%  Similarity=0.225  Sum_probs=49.8

Q ss_pred             ccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccC
Q 026323           27 CFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG   90 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~   90 (240)
                      .+.|+||++.+.+||++ +|||+|+..||.+|++.+         .+||+++..+..++++++..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~---------~~cP~t~~~L~~~~Lip~~~   58 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT---------GNDPITNEPLSIEEIVEIVP   58 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH---------SBCTTTCCBCCGGGCEECCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhC---------CCCcCCcCCCChhhcEECcc
Confidence            47899999999999999 999999999999999854         56999999999999998854

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

Probab=99.08  E-value=5.1e-11  Score=86.92  Aligned_cols=50  Identities=30%  Similarity=0.675  Sum_probs=40.8

Q ss_pred             CccccccccccCCC--------------cEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCc
Q 026323           26 GCFDCNICLDFAYD--------------PVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT   84 (240)
Q Consensus        26 ~~~~C~ICle~~~~--------------pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~   84 (240)
                      ++..|+||++.+.+              ++++ +|||.||..||.+|++.+         ..||+||+.+...+
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---------~~CP~CR~~~~~~~   78 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN---------NRCPLCQQDWVVQR   78 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC---------CBCTTTCCBCCEEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC---------CCCCCcCCCcchhh
Confidence            46779999999866              4455 599999999999999843         79999999886544

>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=99.04  E-value=1.1e-10  Score=108.22  Aligned_cols=54  Identities=30%  Similarity=0.743  Sum_probs=46.3

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      +....|+||++.+.+|+.++|||.||+.|+..|+...        ...||+||..+....++
T Consensus       330 ~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~--------~~~CP~CR~~i~~~~~i  383 (389)
T 2y1n_A          330 STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE--------GQGCPFCRCEIKGTEPI  383 (389)
T ss_dssp             TSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHT--------CSBCTTTCCBCCEEEEC
T ss_pred             CCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcC--------CCCCCCCCCccCCceeE
Confidence            3447899999999999999999999999999999843        28999999998765543

>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=99.02  E-value=1.4e-10  Score=81.01  Aligned_cols=48  Identities=31%  Similarity=0.661  Sum_probs=42.1

Q ss_pred             CCccccccccccCCCcEEc--CCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVT--LCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t--~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +++..|.||++...+++.+  +|||. +|+.|+.+|.+..         ..||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~---------~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN---------KPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTT---------CCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcC---------CcCCCcCcchh
Confidence            3567899999999999987  99999 8999999999733         78999999884

>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=99.00  E-value=9.9e-11  Score=103.22  Aligned_cols=61  Identities=20%  Similarity=0.287  Sum_probs=52.4

Q ss_pred             CCCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCC--ccCCCCcCcceeccCC
Q 026323           24 YNGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPV--CKADISHTTMVPLYGR   91 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPv--Cr~~v~~~~l~p~~~~   91 (240)
                      ...++.||||++.+++||+. .|||+||..||.+|+...       +...||+  |+..+...+++++...
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~-------~~~~CPvtGCr~~l~~~dL~pN~~L  241 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY-------TTRDCPQAACSQVVSMRDFVRDPIM  241 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTC-------SCEECSGGGCSCEECGGGEEECHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhC-------CCCCCCcccccCcCchhhCCcCHHH
Confidence            34679999999999999985 999999999999999732       3368999  9999999999887654

>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=98.96  E-value=2.7e-10  Score=79.36  Aligned_cols=48  Identities=29%  Similarity=0.663  Sum_probs=41.7

Q ss_pred             CCccccccccccCCCcEEc--CCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVT--LCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t--~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +....|.||++...+++++  +|||. +|+.|+.+|.+..         ..||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~---------~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG---------ASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTT---------CBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhC---------CcCCCcCchhh
Confidence            3457899999999999887  99998 9999999998732         79999999884

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

Probab=98.93  E-value=2.2e-10  Score=82.07  Aligned_cols=45  Identities=33%  Similarity=0.682  Sum_probs=39.9

Q ss_pred             CCccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      +++..|+||++.+.+++.++|||. ||..|+..|             ..||+||..+..
T Consensus        22 ~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-------------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-------------DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-------------SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-------------ccCCCcCcCccC
Confidence            456789999999999999999999 999999876             469999998853

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

Probab=98.92  E-value=5.9e-10  Score=85.74  Aligned_cols=48  Identities=25%  Similarity=0.677  Sum_probs=40.1

Q ss_pred             CccccccccccCCCc------------------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           26 GCFDCNICLDFAYDP------------------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        26 ~~~~C~ICle~~~~p------------------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++..|+||++.+.++                  +.++|||.||..||.+|+..+         ..||+||+.+..
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---------~~CP~Cr~~~~~  101 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---------QVCPLDNREWEF  101 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC---------SBCSSSCSBCCE
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC---------CcCcCCCCccee
Confidence            457799999998765                  446999999999999999843         789999998643

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

Probab=98.85  E-value=7.3e-10  Score=79.40  Aligned_cols=45  Identities=33%  Similarity=0.686  Sum_probs=38.6

Q ss_pred             CCccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++...|+||++.+.+++.++|||. ||..|+.+             ...||+||..+..
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~-------------~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA-------------VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH-------------CSBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC-------------CCCCccCCceecC
Confidence            345789999999999999999999 99999942             1789999998854

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

Probab=98.81  E-value=3.2e-09  Score=75.10  Aligned_cols=47  Identities=26%  Similarity=0.605  Sum_probs=40.3

Q ss_pred             CCCCccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ..++...|.||++...+++.++|||. ||+.|+..             ...||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~-------------~~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-------------FQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH-------------CSSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc-------------CCCCCCCCcchhc
Confidence            34457899999999999999999999 99999973             1789999998854

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

Probab=98.79  E-value=8.2e-09  Score=75.44  Aligned_cols=53  Identities=23%  Similarity=0.545  Sum_probs=42.9

Q ss_pred             CCCCccccccccccC--CCcEEcCCC-----CcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           23 NYNGCFDCNICLDFA--YDPVVTLCG-----HLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        23 ~~~~~~~C~ICle~~--~~pv~t~CG-----H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ...++..|.||++.+  .++++++|.     |.|+..||.+|+...       +...||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~-------~~~~CplCr~~~~~   70 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSS-------DTRCCELCKYEFIM   70 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHH-------CCSBCSSSCCBCCC
T ss_pred             CCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhC-------CCCCCCCCCCeeec
Confidence            344567899999877  457888996     999999999999964       23689999998754

>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=98.74  E-value=5.4e-10  Score=81.32  Aligned_cols=44  Identities=27%  Similarity=0.785  Sum_probs=38.5

Q ss_pred             CccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++..|.||++...+++.++|||. ||..|+..|             ..||+||..+..
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~-------------~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-------------QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC-------------SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc-------------CcCCCCCchhhC
Confidence            45689999999999999999999 999998654             479999998864

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

Probab=98.69  E-value=2.4e-09  Score=83.80  Aligned_cols=48  Identities=27%  Similarity=0.718  Sum_probs=0.8

Q ss_pred             CccccccccccCCCc-----------------EE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           26 GCFDCNICLDFAYDP-----------------VV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        26 ~~~~C~ICle~~~~p-----------------v~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      ++..|+||++.+.++                 ++ ++|+|.||..||.+|+..+         ..||+||+.+..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~---------~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---------QVCPLDNREWEF  112 (117)
T ss_dssp             CC-------------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC---------CcCCCCCCeeee
Confidence            346899999998763                 22 4899999999999999854         789999988643

>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=98.66  E-value=4.1e-09  Score=78.47  Aligned_cols=61  Identities=18%  Similarity=0.502  Sum_probs=45.0

Q ss_pred             CCccccccccccCCCcEEc---CCCCcccHHHHHHHHHhhccccCCCCCCCCCC--ccCC--CCcCcce
Q 026323           25 NGCFDCNICLDFAYDPVVT---LCGHLYCWPCIYKWLHVQSASLASDEHPQCPV--CKAD--ISHTTMV   86 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t---~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPv--Cr~~--v~~~~l~   86 (240)
                      ++.++|+||++.+.+++.+   +|||.||..|+..+++..-. ........||.  |+..  +..+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~-~g~~~~i~CP~~~C~~~~~~~~~~i~   70 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIK-EGLETAISCPDAACPKQGHLQENEIE   70 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHH-HCSCCCEECSCTTCSSCCEECHHHHH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhh-cCCcccccCccccCCCCCccCHHHHH
Confidence            3578899999999887554   79999999999999985410 01112468999  9988  6655443

>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=98.50  E-value=2.1e-08  Score=91.70  Aligned_cols=45  Identities=31%  Similarity=0.753  Sum_probs=39.8

Q ss_pred             CCccccccccccCCCcEEcCCCCc-ccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHL-YCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~-FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      +++..|+||++.+.+|+.++|||. ||..|+..|             ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-------------~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-------------RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-------------SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-------------CcCCCCCCCccC
Confidence            356889999999999999999999 999999765             479999998853

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

Probab=98.35  E-value=5.5e-07  Score=64.87  Aligned_cols=50  Identities=26%  Similarity=0.644  Sum_probs=40.3

Q ss_pred             CCccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +....|.||.+.+...+. ..|+|.|+..||.+|++.+       ...+||.|+....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~-------~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN-------AEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTC-------SSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhc-------CCCCCCCCcCcCC
Confidence            456889999999976544 3899999999999999843       2378999997764

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

Probab=98.15  E-value=2.1e-06  Score=59.22  Aligned_cols=50  Identities=20%  Similarity=0.495  Sum_probs=40.5

Q ss_pred             CCccccccccccCCCcEEcCCC--C---cccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVTLCG--H---LYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CG--H---~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ++...|.||++...++.++||.  +   .|+..||.+|+...       +...||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~-------~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS-------RNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH-------TCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhC-------CCCccCCCCCeee
Confidence            4567899999988777778865  4   89999999999854       2479999998764

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

Probab=97.97  E-value=2.9e-06  Score=77.51  Aligned_cols=59  Identities=31%  Similarity=0.635  Sum_probs=42.0

Q ss_pred             CCCccccccccccCCC----cEE----cCCCCcccHHHHHHHHHhhcccc--CCCCCCCCCCccCCCCc
Q 026323           24 YNGCFDCNICLDFAYD----PVV----TLCGHLYCWPCIYKWLHVQSASL--ASDEHPQCPVCKADISH   82 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~----pv~----t~CGH~FC~~CI~~wl~~~s~~~--~~~~~~~CPvCr~~v~~   82 (240)
                      .++..+|+||++.+.+    |..    ..|||.|+..||++|++....+.  -+.-...||.||+.++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            3467899999999876    322    37999999999999998643111  00112579999998753

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

Probab=97.66  E-value=3.1e-05  Score=58.57  Aligned_cols=51  Identities=18%  Similarity=0.417  Sum_probs=39.3

Q ss_pred             ccccccccCCC-cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           29 DCNICLDFAYD-PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        29 ~C~ICle~~~~-pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      .|++|.-.+.. ...+||.|.||..|+..|.+...        ..||.|+..+..-+..+
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~--------k~Cp~C~~~V~rVe~~~   54 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGD--------KMCPGCSDPVQRIEQCT   54 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTC--------CBCTTTCCBCSEEEEEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccC--------CCCcCcCCeeeeeEEec
Confidence            47888776654 45679999999999999987443        89999999986544433

>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=97.16  E-value=0.00036  Score=71.00  Aligned_cols=62  Identities=13%  Similarity=0.049  Sum_probs=54.9

Q ss_pred             CCCCCccccccccccCCCcEEcCCC-CcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           22 ENYNGCFDCNICLDFAYDPVVTLCG-HLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        22 ~~~~~~~~C~ICle~~~~pv~t~CG-H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      .+..++|.|||-.+.++|||+++.| ++|-..+|.+|+..         ..+||.-+.++..++++|+....
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~---------~~tdP~Tr~~L~~~~liPN~~Lk  948 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLS---------DSTDPFNRMPLKLEDVTPNEELR  948 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT---------CCBCTTTCCBCCGGGCEECHHHH
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhc---------CCCCCCCCCCCCcccccccHHHH
Confidence            4556789999999999999999998 69999999999984         37899999999999999997654

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

Probab=96.82  E-value=0.00077  Score=58.38  Aligned_cols=48  Identities=27%  Similarity=0.650  Sum_probs=38.7

Q ss_pred             ccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           27 CFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      -..|.||.+.+...+.= .|+|.|+..|+.+|++.+       ....||.|+....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~-------~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN-------AEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTC-------SSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhC-------CCCCCCCCCCCCC
Confidence            57799999999866543 499999999999999743       2379999987653

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

Probab=96.26  E-value=0.0019  Score=47.85  Aligned_cols=32  Identities=28%  Similarity=0.461  Sum_probs=27.4

Q ss_pred             Ccccccccccc-CCCcEE--cCCCCcccHHHHHHH
Q 026323           26 GCFDCNICLDF-AYDPVV--TLCGHLYCWPCIYKW   57 (240)
Q Consensus        26 ~~~~C~ICle~-~~~pv~--t~CGH~FC~~CI~~w   57 (240)
                      ++..|+||.+. ..+++.  +.|+|.||..|+..+
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            45789999975 678888  899999999999874

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

Probab=92.74  E-value=0.12  Score=37.49  Aligned_cols=39  Identities=28%  Similarity=0.686  Sum_probs=31.6

Q ss_pred             CCCccccccccccCCCcEEcCC----CCcccHHHHHHHHHhhc
Q 026323           24 YNGCFDCNICLDFAYDPVVTLC----GHLYCWPCIYKWLHVQS   62 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~C----GH~FC~~CI~~wl~~~s   62 (240)
                      ....+.|.+|.+.+.+.-...|    +|.||.+|-...++.+.
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q~   54 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQG   54 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHH
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhcC
Confidence            3567899999999988644433    69999999999999764

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=91.39  E-value=0.2  Score=45.75  Aligned_cols=57  Identities=19%  Similarity=0.399  Sum_probs=42.6

Q ss_pred             CccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCccee
Q 026323           26 GCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP   87 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p   87 (240)
                      -.+.|||-...++.|+. ..|.|.-|.+- ..|++...    ......||+|.+.+..++++.
T Consensus       214 vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl-~sfL~~~~----~~~~W~CPiC~k~~~~~dL~I  271 (360)
T 4fo9_A          214 VSLMCPLGKMRLTIPCRAVTCTHLQCFDA-ALYLQMNE----KKPTWICPVCDKKAAYESLIL  271 (360)
T ss_dssp             EESBCTTTCSBCSSEEEETTCCCCCCEEH-HHHHHHHH----HSCCCBCTTTCSBCCGGGEEE
T ss_pred             EeeeCCCccceeccCCcCCCCCCCccCCH-HHHHHHHh----hCCCeECCCCCcccCHHHeEE
Confidence            35789999999999977 58999977753 35555332    235699999999998776653

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=91.17  E-value=0.14  Score=46.93  Aligned_cols=56  Identities=30%  Similarity=0.532  Sum_probs=41.7

Q ss_pred             CccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           26 GCFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      -.+.|||-...+..|+. ..|.|+-|.+- ..|++...    ......||+|.+.+..++|+
T Consensus       248 vSL~CPlS~~ri~~PvRg~~C~HlQCFDl-~sfL~~~~----~~~~W~CPIC~k~~~~~dL~  304 (371)
T 3i2d_A          248 MSLQCPISYTRMKYPSKSINCKHLQCFDA-LWFLHSQL----QIPTWQCPVCQIDIALENLA  304 (371)
T ss_dssp             EESBCTTTSSBCSSEEEETTCCSSCCEEH-HHHHHHHH----HSCCCBCTTTCCBCCGGGEE
T ss_pred             EeecCCCccccccccCcCCcCCCcceECH-HHHHHHhh----cCCceeCCCCCcccCHHHee
Confidence            35889999999999987 48999977764 34555331    23569999999988766554

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

Probab=85.34  E-value=0.73  Score=31.72  Aligned_cols=49  Identities=20%  Similarity=0.488  Sum_probs=34.2

Q ss_pred             CCCccccccccccCCCcEEc--CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCC
Q 026323           24 YNGCFDCNICLDFAYDPVVT--LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD   79 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t--~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~   79 (240)
                      ......|.||.+.-.  ++.  .|...|+..|+...+..     ...+...||.|++.
T Consensus         9 ~~~~~~C~vC~~~~~--ll~Cd~C~~~~H~~Cl~P~l~~-----~P~g~W~C~~C~~~   59 (66)
T 2lri_C            9 LAPGARCGVCGDGTD--VLRCTHCAAAFHWRCHFPAGTS-----RPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTCCCTTTSCCTT--CEECSSSCCEECHHHHCTTTCC-----CCSSSCCCTTTTTC
T ss_pred             CCCCCCcCCCCCCCe--EEECCCCCCceecccCCCccCc-----CCCCCEECccccCC
Confidence            344567999986432  332  78899999999776652     22456899999754

---

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	240
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	9e-13
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-12
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-09
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	9e-09
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-07
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	5e-06
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-06
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-05
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	7e-04

>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 = 63.2 bits (153), Expect = 1e-13
 Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 6/60 (10%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
           +C ICL+   +PV T C H++C  C+ K L+ +          QCP+CK DI+  ++  
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQK------KGPSQCPLCKNDITKRSLQE 75

>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 = 59.6 bits (144), Expect = 9e-13
 Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 8/62 (12%)

Query: 27 CFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
             C IC +   D  +  CGHL C  C+  W   +           CP C+ +I  T  +
Sbjct: 23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE--------GQGCPFCRCEIKGTEPI 74

Query: 87 PL 88
           +
Sbjct: 75 VV 76

>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 = 58.0 bits (140), Expect = 5e-12
 Identities = 19/66 (28%), Positives = 25/66 (37%), Gaps = 8/66 (12%)

Query: 22 ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           ++     C IC     DPV T C HL+C  CI + L V            CP C+    
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMG--------SYCPSCRYPCF 69

Query: 82 HTTMVP 87
           T +  
Sbjct: 70 PTDLES 75

>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 = 53.8 bits (129), Expect = 1e-10
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 10/53 (18%)

Query: 30 CNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
          C ICL+   +  + L C H +C+ CI +W+          ++P CP+CK  + 
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIR---------QNPTCPLCKVPVE 51

>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 = 50.6 bits (121), Expect = 1e-09
 Identities = 14/58 (24%), Positives = 18/58 (31%), Gaps = 12/58 (20%)

Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
          C  C   A  P +  C H  C  C+                 QCP+C+A        P
Sbjct: 9  CQQCQAEAKCPKLLPCLHTLCSGCLEAS------------GMQCPICQAPWPLGADTP 54

>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 = 48.9 bits (116), Expect = 9e-09
 Identities = 20/68 (29%), Positives = 26/68 (38%), Gaps = 8/68 (11%)

Query: 20 GSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
          GS  +   F C I L+   DPV+   G  Y    I KWL           H  CP  +  
Sbjct: 1  GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWL--------DAGHKTCPKSQET 52

Query: 80 ISHTTMVP 87
          + H  + P
Sbjct: 53 LLHAGLTP 60

>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 = 46.4 bits (110), Expect = 4e-08
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 13/56 (23%)

Query: 29 DCNICLDFAYDP----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
          +C +CL    D      +  CGH +   C+  WL           H  CP+C+  +
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG---------SHSTCPLCRLTV 53

>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 = 45.9 bits (108), Expect = 2e-07
 Identities = 10/67 (14%), Positives = 19/67 (28%), Gaps = 12/67 (17%)

Query: 22 ENYNGCFDCNICLD-FAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
          +       C+ C +       +  C H++C  C+   +              CPVC    
Sbjct: 17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI-----------GTGCPVCYTPA 65

Query: 81 SHTTMVP 87
              +  
Sbjct: 66 WIQDLKI 72

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 41.4 bits (96), Expect = 5e-06
 Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 8/62 (12%)

Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
              I  +   +P +T  G  Y    I + L               PV ++ ++   ++P
Sbjct: 8  LCGKISFELMREPCITPSGITYDRKDIEEHLQRV--------GHFNPVTRSPLTQEQLIP 59

Query: 88 LY 89
            
Sbjct: 60 NL 61

>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 = 40.5 bits (94), Expect = 7e-06
 Identities = 12/58 (20%), Positives = 16/58 (27%), Gaps = 13/58 (22%)

Query: 29 DCNICLDFAYDP-----VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
           C  C    Y       +V +CGH  C  C+                  CP C   + 
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF--------VRGAGNCPECGTPLR 54

>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 = 40.5 bits (94), Expect = 1e-05
 Identities = 10/55 (18%), Positives = 15/55 (27%), Gaps = 10/55 (18%)

Query: 27 CFDCNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
          C             V    C H + + CI +WL              CP+   + 
Sbjct: 38 CQANQASATSEECTVAWGVCNHAFHFHCISRWLK---------TRQVCPLDNREW 83

>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 = 39.5 bits (91), Expect = 2e-05
 Identities = 8/60 (13%), Positives = 14/60 (23%), Gaps = 12/60 (20%)

Query: 27 CFDCNICLDFAYDPVVTL-----CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
             C IC +   +                  C+  WL           +  C +C    +
Sbjct: 6  VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLT-------ISRNTACQICGVVYN 58

>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 = 39.0 bits (90), Expect = 2e-05
 Identities = 5/61 (8%), Positives = 17/61 (27%), Gaps = 10/61 (16%)

Query: 30 CNICLD-FAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPL 88
          C I         +      ++    + +++          +    P+    +S   +V +
Sbjct: 3  CAISGKVPRRPVLSPKSRTIFEKSLLEQYVK---------DTGNDPITNEPLSIEEIVEI 53

Query: 89 Y 89
           
Sbjct: 54 V 54

>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 = 37.4 bits (86), Expect = 8e-05
 Identities = 9/58 (15%), Positives = 19/58 (32%), Gaps = 12/58 (20%)

Query: 29 DCNICLDFAYD----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH 82
          +C +C++             CG+  C  C ++    +        +  CP C+     
Sbjct: 2  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE--------NGLCPACRKPYPE 51

>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 = 37.7 bits (86), Expect = 2e-04
 Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 4/44 (9%)

Query: 41 VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT 84
           +T C H +   C+       +     D   QCP CK      T
Sbjct: 57 RLTKCSHAFHLLCLLAMYCNGNK----DGSLQCPSCKTIYGEKT 96

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 7e-04
 Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 4/56 (7%)

Query: 25 NGCFDCNICLD---FAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK 77
          +G   C +CL          +  C  ++C  C+ +++ +       +    CP   
Sbjct: 3  SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKE-GLETAISCPDAA 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	240
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.51
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.5
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.49
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.49
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.46
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.32
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.3
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.3
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.27
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.25
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.21
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.19
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.18
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.94
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.84
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.28
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	93.42

>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=99.51  E-value=5.8e-15  Score=111.04  Aligned_cols=61  Identities=33%  Similarity=0.770  Sum_probs=50.9

Q ss_pred             CCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           25 NGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      ++.+.|+||++.+.+|+.++|||+||..||.+|++...      ....||+||..+...++.+++..
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~------~~~~CP~Cr~~~~~~~l~~n~~l   79 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK------GPSQCPLCKNDITKRSLQESTRF   79 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS------SSCCCTTTSCCCCTTTCBCCCSS
T ss_pred             ccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCC------CCCcCcCCCCcCChhhCCcCHHH
Confidence            34678999999999999999999999999999998432      33689999999987777666543

>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=99.50  E-value=8.7e-15  Score=104.74  Aligned_cols=62  Identities=31%  Similarity=0.645  Sum_probs=54.7

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      +..+++.|+||++.+.+||+++|||+||..||.+|++..        ...||.|+..+..+++++|....
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~--------~~~cP~~~~~l~~~~l~pN~~L~   65 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG--------HKTCPKSQETLLHAGLTPNYVLK   65 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTT--------CCBCTTTCCBCSSCCCEECTTTH
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHC--------CCCCCcccccCCcccccchHHHH
Confidence            456789999999999999999999999999999999843        26799999999999999886654

>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=99.49  E-value=5.1e-15  Score=108.49  Aligned_cols=53  Identities=36%  Similarity=0.764  Sum_probs=46.9

Q ss_pred             CccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      +.+.|+||++.+.+|++++|||+||+.||.+|++.+.        .+||+||.++...++.
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~--------~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMG--------SYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC--------SBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCC--------CcCcccCCCCChhhcc
Confidence            5678999999999999999999999999999998543        6899999998776654

>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=99.49  E-value=9.5e-15  Score=105.08  Aligned_cols=61  Identities=16%  Similarity=0.268  Sum_probs=53.7

Q ss_pred             CCCCccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGR   91 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~   91 (240)
                      +..+++.|+||++++.+||+++|||+||..||.+|+....        ..||.|+..+..+++.++...
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~--------~~cP~c~~~l~~~~l~pN~~L   63 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG--------HFNPVTRSPLTQEQLIPNLAM   63 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC--------SSCTTTCCCCCGGGCEECHHH
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCC--------ccCCCccccccccccccHHHH
Confidence            3457899999999999999999999999999999998542        689999999998888887654

>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=99.46  E-value=1.5e-14  Score=97.49  Aligned_cols=53  Identities=13%  Similarity=0.251  Sum_probs=48.2

Q ss_pred             cccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceecc
Q 026323           28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLY   89 (240)
Q Consensus        28 ~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~   89 (240)
                      +.|+||++.+++||++ .|||+||+.||.+|++..         .+||+|+..+..++++++.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~---------~~CP~c~~~l~~~dLipik   54 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT---------GNDPITNEPLSIEEIVEIV   54 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH---------SBCTTTCCBCCGGGCEECC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhc---------cCCCccCCcCCHHhceeCC
Confidence            3699999999999987 699999999999999965         7899999999999998864

>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=99.44  E-value=4.2e-14  Score=101.72  Aligned_cols=50  Identities=32%  Similarity=0.799  Sum_probs=43.9

Q ss_pred             ccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCc
Q 026323           27 CFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT   84 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~   84 (240)
                      ...|+||++.+.++++++|||.||..||.+|+..+        ...||+||..+...+
T Consensus        23 ~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~--------~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE--------GQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTT--------CCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHC--------cCcCCCCCcCccCCc
Confidence            45699999999999999999999999999999843        278999999987554

>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=99.32  E-value=4.6e-14  Score=104.90  Aligned_cols=55  Identities=22%  Similarity=0.553  Sum_probs=47.1

Q ss_pred             CCccccccccccCCCcEEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccC
Q 026323           25 NGCFDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYG   90 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~   90 (240)
                      ++.+.|+||++.+.+||.+ +|||+||..||.+|+.           .+||+||..+...++.++..
T Consensus        20 ~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-----------~~CP~Cr~~~~~~~l~~n~~   75 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-----------TGCPVCYTPAWIQDLKINRQ   75 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-----------TBCSSSCCBCSCSSCCCCHH
T ss_pred             hhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh-----------ccccccCCcCchhhCcccHH
Confidence            3567899999999999875 8999999999999986           56999999988777766543

>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=99.30  E-value=4.6e-13  Score=92.68  Aligned_cols=53  Identities=23%  Similarity=0.572  Sum_probs=42.0

Q ss_pred             CccccccccccCCC-----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcce
Q 026323           26 GCFDCNICLDFAYD-----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV   86 (240)
Q Consensus        26 ~~~~C~ICle~~~~-----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~   86 (240)
                      ++..|+||++.+..     .++++|||.||..||.+|+...+        ..||+||+.+..+++.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~--------~~CP~CR~~i~~~~~~   59 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA--------GNCPECGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS--------SSCTTTCCCCSSCCCE
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCc--------CCCCCCCcCccccccc
Confidence            45789999987522     25679999999999999997432        6799999998776654

>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=99.30  E-value=7.4e-13  Score=92.29  Aligned_cols=46  Identities=33%  Similarity=0.933  Sum_probs=40.1

Q ss_pred             ccccccccccCCCcEE-cCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           27 CFDCNICLDFAYDPVV-TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        27 ~~~C~ICle~~~~pv~-t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      ...|+||++.+.++++ ++|||.||..||.+|++.+         .+||+||..+.
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~---------~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN---------PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS---------CSTTTTCCCCC
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhC---------CcCCCCCcchH
Confidence            4569999999988755 7999999999999999854         78999999874

>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=99.27  E-value=1.3e-12  Score=97.40  Aligned_cols=61  Identities=16%  Similarity=0.090  Sum_probs=52.7

Q ss_pred             CCCCccccccccccCCCcEEcCCC-CcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcCcceeccCCC
Q 026323           23 NYNGCFDCNICLDFAYDPVVTLCG-HLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVPLYGRG   92 (240)
Q Consensus        23 ~~~~~~~C~ICle~~~~pv~t~CG-H~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~~l~p~~~~g   92 (240)
                      +..++|.||||++++.+||+++|| |+||+.||.+|+...         ..||+|+..+..++++++....
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~---------~~~P~~~~~l~~~~L~pN~~Lr   79 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD---------QTDPFNRSPLTMDQIRPNTELK   79 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS---------CBCTTTCSBCCTTTSEECHHHH
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhc---------CCcccccccccchhhcchHHHH
Confidence            344689999999999999999877 589999999999743         7899999999999999886554

>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=99.25  E-value=3.9e-13  Score=90.63  Aligned_cols=46  Identities=28%  Similarity=0.542  Sum_probs=40.1

Q ss_pred             CccccccccccCCCcEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           26 GCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        26 ~~~~C~ICle~~~~pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      +.+.|+||++.+.+|++++|||.||..||.+|            ..+||+||..+..+
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~------------~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS------------GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS------------SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC------------CCcCcCCCCcccCC
Confidence            45799999999999999999999999998654            27899999988654

>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=99.21  E-value=2.6e-12  Score=86.13  Aligned_cols=47  Identities=28%  Similarity=0.757  Sum_probs=38.8

Q ss_pred             CCccccccccccCCCc---EEc-CCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCC
Q 026323           25 NGCFDCNICLDFAYDP---VVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI   80 (240)
Q Consensus        25 ~~~~~C~ICle~~~~p---v~t-~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v   80 (240)
                      +++.+|+||++.+.+.   +.+ .|||.||..||.+|++.+         ..||+||+.+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~---------~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH---------STCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC---------CSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC---------CcCCCCCCEe
Confidence            4567799999999653   344 699999999999999843         7899999876

>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=99.19  E-value=2.9e-12  Score=84.84  Aligned_cols=47  Identities=19%  Similarity=0.489  Sum_probs=38.3

Q ss_pred             cccccccccCCC----cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCc
Q 026323           28 FDCNICLDFAYD----PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH   82 (240)
Q Consensus        28 ~~C~ICle~~~~----pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~   82 (240)
                      .+|+||++.+.+    ++.++|||.||..||.+|++.++        .+||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~--------~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN--------GLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSC--------CBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcC--------CCCCccCCcCCC
Confidence            479999998853    24458999999999999998542        689999998764

>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=99.18  E-value=2.3e-11  Score=92.20  Aligned_cols=52  Identities=27%  Similarity=0.495  Sum_probs=40.0

Q ss_pred             CccccccccccCCCc------------------EEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           26 GCFDCNICLDFAYDP------------------VVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        26 ~~~~C~ICle~~~~p------------------v~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      .+..|+||++.+.++                  .+++|||.||..||..|++.+.    .....+||+||+.+.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~----~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN----KDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTC----CSSCCBCTTTCCBSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcC----cCCCCccccccchhc
Confidence            456799999987532                  4578999999999999998542    123468999998764

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=2.3e-10  Score=83.23  Aligned_cols=48  Identities=25%  Similarity=0.703  Sum_probs=38.4

Q ss_pred             ccccccccccCCC------------------cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCCcC
Q 026323           27 CFDCNICLDFAYD------------------PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT   83 (240)
Q Consensus        27 ~~~C~ICle~~~~------------------pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~~~   83 (240)
                      +..|+||++.+.+                  .+.++|||.||..||.+||+.+         ..||+||+....+
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---------~~CP~CR~~~~~~   86 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---------QVCPLDNREWEFQ   86 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC---------SBCSSSCSBCCEE
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC---------CcCCCCCCccccc
Confidence            4459999877644                  2456899999999999999854         7899999987543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.84  E-value=1.1e-09  Score=73.92  Aligned_cols=51  Identities=18%  Similarity=0.408  Sum_probs=41.6

Q ss_pred             CCCccccccccccCCCcEEcCC-----CCcccHHHHHHHHHhhccccCCCCCCCCCCccCCCC
Q 026323           24 YNGCFDCNICLDFAYDPVVTLC-----GHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS   81 (240)
Q Consensus        24 ~~~~~~C~ICle~~~~pv~t~C-----GH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~~v~   81 (240)
                      +++...|.||++...++.+.+|     +|.||..||.+|+..+       +..+||+||+.+.
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~-------~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS-------RNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH-------TCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhC-------CCCCCcccCCeee
Confidence            3566789999999988877665     4999999999999854       3368999998864

>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=98.28  E-value=1.6e-07  Score=68.06  Aligned_cols=52  Identities=17%  Similarity=0.497  Sum_probs=36.9

Q ss_pred             CccccccccccCCC---cEEcCCCCcccHHHHHHHHHhhccccCCCCCCCCCCccC
Q 026323           26 GCFDCNICLDFAYD---PVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA   78 (240)
Q Consensus        26 ~~~~C~ICle~~~~---pv~t~CGH~FC~~CI~~wl~~~s~~~~~~~~~~CPvCr~   78 (240)
                      ....|+||++.+..   ++.+.|||.||..||..|++.+-. .......+||.|+-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~-~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIK-EGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHH-HCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHh-cCCccccCCcCCCC
Confidence            45789999998753   345689999999999999985421 11122357998643

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.042  Score=37.19  Aligned_cols=47  Identities=30%  Similarity=0.697  Sum_probs=34.8

Q ss_pred             CCccccccccccCCCcEEcCC----CCcccHHHHHHHHHhhccccCCCCCCCCCC
Q 026323           25 NGCFDCNICLDFAYDPVVTLC----GHLYCWPCIYKWLHVQSASLASDEHPQCPV   75 (240)
Q Consensus        25 ~~~~~C~ICle~~~~pv~t~C----GH~FC~~CI~~wl~~~s~~~~~~~~~~CPv   75 (240)
                      ...+.|.+|.|.+.|.-...|    +|.||.+|-...++.+..    +....||.
T Consensus         6 ~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q~~----~~evyCPS   56 (80)
T d2cs3a1           6 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGA----TGEVYCPS   56 (80)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHS----SSCCCCTT
T ss_pred             CCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhcCC----CCcEECCC
Confidence            345889999999998644433    699999999999997742    23355553