Citrus Sinensis ID: 048313

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250--
Protein Sequence
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK
Secondary Structure (PSIPRED)
cccEEEEEEEEEccEEEcccccccccccccccEEcccccEEccccccccccccccccccccccccHHHHHccccEEEEccccccccccEEcccccccccccccccEEEcccccccccccHHHHHccccccccccEEEEEEccEEEEEEcccccEEEEEEEcccEEEEEEccccccEEEEEEEEEcccccccEEEEEEEEEcccEEEEEEEEEEEEcccccccccccEEEEccccccccccEEEEEEEEcccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEEcccHccccccccccEEcccccEEcccccEEEcccHHHHccccccccccccHHHHHHHHHHHHHccccccccccccccEEcccccHHHHHHccccccccccccccccccHHHHHHHHHHHccccEEEccccEEEEEEccccccEEEEEEccccEEEEEEEcccccEEEEEEEEEcccccccEEEEEEEEccccEEEEEcccccHHHHHHHccccccEEEEccHHccccccEEEEEEEEEccc
Coil and Loop (DISEMBL)
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVaecgnghivcNRCCIELmnkcpscrlpighsrSIAMEKVLESIQVTCenedhgckekmsyskkydhgkachharcscplaacnfvgsFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDliflqeekngdlfilnnstephgyrisvnciappckggIVYSIVAKsggaaykfnsCTKSIqnwdennppsvasllvpsdffgsygqlNLEVRIQHPKK
Flexible Loop (DISEMBL)
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNlevriqhpkk
Low Complexity Region (SEG)
SAFFCVCHFVLCTTVLHCfisfssfiftllsVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK
Disordered region (IsUnstruct)
**FFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVR******
Disordered Region (DISOPRED)
*AFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYK*******************ASLLVPSDFFGSYGQLNLEVRIQHP**
Disordered Region (DISEMBL)
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSY***********HARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK
Disordered Region (DISPRO)
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK
Transmembrane Helix (TMHMM)
iiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
SAFFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK
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	252	2.2.26 [Sep-21-2011]
Q84K34	349	E3 ubiquitin-protein liga	yes	no	0.876	0.633	0.348	5e-35
Q9C6H3	313	E3 ubiquitin-protein liga	no	no	0.873	0.702	0.358	5e-32
Q9FKD7	286	E3 ubiquitin-protein liga	no	no	0.670	0.590	0.367	2e-30
Q9FKD9	281	Putative E3 ubiquitin-pro	no	no	0.670	0.601	0.362	1e-29
Q9FM14	314	E3 ubiquitin-protein liga	no	no	0.690	0.554	0.375	8e-27
Q9C9M0	329	E3 ubiquitin-protein liga	no	no	0.888	0.680	0.316	2e-26
Q9FKD5	276	Putative E3 ubiquitin-pro	no	no	0.75	0.684	0.328	3e-25
Q9C6H2	303	E3 ubiquitin-protein liga	no	no	0.706	0.587	0.329	5e-24
Q7XA77	328	E3 ubiquitin-protein liga	no	no	0.607	0.466	0.354	9e-22
Q9FKD6	263	E3 ubiquitin-protein liga	no	no	0.599	0.574	0.314	7e-17

>sp|Q84K34|SIL10_ARATH E3 ubiquitin-protein ligase SINA-like 10 OS=Arabidopsis thaliana GN=At5g37930 PE=2 SV=1

 Score =  147 bits (372), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 78/224 (34%), Positives = 120/224 (53%), Gaps = 3/224 (1%)

Query: 30  LSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEK 89
           + + +C NGH+ C  CC ++ N+CPSC LPIG+ R  AMEKV+E+ +V+C N  +GCKE 
Sbjct: 122 IPIFQCDNGHLACTLCCTKVRNRCPSCTLPIGYVRCRAMEKVIEASRVSCLNAKYGCKES 181

Query: 90  MSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLS 149
            SY  ++ H + C    CSCP+  C++ G +  +  H R  HK     FV++  L I+L 
Sbjct: 182 TSYGNRFSHEQVCVFTPCSCPILDCHYTGYYKDLNNHVRAEHKDDLISFVWNTRLTISLD 241

Query: 150 VHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSGGAAYKF 207
           ++     LQEE +G + ++      H   +SV+CIAP  P  G +   +   +  +  K 
Sbjct: 242 LNKKTTILQEENDGHVIVVQVFRALHAVYVSVSCIAPLTPGVGRLSCRLAKITVDSLLKQ 301

Query: 208 NSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPK 251
               K+IQ    N  P    +L+PS  F     LNL++ I H +
Sbjct: 302 GFMVKNIQKV-TNEHPEDGFMLIPSYLFSGNDNLNLQIWIGHGR 344

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9C6H3|SINL2_ARATH E3 ubiquitin-protein ligase SINA-like 2 OS=Arabidopsis thaliana GN=At1g66620 PE=2 SV=1

 Score =  138 bits (347), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 81/226 (35%), Positives = 112/226 (49%), Gaps = 6/226 (2%)

Query: 32  VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
           + +C NGHI C+ CC +L NKCPSC LPIG+ RS  ME+V+E++ VTC N  HGC EK S
Sbjct: 55  IFQCDNGHIACSSCCTKLRNKCPSCALPIGNFRSRIMERVVEAVMVTCPNVKHGCTEKFS 114

Query: 92  YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVH 151
           Y K+  H K C  A C CP   CN+ G +  +Y HF   H     +          L + 
Sbjct: 115 YGKELIHEKDCRFALCYCPAPNCNYSGVYKDLYSHFYVNHYDTWNQIGCGNFAGAWLRIS 174

Query: 152 HDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAK---SGGAAYK 206
             ++ LQ  + G L  +    E  G  ++VNCIAP  P  G + + +  K    G +   
Sbjct: 175 EKILVLQYGQ-GPLIAVQCFKETQGMYVTVNCIAPCAPGVGELSFELSYKMPMGGNSTMM 233

Query: 207 FNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK 252
           F S   +         P    +LVP  F G +  L +E+ I+  KK
Sbjct: 234 FKSEEMNRIQKVSFQTPEKDFMLVPYYFLGDFSTLKMEICIRKLKK 279

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD7|SINL7_ARATH E3 ubiquitin-protein ligase SINA-like 7 OS=Arabidopsis thaliana GN=At5g37890 PE=2 SV=1

 Score =  132 bits (332), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/174 (36%), Positives = 98/174 (56%), Gaps = 5/174 (2%)

Query: 15  VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLES 74
           +L C I + +F   +    +C NGH+ C+ CC +L NKCP+C  P+GH+R  AME VLES
Sbjct: 48  ILDCPICYEAFTIPIF---QCDNGHLACSSCCPKLNNKCPACTSPVGHNRCRAMESVLES 104

Query: 75  IQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHA 134
           I + C N   GCK+ +SY K+  H K C  + C+CP   CN+  S+  +Y H+R  H   
Sbjct: 105 ILIPCPNAKLGCKKNVSYGKELTHEKECMFSHCACPALDCNYTSSYKDLYTHYRITHMEI 164

Query: 135 AE--EFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP 186
            +   F+ D  L + +++   ++   E     LF +    EP+G  ++V+CIAP
Sbjct: 165 NQINTFICDIPLSVRMNISKKILIRTEHLTNHLFAVQCFREPYGVYVTVSCIAP 218

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD9|SINL6_ARATH Putative E3 ubiquitin-protein ligase SINA-like 6 OS=Arabidopsis thaliana GN=At5g37870 PE=3 SV=1

 Score =  130 bits (326), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 101/174 (58%), Gaps = 5/174 (2%)

Query: 15  VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLES 74
           +L C I + +     + V +CGNGH+ C+ CC +L NKCP+C LP+GH R  AME+VLES
Sbjct: 42  ILDCPICYQAL---KIPVFQCGNGHLACSSCCPKLRNKCPACALPVGHIRCRAMERVLES 98

Query: 75  IQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHA 134
           + V C   D GC + + Y ++  H K C+ + CSCP+  CN+ GS+  +Y+H+   H   
Sbjct: 99  VLVPCRYADLGCTKTIYYGRESTHEKICNFSPCSCPVQGCNYTGSYKDLYEHYDLTHSTG 158

Query: 135 AEEFVYDKVLRIT--LSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP 186
           +  + ++ V  I   + +   ++  +  +   LF++    EP G  +SV+CIAP
Sbjct: 159 STAYSFNGVSYIAAMMFISDKILIERVYEKKLLFVVQCFEEPCGVYVSVSCIAP 212

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FM14|SIL11_ARATH E3 ubiquitin-protein ligase SINA-like 11 OS=Arabidopsis thaliana GN=At5g62800 PE=2 SV=2

 Score =  120 bits (302), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 69/184 (37%), Positives = 102/184 (55%), Gaps = 10/184 (5%)

Query: 10  VLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPS--CRLPIGHSRSIA 67
           +L   VL C + F       +   +C +GHIVCN C  ++ NKCP   C LPIG+ R  A
Sbjct: 35  LLDLDVLDCPVCFEPLT---IPTFQCDDGHIVCNFCFAKVSNKCPGPGCDLPIGNKRCFA 91

Query: 68  MEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHF 127
           ME+VLES  V C+N + GC + +SY K   H K C++++CSCP   CN+ GS+N IY HF
Sbjct: 92  MERVLESAFVPCQNTEFGCTKSVSYEKVSSHEKECNYSQCSCPNLECNYTGSYNIIYGHF 151

Query: 128 RGVHKH----AAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNC 183
              H +     + ++ Y  V  + +++   +  L E +   LF++    E HG  ++V  
Sbjct: 152 MRRHLYNSTIVSSKWGYSTV-DVLINIKEKVSVLWESRQKLLFVVQCFKERHGVYVTVRR 210

Query: 184 IAPP 187
           IAPP
Sbjct: 211 IAPP 214

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C9M0|SINL4_ARATH E3 ubiquitin-protein ligase SINA-like 4 OS=Arabidopsis thaliana GN=At1g66650 PE=2 SV=1

 Score =  119 bits (299), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 76/240 (31%), Positives = 119/240 (49%), Gaps = 16/240 (6%)

Query: 17  HCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQ 76
           +CF      IF      +C NGH+ C  CCI+L  +C  C+LPIG  R  AMEKV+++  
Sbjct: 88  NCFDPLKKPIF------QCNNGHLACFLCCIKLKKRCSFCKLPIGDVRCRAMEKVIKAGL 141

Query: 77  VTCENEDHGCKEKMSYSKKYD-HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAA 135
           V+C N  +GCK+  +Y  +   H K C  A CSCP+  CN++G +  +  HFR  HK + 
Sbjct: 142 VSCSNAIYGCKQSTTYGNQLQSHEKVCVFAPCSCPIKDCNYIGFYKDLINHFRATHKVSP 201

Query: 136 EE---FVYDK--VLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PC 188
            +   FV+D+  +  + L     ++   EEK G+LF++      HG   +V+ IAP  P 
Sbjct: 202 GDINSFVFDRPVIFGLDLDSSDKMVIFVEEKQGNLFVVQGFIGSHGVYATVSHIAPMVPE 261

Query: 189 KGGIVYSIVAKSGGAAYKFNSCTKSIQNW-DENNPPSVASLLVPSDFFGSYGQLNLEVRI 247
                 S+      +  +     K+IQ    +   P    LL+PS +  +   + +E+ I
Sbjct: 262 VRKFSCSLARLRPYSTLRLGLEVKNIQKLRSQEEQPQEDFLLIPS-YMVNGDHMKMEISI 320

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD5|SINL9_ARATH Putative E3 ubiquitin-protein ligase SINA-like 9 OS=Arabidopsis thaliana GN=At5g37910 PE=3 SV=1

 Score =  115 bits (289), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/201 (32%), Positives = 99/201 (49%), Gaps = 12/201 (5%)

Query: 32  VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
           + +C NGH+ C  CC +L NKCP+C LP+GHSRS AME VLESI + C N   GC +   
Sbjct: 49  IFQCDNGHLACGSCCPKLSNKCPACTLPVGHSRSRAMESVLESILIPCPNVRFGCTKSFF 108

Query: 92  YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHK----HAAEEFVYDKVLRIT 147
           Y K+  H K C  ++CSCP + C++ GS+  +Y H++  H        + F        +
Sbjct: 109 YGKESAHEKECIFSQCSCPSSVCDYTGSYKDLYAHYKLTHSTNIFWNIKRFRCANFFTTS 168

Query: 148 LSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSGGAAY 205
           + +   ++  +  +   L  +    EP G  ++V+ IAP  P  G   Y +     G   
Sbjct: 169 MLISDKILIKRVHEKKLLLAVQCFREPCGVYVTVSFIAPSAPEVGEFSYQLSYNVDGHTV 228

Query: 206 KFNS------CTKSIQNWDEN 220
            + S      C  SI+   EN
Sbjct: 229 TYESPEVKRVCKVSIETPQEN 249

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C6H2|SINL3_ARATH E3 ubiquitin-protein ligase SINA-like 3 OS=Arabidopsis thaliana GN=At1g66630 PE=2 SV=1

 Score =  111 bits (277), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 61/185 (32%), Positives = 94/185 (50%), Gaps = 7/185 (3%)

Query: 32  VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
           + +C NGHI C+ CC ++  KCP C L IG  RS  +EK++E++ V+C N  +GC EK+ 
Sbjct: 60  IYQCDNGHIACSSCCKKVKYKCPYCSLRIGFFRSRILEKIVEAVVVSCPNAKYGCTEKIP 119

Query: 92  YSKKYD--HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFV---YDKVLRI 146
           Y  + +  H + C    C CP   C + G +  +Y+H+   HK     F    Y+     
Sbjct: 120 YDNESESAHERVCEFTLCYCPEPECKYTGVYTDLYRHYHAEHKTDHSWFKCGEYNNAWLH 179

Query: 147 TLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSGGAA 204
                   + LQE ++G L ++  S E HG  ++VNCIAP  P  G     ++ ++G   
Sbjct: 180 VTGEKLSFLVLQEYEDGPLVVVQCSMESHGICVTVNCIAPCAPGVGEFSCHLIYRNGSEK 239

Query: 205 YKFNS 209
             F S
Sbjct: 240 ITFES 244

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7XA77|SINL5_ARATH E3 ubiquitin-protein ligase SINA-like 5 OS=Arabidopsis thaliana GN=At1g66660 PE=2 SV=2

 Score =  103 bits (258), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 57/161 (35%), Positives = 85/161 (52%), Gaps = 8/161 (4%)

Query: 32  VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
           + +C NGH+ C+ CC +L  KC  CR  IG  R  AMEKV+E+  V C N  HGCKE  +
Sbjct: 97  IYQCSNGHLACSSCCQKLNKKCSFCRCNIGDIRCRAMEKVIEASIVPCPNAKHGCKETTT 156

Query: 92  YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVY-------DKVL 144
           Y  +  H K C   RCSCP++ CN+V S++ +  H         E+ ++        ++ 
Sbjct: 157 YCNQSSHEKVCKFVRCSCPVSNCNYVSSYSNLKSHACSTAHVWGEDDIHFQLVIDRPRIF 216

Query: 145 RITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIA 185
            + L     ++F +EEK GDL ++       G  ++VN IA
Sbjct: 217 NMNLGRKKTVVF-KEEKEGDLIVVQAFKGLEGVYVTVNRIA 256

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD6|SINL8_ARATH E3 ubiquitin-protein ligase SINA-like 8 OS=Arabidopsis thaliana GN=At5g37900 PE=1 SV=2

 Score = 87.8 bits (216), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 55/175 (31%), Positives = 81/175 (46%), Gaps = 24/175 (13%)

Query: 32  VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
           + +C NGH+ C+ CC +L NKCP+C           ME +LESI VTC N+  GC E   
Sbjct: 46  IFQCENGHLACSSCCPKLRNKCPAC----------PMENILESILVTCPNDMFGCTESFL 95

Query: 92  YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAA--------EEFVYDKV 143
           Y KK  H + C  + CSCP   C + G +  +Y H++  H   +            Y   
Sbjct: 96  YGKKSTHEEECIFSLCSCPSLDCEYSGRYEDLYDHYKLTHISNSYWTTNCFRSSIPYKAP 155

Query: 144 LRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSI 196
           + I+  +    ++    +   LF +    E  G  ++V+CIAP  P  G   Y I
Sbjct: 156 MLISDKIQITRVY----EKKILFAVQCFRESCGVYVTVSCIAPSAPEVGQFSYQI 206

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	252
255583779	374	ubiquitin-protein ligase, putative [Rici	0.940	0.633	0.448	2e-51
224135291	372	predicted protein [Populus trichocarpa]	0.861	0.583	0.461	2e-48
224077239	213	predicted protein [Populus trichocarpa]	0.833	0.985	0.445	4e-44
356512131	320	PREDICTED: E3 ubiquitin-protein ligase S	0.932	0.734	0.412	4e-43
356524904	320	PREDICTED: E3 ubiquitin-protein ligase S	0.932	0.734	0.391	4e-42
255647862	320	unknown [Glycine max]	0.932	0.734	0.391	1e-41
224079768	408	predicted protein [Populus trichocarpa]	0.781	0.482	0.427	4e-41
358348167	327	E3 ubiquitin-protein ligase SINA-like pr	0.908	0.700	0.376	2e-40
388496832	281	unknown [Lotus japonicus]	0.904	0.811	0.405	3e-40
225453102	355	PREDICTED: E3 ubiquitin-protein ligase S	0.869	0.616	0.409	2e-39

>gi|255583779|ref|XP_002532642.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223527633|gb|EEF29745.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 108/241 (44%), Positives = 153/241 (63%), Gaps = 4/241 (1%)

Query: 6   VCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRS 65
           +C  +    VL C I +       + V +C NGH  C+ CC +L +KCPSC LPIG++R 
Sbjct: 110 ICVTLTDPEVLDCPICYECLS---IPVFQCENGHTACSSCCRKLAHKCPSCSLPIGYNRC 166

Query: 66  IAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQ 125
            A+EKVLES+++ C N  +GCKE +SYSKK DH K C++A CSCPL+ C+FVGS  Q+YQ
Sbjct: 167 RAIEKVLESVKLPCHNLKYGCKEMVSYSKKLDHDKICNNAPCSCPLSGCSFVGSSRQLYQ 226

Query: 126 HFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCI- 184
           HF   HK +A  F Y+    +  +++   + LQEEK G +F L N+ E  G  I+VNC+ 
Sbjct: 227 HFSIKHKGSAAPFRYNITFPVFFTLNDKSLILQEEKEGVVFFLKNTAEILGNVITVNCLG 286

Query: 185 APPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLE 244
            P  KGG  Y + A+  G+  KF S TK+IQ  + ++P S   L++P  FFGSYGQ++L+
Sbjct: 287 GPSSKGGYFYELAARMEGSNLKFQSFTKNIQKVNHDDPHSDTFLIIPGSFFGSYGQISLD 346

Query: 245 V 245
           +
Sbjct: 347 L 347

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135291|ref|XP_002327611.1| predicted protein [Populus trichocarpa] gi|222836165|gb|EEE74586.1| predicted protein [Populus trichocarpa]

 Score =  197 bits (502), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 101/219 (46%), Positives = 142/219 (64%), Gaps = 2/219 (0%)

Query: 30  LSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEK 89
           + V +C NGH  C+ CCI+L +KCPSC +PIG++R  A+EKVLES++V+C N  +GCKE 
Sbjct: 135 IPVFQCDNGHTACSSCCIKLQHKCPSCTMPIGYNRCRAIEKVLESLKVSCSNSSYGCKES 194

Query: 90  MSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLS 149
           + YSKKY+H K+C HA C+CPL ACN+ GS  ++YQH R  H      F ++    +   
Sbjct: 195 ICYSKKYEHDKSCTHAPCTCPLPACNYQGSSKRLYQHCRIKHLCDLTSFQFNTSFPLFFM 254

Query: 150 VHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP-PCKGGIVYSIVAKSGGAAYKFN 208
           V H    LQEEK   LFIL N +E  G  I+V+C+ P   K G  Y + AK+ G+  +F 
Sbjct: 255 VDHKFRVLQEEKEDVLFILTNRSECLGNVITVSCMGPSSSKQGYFYELTAKAEGSNVRFQ 314

Query: 209 SCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRI 247
           S T++IQ    ++PPS+  LLVP+DF G++G + L+V I
Sbjct: 315 SSTRNIQT-RVDHPPSLGFLLVPNDFLGTHGGITLDVCI 352

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077239|ref|XP_002305191.1| predicted protein [Populus trichocarpa] gi|222848155|gb|EEE85702.1| predicted protein [Populus trichocarpa]

 Score =  184 bits (466), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 94/211 (44%), Positives = 132/211 (62%), Gaps = 1/211 (0%)

Query: 37  NGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKY 96
           NGH  C+ CC +L + CPSC LPIG+   +A+EKVLES +++C+N  +GCKE +SYSKK 
Sbjct: 2   NGHAACSSCCSKLAHICPSCSLPIGYIHCLAIEKVLESAKISCQNMKYGCKETVSYSKKC 61

Query: 97  DHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIF 156
           DH K+C +A CSCP++ C+FV S  Q+Y H    H    + F YD  + ++ +     + 
Sbjct: 62  DHEKSCIYATCSCPVSGCSFVSSSKQLYSHLSSTHVGDVKHFEYDCKIPVSFTASKKFVV 121

Query: 157 LQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFNSCTKSIQN 216
           LQE+K G +FILNN+ +  G  I V+CI P  KGG  Y + A S G +  F S T   ++
Sbjct: 122 LQEKKEGVVFILNNALQIMGNVIMVSCIGPSSKGGYFYELSANSKGNSLIFRSFTPCFRS 181

Query: 217 WDENNPPSVASLLVPSDFFGSYGQLNLEVRI 247
              +NPPSV  LLVP  FFGS  ++ L++ I
Sbjct: 182 -RVDNPPSVRFLLVPGGFFGSGEKVTLDLCI 211

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512131|ref|XP_003524774.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10-like [Glycine max]

 Score =  180 bits (457), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 99/240 (41%), Positives = 140/240 (58%), Gaps = 5/240 (2%)

Query: 9   FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAM 68
           FV    VL C I +         V +C NGHI C+ CC+ L NKCP C +PIG++R  A+
Sbjct: 83  FVSDPDVLDCCICYEPLA---APVFQCENGHIACSTCCVRLSNKCPMCLMPIGYNRCRAI 139

Query: 69  EKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFR 128
           EKVLE I+++C N ++GCKE  SYS+K +H K C +  CSCPL  C+FV S  +++ HF 
Sbjct: 140 EKVLECIKMSCPNANYGCKETFSYSRKNNHEKECIYLPCSCPLTGCDFVASSKELFLHFS 199

Query: 129 GVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPC 188
             H      F YDK   + LS++   I LQE+ +G+LFI++N+ E  G  + ++CI P  
Sbjct: 200 HRHVGMGTRFAYDKFFTVFLSINQRTIVLQEKNDGNLFIVHNNHEHLGNIVRISCIGPKS 259

Query: 189 KGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
                Y ++A+  G A    S TK +Q    + P S   LL+PS  FGS  QL L++RI+
Sbjct: 260 MAEFQYEVLARHQGNALILQSFTKIVQGQYADAPSSTF-LLIPSCLFGS-PQLKLDIRIK 317

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524904|ref|XP_003531068.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10-like [Glycine max]

 Score =  177 bits (448), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 94/240 (39%), Positives = 141/240 (58%), Gaps = 5/240 (2%)

Query: 9   FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAM 68
           FV    VL C I +         V +C NGHI C+ CC+ L NKCP C +PIG++R  A+
Sbjct: 83  FVSDPDVLDCCICYEPLT---SPVFQCENGHIACSICCVRLSNKCPMCSMPIGYNRCRAI 139

Query: 69  EKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFR 128
           EKVLE I+++C N ++GCKE +SYSKK +H K C +  CSCP   C+F+ S  +++ HF 
Sbjct: 140 EKVLECIKMSCPNANYGCKETLSYSKKNEHEKECIYLPCSCPFTGCDFIASSKELFLHFS 199

Query: 129 GVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPC 188
             H  +  +F YDK   + LS++   + L+E+ +G+LF+++N+ E  G  + ++CI P  
Sbjct: 200 HRHVGSGTQFTYDKFFTVFLSINQRTVVLKEKSDGNLFVVHNNLEHLGNIVRISCIGPKS 259

Query: 189 KGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
                Y ++A+  G A    S TK +Q     + PS   LL+PS  FGS   L L++RI+
Sbjct: 260 TTEFQYEVLARHQGNALILQSFTKIVQGQ-YTDAPSSTFLLIPSCLFGS-PHLKLDIRIK 317

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647862|gb|ACU24390.1| unknown [Glycine max]

 Score =  175 bits (444), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 94/240 (39%), Positives = 141/240 (58%), Gaps = 5/240 (2%)

Query: 9   FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAM 68
           FV    VL C I +         V +C NGHI C+ CC+ L NKCP C +PIG++R  A+
Sbjct: 83  FVSDPDVLDCCICYEPLT---SPVFQCENGHIACSICCVRLSNKCPMCSMPIGYNRCRAI 139

Query: 69  EKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFR 128
           EKVLE I+++C N ++GCKE +SYSKK +H K C +  CSCP   C+F+ S  +++ HF 
Sbjct: 140 EKVLECIKMSCPNANYGCKETLSYSKKNEHEKECIYLPCSCPFTGCDFIASSKELFLHFS 199

Query: 129 GVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPC 188
             H  +  +F YDK   + LS++   + L+E+ +G+LF+++N+ E  G  + ++CI P  
Sbjct: 200 HRHVGSGTQFTYDKFFTVFLSINQRTVVLKEKSDGNLFVVHNNLEHLGNIVRISCIGPKS 259

Query: 189 KGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
                Y ++A+  G A    S TK +Q    + P S   LL+PS  FGS   L L++RI+
Sbjct: 260 TTEFQYEVLARHQGNALILQSFTKIVQGQYTDAPFSTF-LLIPSCLFGS-PHLKLDIRIK 317

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224079768|ref|XP_002305940.1| predicted protein [Populus trichocarpa] gi|222848904|gb|EEE86451.1| predicted protein [Populus trichocarpa]

 Score =  174 bits (440), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 85/199 (42%), Positives = 129/199 (64%), Gaps = 2/199 (1%)

Query: 48  ELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARC 107
           +L +KCPSC +PIG +R  A+EKVLES++V C N  +GC+E + +SKKY+H K C HA C
Sbjct: 197 KLQHKCPSCAMPIGDNRCRAIEKVLESLKVRCSNWRYGCRENICFSKKYEHDKCCSHALC 256

Query: 108 SCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFI 167
           +CPL  CNF GS  Q+Y H R  H      F ++    + ++V+     LQE+K G LFI
Sbjct: 257 TCPLLGCNFQGSSKQLYLHCRRKHLGKLTSFQFNTSFPLFITVNDKFCILQEDKEGVLFI 316

Query: 168 LNNSTEPHGYRISVNCIA-PPCKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVA 226
           LNN ++  G+ I+V+C+     K G  Y ++ ++ G+  +F S T++++    ++PPS+ 
Sbjct: 317 LNNRSDTLGHVITVSCMGLSSSKPGYFYELMTRAEGSNIRFQSSTRNVRT-RVDDPPSLG 375

Query: 227 SLLVPSDFFGSYGQLNLEV 245
            LLVP+DF G+YGQ+ L+V
Sbjct: 376 CLLVPNDFLGTYGQITLDV 394

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358348167|ref|XP_003638120.1| E3 ubiquitin-protein ligase SINA-like protein [Medicago truncatula] gi|355504055|gb|AES85258.1| E3 ubiquitin-protein ligase SINA-like protein [Medicago truncatula]

 Score =  171 bits (433), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 88/234 (37%), Positives = 136/234 (58%), Gaps = 5/234 (2%)

Query: 15  VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLES 74
           VL CFI         + + +C NGHI C++CC EL NKCP C +PIG++R  A+EK+LES
Sbjct: 97  VLDCFICSEPL---AVPIYQCENGHIACSKCCGELRNKCPMCSMPIGYNRCRAVEKLLES 153

Query: 75  IQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHA 134
           I+++C N  +GCK+  S S K  H K C +  C CP   C F+ S  ++  HF   H   
Sbjct: 154 IKISCPNAKYGCKDMFSCSMKSSHEKECIYIPCKCPHTGCGFLASSKELALHFSHRHAGF 213

Query: 135 AEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVY 194
             +F YDK + ++L+     I L ++ +  LFI++N    HG  + ++C+ P       Y
Sbjct: 214 GIQFTYDKFISVSLNTRQKQIVLLDQNDARLFIVHNHIVQHGNMVHISCMGPKAITDTHY 273

Query: 195 SIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
            ++A+S G+     S TK+IQ+ +  + P+   L++PSD FG +GQL L++RI+
Sbjct: 274 DVLARSQGSTLILQSSTKTIQD-NNGDAPTAGFLVIPSDHFG-FGQLKLDIRIK 325

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496832|gb|AFK36482.1| unknown [Lotus japonicus]

 Score =  171 bits (432), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 95/234 (40%), Positives = 132/234 (56%), Gaps = 6/234 (2%)

Query: 15  VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLES 74
           VL C I +       + V +C NGH+ C+ CC  L NKCP C +PIG++R  AMEK+LES
Sbjct: 51  VLDCCICYEPL---SVPVFQCENGHVACSSCCARLRNKCPMCLMPIGYNRCRAMEKLLES 107

Query: 75  IQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHA 134
           I+++C N  +GCKE  SYS K DH K C +    CP   C+FV S  ++  H    H  +
Sbjct: 108 IKISCLNAKYGCKEVFSYSMKSDHAKECVYIPILCPHTDCDFVASSKELSLHVSHRHVGS 167

Query: 135 AEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVY 194
             +F YDK + + L+     I LQE+ +  LFI++N  E  G  + ++CI P    G  Y
Sbjct: 168 GVQFTYDKFITVFLNTDQKEIVLQEQNDAHLFIVHNKLELLGNTVHISCIGPKSMAGFHY 227

Query: 195 SIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
            I+A+S G+     S TK IQ     +  S   LL+PS FFG  GQL L++RI+
Sbjct: 228 DILARSRGSTLILQSVTKIIQAI--GHASSSVFLLIPSKFFGC-GQLKLDIRIK 278

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453102|ref|XP_002271757.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10 [Vitis vinifera]

 Score =  168 bits (425), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 90/220 (40%), Positives = 134/220 (60%), Gaps = 1/220 (0%)

Query: 30  LSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEK 89
           + V +C NGHI C+ CC +L N+CPSC  PIG++R  A+EKVLES++V+C+N  +GCKE 
Sbjct: 123 VPVFQCENGHIACSSCCTKLSNRCPSCSWPIGYNRCRAIEKVLESVKVSCQNTAYGCKET 182

Query: 90  MSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLS 149
           +SY KK+DH   C++  CSCP + CNF GS  Q+ QHFR  H ++   F Y+    + L 
Sbjct: 183 VSYGKKHDHEVTCNYVPCSCPHSNCNFRGSSKQLAQHFRSKHLNSVIRFQYNSFFPVHLE 242

Query: 150 VHH-DLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGIVYSIVAKSGGAAYKFN 208
            +  D   + E K G LFI+++S +  G+ ++V  I P    G  +++ A  G  +    
Sbjct: 243 FNAVDKFCILEAKEGALFIVSSSIQQLGHAVTVCRIGPRSSRGHAFNLAAWKGDRSIMLQ 302

Query: 209 SCTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQ 248
           S T++I+   E    S+  LL+P+ F GS GQL LE+ I+
Sbjct: 303 SFTENIREVVELPSLSMGFLLIPNAFLGSSGQLKLELCIR 342

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	252
TAIR|locus:2153784	349	AT5G37930 [Arabidopsis thalian	0.861	0.621	0.363	6.3e-37
TAIR|locus:2195175	313	AT1G66620 [Arabidopsis thalian	0.869	0.699	0.365	2.8e-34
TAIR|locus:2153754	286	AT5G37890 [Arabidopsis thalian	0.615	0.541	0.382	3.7e-32
TAIR|locus:2153804	281	AT5G37870 [Arabidopsis thalian	0.785	0.704	0.352	7.7e-32
TAIR|locus:2033369	329	AT1G66650 [Arabidopsis thalian	0.853	0.653	0.32	7.9e-30
TAIR|locus:2195180	303	AT1G66630 [Arabidopsis thalian	0.702	0.584	0.349	8.2e-28
TAIR|locus:2153774	276	AT5G37910 [Arabidopsis thalian	0.75	0.684	0.328	1.3e-27
TAIR|locus:2033354	348	AT1G66660 [Arabidopsis thalian	0.726	0.525	0.336	1.1e-25
TAIR|locus:2137395	327	AT4G27880 [Arabidopsis thalian	0.424	0.327	0.366	2.3e-17
TAIR|locus:2064642	305	AT2G41980 [Arabidopsis thalian	0.400	0.331	0.349	2.5e-17

TAIR|locus:2153784 AT5G37930 [Arabidopsis thaliana (taxid:3702)]

 Score = 397 (144.8 bits), Expect = 6.3e-37, P = 6.3e-37
 Identities = 80/220 (36%), Positives = 120/220 (54%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH+ C  CC ++ N+CPSC LPIG+ R  AMEKV+E+ +V+C N  +GCKE  S
Sbjct:   124 IFQCDNGHLACTLCCTKVRNRCPSCTLPIGYVRCRAMEKVIEASRVSCLNAKYGCKESTS 183

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVH 151
             Y  ++ H + C    CSCP+  C++ G +  +  H R  HK     FV++  L I+L ++
Sbjct:   184 YGNRFSHEQVCVFTPCSCPILDCHYTGYYKDLNNHVRAEHKDDLISFVWNTRLTISLDLN 243

Query:   152 HDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKG-GIVYSIVAK-SGGAAYKFNS 209
                  LQEE +G + ++      H   +SV+CIAP   G G +   +AK +  +  K   
Sbjct:   244 KKTTILQEENDGHVIVVQVFRALHAVYVSVSCIAPLTPGVGRLSCRLAKITVDSLLKQGF 303

Query:   210 CTKSIQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQH 249
               K+IQ    N  P    +L+PS  F     LNL++ I H
Sbjct:   304 MVKNIQKVT-NEHPEDGFMLIPSYLFSGNDNLNLQIWIGH 342

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2195175 AT1G66620 [Arabidopsis thaliana (taxid:3702)]

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 83/227 (36%), Positives = 114/227 (50%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGHI C+ CC +L NKCPSC LPIG+ RS  ME+V+E++ VTC N  HGC EK S
Sbjct:    55 IFQCDNGHIACSSCCTKLRNKCPSCALPIGNFRSRIMERVVEAVMVTCPNVKHGCTEKFS 114

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVH 151
             Y K+  H K C  A C CP   CN+ G +  +Y HF   H     +          L + 
Sbjct:   115 YGKELIHEKDCRFALCYCPAPNCNYSGVYKDLYSHFYVNHYDTWNQIGCGNFAGAWLRIS 174

Query:   152 HDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAK---SGGAAYK 206
               ++ LQ  + G L  +    E  G  ++VNCIAP  P  G + + +  K    G +   
Sbjct:   175 EKILVLQYGQ-GPLIAVQCFKETQGMYVTVNCIAPCAPGVGELSFELSYKMPMGGNSTMM 233

Query:   207 FNSCTKS-IQNWDENNPPSVASLLVPSDFFGSYGQLNLEVRIQHPKK 252
             F S   + IQ      P     +LVP  F G +  L +E+ I+  KK
Sbjct:   234 FKSEEMNRIQKVSFQTPEK-DFMLVPYYFLGDFSTLKMEICIRKLKK 279

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

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153754 AT5G37890 [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 60/157 (38%), Positives = 91/157 (57%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH+ C+ CC +L NKCP+C  P+GH+R  AME VLESI + C N   GCK+ +S
Sbjct:    62 IFQCDNGHLACSSCCPKLNNKCPACTSPVGHNRCRAMESVLESILIPCPNAKLGCKKNVS 121

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAE--EFVYDKVLRITLS 149
             Y K+  H K C  + C+CP   CN+  S+  +Y H+R  H    +   F+ D  L + ++
Sbjct:   122 YGKELTHEKECMFSHCACPALDCNYTSSYKDLYTHYRITHMEINQINTFICDIPLSVRMN 181

Query:   150 VHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP 186
             +   ++   E     LF +    EP+G  ++V+CIAP
Sbjct:   182 ISKKILIRTEHLTNHLFAVQCFREPYGVYVTVSCIAP 218

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153804 AT5G37870 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 73/207 (35%), Positives = 112/207 (54%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             V +CGNGH+ C+ CC +L NKCP+C LP+GH R  AME+VLES+ V C   D GC + + 
Sbjct:    56 VFQCGNGHLACSSCCPKLRNKCPACALPVGHIRCRAMERVLESVLVPCRYADLGCTKTIY 115

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLSVH 151
             Y ++  H K C+ + CSCP+  CN+ GS+  +Y+H+   H   +  + ++ V  I   + 
Sbjct:   116 YGRESTHEKICNFSPCSCPVQGCNYTGSYKDLYEHYDLTHSTGSTAYSFNGVSYIAAMMF 175

Query:   152 -HDLIFLQE--EKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSG-GAAY 205
               D I ++   EK   LF++    EP G  +SV+CIAP  P  G   Y ++  +  G   
Sbjct:   176 ISDKILIERVYEKKL-LFVVQCFEEPCGVYVSVSCIAPSAPEVGEFSYGLLYTTWEGVTM 234

Query:   206 KFNSC-TKSIQNWDENNPPSVASLLVP 231
              + S   K +       P   + +L+P
Sbjct:   235 TYQSPKVKKVLKVSSQRPKD-SFMLIP 260

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2033369 AT1G66650 [Arabidopsis thaliana (taxid:3702)]

 Score = 330 (121.2 bits), Expect = 7.9e-30, P = 7.9e-30
 Identities = 72/225 (32%), Positives = 115/225 (51%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH+ C  CCI+L  +C  C+LPIG  R  AMEKV+++  V+C N  +GCK+  +
Sbjct:    97 IFQCNNGHLACFLCCIKLKKRCSFCKLPIGDVRCRAMEKVIKAGLVSCSNAIYGCKQSTT 156

Query:    92 YSKKYD-HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEE---FVYDK--VLR 145
             Y  +   H K C  A CSCP+  CN++G +  +  HFR  HK +  +   FV+D+  +  
Sbjct:   157 YGNQLQSHEKVCVFAPCSCPIKDCNYIGFYKDLINHFRATHKVSPGDINSFVFDRPVIFG 216

Query:   146 ITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSGGA 203
             + L     ++   EEK G+LF++      HG   +V+ IAP  P       S+      +
Sbjct:   217 LDLDSSDKMVIFVEEKQGNLFVVQGFIGSHGVYATVSHIAPMVPEVRKFSCSLARLRPYS 276

Query:   204 AYKFNSCTKSIQNW-DENNPPSVASLLVPSDFFGSYGQLNLEVRI 247
               +     K+IQ    +   P    LL+PS +  +   + +E+ I
Sbjct:   277 TLRLGLEVKNIQKLRSQEEQPQEDFLLIPS-YMVNGDHMKMEISI 320

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2195180 AT1G66630 [Arabidopsis thaliana (taxid:3702)]

 Score = 311 (114.5 bits), Expect = 8.2e-28, P = 8.2e-28
 Identities = 65/186 (34%), Positives = 100/186 (53%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGHI C+ CC ++  KCP C L IG  RS  +EK++E++ V+C N  +GC EK+ 
Sbjct:    60 IYQCDNGHIACSSCCKKVKYKCPYCSLRIGFFRSRILEKIVEAVVVSCPNAKYGCTEKIP 119

Query:    92 YSKKYD--HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLS 149
             Y  + +  H + C    C CP   C + G +  +Y+H+   HK     F   +     L 
Sbjct:   120 YDNESESAHERVCEFTLCYCPEPECKYTGVYTDLYRHYHAEHKTDHSWFKCGEYNNAWLH 179

Query:   150 VHHD-LIFL--QEEKNGDLFILNNSTEPHGYRISVNCIAPPCKGGI-VYS--IVAKSGGA 203
             V  + L FL  QE ++G L ++  S E HG  ++VNCIAP C  G+  +S  ++ ++G  
Sbjct:   180 VTGEKLSFLVLQEYEDGPLVVVQCSMESHGICVTVNCIAP-CAPGVGEFSCHLIYRNGSE 238

Query:   204 AYKFNS 209
                F S
Sbjct:   239 KITFES 244

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

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153774 AT5G37910 [Arabidopsis thaliana (taxid:3702)]

 Score = 309 (113.8 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 66/201 (32%), Positives = 99/201 (49%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH+ C  CC +L NKCP+C LP+GHSRS AME VLESI + C N   GC +   
Sbjct:    49 IFQCDNGHLACGSCCPKLSNKCPACTLPVGHSRSRAMESVLESILIPCPNVRFGCTKSFF 108

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAA----EEFVYDKVLRIT 147
             Y K+  H K C  ++CSCP + C++ GS+  +Y H++  H        + F        +
Sbjct:   109 YGKESAHEKECIFSQCSCPSSVCDYTGSYKDLYAHYKLTHSTNIFWNIKRFRCANFFTTS 168

Query:   148 LSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAP--PCKGGIVYSIVAKSGGAAY 205
             + +   ++  +  +   L  +    EP G  ++V+ IAP  P  G   Y +     G   
Sbjct:   169 MLISDKILIKRVHEKKLLLAVQCFREPCGVYVTVSFIAPSAPEVGEFSYQLSYNVDGHTV 228

Query:   206 KFNS------CTKSIQNWDEN 220
              + S      C  SI+   EN
Sbjct:   229 TYESPEVKRVCKVSIETPQEN 249

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2033354 AT1G66660 [Arabidopsis thaliana (taxid:3702)]

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 65/193 (33%), Positives = 97/193 (50%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH+ C+ CC +L  KC  CR  IG  R  AMEKV+E+  V C N  HGCKE  +
Sbjct:   117 IYQCSNGHLACSSCCQKLNKKCSFCRCNIGDIRCRAMEKVIEASIVPCPNAKHGCKETTT 176

Query:    92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGV-HKHAAEEF----VYDK--VL 144
             Y  +  H K C   RCSCP++ CN+V S++ +  H     H    ++     V D+  + 
Sbjct:   177 YCNQSSHEKVCKFVRCSCPVSNCNYVSSYSNLKSHACSTAHVWGEDDIHFQLVIDRPRIF 236

Query:   145 RITLSVHHDLIFLQEEKNGDLFILNNSTEPHGYRISVNCIAPPCKG--GIVYSIVAKSGG 202
              + L     ++F +EEK GDL ++       G  ++VN IA    G   +  S+   +  
Sbjct:   237 NMNLGRKKTVVF-KEEKEGDLIVVQAFKGLEGVYVTVNRIAHMAPGIRDLSCSLAKLNEY 295

Query:   203 AAYKFNSCTKSIQ 215
             +  +  S  K IQ
Sbjct:   296 STLRSGSLVKKIQ 308

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2137395 AT4G27880 [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.3e-17, P = 2.3e-17
 Identities = 41/112 (36%), Positives = 59/112 (52%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH +C+ C + + N+CP+CR  +G  R +A+EKV ES+++ C+  + GC E   
Sbjct:    75 IHQCHNGHTLCSTCKVRVHNRCPTCRQELGDIRCLALEKVAESLELPCKFYNLGCPEIFP 134

Query:    92 YSKKYDHGKACHHARCSCPLAA--CNFVGSFNQIYQHFRGVHK---HAAEEF 138
             Y  K  H   C+    SCP A   C  VG    +  H R  HK   HA   F
Sbjct:   135 YYSKLKHESLCNFRPYSCPYAGSECGIVGDIPFLVAHLRDDHKVDMHAGSTF 186

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2064642 AT2G41980 [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 36/103 (34%), Positives = 57/103 (55%)

Query:    32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS 91
             + +C NGH +C+ C + + N CP+CR  +G+ R +A+EKV ES++V C  ++ GC++   
Sbjct:    68 IHQCPNGHTLCSSCKLRVQNTCPTCRYELGNIRCLALEKVAESLEVPCRYQNLGCQDIFP 127

Query:    92 YSKKYDHGKACHHARCSCPLAA--CNFVGSFNQIYQHFRGVHK 132
             Y  K  H + C     SCP A   C+  G    +  H +  HK
Sbjct:   128 YYSKLKHEQHCRFRSYSCPYAGSECSVTGDIPTLVDHLKDDHK 170

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00440259 hypothetical protein (372 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	252
pfam03145	198	pfam03145, Sina, Seven in absentia protein family	4e-09

>gnl|CDD|190542 pfam03145, Sina, Seven in absentia protein family

 Score = 54.3 bits (131), Expect = 4e-09
 Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 63  SRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPL--AACNFVGSF 120
            R++A+EKV   +   C++   GC  ++    K  H + C +    CP+  A C + G  
Sbjct: 1   IRNLAVEKVASKVLFPCKHAALGCPVRLPLQLKDWHEERCEYKPYFCPMPGAKCKWQGDE 60

Query: 121 NQIYQHFRGVHK 132
           + +  H    HK
Sbjct: 61  DDLMPHLTADHK 72

The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non- neuronal cell type. The Sina protein contains an N-terminal RING finger domain pfam00097. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that thus Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is described in pfam00097, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana. Length = 198

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	252
KOG3002	299	consensus Zn finger protein [General function pred	100.0
PF03145	198	Sina: Seven in absentia protein family; InterPro:	99.97
cd03829	127	Sina Seven in absentia (Sina) protein family, C-te	99.5
KOG0297	391	consensus TNF receptor-associated factor [Signal t	99.42
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.59
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	98.46
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.4
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.4
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.39
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.34
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.32
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.19
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.14
PF14634	44	zf-RING_5: zinc-RING finger domain	98.12
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.11
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.04
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.95
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.95
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.92
PHA02929	238	N1R/p28-like protein; Provisional	97.89
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	97.81
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.65
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	97.58
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.53
PHA02926	242	zinc finger-like protein; Provisional	97.37
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.32
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.24
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.24
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.2
PLN03086	567	PRLI-interacting factor K; Provisional	97.03
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.0
PLN03086	567	PRLI-interacting factor K; Provisional	97.0
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	96.89
COG5152	259	Uncharacterized conserved protein, contains RING a	96.27
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.23
KOG4739	233	consensus Uncharacterized protein involved in syna	95.7
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.54
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.5
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	95.49
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.37
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.34
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.01
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	94.98
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	94.65
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	94.33
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.14
KOG2660	331	consensus Locus-specific chromosome binding protei	94.05
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	94.02
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	93.88
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	93.86
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	93.31
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.71
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	92.29
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	92.19
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	92.15
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.93
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.62
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	89.96
KOG1002	791	consensus Nucleotide excision repair protein RAD16	89.95
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	89.75
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	88.45
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	88.03
COG5219	1525	Uncharacterized conserved protein, contains RING Z	87.48
KOG3039	303	consensus Uncharacterized conserved protein [Funct	86.93
PF13909	24	zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W	86.87
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	86.37
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	86.32
PF04641	260	Rtf2: Rtf2 RING-finger	86.3
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	85.73
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	85.42
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	84.78
KOG4367	699	consensus Predicted Zn-finger protein [Function un	84.51
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	83.76
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	83.48
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	83.09
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	82.98
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	82.96
PF13913	25	zf-C2HC_2: zinc-finger of a C2HC-type	82.9
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	82.57
KOG0825	1134	consensus PHD Zn-finger protein [General function	82.03
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	81.49

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

Probab=100.00  E-value=1.9e-45  Score=323.95  Aligned_cols=226  Identities=32%  Similarity=0.631  Sum_probs=197.6

Q ss_pred             EEEEeCCeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCc
Q 048313            8 HFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCK   87 (252)
Q Consensus         8 ~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~   87 (252)
                      ++..++++|+||+|++.+   .+||+||.+||++|++|..++.++||.||.+++..|+++||++++++.++|+|..+||+
T Consensus        41 ~~~~~~~lleCPvC~~~l---~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~  117 (299)
T KOG3002|consen   41 VTLLDLDLLDCPVCFNPL---SPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCT  117 (299)
T ss_pred             ccccchhhccCchhhccC---cccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCc
Confidence            356788999999999999   99999999999999999988889999999999999999999999999999999999999


Q ss_pred             eeeccchHHhHhhhCcccCcCCCCC--CCCcccChhhHhhHhhcccCCCCe-----eEEeCcEEEEEEecc---CcEEEE
Q 048313           88 EKMSYSKKYDHGKACHHARCSCPLA--ACNFVGSFNQIYQHFRGVHKHAAE-----EFVYDKVLRITLSVH---HDLIFL  157 (252)
Q Consensus        88 ~~~~~~~~~~H~~~C~~~p~~CP~~--gC~~~g~~~~L~~Hl~~~H~~~~~-----~~~y~~~~~~~l~~~---~~~~vl  157 (252)
                      +.++|.+..+||+.|.|+|+.||.+  .|+|.|..++|..|+...|+..+.     .+.+.......+...   ..+.+.
T Consensus       118 ~~~~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (299)
T KOG3002|consen  118 KSFPYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVC  197 (299)
T ss_pred             eeeccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeec
Confidence            9999999999999999999999999  899999999999999999999886     344443332222222   233444


Q ss_pred             EEeeCCcEEEEecCCCCcccEEEEEeecCC--CCCCeEEEEEEeeCCCeEEEeeeeeeecc-cccCCCCCcceeEEcCcc
Q 048313          158 QEEKNGDLFILNNSTEPHGYRISVNCIAPP--CKGGIVYSIVAKSGGAAYKFNSCTKSIQN-WDENNPPSVASLLVPSDF  234 (252)
Q Consensus       158 ~~~~~~~lFll~~~~~~~g~~vsv~cIgp~--~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~-~~~~~~~~~~fL~VP~~~  234 (252)
                      .+..++.+|.++...++.|.+++|++|.|.  ++++|+|+|.+.+++++|+||+.+.++.+ ++ ...|..+||+||.++
T Consensus       198 ~~~~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs-~~~p~~dfm~ip~~~  276 (299)
T KOG3002|consen  198 FGREFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVS-KVRPEDDFMLIPRSL  276 (299)
T ss_pred             CcEEEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccc-eeccCCCceeccHHH
Confidence            566788899999999999999999999987  99999999999999999999999988654 33 257999999999987


Q ss_pred             cCC
Q 048313          235 FGS  237 (252)
Q Consensus       235 l~~  237 (252)
                      +..
T Consensus       277 ~~~  279 (299)
T KOG3002|consen  277 LCL  279 (299)
T ss_pred             hhc
Confidence            754

>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila

Probab=99.97  E-value=7.1e-33  Score=233.40  Aligned_cols=183  Identities=28%  Similarity=0.485  Sum_probs=116.9

Q ss_pred             cchhHHHhheeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCC--CCCCcccChhhHhhHhhcccCCCCeeEEe
Q 048313           63 SRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPL--AACNFVGSFNQIYQHFRGVHKHAAEEFVY  140 (252)
Q Consensus        63 ~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~--~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y  140 (252)
                      .||++||++++++++||+|+.+||++.++|.++.+||++|+|+|+.||.  .+|+|.|+.++|..|+...|.|.+....+
T Consensus         1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~   80 (198)
T PF03145_consen    1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT   80 (198)
T ss_dssp             --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred             CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence            4899999999999999999999999999999999999999999999999  78999999999999999999998765332


Q ss_pred             Cc-EEEEEEeccC--cEEEEEE-eeCCcEEEEecCC-C--CcccEE-EEEeecCC-CCCCeEEEEEEeeCCCeEEEeeee
Q 048313          141 DK-VLRITLSVHH--DLIFLQE-EKNGDLFILNNST-E--PHGYRI-SVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCT  211 (252)
Q Consensus       141 ~~-~~~~~l~~~~--~~~vl~~-~~~~~lFll~~~~-~--~~g~~v-sv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~  211 (252)
                      .. .+........  ...+++. +++|.+|+|++.. +  ..+.++ .|++||+. +|++|+|+|++.+++++|.||+.+
T Consensus        81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~~~~~~~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~p  160 (198)
T PF03145_consen   81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQKFELEGNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSFP  160 (198)
T ss_dssp             -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEEEEEEETEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE--
T ss_pred             ceEEEeeecccccCCceEEEeecccCCccEEEEEEEEccCCceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEcC
Confidence            11 1211111111  2233333 7899999999642 2  333444 45677888 999999999999999999999999


Q ss_pred             eeecccccCC-CCCcceeEEcC---cccCCCCceeEEEE
Q 048313          212 KSIQNWDENN-PPSVASLLVPS---DFFGSYGQLNLEVR  246 (252)
Q Consensus       212 ~~i~~~~~~~-~~~~~fL~VP~---~~l~~~~~l~l~V~  246 (252)
                      .++++ +.+. ..+.++|++..   .+|.++|.|.++|+
T Consensus       161 ~si~~-~~~~~~~~~d~li~~~~~~~~f~~~~~L~~~v~  198 (198)
T PF03145_consen  161 RSIRE-DIDDAIESRDCLIINENAAQFFSEDGNLRYRVT  198 (198)
T ss_dssp             EETTT--SHHHHHCT-SEEEEHHHHHHHECTTEEEEEEE
T ss_pred             cchhh-hHHhhccCCcEEEEchHHHHhcCCCCeEEEEeC
Confidence            99986 3332 34556777765   57888899999886

The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.

>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins

Probab=99.50  E-value=8.1e-15  Score=111.33  Aligned_cols=97  Identities=14%  Similarity=0.205  Sum_probs=82.4

Q ss_pred             cEEEEEEeeCCcEEEEecCCCCc-c----cEEEEEeecCC-CCCCeEEEEEEeeCCCeEEEeeeeeeecccccCCCCCcc
Q 048313          153 DLIFLQEEKNGDLFILNNSTEPH-G----YRISVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVA  226 (252)
Q Consensus       153 ~~~vl~~~~~~~lFll~~~~~~~-g----~~vsv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~~~~~~~~~~~  226 (252)
                      .+.+.+..+.|+.|+|..++..+ |    .+..|+.||+. +|.+|+|.|++.+++|+|+||++|+||++.......+.|
T Consensus        22 ~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~RkL~we~~PRSIrds~~~~~~~~D  101 (127)
T cd03829          22 TDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRRRLTWEATPRSIREGHASVIDNSD  101 (127)
T ss_pred             eeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCcEEEeecCCccHHHhhHHHhhcCc
Confidence            45566668999999999876655 2    47788999999 999999999999999999999999999984444477889


Q ss_pred             eeEEcC---cccCCCCceeEEEEEec
Q 048313          227 SLLVPS---DFFGSYGQLNLEVRIQH  249 (252)
Q Consensus       227 fL~VP~---~~l~~~~~l~l~V~I~~  249 (252)
                      +|++..   .+|+++|.+.|+|+|+.
T Consensus       102 ~Lii~~~~A~~Fs~~g~l~l~v~It~  127 (127)
T cd03829         102 CLVFDTSIAQLFSENGNLGINVTISG  127 (127)
T ss_pred             ceEEechHhhhccCCCccEEEEEecC
Confidence            999996   48899999999999963

Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi

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

Probab=99.42  E-value=1.2e-13  Score=127.47  Aligned_cols=119  Identities=22%  Similarity=0.450  Sum_probs=104.1

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc----chhHHHhheeeeEeeccccCCCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS----RSIAMEKVLESIQVTCENEDHGC   86 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~----r~~~le~~~~~l~v~C~~~~~GC   86 (252)
                      ++|.|++|..++   .+|+....|||.||..|+.++   ...||.|+..+...    ...++.+.+.++.+.|.+...||
T Consensus        20 ~~l~C~~C~~vl---~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC   96 (391)
T KOG0297|consen   20 ENLLCPICMSVL---RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGC   96 (391)
T ss_pred             ccccCccccccc---cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCc
Confidence            459999999999   999753479999999999885   36899999886532    34778999999999999999999


Q ss_pred             ceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeE
Q 048313           87 KEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEF  138 (252)
Q Consensus        87 ~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~  138 (252)
                      .|.+.+..++.|+..|  .+.+||+. |+..+.++++.+|++.++.......
T Consensus        97 ~~~~~l~~~~~Hl~~c--~~~~C~~~-C~~~~~~~d~~~hl~~~C~~~~~~c  145 (391)
T KOG0297|consen   97 RADLELEALQGHLSTC--DPLKCPHR-CGVQVPRDDLEDHLEAECPRRSLKC  145 (391)
T ss_pred             cccccHHHHHhHhccC--CcccCccc-cccccchHHHHHHHhcccccccccc
Confidence            9999999999999999  88999985 9999999999999988888766543

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

Probab=98.59  E-value=2e-08  Score=68.18  Aligned_cols=56  Identities=25%  Similarity=0.568  Sum_probs=29.2

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhh-hcCCCCCCCcCCc---ccchhHHHhhe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE-LMNKCPSCRLPIG---HSRSIAMEKVL   72 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~-~~~~CP~Cr~~~~---~~r~~~le~~~   72 (252)
                      +.|.|++|...|   +.|+..-.|.|+||+.|+.. +...||+|+.|.-   ...|+.++.+|
T Consensus         6 ~lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    6 ELLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI   65 (65)
T ss_dssp             HTTS-SSS-S-----SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred             HhcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence            357899999999   99987668999999999976 4568999999852   34566666553

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=98.46  E-value=1e-07  Score=64.65  Aligned_cols=50  Identities=24%  Similarity=0.487  Sum_probs=38.1

Q ss_pred             eEeeccccCCCCceeeccchHHhHhh-hCcccCcCCCCC--CCCcccChhhHhhH
Q 048313           75 IQVTCENEDHGCKEKMSYSKKYDHGK-ACHHARCSCPLA--ACNFVGSFNQIYQH  126 (252)
Q Consensus        75 l~v~C~~~~~GC~~~~~~~~~~~H~~-~C~~~p~~CP~~--gC~~~g~~~~L~~H  126 (252)
                      ..++|+|.  ||...+...++.+|++ +|+++++.||+.  ||++++.+.+|.+|
T Consensus         8 ~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H   60 (60)
T PF02176_consen    8 RPVPCPNG--CCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH   60 (60)
T ss_dssp             SEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred             CEeeCCCC--CcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence            46899985  7778899999999999 999999999994  99999999999988

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

Probab=98.40  E-value=1.3e-07  Score=59.68  Aligned_cols=35  Identities=34%  Similarity=0.693  Sum_probs=26.7

Q ss_pred             ecCCcccccCCCCceEEccCCceecccChhhhc-------CCCCCC
Q 048313           18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-------NKCPSC   56 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-------~~CP~C   56 (252)
                      ||||.++|   +.|+.. .|||.||.+|+.++.       ..||.|
T Consensus         1 CpiC~~~~---~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF---KDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB----SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh---CCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999   999875 899999999998851       257776

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.40  E-value=1.4e-07  Score=58.41  Aligned_cols=36  Identities=31%  Similarity=0.654  Sum_probs=29.7

Q ss_pred             ecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCC
Q 048313           18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSC   56 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~C   56 (252)
                      |+||.+.+   ..|+....|||+||..|+.++   ..+||.|
T Consensus         1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999   999777789999999999875   3688887

>smart00504 Ubox Modified RING finger domain

Probab=98.39  E-value=1.6e-07  Score=64.07  Aligned_cols=55  Identities=16%  Similarity=0.199  Sum_probs=45.0

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhhee
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLE   73 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~   73 (252)
                      .|.||||.+++   ..|+.. .+||+||..|+.++   ...||.|++++.   ..++..+++.++
T Consensus         1 ~~~Cpi~~~~~---~~Pv~~-~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~   61 (63)
T smart00504        1 EFLCPISLEVM---KDPVIL-PSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQ   61 (63)
T ss_pred             CcCCcCCCCcC---CCCEEC-CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHH
Confidence            37899999999   999864 89999999999875   468999999885   346777777654

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.34  E-value=1.9e-07  Score=77.41  Aligned_cols=44  Identities=25%  Similarity=0.525  Sum_probs=38.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh-------------------cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-------------------MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-------------------~~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ++|+.. .|||.||..|+.+|                   ..+||.||.++.
T Consensus        17 ~~~~CpICld~~---~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         17 GDFDCNICLDQV---RDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CccCCccCCCcC---CCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            669999999999   999874 89999999999864                   147999999875

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.32  E-value=2.2e-07  Score=60.77  Aligned_cols=43  Identities=37%  Similarity=0.674  Sum_probs=36.2

Q ss_pred             eeeecCCcccccCCCCceEEccCCce-ecccChhhh---cCCCCCCCcCCc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      ...|+||.+..   ..+++. +|||. +|..|..++   ...||+||.++.
T Consensus         2 ~~~C~iC~~~~---~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENP---RDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSB---SSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccC---CceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            46899999999   888876 89999 999999987   379999999875

...

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

Probab=98.25  E-value=2.4e-07  Score=75.26  Aligned_cols=46  Identities=30%  Similarity=0.655  Sum_probs=36.2

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      ..+.||||+...-. +.| +-..|||+||+.|+...   ..+||+|++.++
T Consensus       130 ~~~~CPiCl~~~se-k~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt  178 (187)
T KOG0320|consen  130 GTYKCPICLDSVSE-KVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT  178 (187)
T ss_pred             cccCCCceecchhh-ccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence            45899999999832 344 33589999999999874   479999998765

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

Probab=98.19  E-value=6.2e-07  Score=56.99  Aligned_cols=40  Identities=33%  Similarity=0.575  Sum_probs=31.8

Q ss_pred             eecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCC
Q 048313           17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCR   57 (252)
Q Consensus        17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr   57 (252)
                      .|+||.+.+.+ ...+....|||.||.+|+.++   ..+||+||
T Consensus         2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            59999999943 345566789999999999886   47999996

...

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.14  E-value=7.5e-07  Score=82.00  Aligned_cols=57  Identities=28%  Similarity=0.479  Sum_probs=44.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLES   74 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~   74 (252)
                      +.+.|+||.+.+   ..|+. -.|||.||..|+..+   ...||.|+..+.   ..+|.+++++++.
T Consensus        25 ~~l~C~IC~d~~---~~Pvi-tpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~   87 (397)
T TIGR00599        25 TSLRCHICKDFF---DVPVL-TSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVES   87 (397)
T ss_pred             cccCCCcCchhh---hCccC-CCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHH
Confidence            458999999999   99986 489999999999864   257999999875   2356666665553

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.12  E-value=9.1e-07  Score=56.29  Aligned_cols=41  Identities=37%  Similarity=0.745  Sum_probs=32.1

Q ss_pred             eecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCc
Q 048313           17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRL   58 (252)
Q Consensus        17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~   58 (252)
                      +|++|++.+-++.+| +.-+|||+||..|+.++.   ..||+|++
T Consensus         1 ~C~~C~~~~~~~~~~-~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRP-RLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCe-EEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            589999988332345 445899999999999874   58999985

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

Probab=98.11  E-value=1.3e-06  Score=73.88  Aligned_cols=46  Identities=22%  Similarity=0.515  Sum_probs=40.4

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~~~~   61 (252)
                      |-..|+|.||++..   ++||.+ .|||+||=.|+.+|.      ..||+|+..++
T Consensus        44 ~~~~FdCNICLd~a---kdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   44 DGGFFDCNICLDLA---KDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS   95 (230)
T ss_pred             CCCceeeeeecccc---CCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence            56679999999999   999986 699999999999872      57899998875

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

Probab=98.04  E-value=3.7e-07  Score=80.88  Aligned_cols=58  Identities=21%  Similarity=0.579  Sum_probs=45.8

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      +.|.|.||++.|   +.|+.. +|||.||+-|+.+.   +..||.|+.++.   ...|+.++.++.++
T Consensus        22 ~lLRC~IC~eyf---~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   22 DLLRCGICFEYF---NIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL   85 (442)
T ss_pred             HHHHHhHHHHHh---cCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence            568899999999   999886 79999999999874   479999998875   23355566655543

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

Probab=97.95  E-value=1.9e-06  Score=74.94  Aligned_cols=42  Identities=26%  Similarity=0.516  Sum_probs=36.7

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPI   60 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~   60 (252)
                      .+.|-||...+   +.|+.+ +|||.||+-|+...   ++.||.||.+.
T Consensus        25 ~lrC~IC~~~i---~ip~~T-tCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          25 MLRCRICDCRI---SIPCET-TCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             HHHhhhhhhee---ecceec-ccccchhHHHHHHHhcCCCCCccccccH
Confidence            47899999999   999764 89999999999874   47899999875

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

Probab=97.95  E-value=3.3e-06  Score=59.70  Aligned_cols=58  Identities=17%  Similarity=0.133  Sum_probs=43.2

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLES   74 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~   74 (252)
                      ++.|.|||+.++|   .+|+.. .+||+|+.+++.++    ...||.++.++.   ..+|.+|.+.|+.
T Consensus         2 P~~f~CpIt~~lM---~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~   66 (73)
T PF04564_consen    2 PDEFLCPITGELM---RDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEE   66 (73)
T ss_dssp             SGGGB-TTTSSB----SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHH
T ss_pred             CcccCCcCcCcHh---hCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHH
Confidence            5789999999999   999975 89999999999985    256999999876   4578888777654

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 ....

>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=97.92  E-value=6.1e-06  Score=51.39  Aligned_cols=36  Identities=33%  Similarity=0.635  Sum_probs=30.6

Q ss_pred             ecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCC
Q 048313           18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSC   56 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~C   56 (252)
                      |+||.+++   ..|+..-+|||.||..|+.++     ...||.|
T Consensus         1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999999   899866689999999999875     2468876

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=97.89  E-value=4.9e-06  Score=71.72  Aligned_cols=46  Identities=24%  Similarity=0.464  Sum_probs=35.6

Q ss_pred             CeeeecCCcccccCCCCce------EEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSV------AECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi------~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +..+|+||.+.+.  .+++      ....|||.||..|+.++   ...||.||.++.
T Consensus       173 ~~~eC~ICle~~~--~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVY--DKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccc--cCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            4578999999872  2221      33479999999999886   378999999875

>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=97.81  E-value=1e-05  Score=50.47  Aligned_cols=40  Identities=35%  Similarity=0.744  Sum_probs=33.2

Q ss_pred             eecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcC
Q 048313           17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLP   59 (252)
Q Consensus        17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~   59 (252)
                      .|+||.+.+   ..++..-.|||.||..|+.++    ...||.|+..
T Consensus         1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            489999999   788776559999999999864    3579999875

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

Probab=97.65  E-value=8e-06  Score=71.18  Aligned_cols=47  Identities=26%  Similarity=0.516  Sum_probs=39.4

Q ss_pred             EeCCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           11 LCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        11 ~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      ++....+|.+|.+..   ..|-- .+|||+||-+|+..|   ...||.||..+.
T Consensus       235 i~~a~~kC~LCLe~~---~~pSa-TpCGHiFCWsCI~~w~~ek~eCPlCR~~~~  284 (293)
T KOG0317|consen  235 IPEATRKCSLCLENR---SNPSA-TPCGHIFCWSCILEWCSEKAECPLCREKFQ  284 (293)
T ss_pred             CCCCCCceEEEecCC---CCCCc-CcCcchHHHHHHHHHHccccCCCcccccCC
Confidence            345568999999999   89964 379999999999987   367999999765

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=97.58  E-value=2e-05  Score=53.18  Aligned_cols=43  Identities=19%  Similarity=0.388  Sum_probs=34.6

Q ss_pred             HhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeEEe
Q 048313           98 HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVY  140 (252)
Q Consensus        98 H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y  140 (252)
                      |+++|+++++.||+.+|.....+.+|.+|+..++....+...|
T Consensus         1 H~~~C~~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~   43 (60)
T PF02176_consen    1 HEEECPFRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPY   43 (60)
T ss_dssp             HHTTSTTSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS
T ss_pred             CcccCCCCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCC
Confidence            8889999999999877877789999999999999998877766

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.53  E-value=3.8e-05  Score=68.30  Aligned_cols=47  Identities=23%  Similarity=0.383  Sum_probs=33.8

Q ss_pred             CeeeecCCcccccCCCCce--EEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSV--AECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi--~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      +...||+|..--+. .+-+  +.-.|||.||.+|+..+    ...||.|+.++.
T Consensus         2 d~~~CP~Ck~~~y~-np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr   54 (309)
T TIGR00570         2 DDQGCPRCKTTKYR-NPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCCcCCCCCcc-CcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence            45789999983211 4432  33369999999999984    358999998764

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).

>PHA02926 zinc finger-like protein; Provisional

Probab=97.37  E-value=3.7e-05  Score=64.91  Aligned_cols=46  Identities=22%  Similarity=0.438  Sum_probs=34.8

Q ss_pred             CeeeecCCcccccCCC-------CceEEccCCceecccChhhhc---------CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTL-------LSVAECGNGHIVCNRCCIELM---------NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~-------~Pi~qc~~GH~~C~~C~~~~~---------~~CP~Cr~~~~   61 (252)
                      +..+|+||.+..++ +       .++. -.|+|.||-.|+.+|.         ..||.||..+.
T Consensus       169 kE~eCgICmE~I~e-K~~~~eRrFGIL-~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYS-KRLENDRYFGLL-DSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCcccccc-cccccccccccc-CCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            45789999998743 2       1233 3799999999999874         23999999875

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

Probab=97.33  E-value=6.3e-05  Score=70.33  Aligned_cols=44  Identities=30%  Similarity=0.637  Sum_probs=36.4

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh--------cCCCCCCCcCCcc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--------MNKCPSCRLPIGH   62 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--------~~~CP~Cr~~~~~   62 (252)
                      ...||||+++.   .-|..+ .|||+||..|+-..        ...||.|+..+..
T Consensus       186 ~~~CPICL~~~---~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCC---Cccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            68899999998   777765 69999999998652        2589999998764

>smart00184 RING Ring finger

Probab=97.32  E-value=0.0001  Score=44.15  Aligned_cols=35  Identities=31%  Similarity=0.672  Sum_probs=28.9

Q ss_pred             ecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCC
Q 048313           18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSC   56 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~C   56 (252)
                      |+||.+..   ..++.. .|||.||..|+.++    ...||.|
T Consensus         1 C~iC~~~~---~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999998   888765 89999999999864    2568876

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=97.24  E-value=0.0001  Score=46.58  Aligned_cols=30  Identities=27%  Similarity=0.482  Sum_probs=18.4

Q ss_pred             ecCCcccccC-CCCceEEccCCceecccChhhh
Q 048313           18 CFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL   49 (252)
Q Consensus        18 C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~   49 (252)
                      ||||.+ +.+ +.+|+.. .|||+||..|+.++
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l   31 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKL   31 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHH
Confidence            899999 622 3448876 69999999999986

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

Probab=97.24  E-value=6.6e-05  Score=64.76  Aligned_cols=45  Identities=22%  Similarity=0.542  Sum_probs=37.2

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhh-hc----CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE-LM----NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~-~~----~~CP~Cr~~~~   61 (252)
                      ...+.|++|.+..   ..|... .|||+||-.|+.. +.    ..||.||....
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeeccc---CCcccc-cccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            4578999999999   899764 7999999999876 42    46999998653

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

Probab=97.20  E-value=0.00054  Score=48.36  Aligned_cols=54  Identities=22%  Similarity=0.279  Sum_probs=39.1

Q ss_pred             eeEEEEEEeCCeeeecCCcccccC---------CCCceEEccCCceecccChhhh---cCCCCCCC
Q 048313            4 FCVCHFVLCTTVLHCFISFSSFIF---------TLLSVAECGNGHIVCNRCCIEL---MNKCPSCR   57 (252)
Q Consensus         4 ~~~~~~~~~~~~l~C~iC~~~l~~---------~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr   57 (252)
                      ..|.....|.+.-.|.||.+.+.|         +.-++..-.|||.|-..|+.++   ...||+||
T Consensus         8 ~~v~~~~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen    8 NAVALWSWDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             EEEEEEEESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             EEEEEEeecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            345566677666679999999944         1234555469999999999985   47899997

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 ....

>PLN03086 PRLI-interacting factor K; Provisional

Probab=97.03  E-value=0.00032  Score=67.45  Aligned_cols=52  Identities=23%  Similarity=0.431  Sum_probs=46.2

Q ss_pred             eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhc
Q 048313           74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRG  129 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~  129 (252)
                      .-.+.|+|    |.|.++..++..|+..|.|..+.||..||+....+.++.+|+..
T Consensus       405 ~~~V~C~N----C~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C  456 (567)
T PLN03086        405 VDTVECRN----CKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHC  456 (567)
T ss_pred             CCeEECCC----CCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccC
Confidence            34678998    99999999999999999999999998789988888888888743

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

Probab=97.00  E-value=0.00013  Score=71.26  Aligned_cols=45  Identities=27%  Similarity=0.666  Sum_probs=38.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH   62 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~   62 (252)
                      ..|.||+|..-.   ++-+.. .|||.||..|+.+.    +.+||.|..+||.
T Consensus       642 ~~LkCs~Cn~R~---Kd~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  642 ELLKCSVCNTRW---KDAVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             hceeCCCccCch---hhHHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            468999999777   777664 89999999999874    4799999999874

>PLN03086 PRLI-interacting factor K; Provisional

Probab=97.00  E-value=0.00068  Score=65.22  Aligned_cols=116  Identities=14%  Similarity=0.265  Sum_probs=65.1

Q ss_pred             EeCCeeeecCCcccccCCCCceE-----EccCCceecc--cChhhh-------cCCCCCCCcCCcccchhHHHhheeeeE
Q 048313           11 LCTTVLHCFISFSSFIFTLLSVA-----ECGNGHIVCN--RCCIEL-------MNKCPSCRLPIGHSRSIAMEKVLESIQ   76 (252)
Q Consensus        11 ~~~~~l~C~iC~~~l~~~~~Pi~-----qc~~GH~~C~--~C~~~~-------~~~CP~Cr~~~~~~r~~~le~~~~~l~   76 (252)
                      .+.+...|+.|....   ..--+     .|.---+.|.  .|...+       ...|+.|...+.. ....-...+-...
T Consensus       403 ~~~~~V~C~NC~~~i---~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~-s~LekH~~~~Hkp  478 (567)
T PLN03086        403 MDVDTVECRNCKHYI---PSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ-GEMEKHMKVFHEP  478 (567)
T ss_pred             CCCCeEECCCCCCcc---chhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch-HHHHHHHHhcCCC
Confidence            356677899998766   22111     2333333443  243322       1468888776642 1111111111345


Q ss_pred             eeccccCCCCceeeccchHHhHhh-hCcccCcCCCCCCCCcccCh-----------hhHhhHhhcccCCCCeeE
Q 048313           77 VTCENEDHGCKEKMSYSKKYDHGK-ACHHARCSCPLAACNFVGSF-----------NQIYQHFRGVHKHAAEEF  138 (252)
Q Consensus        77 v~C~~~~~GC~~~~~~~~~~~H~~-~C~~~p~~CP~~gC~~~g~~-----------~~L~~Hl~~~H~~~~~~~  138 (252)
                      +.|+     |+..+...++..|.. .|+.+|+.|++  |+....+           ..|..|... |......+
T Consensus       479 v~Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f--C~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG~rt~~C  544 (567)
T PLN03086        479 LQCP-----CGVVLEKEQMVQHQASTCPLRLITCRF--CGDMVQAGGSAMDVRDRLRGMSEHESI-CGSRTAPC  544 (567)
T ss_pred             ccCC-----CCCCcchhHHHhhhhccCCCCceeCCC--CCCccccCccccchhhhhhhHHHHHHh-cCCcceEc
Confidence            6776     766777777888866 68888888876  8776642           367778766 33333333

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

Probab=96.93  E-value=0.00019  Score=62.49  Aligned_cols=59  Identities=25%  Similarity=0.508  Sum_probs=42.4

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCcCC-cccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRLPI-GHSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~-~~~r~~~le~~~~~l   75 (252)
                      .+.+.||||.+.+   ..|.. =.|||.||..|+..+.   ..||.||... ...+|..+.+++..+
T Consensus        11 ~~~~~C~iC~~~~---~~p~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~   73 (386)
T KOG2177|consen   11 QEELTCPICLEYF---REPVL-LPCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERL   73 (386)
T ss_pred             cccccChhhHHHh---hcCcc-ccccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHH
Confidence            4679999999999   88843 3699999999999864   6899999411 122455555544443

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

Probab=96.89  E-value=3.8e-05  Score=68.68  Aligned_cols=46  Identities=24%  Similarity=0.438  Sum_probs=38.2

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCccc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGHS   63 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~~   63 (252)
                      .+.||||+..+   +..+..=.|+|.||..|+-+.    .+.||.||+.+...
T Consensus        43 ~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   43 QVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            37899999999   887765569999999999874    37899999987643

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

Probab=96.27  E-value=0.00094  Score=55.42  Aligned_cols=55  Identities=22%  Similarity=0.385  Sum_probs=41.1

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc--ccchhHHHhheee
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG--HSRSIAMEKVLES   74 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~--~~r~~~le~~~~~   74 (252)
                      |.|.||.+-+   +.||.. .|||.||+.|..+-   ...|-+|....-  ..-...+++++.+
T Consensus       197 F~C~iCKkdy---~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~~  256 (259)
T COG5152         197 FLCGICKKDY---ESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLNK  256 (259)
T ss_pred             eeehhchhhc---cchhhh-hcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHhh
Confidence            7899999999   999875 89999999997653   368999988652  2223445665543

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

Probab=96.23  E-value=0.0017  Score=41.85  Aligned_cols=42  Identities=26%  Similarity=0.613  Sum_probs=21.0

Q ss_pred             ecCCcccccC-CCCceEEccCCceecccChhhh----cCCCCCCCcCC
Q 048313           18 CFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPI   60 (252)
Q Consensus        18 C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~   60 (252)
                      ||+|.+.+ | +..-++-|+||.-+|..|+.++    .+.||.||++.
T Consensus         1 cp~C~e~~-d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEEL-DETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B---CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCccccc-ccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78898888 4 2223445999999999998875    36899999864

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

Probab=95.70  E-value=0.0069  Score=51.93  Aligned_cols=45  Identities=22%  Similarity=0.438  Sum_probs=36.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhcC-CCCCCCcCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMN-KCPSCRLPI   60 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~-~CP~Cr~~~   60 (252)
                      +-.+|..|+.--  +..|.|...|+|+||..|.....+ .||.|++++
T Consensus         2 ~~VhCn~C~~~~--~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~i   47 (233)
T KOG4739|consen    2 DFVHCNKCFRFP--SQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSI   47 (233)
T ss_pred             ceEEeccccccC--CCCceeeeechhhhhhhhcccCCcccccccccee
Confidence            456899888754  277888888999999999876544 999999986

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

Probab=95.54  E-value=0.0093  Score=51.98  Aligned_cols=46  Identities=22%  Similarity=0.349  Sum_probs=36.9

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~~   61 (252)
                      .+.-+||+|.++.   ..|...=.|||++|.-|+.+.     .-.||.|.++..
T Consensus       237 t~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCC---CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4557899999999   888665459999999999873     248999998753

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

Probab=95.50  E-value=0.0074  Score=53.11  Aligned_cols=44  Identities=30%  Similarity=0.594  Sum_probs=36.8

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS   63 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~   63 (252)
                      +.|-||.+++   ..||.. .|||.||..|-.+.   ...|++|.+.+...
T Consensus       242 f~c~icr~~f---~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  242 FKCFICRKYF---YRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             cccccccccc---ccchhh-cCCceeehhhhccccccCCcceecccccccc
Confidence            5799999999   999875 89999999997653   26899999987533

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

Probab=95.49  E-value=0.0037  Score=57.87  Aligned_cols=45  Identities=22%  Similarity=0.490  Sum_probs=39.4

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+.|.|.||...+   .+|+.. +|||.+|..|+.+.   ...||.||.++.
T Consensus        82 ~sef~c~vc~~~l---~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRAL---YPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhc---CCCccc-cccccccHHHHHHHhccCCCCcccccccc
Confidence            6779999999999   999886 99999999998774   368999999874

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

Probab=95.37  E-value=0.005  Score=41.33  Aligned_cols=38  Identities=21%  Similarity=0.232  Sum_probs=25.3

Q ss_pred             EEEeCCeeeecCCcccccCCCCceEEccCCceecccChhhh
Q 048313            9 FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL   49 (252)
Q Consensus         9 ~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~   49 (252)
                      +.-..-.+.|||-..++   ..|+..-.|||+|-+..+..+
T Consensus         5 i~~~~~~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~   42 (57)
T PF11789_consen    5 IEGGTISLKCPITLQPF---EDPVKSKKCGHTFEKEAILQY   42 (57)
T ss_dssp             --SSB--SB-TTTSSB----SSEEEESSS--EEEHHHHHHH
T ss_pred             EeccEeccCCCCcCChh---hCCcCcCCCCCeecHHHHHHH
Confidence            33345568999999999   999987679999999888775

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.34  E-value=0.0037  Score=55.89  Aligned_cols=52  Identities=21%  Similarity=0.411  Sum_probs=40.3

Q ss_pred             EEEEEeCCeeeecCCcccccC-CCCceEEccCCceecccChhhh----cCCCCCCCcCC
Q 048313            7 CHFVLCTTVLHCFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPI   60 (252)
Q Consensus         7 ~~~~~~~~~l~C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~   60 (252)
                      |+-..|-+++ ||.|.+++ | +..-.+-|+||-.+|.-|+..+    .++||.||...
T Consensus         7 i~~sedeed~-cplcie~m-ditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175           7 IHNSEDEEDY-CPLCIEPM-DITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             cccccccccc-Cccccccc-ccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            4456677777 99999998 3 2334567999999999999864    58999999754

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

Probab=95.01  E-value=0.0076  Score=53.10  Aligned_cols=55  Identities=24%  Similarity=0.454  Sum_probs=41.1

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcC-C---cccchhHHHhhee
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLP-I---GHSRSIAMEKVLE   73 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~-~---~~~r~~~le~~~~   73 (252)
                      |.||.|...|   +.|+.+-.|||.||..|+...    ...||.|... +   +..++...++.++
T Consensus       275 LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE  337 (427)
T COG5222         275 LKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVE  337 (427)
T ss_pred             ccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHH
Confidence            8999999999   999887448999999999863    3689999763 2   2445554444443

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

Probab=94.98  E-value=0.013  Score=42.44  Aligned_cols=42  Identities=19%  Similarity=0.226  Sum_probs=30.7

Q ss_pred             ecCCcccccCCCCceEEccCCceecccChhhh------cCCCCCCCcCCc
Q 048313           18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL------MNKCPSCRLPIG   61 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~------~~~CP~Cr~~~~   61 (252)
                      ||.|..|- | .-|+....|+|.|=..|+.++      ++.||.||++..
T Consensus        35 Cp~Ck~Pg-d-~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   35 CPDCKFPG-D-DCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCccCCC-C-CCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            45555444 1 336677789999999999885      378999999754

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

Probab=94.65  E-value=0.01  Score=57.49  Aligned_cols=42  Identities=24%  Similarity=0.494  Sum_probs=34.9

Q ss_pred             eeeecCCcccccCCCC-----ceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313           15 VLHCFISFSSFIFTLL-----SVAECGNGHIVCNRCCIEL---MNKCPSCRLPI   60 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~-----Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~   60 (252)
                      .-.|+||.+.|   ..     |... .|||+|+..|+.+|   +..||+||..+
T Consensus       291 ~~~C~IC~e~l---~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  291 DELCIICLEEL---HSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             CCeeeeechhh---cccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            56899999999   55     5555 78999999999886   48999999944

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

Probab=94.33  E-value=0.017  Score=51.10  Aligned_cols=42  Identities=26%  Similarity=0.482  Sum_probs=35.1

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      -+|+||+.-.   .-|+.. .|+|.||.-|+.-.    ...|++||.++.
T Consensus         8 ~eC~IC~nt~---n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    8 KECLICYNTG---NCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             CcceeeeccC---CcCccc-cccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            4799999998   788764 79999999999863    256999999885

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

Probab=94.14  E-value=0.0098  Score=52.27  Aligned_cols=41  Identities=32%  Similarity=0.610  Sum_probs=35.2

Q ss_pred             eeeecCCcccccCCCCceEEccCCc-eecccChhhhcCCCCCCCcCC
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGH-IVCNRCCIELMNKCPSCRLPI   60 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH-~~C~~C~~~~~~~CP~Cr~~~   60 (252)
                      ...|.||+...   .+-++. +||| +.|..|-.++ +.||+||+.+
T Consensus       300 ~~LC~ICmDaP---~DCvfL-eCGHmVtCt~CGkrm-~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFL-ECGHMVTCTKCGKRM-NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEe-ecCcEEeehhhcccc-ccCchHHHHH
Confidence            46799999999   777776 8999 6899999888 6999999865

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

Probab=94.05  E-value=0.0071  Score=53.99  Aligned_cols=58  Identities=14%  Similarity=0.405  Sum_probs=42.4

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc-------chhHHHhheee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS-------RSIAMEKVLES   74 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~-------r~~~le~~~~~   74 (252)
                      ....|.+|..+|   .++...-.|=|.||.+|+-+.   ...||.|...+...       .++.|+.++.+
T Consensus        14 ~~itC~LC~GYl---iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyK   81 (331)
T KOG2660|consen   14 PHITCRLCGGYL---IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYK   81 (331)
T ss_pred             cceehhhcccee---ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHH
Confidence            446899999999   666655578999999999773   47899999876532       24555555444

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

Probab=94.02  E-value=0.0039  Score=40.99  Aligned_cols=42  Identities=36%  Similarity=0.712  Sum_probs=31.2

Q ss_pred             eeecCCcccccCCCCceEEccCCce-ecccChhhh----cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      -+|-||++-.   .+.+.. .|||. .|..|-.++    .+.||+||.++.
T Consensus         8 dECTICye~p---vdsVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHP---VDSVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCc---chHHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            4799999877   455543 57995 899996553    478999998864

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

Probab=93.88  E-value=0.023  Score=51.31  Aligned_cols=43  Identities=35%  Similarity=0.672  Sum_probs=36.3

Q ss_pred             eeeecCCcccccCCCCceEEccCCce-ecccChhhh---cCCCCCCCcCCc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      --+|-||..-.   ++-+.. +|.|. .|+.|-..+   .++||+||.++.
T Consensus       290 gkeCVIClse~---rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  290 GKECVICLSES---RDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCeeEEEecCC---cceEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            46899999988   777665 89995 999998876   378999999875

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

Probab=93.86  E-value=0.02  Score=44.67  Aligned_cols=53  Identities=26%  Similarity=0.531  Sum_probs=39.2

Q ss_pred             EEEEEeCCeeeecCCcccccCC--CCceEEccCCceecccChhhh------cCCCCCCCcCCc
Q 048313            7 CHFVLCTTVLHCFISFSSFIFT--LLSVAECGNGHIVCNRCCIEL------MNKCPSCRLPIG   61 (252)
Q Consensus         7 ~~~~~~~~~l~C~iC~~~l~~~--~~Pi~qc~~GH~~C~~C~~~~------~~~CP~Cr~~~~   61 (252)
                      +-+..|+..++|.||.+.-.|+  ..|- .| ||-.+|..|...+      .+.||+|+..+.
T Consensus        72 mnvF~d~~lYeCnIC~etS~ee~FLKPn-eC-CgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK  132 (140)
T PF05290_consen   72 MNVFLDPKLYECNICKETSAEERFLKPN-EC-CGYSICNACYANLWKFCNLYPVCPVCKTSFK  132 (140)
T ss_pred             heeecCCCceeccCcccccchhhcCCcc-cc-cchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence            3445678999999999987331  1231 33 7999999998874      379999998764

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

Probab=93.31  E-value=0.05  Score=48.19  Aligned_cols=45  Identities=31%  Similarity=0.474  Sum_probs=36.1

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      .+|.||.+-++- .+-+..-+|.|.|=.+|+++|    .++||+||.++.
T Consensus       324 veCaICms~fiK-~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIK-NDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcc-cceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            689999988743 344555679999999999997    379999999864

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.71  E-value=0.11  Score=34.44  Aligned_cols=41  Identities=29%  Similarity=0.541  Sum_probs=28.1

Q ss_pred             eecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc
Q 048313           17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG   61 (252)
Q Consensus        17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~   61 (252)
                      .|-.|...-  ++.++.  +|||++|..|+.-. -+-||.|..++.
T Consensus         9 ~~~~~~~~~--~~~~~~--pCgH~I~~~~f~~~rYngCPfC~~~~~   50 (55)
T PF14447_consen    9 PCVFCGFVG--TKGTVL--PCGHLICDNCFPGERYNGCPFCGTPFE   50 (55)
T ss_pred             eEEEccccc--cccccc--cccceeeccccChhhccCCCCCCCccc
Confidence            344455443  133433  68999999998754 278999999875

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

Probab=92.29  E-value=0.038  Score=38.57  Aligned_cols=47  Identities=28%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             eeeecCCccccc-CCCCceEEcc---CCceecccChhhh--------------cCCCCCCCcCCc
Q 048313           15 VLHCFISFSSFI-FTLLSVAECG---NGHIVCNRCCIEL--------------MNKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~-~~~~Pi~qc~---~GH~~C~~C~~~~--------------~~~CP~Cr~~~~   61 (252)
                      .++|+||+..+. +...|...|.   |+..|=..|+.++              .+.||.|+.++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999874 2244667774   6666666777664              145888888765

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

Probab=92.19  E-value=0.025  Score=51.83  Aligned_cols=45  Identities=27%  Similarity=0.446  Sum_probs=34.9

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc-----CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-----NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-----~~CP~Cr~~~~   61 (252)
                      ...-.|.||.+-=   ++- ..=+|||+.|..|+..|+     +.||.||..+.
T Consensus       367 sTFeLCKICaend---Kdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  367 STFELCKICAEND---KDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             chHHHHHHhhccC---CCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            3334599999887   663 333799999999999874     57999998874

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

Probab=92.15  E-value=0.12  Score=34.05  Aligned_cols=49  Identities=24%  Similarity=0.535  Sum_probs=33.7

Q ss_pred             eeccccCCCCceeeccchHHhHhhhCc---ccCcCCCCCCCCcccChhhHhhHhhcccC
Q 048313           77 VTCENEDHGCKEKMSYSKKYDHGKACH---HARCSCPLAACNFVGSFNQIYQHFRGVHK  132 (252)
Q Consensus        77 v~C~~~~~GC~~~~~~~~~~~H~~~C~---~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~  132 (252)
                      +.||+    |++.+....+..|...--   -..+.||.  |.... ..+|..|+...|.
T Consensus         3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~-~~~l~~Hl~~~H~   54 (54)
T PF05605_consen    3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI--CSSRV-TDNLIRHLNSQHR   54 (54)
T ss_pred             cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC--chhhh-hhHHHHHHHHhcC
Confidence            56887    777777777777764321   23578986  87653 4589999988774

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

>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=91.93  E-value=0.1  Score=42.08  Aligned_cols=36  Identities=22%  Similarity=0.515  Sum_probs=29.0

Q ss_pred             HHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCC
Q 048313           95 KYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKH  133 (252)
Q Consensus        95 ~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~  133 (252)
                      .+.|++   -.+-.|+..+|.|.|.+.+|..|.+.+|..
T Consensus        99 AR~~LN---~K~RsC~~e~C~F~GtY~eLrKHar~~HP~  134 (162)
T PF07800_consen   99 ARRFLN---AKKRSCSQESCSFSGTYSELRKHARSEHPS  134 (162)
T ss_pred             HHHHhc---cCCccCcccccccccCHHHHHHHHHhhCCC
Confidence            444543   355678888999999999999999999985

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.

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

Probab=91.62  E-value=0.049  Score=49.10  Aligned_cols=110  Identities=20%  Similarity=0.395  Sum_probs=63.1

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCCCcCCcc---cc--hhHHHhheeeeEeec-c
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPIGH---SR--SIAMEKVLESIQVTC-E   80 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~~~---~r--~~~le~~~~~l~v~C-~   80 (252)
                      |-+.-.|.||..-+   .-.-. -+|||..|..|--++     +..||.||.....   +.  ...+..    ...-| .
T Consensus        58 DEen~~C~ICA~~~---TYs~~-~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D----~~~~k~~  129 (493)
T COG5236          58 DEENMNCQICAGST---TYSAR-YPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITD----RRQWKGR  129 (493)
T ss_pred             ccccceeEEecCCc---eEEEe-ccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchh----Hhhhccc
Confidence            55667899999888   32212 269999999997764     4789999986431   11  111110    00011 2


Q ss_pred             ccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCccc-ChhhHhhHhhcccCC
Q 048313           81 NEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVG-SFNQIYQHFRGVHKH  133 (252)
Q Consensus        81 ~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~  133 (252)
                      +.+.|    +.|.+-..-++.=..-...||...|..+- ...+|..|++.+|..
T Consensus       130 ~EK~G----I~y~~E~v~~E~~~LL~F~CP~skc~~~C~~~k~lk~H~K~~H~~  179 (493)
T COG5236         130 EEKVG----IFYEGEDVRDEMEDLLSFKCPKSKCHRRCGSLKELKKHYKAQHGF  179 (493)
T ss_pred             cccee----eeecchHHHHHHHHHHHhcCCchhhhhhhhhHHHHHHHHHhhcCc
Confidence            22222    34444333333333344678877544332 368999999998874

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=89.96  E-value=0.25  Score=32.31  Aligned_cols=38  Identities=29%  Similarity=0.643  Sum_probs=21.3

Q ss_pred             eecCCcccccCCCC--------ceEEcc-CCceecccChh---hhcCCCCCCC
Q 048313           17 HCFISFSSFIFTLL--------SVAECG-NGHIVCNRCCI---ELMNKCPSCR   57 (252)
Q Consensus        17 ~C~iC~~~l~~~~~--------Pi~qc~-~GH~~C~~C~~---~~~~~CP~Cr   57 (252)
                      .|--|..++   ..        ..|+|+ |++.||-.|=.   .....||-|.
T Consensus         1 ~CfgC~~~~---~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    1 YCFGCQKPF---PDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             EETTTTEE----TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CCccCCCCC---CCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            366788888   44        469998 89999999932   2237999884

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

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

Probab=89.95  E-value=0.087  Score=50.02  Aligned_cols=46  Identities=17%  Similarity=0.383  Sum_probs=38.0

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhh--------cCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--------MNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--------~~~CP~Cr~~~~   61 (252)
                      +.....|.+|.++.   +++|. ..|-|.||.-|+...        .-.||+|..++.
T Consensus       533 nk~~~~C~lc~d~a---ed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  533 NKGEVECGLCHDPA---EDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccCceeecccCChh---hhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            45668999999999   99975 489999999999652        358999998764

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=89.75  E-value=0.34  Score=32.47  Aligned_cols=37  Identities=27%  Similarity=0.572  Sum_probs=24.9

Q ss_pred             eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccC
Q 048313           74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGS  119 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~  119 (252)
                      ...++|||    |++.+.+.-..--+.   -.+|.||.  |+|+|+
T Consensus        25 ~v~F~CPn----CGe~~I~Rc~~CRk~---g~~Y~Cp~--CGF~GP   61 (61)
T COG2888          25 AVKFPCPN----CGEVEIYRCAKCRKL---GNPYRCPK--CGFEGP   61 (61)
T ss_pred             eeEeeCCC----CCceeeehhhhHHHc---CCceECCC--cCccCC
Confidence            45789998    887666655432221   36789985  999884

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

Probab=88.45  E-value=0.13  Score=46.60  Aligned_cols=45  Identities=18%  Similarity=0.391  Sum_probs=35.9

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCcCC
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRLPI   60 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (252)
                      |.++-.||||+---   -..+++ +|||.-|+.|+.+..   +.|-.|+..+
T Consensus       419 ~sEd~lCpICyA~p---i~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv  466 (489)
T KOG4692|consen  419 DSEDNLCPICYAGP---INAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTV  466 (489)
T ss_pred             CcccccCcceeccc---chhhcc-CCCCchHHHHHHHHHhcCCeeeEeccee
Confidence            56677899998766   577887 999999999999852   5677787754

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=88.03  E-value=0.22  Score=34.65  Aligned_cols=38  Identities=24%  Similarity=0.544  Sum_probs=23.6

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh--cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--~~~CP~Cr~~~~   61 (252)
                      +.||.|..+|   .+     ..|+..|..|-...  ...||.|..++.
T Consensus         2 ~~CP~C~~~L---~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le   41 (70)
T PF07191_consen    2 NTCPKCQQEL---EW-----QGGHYHCEACQKDYKKEAFCPDCGQPLE   41 (70)
T ss_dssp             -B-SSS-SBE---EE-----ETTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred             CcCCCCCCcc---EE-----eCCEEECccccccceecccCCCcccHHH
Confidence            6899999999   32     34899999998763  378999999875

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

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

Probab=87.48  E-value=0.11  Score=52.54  Aligned_cols=46  Identities=26%  Similarity=0.490  Sum_probs=34.9

Q ss_pred             eeecCCccccc--CCCCceEEcc-CCceecccChhhh-----cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFI--FTLLSVAECG-NGHIVCNRCCIEL-----MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~--~~~~Pi~qc~-~GH~~C~~C~~~~-----~~~CP~Cr~~~~   61 (252)
                      =+|+||+.++-  |.+-|-..|. |-|-|=.+|+-||     ..+||.||..++
T Consensus      1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            36999999881  1224666776 8888888998887     378999998764

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.93  E-value=0.35  Score=41.77  Aligned_cols=45  Identities=18%  Similarity=0.318  Sum_probs=35.9

Q ss_pred             CeeeecCCcccccCCCCce---EEccCCceecccChhhhc---CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSV---AECGNGHIVCNRCCIELM---NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi---~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~~   61 (252)
                      ..+.||+|...|   ...+   +.-++||++|..|.+++.   ..||+|..++.
T Consensus       220 ~ryiCpvtrd~L---tNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk  270 (303)
T KOG3039|consen  220 KRYICPVTRDTL---TNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK  270 (303)
T ss_pred             cceecccchhhh---cCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence            569999999999   5432   333689999999999973   57999988875

>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A

Probab=86.87  E-value=0.28  Score=26.38  Aligned_cols=23  Identities=26%  Similarity=0.703  Sum_probs=17.4

Q ss_pred             CCCCCCCCcccChhhHhhHhhcccC
Q 048313          108 SCPLAACNFVGSFNQIYQHFRGVHK  132 (252)
Q Consensus       108 ~CP~~gC~~~g~~~~L~~Hl~~~H~  132 (252)
                      .|+.  |+|.....+|..|++..|.
T Consensus         2 ~C~~--C~y~t~~~~l~~H~~~~H~   24 (24)
T PF13909_consen    2 KCPH--CSYSTSKSNLKRHLKRHHP   24 (24)
T ss_dssp             E-SS--SS-EESHHHHHHHHHHHHS
T ss_pred             CCCC--CCCcCCHHHHHHHHHhhCc
Confidence            5764  9999888999999988774

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

Probab=86.37  E-value=0.28  Score=44.51  Aligned_cols=46  Identities=26%  Similarity=0.503  Sum_probs=33.7

Q ss_pred             EeCCeeeecCCcccccCCCCceEEccCCceec-ccChhhhcCCCCCCCcCCc
Q 048313           11 LCTTVLHCFISFSSFIFTLLSVAECGNGHIVC-NRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        11 ~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C-~~C~~~~~~~CP~Cr~~~~   61 (252)
                      .++....|.||.+-.   ++-++. +|||+-| -.|...+ .+||+||+.+.
T Consensus       301 ~~~~p~lcVVcl~e~---~~~~fv-pcGh~ccct~cs~~l-~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEP---KSAVFV-PCGHVCCCTLCSKHL-PQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCc---cceeee-cCCcEEEchHHHhhC-CCCchhHHHHH
Confidence            345567899999988   787776 8999865 2333344 67999998764

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

Probab=86.32  E-value=0.43  Score=43.87  Aligned_cols=44  Identities=20%  Similarity=0.283  Sum_probs=34.3

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRL   58 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~   58 (252)
                      ..|.|||=.+---|+.||+.. .|||+++..=+.++.      -+||.|-.
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            568999988877777889765 899999999888863      35666644

>PF04641 Rtf2: Rtf2 RING-finger

Probab=86.30  E-value=0.61  Score=40.90  Aligned_cols=49  Identities=22%  Similarity=0.290  Sum_probs=37.3

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc--CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM--NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~--~~CP~Cr~~~~   61 (252)
                      ...|.|||....|-+...=++.=+|||+|+..++..+.  ..||.|..++.
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFT  161 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccc
Confidence            56799999999992211123444699999999999884  47999999976

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=85.73  E-value=1.1  Score=29.99  Aligned_cols=37  Identities=27%  Similarity=0.670  Sum_probs=22.5

Q ss_pred             eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccC
Q 048313           74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGS  119 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~  119 (252)
                      ...+.|||    |++.+.+.-.+--+   .-.+|.||.  |+|+|+
T Consensus        23 ~~~F~CPn----CG~~~I~RC~~CRk---~~~~Y~CP~--CGF~GP   59 (59)
T PRK14890         23 AVKFLCPN----CGEVIIYRCEKCRK---QSNPYTCPK--CGFEGP   59 (59)
T ss_pred             cCEeeCCC----CCCeeEeechhHHh---cCCceECCC--CCCcCc
Confidence            35678887    77763333222111   236789985  999884

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

Probab=85.42  E-value=0.41  Score=43.71  Aligned_cols=46  Identities=22%  Similarity=0.434  Sum_probs=34.6

Q ss_pred             CCeeeecCCcccccCCCCce-----E--EccCCceecccChhhhc----------CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSV-----A--ECGNGHIVCNRCCIELM----------NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi-----~--qc~~GH~~C~~C~~~~~----------~~CP~Cr~~~~   61 (252)
                      .....|.||.+..++   +.     +  .-.|-|.||..|+.+|.          ..||.||.+..
T Consensus       159 s~~k~CGICme~i~e---k~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINE---KAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccc---cchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            345789999999843   33     2  12578999999998863          57999998765

>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=84.78  E-value=0.7  Score=37.33  Aligned_cols=55  Identities=24%  Similarity=0.521  Sum_probs=43.4

Q ss_pred             CCCCCCcCC-cccchhHHHhheeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCC
Q 048313           52 KCPSCRLPI-GHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCP  110 (252)
Q Consensus        52 ~CP~Cr~~~-~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP  110 (252)
                      .||.||..+ +.+-....++.++.-+=.|...  +|...++|.++++|.+.  --|..-|
T Consensus        82 ~CPLCRG~V~GWtvve~AR~~LN~K~RsC~~e--~C~F~GtY~eLrKHar~--~HP~~rP  137 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVVEPARRFLNAKKRSCSQE--SCSFSGTYSELRKHARS--EHPSARP  137 (162)
T ss_pred             cCccccCceeceEEchHHHHHhccCCccCccc--ccccccCHHHHHHHHHh--hCCCCCC
Confidence            599999986 4555566788888888899865  99999999999999874  2344444

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.

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

Probab=84.51  E-value=0.28  Score=45.63  Aligned_cols=30  Identities=20%  Similarity=0.345  Sum_probs=27.1

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChh
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCI   47 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~   47 (252)
                      +.|.||||...+   +.||.. +|||..|..|-.
T Consensus         3 eelkc~vc~~f~---~epiil-~c~h~lc~~ca~   32 (699)
T KOG4367|consen    3 EELKCPVCGSFY---REPIIL-PCSHNLCQACAR   32 (699)
T ss_pred             ccccCceehhhc---cCceEe-ecccHHHHHHHH
Confidence            569999999999   999987 899999999964

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

Probab=83.76  E-value=0.7  Score=41.24  Aligned_cols=77  Identities=19%  Similarity=0.313  Sum_probs=51.7

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCcee-ecc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEK-MSY   92 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~-~~~   92 (252)
                      +-.|.-|..++   ..-=..=.|-|+||-.|-..- .+.||.|..++     .-+|+....-.+-|. ...||..+ +.-
T Consensus        90 VHfCd~Cd~PI---~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~V-----qrIeq~~~g~iFmC~-~~~GC~RTyLsq  160 (389)
T KOG2932|consen   90 VHFCDRCDFPI---AIYGRMIPCKHVFCLECARSDSDKICPLCDDRV-----QRIEQIMMGGIFMCA-APHGCLRTYLSQ  160 (389)
T ss_pred             eEeecccCCcc---eeeecccccchhhhhhhhhcCccccCcCcccHH-----HHHHHhcccceEEee-cchhHHHHHhhH
Confidence            34588888877   432223468999999996432 36899998754     345555555556677 56788864 566


Q ss_pred             chHHhHhh
Q 048313           93 SKKYDHGK  100 (252)
Q Consensus        93 ~~~~~H~~  100 (252)
                      .|++.|..
T Consensus       161 rDlqAHIn  168 (389)
T KOG2932|consen  161 RDLQAHIN  168 (389)
T ss_pred             HHHHHHhh
Confidence            77777764

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

Probab=83.48  E-value=0.44  Score=44.47  Aligned_cols=43  Identities=19%  Similarity=0.363  Sum_probs=34.1

Q ss_pred             CeeeecCCcccccCCCCce---EEccCCceecccChhhhc-CCCCCCCcC
Q 048313           14 TVLHCFISFSSFIFTLLSV---AECGNGHIVCNRCCIELM-NKCPSCRLP   59 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi---~qc~~GH~~C~~C~~~~~-~~CP~Cr~~   59 (252)
                      ++-.||+|++-|   .+.+   ..-.|.|.|=.+|..+|. ..||+||--
T Consensus       174 ELPTCpVCLERM---D~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~  220 (493)
T KOG0804|consen  174 ELPTCPVCLERM---DSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYC  220 (493)
T ss_pred             cCCCcchhHhhc---CccccceeeeecccccchHHHhhcccCcChhhhhh
Confidence            445799999999   4433   555689999999999974 689999864

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=83.09  E-value=0.47  Score=26.48  Aligned_cols=21  Identities=19%  Similarity=0.050  Sum_probs=10.2

Q ss_pred             ecCCcccccCCCCceEEcc-CCcee
Q 048313           18 CFISFSSFIFTLLSVAECG-NGHIV   41 (252)
Q Consensus        18 C~iC~~~l~~~~~Pi~qc~-~GH~~   41 (252)
                      ||.|...+   ..-...|+ |||.|
T Consensus         3 CP~C~~~V---~~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    3 CPECGAEV---PESAKFCPHCGYDF   24 (26)
T ss_pred             CCCCcCCc---hhhcCcCCCCCCCC
Confidence            56665555   33333454 55543

Several members are annotated as putative helicases.

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

Probab=82.98  E-value=1  Score=29.53  Aligned_cols=28  Identities=21%  Similarity=0.445  Sum_probs=24.0

Q ss_pred             cCCCCCCCCcccChhhHhhHhhcccCCCCe
Q 048313          107 CSCPLAACNFVGSFNQIYQHFRGVHKHAAE  136 (252)
Q Consensus       107 ~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~  136 (252)
                      +.||+  |+...+..+|..|+...|.....
T Consensus         3 f~CP~--C~~~~~~~~L~~H~~~~H~~~~~   30 (54)
T PF05605_consen    3 FTCPY--CGKGFSESSLVEHCEDEHRSESK   30 (54)
T ss_pred             cCCCC--CCCccCHHHHHHHHHhHCcCCCC
Confidence            68997  99877889999999999997654

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

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

Probab=82.96  E-value=0.6  Score=42.70  Aligned_cols=47  Identities=23%  Similarity=0.518  Sum_probs=34.0

Q ss_pred             CCeeeecCCcccccCC----------CCceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313           13 TTVLHCFISFSSFIFT----------LLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPI   60 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~----------~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~   60 (252)
                      .++-.|.||.+-++.+          ..|-.. +|||++=-.|...|   ++.||+||.|+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcc
Confidence            3456799999886430          113333 78999988998776   58999999994

>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type

Probab=82.90  E-value=0.7  Score=25.41  Aligned_cols=22  Identities=32%  Similarity=0.653  Sum_probs=14.8

Q ss_pred             eeccccCCCCceeeccchHHhHhhhC
Q 048313           77 VTCENEDHGCKEKMSYSKKYDHGKAC  102 (252)
Q Consensus        77 v~C~~~~~GC~~~~~~~~~~~H~~~C  102 (252)
                      ++|++    |+.++....+..|+..|
T Consensus         3 ~~C~~----CgR~F~~~~l~~H~~~C   24 (25)
T PF13913_consen    3 VPCPI----CGRKFNPDRLEKHEKIC   24 (25)
T ss_pred             CcCCC----CCCEECHHHHHHHHHhc
Confidence            45664    77777777777777666

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

Probab=82.57  E-value=1  Score=40.01  Aligned_cols=60  Identities=22%  Similarity=0.476  Sum_probs=39.5

Q ss_pred             CeeeecCCcccccC---CCCceEEccCCceecccChhhhc----CCCCCCCcCCc--------ccchhHHHhheee
Q 048313           14 TVLHCFISFSSFIF---TLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG--------HSRSIAMEKVLES   74 (252)
Q Consensus        14 ~~l~C~iC~~~l~~---~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~--------~~r~~~le~~~~~   74 (252)
                      ..+.|-||.+.+-.   ...|-.- .|||.+|..|..++.    ..||.||.+..        ..+|.++-+.+..
T Consensus         2 ~~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~   76 (296)
T KOG4185|consen    2 SFPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEH   76 (296)
T ss_pred             CCCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHH
Confidence            45789999887621   1223222 489999999999863    46999999842        2345555555544

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

Probab=82.03  E-value=0.21  Score=49.60  Aligned_cols=42  Identities=21%  Similarity=0.331  Sum_probs=31.0

Q ss_pred             eecCCcccccC--CCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           17 HCFISFSSFIF--TLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        17 ~C~iC~~~l~~--~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .||+|..-..|  ...+   =.|+|.||..|+..|   .+.||+||..+.
T Consensus       125 ~CP~Ci~s~~DqL~~~~---k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESE---KHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhHHHHHHHHHhhccc---cccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            58899877644  1112   147999999999876   379999998764

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

Probab=81.49  E-value=0.42  Score=44.41  Aligned_cols=33  Identities=21%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             CeeeecCCc-ccccCCCCce--EEccCCceecccChhhh
Q 048313           14 TVLHCFISF-SSFIFTLLSV--AECGNGHIVCNRCCIEL   49 (252)
Q Consensus        14 ~~l~C~iC~-~~l~~~~~Pi--~qc~~GH~~C~~C~~~~   49 (252)
                      ....|.||. +..   ...-  +...|||.||..|+.+.
T Consensus       145 ~~~~C~iC~~e~~---~~~~~f~~~~C~H~fC~~C~k~~  180 (384)
T KOG1812|consen  145 PKEECGICFVEDP---EAEDMFSVLKCGHRFCKDCVKQH  180 (384)
T ss_pred             ccccCccCccccc---cHhhhHHHhcccchhhhHHhHHH
Confidence            356899999 333   2211  22458999999999863

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	252
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	6e-21
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-07
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-04

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A Length = 193

 Score = 86.4 bits (213), Expect = 6e-21
 Identities = 34/190 (17%), Positives = 62/190 (32%), Gaps = 13/190 (6%)

Query: 71  VLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHA--RCSCPLAACNFVGSFNQIYQHFR 128
           V  S+   C+    GC+  + +++K DH + C      C CP A+C + GS + +  H  
Sbjct: 1   VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60

Query: 129 GVHK----HAAEEFVYDKVLRITLSVHHDLIFLQEEKNGDLFILNNSTEPHG---YRISV 181
             HK       E+ V+             ++         + +L    +  G   +   V
Sbjct: 61  HQHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 120

Query: 182 NCIAPPC-KGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSD---FFGS 237
             I          Y +          + +  +SI         +   L+  +     F  
Sbjct: 121 QLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFAE 180

Query: 238 YGQLNLEVRI 247
            G L + V I
Sbjct: 181 NGNLGINVTI 190

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

 Score = 47.1 bits (112), Expect = 3e-07
 Identities = 20/84 (23%), Positives = 30/84 (35%), Gaps = 9/84 (10%)

Query: 34  ECGNGHIVCNRCCIELM----NKCPSCRLPIGHS---RSIAMEKVLESIQVTCENEDHGC 86
           +   GH  C  C I+ +    +KCP     +  +        ++ + S+ V C N   GC
Sbjct: 33  QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPN--EGC 90

Query: 87  KEKMSYSKKYDHGKACHHARCSCP 110
             KM      DH   C  A     
Sbjct: 91  LHKMELRHLEDHQAHCEFALLEHH 114

>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 = 38.9 bits (90), Expect = 5e-04
 Identities = 26/107 (24%), Positives = 35/107 (32%), Gaps = 11/107 (10%)

Query: 34  ECGNGHIVCNRCCIELMN----KCPSCRLPIGHS---RSIAMEKVLESIQVTCENEDHGC 86
           +   GH  C  C I+ +     KCP     +  +        ++ + S+ V C NE  GC
Sbjct: 33  QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNE--GC 90

Query: 87  KEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKH 133
             KM      DH   C  A   CP   C        I  H       
Sbjct: 91  LHKMELRHLEDHQAHCEFALMDCP--QCQRPFQKFHINIHILKDCPR 135

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	252
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	100.0
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.87
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.62
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.6
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.59
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.89
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.84
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.77
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.76
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.73
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.72
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.72
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.71
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.7
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.7
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.7
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.7
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.69
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.68
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.68
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.67
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.67
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.65
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.64
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.63
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.61
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.6
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.54
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.53
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.52
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.51
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.5
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.49
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.49
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.48
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.47
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.47
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.44
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.42
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.41
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.41
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.39
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.38
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.35
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.34
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.34
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.32
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.29
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.27
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.25
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.22
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.2
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.19
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.16
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.11
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.1
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.01
2yre_A	100	F-box only protein 30; zinc binding, E3 ubiquitin	97.99
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	97.95
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.93
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.93
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.88
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.85
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	97.84
2yre_A	100	F-box only protein 30; zinc binding, E3 ubiquitin	97.83
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	97.79
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.7
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.64
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.57
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	97.45
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.43
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	97.18
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	96.86
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	95.48
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	94.77
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	94.64
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	94.26
2eod_A	66	TNF receptor-associated factor 4; zinc binding, NF	94.0
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	93.89
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.65
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	91.87
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	91.8
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	90.09
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	88.78
2gli_A	155	Protein (five-finger GLI); protein/DNA complex, tr	88.38
1ubd_C	124	Protein (YY1 zinc finger domain); transcription in	88.17
1z60_A	59	TFIIH basal transcription factor complex P44 subun	87.75
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	87.6
2rpc_A	155	Zinc finger protein ZIC 3; ZF-C2H2, zinc finger pr	86.95
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	86.91
2j7j_A	85	Transcription factor IIIA; zinc finger module, alt	85.84
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	85.29
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	84.54
1wg2_A	64	Zinc finger (AN1-like) family protein; riken struc	84.39
2gli_A	155	Protein (five-finger GLI); protein/DNA complex, tr	84.03
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	83.81
1wfh_A	64	Zinc finger (AN1-like) family protein; ZF-AN1 doma	83.12
1wjp_A	107	Zinc finger protein 295; ZF-C2H2 domain, zinc bind	82.6
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	81.22
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	81.05

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A

Probab=100.00  E-value=4e-36  Score=250.79  Aligned_cols=178  Identities=19%  Similarity=0.346  Sum_probs=106.1

Q ss_pred             heeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCC--CCcccChhhHhhHhhcccCCCCeeEEeCcEEEEEE
Q 048313           71 VLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAA--CNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITL  148 (252)
Q Consensus        71 ~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~g--C~~~g~~~~L~~Hl~~~H~~~~~~~~y~~~~~~~l  148 (252)
                      +++++++||+|+.+||++.++|.++.+||++|.|+|+.||.+|  |+|+|+.++|..|++.+|+|.... .......+..
T Consensus         1 v~~s~~~pC~~~~~GC~~~~~y~~~~~He~~C~f~p~~Cp~~g~~C~~~G~~~~l~~H~~~~H~~~~~~-~g~~i~f~~~   79 (193)
T 2a25_A            1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTL-QGEDIVFLAT   79 (193)
T ss_dssp             -----------------------------------CEECCCC--CCCCEECSTTHHHHHHHHCTTSCEE-ESSEEEEEEE
T ss_pred             CccceEecCCCCCCCCCcccccccccchhhcCCCCCccCCCCCCCCcCCCCHHHHHHHHHHHCCCccee-cCceEEEEec
Confidence            4688999999999999999999999999999999999999987  999999999999999999985421 1111111222


Q ss_pred             ec----cCcEEEEEEeeCCcEEEEecC--CCCcc---cEEEEEeecCC-CCCCeEEEEEEeeCCCeEEEeeeeeeecccc
Q 048313          149 SV----HHDLIFLQEEKNGDLFILNNS--TEPHG---YRISVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCTKSIQNWD  218 (252)
Q Consensus       149 ~~----~~~~~vl~~~~~~~lFll~~~--~~~~g---~~vsv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~~~  218 (252)
                      ++    +.+|++ +.+++|+.|+|...  ..+.|   .+++|+||||. +|++|+|+|++.+++++|+||++++++++..
T Consensus        80 ~~~l~~~~~~~~-v~~~~g~~Fll~~~~~~~~~g~~~~~~~V~~ig~~~ea~~f~Y~l~~~~~~r~L~~~~~~~s~~e~~  158 (193)
T 2a25_A           80 DINLPGAVDWVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGI  158 (193)
T ss_dssp             CCC----CEEEE-EEEETTEEEEEEEEEC------CEEEEEEEESSCHHHHTTEEEEEEEEETTEEEEEEECCEETTTCS
T ss_pred             ccccccceeEEE-EEEecCceEEEEEEEeccCCCCcEEEEEEEEeCCcchhcceEEEEEEEcCCCEEEEEEEEEehhhcc
Confidence            22    235654 44678888988753  33445   47899999999 8999999999999999999999999987522


Q ss_pred             cCCCCCcceeEEcCcc---cCCCCceeEEEEEecc
Q 048313          219 ENNPPSVASLLVPSDF---FGSYGQLNLEVRIQHP  250 (252)
Q Consensus       219 ~~~~~~~~fL~VP~~~---l~~~~~l~l~V~I~~~  250 (252)
                      .+..++.+||+||..+   |+++|+|+|+|+|++.
T Consensus       159 ~~~~~~~d~L~ip~~~~~~f~~~~~L~l~v~I~~~  193 (193)
T 2a25_A          159 ATAIMNSDCLVFDTSIAQLFAENGNLGINVTISMC  193 (193)
T ss_dssp             HHHHHTTCSEEEEHHHHHHHCSSSEEEEEEEEEEC
T ss_pred             cccccCCCEEEEcHHHHHhhcCCCeEEEEEEEEeC
Confidence            2236789999999754   6777899999999874

>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=99.87  E-value=2.4e-23  Score=169.90  Aligned_cols=120  Identities=24%  Similarity=0.335  Sum_probs=107.8

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc---cchhHHHhheeeeEeeccccCCCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH---SRSIAMEKVLESIQVTCENEDHGC   86 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l~v~C~~~~~GC   86 (252)
                      +.|.||||.+++   .+|+. +.|||+||..|+.++    ...||.||.++..   .++.++++++++++|.|+|.  ||
T Consensus        17 ~~~~C~IC~~~~---~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~--GC   90 (170)
T 3hcs_A           17 SKYECPICLMAL---REAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNE--GC   90 (170)
T ss_dssp             GGGBCTTTCSBC---SSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTSEEECCST--TC
T ss_pred             CCCCCCCCChhh---cCcEE-CCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHHhhcccCCCCC--CC
Confidence            568999999999   99964 799999999999886    2489999999864   47889999999999999985  99


Q ss_pred             ceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeEEeC
Q 048313           87 KEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYD  141 (252)
Q Consensus        87 ~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y~  141 (252)
                      ++.+++.++++|+++|+|+++.||  +|++.+.+.+|..|+...+..+.....|-
T Consensus        91 ~~~~~~~~l~~H~~~C~~~~v~C~--~C~~~~~r~~l~~H~~~~C~~r~~~C~~C  143 (170)
T 3hcs_A           91 LHKMELRHLEDHQAHCEFALMDCP--QCQRPFQKFHINIHILKDCPRRQVSCDNC  143 (170)
T ss_dssp             CCEEEGGGHHHHHTTCTTSEEECT--TTCCEEEGGGHHHHHHHTCTTCEEECTTT
T ss_pred             CceecHhHHHHHHhcCCceeeECC--CCChHHHHHHHHHHhhhhCCCCCeECCCC
Confidence            999999999999999999999998  89999999999999998888877666553

>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=99.62  E-value=1.2e-16  Score=122.56  Aligned_cols=87  Identities=26%  Similarity=0.453  Sum_probs=75.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCcc---cchhHHHhheeeeEeeccccCCCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIGH---SRSIAMEKVLESIQVTCENEDHGC   86 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~~---~r~~~le~~~~~l~v~C~~~~~GC   86 (252)
                      +.+.|+||.+.+   ..|+. ..|||+||..|+.++.    ..||.||.++..   .++..++++++++++.|+|  .||
T Consensus        17 ~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~l~v~C~n--~gC   90 (118)
T 3hct_A           17 SKYECPICLMAL---REAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPN--EGC   90 (118)
T ss_dssp             GGGBCTTTCSBC---SSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTSEEECSS--TTC
T ss_pred             CCCCCCcCChhh---cCeEE-CCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHccceeECCC--CCC
Confidence            458999999999   99976 5899999999998852    489999999863   3788999999999999998  599


Q ss_pred             ceeeccchHHhHhhhCcccC
Q 048313           87 KEKMSYSKKYDHGKACHHAR  106 (252)
Q Consensus        87 ~~~~~~~~~~~H~~~C~~~p  106 (252)
                      +|.+++.++++|+++|.+..
T Consensus        91 ~~~~~~~~l~~H~~~c~~~~  110 (118)
T 3hct_A           91 LHKMELRHLEDHQAHCEFAL  110 (118)
T ss_dssp             CCEEEGGGSGGGTSSSCC--
T ss_pred             CCEEeeHHHHHHHHHchhhh
Confidence            99999999999999987753

>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=99.60  E-value=3e-16  Score=119.83  Aligned_cols=86  Identities=26%  Similarity=0.476  Sum_probs=75.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc----cchhHHHhheeeeEeeccccCCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH----SRSIAMEKVLESIQVTCENEDHG   85 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~----~r~~~le~~~~~l~v~C~~~~~G   85 (252)
                      +.+.||||.+++   ..|+. ..|||.||..|+.++    ...||.||.++..    ..+..+.++++++++.|+|.  |
T Consensus        22 ~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~l~v~C~~~--g   95 (116)
T 1rmd_A           22 KSISCQICEHIL---ADPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSLMVKCPAQ--D   95 (116)
T ss_dssp             HHTBCTTTCSBC---SSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHHCEEECCST--T
T ss_pred             CCCCCCCCCcHh---cCcEE-cCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHHhcCCCCCC--C
Confidence            357899999999   99976 589999999999875    3589999999752    34678999999999999997  9


Q ss_pred             CceeeccchHHhHhhhCccc
Q 048313           86 CKEKMSYSKKYDHGKACHHA  105 (252)
Q Consensus        86 C~~~~~~~~~~~H~~~C~~~  105 (252)
                      |++.+++.++++|+++|.+.
T Consensus        96 C~~~~~~~~~~~H~~~C~~~  115 (116)
T 1rmd_A           96 CNEEVSLEKYNHHVSSHKES  115 (116)
T ss_dssp             CCCEEEHHHHHHHHHTSCCC
T ss_pred             CcchhhHhHHHHHHHHhhcc
Confidence            99999999999999999874

>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=99.59  E-value=8.4e-17  Score=127.40  Aligned_cols=85  Identities=19%  Similarity=0.346  Sum_probs=73.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCc------------ccchhHHHhheeeeEe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG------------HSRSIAMEKVLESIQV   77 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~------------~~r~~~le~~~~~l~v   77 (252)
                      +.|.||||.+++   ..|+ +..|||+||..|+.++.    ..||.||.++.            ..++.++++.|.++++
T Consensus        30 ~~~~C~IC~~~~---~~pv-~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~L~v  105 (141)
T 3knv_A           30 AKYLCSACRNVL---RRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESLPA  105 (141)
T ss_dssp             GGGBCTTTCSBC---SSEE-ECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHTSEE
T ss_pred             cCcCCCCCChhh---cCcE-ECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHccccc
Confidence            568999999999   9995 46999999999999862    37999999752            1267889999999999


Q ss_pred             eccccCCCCceeeccchHHh-HhhhCcc
Q 048313           78 TCENEDHGCKEKMSYSKKYD-HGKACHH  104 (252)
Q Consensus        78 ~C~~~~~GC~~~~~~~~~~~-H~~~C~~  104 (252)
                      .|+|  .||.|.+.+.++++ |+..|.-
T Consensus       106 ~Cpn--~GC~~~~~l~~l~~~H~~~~~~  131 (141)
T 3knv_A          106 VCPS--DGCTWKGTLKEYESCHEGRCPL  131 (141)
T ss_dssp             ECCS--TTCCCEEEHHHHHHHTTTCCHH
T ss_pred             ccCC--CCCCCEeEHHHHHHHHHHHhHH
Confidence            9999  59999999999998 9988753

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

Probab=98.89  E-value=2.5e-10  Score=80.48  Aligned_cols=59  Identities=12%  Similarity=0.192  Sum_probs=48.2

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      .+.+.||||.+++   .+|+.. .|||+||..|+.++    ...||.||.++.   ..+|.+++++++.+
T Consensus         6 ~~~~~C~IC~~~~---~~Pv~~-~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~   71 (78)
T 1t1h_A            6 PEYFRCPISLELM---KDPVIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALW   71 (78)
T ss_dssp             SSSSSCTTTSCCC---SSEEEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHH
T ss_pred             cccCCCCCccccc---cCCEEc-CCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHH
Confidence            4679999999999   999875 89999999999875    357999999875   34677777776654

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

Probab=98.84  E-value=6.3e-10  Score=80.85  Aligned_cols=63  Identities=16%  Similarity=0.326  Sum_probs=50.6

Q ss_pred             CCeeeecCCcccccCCCCceEEcc-CCceecccChhhhc-----CCCCCCCcCCc----ccchhHHHhheeeeEeec
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIELM-----NKCPSCRLPIG----HSRSIAMEKVLESIQVTC   79 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~-----~~CP~Cr~~~~----~~r~~~le~~~~~l~v~C   79 (252)
                      .+.+.||||.+.+   ..|+.. . |||.||..|+.++.     ..||.||.++.    ..+|..++++++.++-.-
T Consensus        11 ~~~~~C~IC~~~~---~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~~~~   83 (92)
T 3ztg_A           11 PDELLCLICKDIM---TDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFKNET   83 (92)
T ss_dssp             CTTTEETTTTEEC---SSCEEC-TTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHHHHH
T ss_pred             CcCCCCCCCChhh---cCceEC-CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHHHHH
Confidence            3568999999999   999865 7 99999999998751     48999999862    457888888887665443

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

Probab=98.77  E-value=9.7e-10  Score=77.39  Aligned_cols=55  Identities=16%  Similarity=0.452  Sum_probs=43.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----------cCCCCCCCcCCc---ccchhHHHhhe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----------MNKCPSCRLPIG---HSRSIAMEKVL   72 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----------~~~CP~Cr~~~~---~~r~~~le~~~   72 (252)
                      +.+.|+||.+.+   ..|+. ..|||.||..|+.++          ...||.||.++.   ..+|..+++++
T Consensus        11 ~~~~C~IC~~~~---~~p~~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~lv   78 (79)
T 2egp_A           11 EEVTCPICLELL---TEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLANIV   78 (79)
T ss_dssp             CCCEETTTTEEC---SSCCC-CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSCCCC
T ss_pred             cCCCCcCCCccc---CCeeE-CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHHHhh
Confidence            568999999999   89976 489999999999864          247999999875   23555555554

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

Probab=98.76  E-value=7.9e-10  Score=81.56  Aligned_cols=60  Identities=20%  Similarity=0.522  Sum_probs=48.8

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeeeE
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESIQ   76 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l~   76 (252)
                      +.+.|+||.+.+   ..|+..-.|||.||..|+.++   ...||.||.++.   ..+|..++++++.++
T Consensus        21 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           21 DLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVKSLN   86 (99)
T ss_dssp             HHTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             CCCCcccCChhh---CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHHHHH
Confidence            357899999999   999765479999999999886   368999999886   456888888776543

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

Probab=98.73  E-value=1.9e-09  Score=76.67  Aligned_cols=55  Identities=18%  Similarity=0.454  Sum_probs=44.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---------cCCCCCCCcCCc---ccchhHHHhhe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---------MNKCPSCRLPIG---HSRSIAMEKVL   72 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---------~~~CP~Cr~~~~---~~r~~~le~~~   72 (252)
                      +.+.|+||.+.+   ..|+.. .|||.||..|+.++         ...||.||..+.   ..+|..+++++
T Consensus        18 ~~~~C~IC~~~~---~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~v   84 (85)
T 2ecv_A           18 EEVTCPICLELL---TQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVANIV   84 (85)
T ss_dssp             CCCCCTTTCSCC---SSCBCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCCCCC
T ss_pred             CCCCCCCCCccc---CCceeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHHHhh
Confidence            568999999999   889764 89999999999874         468999999876   23566665554

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

Probab=98.72  E-value=2.2e-09  Score=77.26  Aligned_cols=59  Identities=7%  Similarity=-0.029  Sum_probs=49.5

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||.++|   ++|+.. .|||+||..|+.++   ...||.|+.++.   ..+|.++.++++.+
T Consensus        12 p~~~~CpI~~~~m---~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~~~   76 (85)
T 2kr4_A           12 PDEFRDPLMDTLM---TDPVRL-PSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQAW   76 (85)
T ss_dssp             CTTTBCTTTCSBC---SSEEEC-TTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             chheECcccCchh---cCCeEC-CCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHHHH
Confidence            4679999999999   999875 79999999999885   478999999875   45788888877654

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

Probab=98.72  E-value=2.1e-09  Score=84.16  Aligned_cols=44  Identities=32%  Similarity=0.609  Sum_probs=38.3

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|+.. +|||.||..|+.++   ...||.||.++.
T Consensus        52 ~~~~C~iC~~~~---~~~~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   98 (138)
T 4ayc_A           52 NELQCIICSEYF---IEAVTL-NCAHSFCSYCINEWMKRKIECPICRKDIK   98 (138)
T ss_dssp             HHSBCTTTCSBC---SSEEEE-TTSCEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred             ccCCCcccCccc---CCceEC-CCCCCccHHHHHHHHHcCCcCCCCCCcCC
Confidence            347899999999   999865 89999999999886   368999999985

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

Probab=98.71  E-value=3e-09  Score=79.67  Aligned_cols=59  Identities=15%  Similarity=0.419  Sum_probs=47.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCcc-------cchhHHHhheeee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGH-------SRSIAMEKVLESI   75 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~-------~r~~~le~~~~~l   75 (252)
                      +.+.|+||.+.+   ..|+....|||.||..|+.++   ...||.||..+..       .+|..++++++.+
T Consensus        14 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~   82 (108)
T 2ckl_A           14 PHLMCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKL   82 (108)
T ss_dssp             GGTBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHH
T ss_pred             CcCCCccCChHH---hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHH
Confidence            568999999999   999875589999999999886   3689999998753       3566777776643

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

Probab=98.70  E-value=3.1e-09  Score=70.28  Aligned_cols=46  Identities=20%  Similarity=0.295  Sum_probs=40.0

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      +.+.+.|+||.+.+   ..|+. -.|||.||..|+.++...||.||..+.
T Consensus         3 e~~~~~C~IC~~~~---~~p~~-l~CgH~fC~~Ci~~~~~~CP~Cr~~~~   48 (56)
T 1bor_A            3 EFQFLRCQQCQAEA---KCPKL-LPCLHTLCSGCLEASGMQCPICQAPWP   48 (56)
T ss_dssp             SCCCSSCSSSCSSC---BCCSC-STTSCCSBTTTCSSSSSSCSSCCSSSS
T ss_pred             cccCCCceEeCCcc---CCeEE-cCCCCcccHHHHccCCCCCCcCCcEee
Confidence            45678999999999   88976 479999999999887679999999875

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

Probab=98.70  E-value=3.2e-09  Score=78.76  Aligned_cols=59  Identities=8%  Similarity=-0.010  Sum_probs=49.9

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||.++|   ++|+.. .|||+||..|+.++   ...||.|+.++.   ..+|..+.++++.+
T Consensus        27 p~~~~CpI~~~~m---~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~   91 (100)
T 2kre_A           27 PDEFRDPLMDTLM---TDPVRL-PSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAW   91 (100)
T ss_dssp             STTTBCTTTCSBC---SSEEEE-TTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHH
T ss_pred             cHhhCCcCccCcc---cCCeEC-CCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHH
Confidence            4679999999999   999876 79999999999986   368999999975   45788888877654

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

Probab=98.70  E-value=2.3e-09  Score=82.31  Aligned_cols=57  Identities=21%  Similarity=0.503  Sum_probs=46.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCcc----cchhHHHhheee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIGH----SRSIAMEKVLES   74 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~~----~r~~~le~~~~~   74 (252)
                      +.+.||||.+.+   ..|+.. .|||.||..|+.++.    ..||.||.++..    .+|..+.++++.
T Consensus        51 ~~~~C~IC~~~~---~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~  115 (124)
T 3fl2_A           51 ETFQCICCQELV---FRPITT-VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQ  115 (124)
T ss_dssp             HHTBCTTTSSBC---SSEEEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHH
T ss_pred             cCCCCCcCChHH---cCcEEe-eCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHH
Confidence            457899999999   999764 899999999998752    389999999853    467777777654

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

Probab=98.70  E-value=4e-09  Score=80.20  Aligned_cols=59  Identities=20%  Similarity=0.441  Sum_probs=47.9

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc-CCCCCCCcCCc---ccchhHHHhheeee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-NKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      +.+.||||.+.+   ..|+....|||.||..|+.++. ..||.||.++.   ..+|..+.++++.+
T Consensus        21 ~~~~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~~~~n~~l~~l~~~~   83 (117)
T 1jm7_B           21 KLLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQLC   83 (117)
T ss_dssp             HTTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             hCCCCCCCChHh---hCccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCccccccccHHHHHHHHHH
Confidence            458899999999   9998755899999999999864 58999999874   34677777776643

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

Probab=98.69  E-value=2e-09  Score=76.54  Aligned_cols=55  Identities=20%  Similarity=0.491  Sum_probs=43.9

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---------cCCCCCCCcCCc---ccchhHHHhhe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---------MNKCPSCRLPIG---HSRSIAMEKVL   72 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---------~~~CP~Cr~~~~---~~r~~~le~~~   72 (252)
                      +.+.|+||.+.+   ..|+. ..|||.||..|+.++         ...||.||.++.   ..+|..+++++
T Consensus        18 ~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~v   84 (85)
T 2ecw_A           18 EEVTCPICLELL---KEPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVANIV   84 (85)
T ss_dssp             TTTSCTTTCSCC---SSCEE-CTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCCSSC
T ss_pred             cCCCCcCCChhh---Cccee-CCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHHHhh
Confidence            468899999999   99975 589999999999874         357999999875   23566666554

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

Probab=98.68  E-value=4.5e-09  Score=74.55  Aligned_cols=57  Identities=25%  Similarity=0.533  Sum_probs=44.0

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc--ccchhHHHhhee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG--HSRSIAMEKVLE   73 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~--~~r~~~le~~~~   73 (252)
                      .+.+.|+||.+.+   ..|+. ..|||.||..|+.++   ...||+||.++.  ...+..+.+.+.
T Consensus        13 ~~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~~~   74 (81)
T 2csy_A           13 EIPFRCFICRQAF---QNPVV-TKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKELMAKLQ   74 (81)
T ss_dssp             CCCSBCSSSCSBC---CSEEE-CTTSCEEEHHHHHHHHHHCSBCSSSCCBCCSCCEECHHHHHHHS
T ss_pred             CCCCCCcCCCchh---cCeeE-ccCCCHhHHHHHHHHHHCCCcCCCcCccccccCCcHHHHHHHHH
Confidence            3568999999999   99976 589999999999886   368999999875  234444444433

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

Probab=98.68  E-value=3.7e-09  Score=78.12  Aligned_cols=60  Identities=10%  Similarity=-0.045  Sum_probs=50.3

Q ss_pred             CCeeeecCCcccccCCCCceEEccCC-ceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeeeE
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNG-HIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESIQ   76 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~G-H~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l~   76 (252)
                      ++.|.||||.++|   ++||.. .|| |+||..|+.++   ...||.|+.++.   ..+|..++++|+.+.
T Consensus        20 p~~~~CpI~~~~m---~dPV~~-~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           20 CDEFLDPIMSTLM---CDPVVL-PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CTTTBCTTTCSBC---SSEEEC-TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             cHhcCCcCccccc---cCCeEC-CCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHHHH
Confidence            4679999999999   999874 799 99999999886   368999999975   457888888877654

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

Probab=98.67  E-value=2.3e-09  Score=79.32  Aligned_cols=45  Identities=24%  Similarity=0.578  Sum_probs=38.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---c-CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---M-NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~-~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|+..-.|||.||..|+.++   . ..||.||.++.
T Consensus        21 ~~~~C~IC~~~~---~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (100)
T 3lrq_A           21 EVFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ   69 (100)
T ss_dssp             HHTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccc---cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCC
Confidence            457899999999   999763579999999999886   3 58999999875

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

Probab=98.67  E-value=6.7e-09  Score=71.99  Aligned_cols=45  Identities=20%  Similarity=0.509  Sum_probs=39.1

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|+....|||.||..|+.++   ...||.||.++.
T Consensus        14 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (72)
T 2djb_A           14 PYILCSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH   61 (72)
T ss_dssp             GGGSCTTTSSCC---SSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCCCChHH---HCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccC
Confidence            468899999999   889765589999999999876   478999999875

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

Probab=98.65  E-value=3.9e-09  Score=84.99  Aligned_cols=61  Identities=20%  Similarity=0.389  Sum_probs=49.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc----ccchhHHHhheeeeEe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG----HSRSIAMEKVLESIQV   77 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~----~~r~~~le~~~~~l~v   77 (252)
                      +.+.||||.+.+   ..|+....|||.||..|+.++    ...||.||.++.    ..+|..+++++..+.-
T Consensus        53 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~  121 (165)
T 2ckl_B           53 SELMCPICLDML---KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYP  121 (165)
T ss_dssp             HHHBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC-
T ss_pred             CCCCCcccChHh---hCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHc
Confidence            356899999999   999876589999999999886    356999999874    3467778888776643

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

Probab=98.64  E-value=9.4e-09  Score=71.16  Aligned_cols=45  Identities=24%  Similarity=0.540  Sum_probs=38.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~~~~   61 (252)
                      .+.+.|+||++.+   ..|+.. .|||.||..|+.++.      ..||.||.++.
T Consensus        18 ~~~~~C~IC~~~~---~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           18 QEEVICPICLDIL---QKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCBCTTTCSBC---SSEEEC-TTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             ccCCEeccCCccc---CCeEEc-CCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            3568999999999   999875 999999999999863      27999999875

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

Probab=98.63  E-value=4.6e-09  Score=83.56  Aligned_cols=58  Identities=21%  Similarity=0.433  Sum_probs=48.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCcc----cchhHHHhheeee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIGH----SRSIAMEKVLESI   75 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~~----~r~~~le~~~~~l   75 (252)
                      +.+.|+||.+.+   ..|+. ..|||.||..|+.++.    ..||.||.++..    .+|..++++++.+
T Consensus        77 ~~~~C~IC~~~~---~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~  142 (150)
T 1z6u_A           77 QSFMCVCCQELV---YQPVT-TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLF  142 (150)
T ss_dssp             HHTBCTTTSSBC---SSEEE-CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHH
T ss_pred             cCCEeecCChhh---cCCEE-cCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHH
Confidence            457899999999   99987 5899999999998862    379999999863    4788888887654

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

Probab=98.61  E-value=1.2e-08  Score=69.52  Aligned_cols=45  Identities=22%  Similarity=0.448  Sum_probs=38.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~   61 (252)
                      .+.+.|+||.+.+   ..|+. ..|||.||..|+.++.    ..||.||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (66)
T 2ecy_A           13 EDKYKCEKCHLVL---CSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIV   61 (66)
T ss_dssp             CCCEECTTTCCEE---SSCCC-CSSSCCCCHHHHHHHHTTSSCCCTTTCCCCC
T ss_pred             CcCCCCCCCChHh---cCeeE-CCCCCHHHHHHHHHHHHhCcCCCCCCCcCCC
Confidence            3569999999999   99986 4899999999999752    57999999875

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

Probab=98.60  E-value=1.4e-08  Score=70.11  Aligned_cols=46  Identities=26%  Similarity=0.488  Sum_probs=39.3

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +.+.+.|+||++.+   ..|+.. .|||.||..|+.++   ...||+||.++.
T Consensus        12 ~~~~~~C~IC~~~~---~~~~~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           12 SLTVPECAICLQTC---VHPVSL-PCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SSSCCBCSSSSSBC---SSEEEE-TTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCCCccCCccc---CCCEEc-cCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            34668999999999   999765 89999999999885   368999999875

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

Probab=98.54  E-value=4e-08  Score=67.04  Aligned_cols=46  Identities=22%  Similarity=0.406  Sum_probs=39.4

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+...|+||.+.+   ..|+..-.|||.||..|+.++   ...||.||.++.
T Consensus         3 ~~~~~C~IC~~~~---~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCC---CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccc---cCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            4567899999999   888666689999999999875   478999999875

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

Probab=98.53  E-value=1.8e-08  Score=68.30  Aligned_cols=45  Identities=22%  Similarity=0.452  Sum_probs=37.0

Q ss_pred             CeeeecCCcc-cccCCCCce---EEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           14 TVLHCFISFS-SFIFTLLSV---AECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~-~l~~~~~Pi---~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      +.+.||||.+ .+   ..|.   ..-.|||.||..|+.++    ...||.||.++.
T Consensus         2 ~~~~C~IC~~~~~---~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKY---RNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHH---HCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCcCCcCCCCcc---CCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccc
Confidence            5688999999 88   6674   34579999999999886    257999999875

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

Probab=98.52  E-value=1.7e-08  Score=71.39  Aligned_cols=48  Identities=21%  Similarity=0.477  Sum_probs=36.4

Q ss_pred             CCeeeecCCcccccCCCCce-EEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSV-AECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi-~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      .+.+.||||.+++.. .++. +.|.|||.||..|+.++    ...||.||+++.
T Consensus         9 ~~~~~CpICle~~~~-~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            9 EDPVECPLCMEPLEI-DDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCBCTTTCCBCCT-TTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             ccCCcCCccCccCcc-ccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            466899999999811 1222 33569999999999886    358999999875

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

Probab=98.51  E-value=3.3e-08  Score=68.92  Aligned_cols=45  Identities=22%  Similarity=0.465  Sum_probs=38.0

Q ss_pred             CCeeeecCCcccccCCCCceEEcc-CCceecccChhhhc-----CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIELM-----NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~-----~~CP~Cr~~~~   61 (252)
                      .+.+.|+||.+.+   ..|+. .. |||.||..|+.++.     ..||.||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           13 PDELLCLICKDIM---TDAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CGGGSCSSSCCCC---TTCEE-CSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCcCCChHH---hCCeE-cCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            3568999999999   99987 46 99999999998862     48999999753

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

Probab=98.50  E-value=2.1e-08  Score=68.94  Aligned_cols=47  Identities=28%  Similarity=0.651  Sum_probs=39.0

Q ss_pred             eCCeeeecCCcccccCCCCce------EEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSV------AECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi------~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      ..+.+.|+||.+.+   ..|+      ..-.|||.||..|+.++   ...||.||.++.
T Consensus         7 ~~~~~~C~IC~~~~---~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   62 (71)
T 3ng2_A            7 PSGTVSCPICMDGY---SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   62 (71)
T ss_dssp             CTTCCBCTTTCCBH---HHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCcccChhh---hccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccC
Confidence            45678999999999   6662      45689999999999886   478999999875

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

Probab=98.49  E-value=2.8e-08  Score=72.66  Aligned_cols=61  Identities=18%  Similarity=0.337  Sum_probs=48.6

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc---------CCCCC--CCcC-Cc---ccchhHHHhheeeeE
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---------NKCPS--CRLP-IG---HSRSIAMEKVLESIQ   76 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---------~~CP~--Cr~~-~~---~~r~~~le~~~~~l~   76 (252)
                      .+.|.||||.++|   .+||..-.|||+||..|+.++.         ..||.  |+.. +.   ..+|.+|+++|+.++
T Consensus         5 ~~~~~CPI~~~~~---~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            5 SSGFTCPITKEEM---KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             SSCCBCTTTCSBC---SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHH
T ss_pred             CcEeECcCcCchh---cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHH
Confidence            4679999999999   9998753499999999998751         28999  8865 43   457888888877653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.49  E-value=3.1e-08  Score=85.52  Aligned_cols=60  Identities=20%  Similarity=0.163  Sum_probs=49.5

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      .++.|.||||.++|   .+||.. +|||+||..|+.++    ...||.|+.++.   ..+|..++++|+.+
T Consensus       205 ~~~~~~c~i~~~~~---~dPv~~-~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~  271 (281)
T 2c2l_A          205 IPDYLCGKISFELM---REPCIT-PSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAF  271 (281)
T ss_dssp             CCSTTBCTTTCSBC---SSEEEC-SSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHH
T ss_pred             CCcccCCcCcCCHh---cCCeEC-CCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHH
Confidence            35679999999999   999864 79999999999875    234999999985   45788888887754

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

Probab=98.48  E-value=6.2e-09  Score=78.13  Aligned_cols=44  Identities=30%  Similarity=0.686  Sum_probs=37.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|+. ..|||.||..|+.++.      ..||.||.++.
T Consensus        20 ~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           20 KILECPICLELI---KEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (112)
T ss_dssp             HHTSCSSSCCCC---SSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CCCCCcccChhh---cCeEE-CCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence            357899999999   99976 4899999999998752      27999999875

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

Probab=98.47  E-value=3.4e-08  Score=70.70  Aligned_cols=45  Identities=31%  Similarity=0.595  Sum_probs=37.5

Q ss_pred             CCeeeecCCcccccCCCC----ceEEccCCceecccChhhh---c---CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLL----SVAECGNGHIVCNRCCIEL---M---NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~----Pi~qc~~GH~~C~~C~~~~---~---~~CP~Cr~~~~   61 (252)
                      .+.+.|+||++.+   ..    |+. ..|||.||..|+.++   .   ..||.||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~~~~~~~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           13 REVLECPICMESF---TEEQLRPKL-LHCGHTICRQCLEKLLASSINGVRCPFCSKITR   67 (88)
T ss_dssp             CSCCBCTTTCCBC---CTTSSCEEE-CSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBC
T ss_pred             cCCCCCccCCccc---cccCCCeEE-CCCCChhhHHHHHHHHHcCCCCcCCCCCCCccc
Confidence            3568899999999   66    765 489999999999886   1   58999999865

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

Probab=98.47  E-value=2.4e-08  Score=67.07  Aligned_cols=45  Identities=27%  Similarity=0.714  Sum_probs=37.2

Q ss_pred             CeeeecCCcccccCCCCc------eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLS------VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~P------i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|      +....|||.||..|+.++   ...||.||.++.
T Consensus         2 ~~~~C~IC~~~~---~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGY---SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBH---HHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCT
T ss_pred             CCCCCCccChhh---hCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCC
Confidence            468899999999   665      244589999999999876   368999999875

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

Probab=98.44  E-value=4e-08  Score=68.59  Aligned_cols=43  Identities=28%  Similarity=0.571  Sum_probs=38.8

Q ss_pred             CeeeecCCcccccCCCCceEEccCCce-ecccChhhhcCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      +.+.|+||++.+   ..|++. +|||. ||..|+.++ ..||.||.++.
T Consensus        23 ~~~~C~iC~~~~---~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRN---IAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSB---CCEEEE-TTCCBCCCHHHHTTC-SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCC---CCEEEc-CCCChhHHHHhhhcC-ccCCCcCcCcc
Confidence            347899999999   999886 89999 999999998 79999999875

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

Probab=98.42  E-value=5.4e-08  Score=65.45  Aligned_cols=40  Identities=28%  Similarity=0.575  Sum_probs=34.0

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCC
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSC   56 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~C   56 (252)
                      .+.+.|+||.+.+   ..|+.. .|||.||..|+.++.      ..||.|
T Consensus        18 ~~~~~C~IC~~~~---~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDIL---QKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBC---SSCEEC-TTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchh---CCeEEe-CCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3568999999999   999765 999999999998762      379987

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

Probab=98.41  E-value=4.8e-08  Score=66.57  Aligned_cols=46  Identities=26%  Similarity=0.686  Sum_probs=37.7

Q ss_pred             CCeeeecCCcccccCCCCc------eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLS------VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~P------i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+.+.|+||++.+   ..|      +..-.|||.||..|+.++   ...||+||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGY---SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCH---HHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCcccCccc---cccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            4568899999999   665      144589999999999886   468999999874

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

Probab=98.41  E-value=4.8e-08  Score=73.82  Aligned_cols=45  Identities=22%  Similarity=0.468  Sum_probs=38.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~   61 (252)
                      .+.+.|+||.+.+   ..|+.. .|||.||..|+.++.    ..||.||..+.
T Consensus        13 ~~~~~C~iC~~~~---~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEIL---VEPVTL-PCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBC---SSCEEC-TTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCccc---CceeEc-CCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            3568999999999   999875 899999999998762    47999999875

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

Probab=98.39  E-value=1.9e-07  Score=60.83  Aligned_cols=49  Identities=20%  Similarity=0.397  Sum_probs=37.1

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+...|+||++.+.+...++..-.|||.||..|+.++   ...||.||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4567899999998221123455579999999999886   378999998763

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

Probab=98.38  E-value=1.6e-07  Score=61.20  Aligned_cols=48  Identities=19%  Similarity=0.277  Sum_probs=35.3

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +...|+||.+.+.+...++..-.|||.||..|+.++   ...||.||.++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            457899999998221114443239999999999886   368999998753

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

Probab=98.35  E-value=4.1e-08  Score=68.66  Aligned_cols=43  Identities=28%  Similarity=0.571  Sum_probs=37.9

Q ss_pred             eeeecCCcccccCCCCceEEccCCce-ecccChhhhcCCCCCCCcCCcc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIELMNKCPSCRLPIGH   62 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~~~~CP~Cr~~~~~   62 (252)
                      .+.|+||++.+   ..|++. +|||. ||..|+.++ ..||.||.++..
T Consensus        25 ~~~C~IC~~~~---~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRN---IAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSC---CCBCCS-SSCCCCBCHHHHHHC-SBCTTTCCBCCC
T ss_pred             CCCCCcCCCCC---CCEEEe-cCCCHHHHHHHhhCC-CCCccCCceecC
Confidence            46899999999   999874 89999 999999887 799999998753

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

Probab=98.34  E-value=3.4e-07  Score=64.09  Aligned_cols=45  Identities=22%  Similarity=0.566  Sum_probs=36.7

Q ss_pred             CeeeecCCcccccCCCCc--eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLS--VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~P--i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +.+.|+||++.+   ..+  +..-.|||.||..|+.++   ...||.||.++.
T Consensus        14 ~~~~C~IC~~~~---~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   63 (78)
T 2ect_A           14 SGLECPVCKEDY---ALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT   63 (78)
T ss_dssp             SSCCCTTTTSCC---CTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCC
T ss_pred             CCCCCeeCCccc---cCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccC
Confidence            467899999998   543  344579999999999886   368999999875

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

Probab=98.34  E-value=9e-08  Score=78.09  Aligned_cols=59  Identities=20%  Similarity=0.193  Sum_probs=49.5

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---c-CCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---M-NKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~-~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||.++|   .+||.. .|||+||..|+.++   . ..||.|+.++.   ..+|.++.+++..+
T Consensus       104 p~~f~CPI~~elm---~DPV~~-~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~  169 (179)
T 2f42_A          104 PDYLCGKISFELM---REPCIT-PSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAF  169 (179)
T ss_dssp             CGGGBCTTTCSBC---SSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             cHhhcccCccccC---CCCeEC-CCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHH
Confidence            5679999999999   999875 89999999999885   2 35999999985   45788888887755

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

Probab=98.32  E-value=3.1e-07  Score=63.93  Aligned_cols=46  Identities=20%  Similarity=0.419  Sum_probs=37.4

Q ss_pred             CCeeeecCCcccccCCCCc--eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLS--VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~P--i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+...|+||++.+   ..+  +..-.|||.||..|+.++   ...||.||.++.
T Consensus        21 ~~~~~C~IC~~~~---~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~   71 (75)
T 1x4j_A           21 SEQTLCVVCMCDF---ESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG   71 (75)
T ss_dssp             SSCCEETTTTEEC---CBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCeECCccc---CCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCC
Confidence            3567899999998   655  344479999999999886   478999999875

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

Probab=98.29  E-value=2.7e-07  Score=63.01  Aligned_cols=48  Identities=27%  Similarity=0.364  Sum_probs=37.5

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+...|+||++.+.+ ..++....|||.||..|+.++   ...||.||.++.
T Consensus        12 ~~~~~C~IC~~~~~~-~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   62 (69)
T 2kiz_A           12 DTEEKCTICLSILEE-GEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE   62 (69)
T ss_dssp             TCCCSBTTTTBCCCS-SSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSC
T ss_pred             CCCCCCeeCCccccC-CCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCcccc
Confidence            455789999998822 234555689999999999886   478999999875

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

Probab=98.27  E-value=1.7e-07  Score=71.85  Aligned_cols=48  Identities=27%  Similarity=0.665  Sum_probs=38.9

Q ss_pred             EeCCeeeecCCcccccCCCCce------EEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           11 LCTTVLHCFISFSSFIFTLLSV------AECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        11 ~~~~~l~C~iC~~~l~~~~~Pi------~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +..+.+.|+||++.+   ..|+      ....|||.||..|+.++   ...||.||..+.
T Consensus         3 ~~~~~~~C~IC~~~~---~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (133)
T 4ap4_A            3 MGSGTVSCPICMDGY---SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   59 (133)
T ss_dssp             --CCSCBCTTTCCBH---HHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCT
T ss_pred             cCCCCCCCcccChhh---hCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCc
Confidence            456789999999999   7771      34589999999999886   368999999875

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

Probab=98.25  E-value=2.2e-07  Score=61.07  Aligned_cols=39  Identities=23%  Similarity=0.508  Sum_probs=33.3

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh------cCCCCCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL------MNKCPSC   56 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~------~~~CP~C   56 (252)
                      +.+.|+||.+.+   ..|+. ..|||+||..|+.++      ...||+|
T Consensus        14 ~~~~C~IC~~~~---~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYL---KEPVI-IECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBC---SSCCC-CSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCccc---CccEe-CCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            568999999999   88976 489999999999886      1579887

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

Probab=98.22  E-value=5.4e-07  Score=62.38  Aligned_cols=46  Identities=22%  Similarity=0.533  Sum_probs=37.0

Q ss_pred             CCeeeecCCcccccCCCCc--eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLS--VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~P--i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+...|+||++.+   ..+  +....|||.||..|+.++   ...||.||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~   63 (74)
T 2ep4_A           13 NLHELCAVCLEDF---KPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL   63 (74)
T ss_dssp             CCSCBCSSSCCBC---CSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCS
T ss_pred             CCCCCCcCCCccc---CCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccc
Confidence            3457899999998   544  344479999999999886   468999999875

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

Probab=98.20  E-value=4.2e-07  Score=62.41  Aligned_cols=45  Identities=20%  Similarity=0.430  Sum_probs=39.2

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCce-ecccChhhhcCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      +.+...|+||++..   ..+++. +|||. +|..|..++ ..||+||.++.
T Consensus        12 ~~~~~~C~IC~~~~---~~~v~~-pCgH~~~C~~C~~~~-~~CP~CR~~i~   57 (68)
T 2ea5_A           12 EENSKDCVVCQNGT---VNWVLL-PCRHTCLCDGCVKYF-QQCPMCRQFVQ   57 (68)
T ss_dssp             CCCSSCCSSSSSSC---CCCEET-TTTBCCSCTTHHHHC-SSCTTTCCCCC
T ss_pred             CCCCCCCCCcCcCC---CCEEEE-CCCChhhhHHHHhcC-CCCCCCCcchh
Confidence            34567899999999   888875 89999 999999977 79999999875

>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=98.19  E-value=3.4e-07  Score=64.72  Aligned_cols=42  Identities=26%  Similarity=0.649  Sum_probs=37.9

Q ss_pred             eeeecCCcccccCCCCceEEccCCce-ecccChhhhcCCCCCCCcCCc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      ...|+||++..   ..|++. +|||. +|..|..++ ..||.||.++.
T Consensus        18 ~~~C~IC~~~~---~~~v~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~   60 (79)
T 2yho_A           18 AMLCMVCCEEE---INSTFC-PCGHTVCCESCAAQL-QSCPVCRSRVE   60 (79)
T ss_dssp             HTBCTTTSSSB---CCEEEE-TTCBCCBCHHHHTTC-SBCTTTCCBCC
T ss_pred             CCEeEEeCccc---CcEEEE-CCCCHHHHHHHHHhc-CcCCCCCchhh
Confidence            46799999999   999886 89999 999999988 59999999875

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

Probab=98.17  E-value=6.9e-07  Score=64.69  Aligned_cols=47  Identities=21%  Similarity=0.325  Sum_probs=35.9

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      +...|+||++.+.+ ..++....|||.||..|+.+|   ...||.||.++.
T Consensus        39 ~~~~C~IC~~~~~~-~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           39 QEMCCPICCSEYVK-GDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SCSEETTTTEECCT-TCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCCCCcccChhhcC-CCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            45789999998822 122344579999999999986   368999998764

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

Probab=98.16  E-value=2.1e-07  Score=63.84  Aligned_cols=44  Identities=25%  Similarity=0.520  Sum_probs=36.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .+.+.|+||++.+   .. +. -.|||.||..|+.++   ...||.||.++.
T Consensus        13 ~~~~~C~IC~~~~---~~-~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A           13 TDEEECCICMDGR---AD-LI-LPCAHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCSSSCCSC---CS-EE-ETTTEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             CCCCCCeeCCcCc---cC-cc-cCCCCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            4568899999999   77 44 489999999999886   368999999875

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

Probab=98.11  E-value=3.6e-07  Score=78.43  Aligned_cols=60  Identities=17%  Similarity=0.273  Sum_probs=47.7

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhhc-----CCCCC--CCcCCc---ccchhHHHhheee
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-----NKCPS--CRLPIG---HSRSIAMEKVLES   74 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-----~~CP~--Cr~~~~---~~r~~~le~~~~~   74 (252)
                      ....+.||||.++|   +.||..-.|||+||..|+.++.     ..||+  |+..+.   ..+|..|.++++.
T Consensus       178 ~~~el~CPIcl~~f---~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve~  247 (267)
T 3htk_C          178 GKIELTCPITCKPY---EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCKI  247 (267)
T ss_dssp             SBCCSBCTTTSSBC---SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHHH
T ss_pred             CceeeECcCccCcc---cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHHH
Confidence            35668999999999   9998744799999999998852     36999  999764   4567777776654

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

Probab=98.10  E-value=1.3e-06  Score=61.94  Aligned_cols=49  Identities=20%  Similarity=0.204  Sum_probs=39.3

Q ss_pred             EEeCCeeeecCCcccccCCCC--------------ceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           10 VLCTTVLHCFISFSSFIFTLL--------------SVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        10 ~~~~~~l~C~iC~~~l~~~~~--------------Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .-|.+.-.|+||.+.+   ..              ++....|||.|+..|+.++   ...||+||.++.
T Consensus        10 ~~~~~~~~C~IC~~~~---~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           10 SWDVECDTCAICRVQV---MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCCCSCBTTTTBCT---TSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             eecCCCCCCcccChhh---hccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            4466778899999999   55              4455469999999999986   368999999865

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

Probab=98.01  E-value=1.7e-06  Score=64.99  Aligned_cols=46  Identities=20%  Similarity=0.446  Sum_probs=36.1

Q ss_pred             CCeeeecCCcccccCCCCce-----------------EEccCCceecccChhhhc--------CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSV-----------------AECGNGHIVCNRCCIELM--------NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi-----------------~qc~~GH~~C~~C~~~~~--------~~CP~Cr~~~~   61 (252)
                      .+...|+||++.+   ..|.                 ..-.|||.||..|+.+|.        ..||+||..+.
T Consensus        23 ~~~~~C~ICl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           23 APEEDCIICMEKL---AVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CCSCEETTTTEET---TSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCCcCccCChhh---cCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            3446899999999   6543                 244699999999998752        47999999875

>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.99  E-value=3.1e-06  Score=61.93  Aligned_cols=51  Identities=22%  Similarity=0.431  Sum_probs=42.6

Q ss_pred             EeeccccCCCCceeeccchHHhHhhhCcccCcCCCCC--CCCcccChhhHhhHhhc
Q 048313           76 QVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLA--ACNFVGSFNQIYQHFRG  129 (252)
Q Consensus        76 ~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~--gC~~~g~~~~L~~Hl~~  129 (252)
                      .+.|||   .|...+...++++|...|+.+.+.|++.  ||.+++.+.+|.+|++.
T Consensus        37 ~i~CP~---~Cga~i~rckL~EH~~~CP~a~v~C~~~~yGCp~~~~R~~L~~He~~   89 (100)
T 2yre_A           37 LIGCPL---VCGAVFHSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEM   89 (100)
T ss_dssp             EEECTT---CCSCEEEHHHHHHHHHHCSSSEEECTTTTTTCCCEEESSTHHHHHHT
T ss_pred             eeeCCc---ccCCeeehhhHHHHHhhcccccccccccCcCCceeecHHHHHHHHhh
Confidence            578886   5888888888888888888888888877  88888888888888874

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=97.95  E-value=2.9e-06  Score=59.12  Aligned_cols=54  Identities=22%  Similarity=0.321  Sum_probs=47.0

Q ss_pred             eEeeccccCCCCceeeccchHHhHhh-hCcccCcCCCCCCCCcccChhhHhhHhhcccCCC
Q 048313           75 IQVTCENEDHGCKEKMSYSKKYDHGK-ACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHA  134 (252)
Q Consensus        75 l~v~C~~~~~GC~~~~~~~~~~~H~~-~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~  134 (252)
                      ..|.|++   ||+..+...++++|++ .|+++++.|++  |++...+.+|..|.. .+...
T Consensus        15 ~~v~C~~---~C~~~v~r~~l~~H~~~~C~~r~v~C~~--C~~~~~~~~l~~H~~-~Cp~~   69 (76)
T 2yuc_A           15 NVIPCPN---RCPMKLSRRDLPAHLQHDCPKRRLKCEF--CGCDFSGEAYESHEG-MCPQE   69 (76)
T ss_dssp             SCCBCTT---CCSCBCCSSSSTTTTTTSCTTSCCCCSS--SCCCCCHHHHHHTTT-SCTTS
T ss_pred             cccCCCc---cccHHhhHhHHHhhCHhhCCCcceECCC--CCCccCHHHHHHHHh-HCCCC
Confidence            3577876   8999999999999998 89999999997  999999999999984 45543

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=97.93  E-value=4.5e-06  Score=74.83  Aligned_cols=43  Identities=33%  Similarity=0.596  Sum_probs=39.1

Q ss_pred             CeeeecCCcccccCCCCceEEccCCce-ecccChhhhcCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      +.+.|+||.+.+   ..|++. +|||. ||..|+.++ ..||.||.++.
T Consensus       294 ~~~~C~IC~~~~---~~~v~l-pCgH~~fC~~C~~~~-~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKE---VSVVFI-PCGHLVVCQECAPSL-RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSB---CCEEEE-TTCCEEECTTTGGGC-SBCTTTCCBCC
T ss_pred             CCCCCCccCCcC---CceEEc-CCCChhHhHHHHhcC-CcCCCCCCCcc
Confidence            357899999999   999886 99999 999999998 79999999875

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

Probab=97.93  E-value=1.9e-06  Score=65.86  Aligned_cols=49  Identities=24%  Similarity=0.642  Sum_probs=40.6

Q ss_pred             EEeCCeeeecCCcccccCCCCc------eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           10 VLCTTVLHCFISFSSFIFTLLS------VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        10 ~~~~~~l~C~iC~~~l~~~~~P------i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .++.+.+.|+||.+.+   ..|      .....|||.||..|+.++   ...||.||.++.
T Consensus        67 ~i~~~~~~C~iC~~~~---~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           67 YIGSGTVSCPICMDGY---SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             BCSSSSCBCTTTCCBH---HHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             ccCCCCCCCCCCCCcc---ccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            4567789999999998   665      245689999999999875   479999999875

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=97.88  E-value=3.6e-06  Score=56.88  Aligned_cols=46  Identities=28%  Similarity=0.585  Sum_probs=38.1

Q ss_pred             CCeeeecCCcccccCCCCceEE-ccCCce-ecccChhhhc---CCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAE-CGNGHI-VCNRCCIELM---NKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~q-c~~GH~-~C~~C~~~~~---~~CP~Cr~~~~   61 (252)
                      .+...|+||++..   .++++. -+|||. +|..|..++.   ..||+||.++.
T Consensus         6 ~~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRP---KNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSC---SCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCC---CCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            4567899999999   888763 379999 8999998863   57999999875

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

Probab=97.85  E-value=1.3e-05  Score=59.80  Aligned_cols=55  Identities=18%  Similarity=0.132  Sum_probs=43.6

Q ss_pred             eEEEEEEeCCeeeecCCcccccCCCCc-----------------eEEccCCceecccChhhh---cCCCCCCCcCCcc
Q 048313            5 CVCHFVLCTTVLHCFISFSSFIFTLLS-----------------VAECGNGHIVCNRCCIEL---MNKCPSCRLPIGH   62 (252)
Q Consensus         5 ~~~~~~~~~~~l~C~iC~~~l~~~~~P-----------------i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~   62 (252)
                      .|..-.-|.+.-.|+||.+.+   ..+                 +..-.|||.|+..|+.++   ...||+||.++..
T Consensus        27 ~v~~w~~d~~~d~CaIC~~~~---~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           27 AVALWAWDIVVDNCAICRNHI---MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             EEEEEEESSCSCCCSSSCSCT---TSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             EeeEeecCCCCCCCccCChhH---hCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            455566678888999999998   543                 555579999999999986   4789999998653

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

Probab=97.84  E-value=4.3e-06  Score=75.80  Aligned_cols=44  Identities=27%  Similarity=0.452  Sum_probs=37.9

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH   62 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~   62 (252)
                      ...|+||.+.+   ..|+.. +|||.||..|+..+    ...||.||.++..
T Consensus       332 ~~~C~ICle~~---~~pv~l-pCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAEND---KDVKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSB---CCEEEE-TTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCC---CCeEEe-CCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            37899999999   999765 89999999999875    3689999998753

>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.83  E-value=1.5e-05  Score=58.26  Aligned_cols=70  Identities=26%  Similarity=0.395  Sum_probs=50.9

Q ss_pred             ceecccChhhh-------c-----CCCC-CCCcCCcccchhHHH--hheeeeEeeccccCCCCceeeccchHHhHhhhCc
Q 048313           39 HIVCNRCCIEL-------M-----NKCP-SCRLPIGHSRSIAME--KVLESIQVTCENEDHGCKEKMSYSKKYDHGKACH  103 (252)
Q Consensus        39 H~~C~~C~~~~-------~-----~~CP-~Cr~~~~~~r~~~le--~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~  103 (252)
                      |.-|..|+.+-       .     -.|| .|...+  .|...-|  .+--...++|+|+.+||+.++...++.+|++.|+
T Consensus        14 h~HC~~C~~~~C~~~~~~~~~C~~i~CP~~Cga~i--~rckL~EH~~~CP~a~v~C~~~~yGCp~~~~R~~L~~He~~CP   91 (100)
T 2yre_A           14 HSHCVNCVSRRCMTRPEPGISCDLIGCPLVCGAVF--HSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEMCP   91 (100)
T ss_dssp             CTTGGGCCCTTCCCCCCTTTCCCEEECTTCCSCEE--EHHHHHHHHHHCSSSEEECTTTTTTCCCEEESSTHHHHHHTCG
T ss_pred             chhHhhhcccccCCCCCCCCeeeeeeCCcccCCee--ehhhHHHHHhhcccccccccccCcCCceeecHHHHHHHHhhCC
Confidence            66677777652       0     1377 576632  2332222  2355678999999999999999999999999999


Q ss_pred             ccCcCCC
Q 048313          104 HARCSCP  110 (252)
Q Consensus       104 ~~p~~CP  110 (252)
                      -+.+.|.
T Consensus        92 as~v~~~   98 (100)
T 2yre_A           92 ASVSGPS   98 (100)
T ss_dssp             GGCCCCC
T ss_pred             ceeEecC
Confidence            9988775

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=97.79  E-value=2.3e-06  Score=59.72  Aligned_cols=49  Identities=16%  Similarity=0.208  Sum_probs=43.1

Q ss_pred             cchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeEEeC
Q 048313           92 YSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVYD  141 (252)
Q Consensus        92 ~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y~  141 (252)
                      ..++++|++.|+|+++.||+ +|+....+.+|.+|+..++..+.+...|-
T Consensus         2 ~~~l~~H~~~C~~~~v~C~~-~C~~~v~r~~l~~H~~~~C~~r~v~C~~C   50 (76)
T 2yuc_A            2 SSGSSGHLNTCSFNVIPCPN-RCPMKLSRRDLPAHLQHDCPKRRLKCEFC   50 (76)
T ss_dssp             CCSCSCCCCCCCCSCCBCTT-CCSCBCCSSSSTTTTTTSCTTSCCCCSSS
T ss_pred             chHHHHHHHHCCCcccCCCc-cccHHhhHhHHHhhCHhhCCCcceECCCC
Confidence            35778999999999999997 89999999999999998888887766653

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=97.70  E-value=8.3e-06  Score=54.88  Aligned_cols=45  Identities=22%  Similarity=0.414  Sum_probs=36.6

Q ss_pred             CeeeecCCcccccCCCCceEE-ccCCce-ecccChhhhc---CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAE-CGNGHI-VCNRCCIELM---NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~q-c~~GH~-~C~~C~~~~~---~~CP~Cr~~~~   61 (252)
                      +...|+||++..   +++++. -+|||. +|..|..++.   ..||.||.++.
T Consensus         6 ~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRP---RDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSB---SCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcC---CCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            345799999998   887642 479998 9999998863   48999999875

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

Probab=97.64  E-value=4.4e-05  Score=55.70  Aligned_cols=81  Identities=19%  Similarity=0.308  Sum_probs=55.6

Q ss_pred             eecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCceeecc
Q 048313           17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSY   92 (252)
Q Consensus        17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~   92 (252)
                      -|++|..|+   ..-...=+|.|.||.+|...+    .+.||.|+.++.......++                       
T Consensus         3 fC~~C~~Pi---~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~~~~-----------------------   56 (101)
T 3vk6_A            3 FCDKCGLPI---KVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRG-----------------------   56 (101)
T ss_dssp             BCTTTCSBC---SEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEEEEGG-----------------------
T ss_pred             ecCccCCCe---EEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEEeccC-----------------------
Confidence            489999998   665556689999999999764    26899999987532111111                       


Q ss_pred             chHHhHhhhCcccCcCCC-CCCCCccc-ChhhHhhHhhcccCCCC
Q 048313           93 SKKYDHGKACHHARCSCP-LAACNFVG-SFNQIYQHFRGVHKHAA  135 (252)
Q Consensus        93 ~~~~~H~~~C~~~p~~CP-~~gC~~~g-~~~~L~~Hl~~~H~~~~  135 (252)
                                  ..+.|+ .+||.-.. +..+|..|....|....
T Consensus        57 ------------~if~C~~~~~CkrtyLs~rdlqaHI~~~H~~~~   89 (101)
T 3vk6_A           57 ------------SLFMCSIVQGCKRTYLSQRDLQAHINHRHMRAG   89 (101)
T ss_dssp             ------------GCCCCCCCCCCCCCCSSHHHHHHHHHHHTTTSC
T ss_pred             ------------CEEECCCCCCHHHHhcCHHHHHHHHHHHhhhcC
Confidence                        123555 55776554 67888888888887543

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

Probab=97.57  E-value=2e-05  Score=59.73  Aligned_cols=54  Identities=19%  Similarity=0.135  Sum_probs=7.3

Q ss_pred             eEEEEEEeCCeeeecCCcccccCCCCc-----------------eEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313            5 CVCHFVLCTTVLHCFISFSSFIFTLLS-----------------VAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus         5 ~~~~~~~~~~~l~C~iC~~~l~~~~~P-----------------i~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .|....-|.+.-.|+||.+.+   ..+                 +....|||.|+..|+.++   ...||.||.++.
T Consensus        38 ava~w~wd~~~d~CaICl~~~---~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           38 AVALWAWDIVVDNCAICRNHI---MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             EEEEEEECCCC------------------------------------------------------------------
T ss_pred             EEEEEeecCCCCcCeECChhh---cCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            355566788888999999998   543                 333369999999999986   368999999864

>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=97.45  E-value=2.9e-05  Score=56.19  Aligned_cols=44  Identities=16%  Similarity=0.421  Sum_probs=32.9

Q ss_pred             CCeeeecCCcccccCCCCceEE--ccCCceecccChhhh-----------cCCCCC--CCcC
Q 048313           13 TTVLHCFISFSSFIFTLLSVAE--CGNGHIVCNRCCIEL-----------MNKCPS--CRLP   59 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~q--c~~GH~~C~~C~~~~-----------~~~CP~--Cr~~   59 (252)
                      .+.+.|+||++.+   ..|...  -.|||.||..|+...           .-.||.  |+..
T Consensus         3 ~~~~~C~IC~~~~---~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEY---PVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCC---BGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCccc---ccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3568999999998   777543  259999999998763           025777  7766

>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=97.43  E-value=4.6e-05  Score=50.95  Aligned_cols=44  Identities=16%  Similarity=0.055  Sum_probs=37.4

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .|.|||+.+++   .+|+..-.+||+|+..|+.++   .+.||+.++++.
T Consensus         3 ~~~CpIs~~~m---~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             eEEecCCCCCC---CCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCC
Confidence            47899999999   999764379999999999986   367999999875

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.18  E-value=9.1e-05  Score=51.27  Aligned_cols=49  Identities=18%  Similarity=0.284  Sum_probs=43.8

Q ss_pred             eEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhc
Q 048313           75 IQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRG  129 (252)
Q Consensus        75 l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~  129 (252)
                      ..+.|++    |...+...++..|+..|+.+|+.|+.  |+....+.+|..|+..
T Consensus        16 r~~~C~~----C~~~~~~~~L~~H~~~c~~~~~~C~~--C~~~~~~~~l~~H~~~   64 (75)
T 2d9k_A           16 RLAVCQH----CDLELSILKLKEHEDYCGARTELCGN--CGRNVLVKDLKTHPEV   64 (75)
T ss_dssp             CCEECSS----SCCEECHHHHHHHHHHHHHCEEECSS--SCCEEETTGGGTHHHH
T ss_pred             cccCCcc----cChHhhHHHHHHHHhHcCCCceEccc--CCCcCcHHHHHHHHHH
Confidence            3567774    99999999999999999999999986  9999999999999875

>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=96.86  E-value=0.00071  Score=54.08  Aligned_cols=50  Identities=20%  Similarity=0.313  Sum_probs=44.8

Q ss_pred             eeEeeccccCCCCceeeccchHHhHh-hhCcccCcCCCCCCCCcccChhhHhhHhhc
Q 048313           74 SIQVTCENEDHGCKEKMSYSKKYDHG-KACHHARCSCPLAACNFVGSFNQIYQHFRG  129 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~~~~~~~H~-~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~  129 (252)
                      -..++|+    ||++.+...++..|+ ..|++++..||+  |+......+|.+|...
T Consensus       108 ~~~v~C~----~C~~~~~r~~l~~H~~~~C~~r~~~C~~--C~~~~~~~~l~~H~~~  158 (170)
T 3hcs_A          108 FALMDCP----QCQRPFQKFHINIHILKDCPRRQVSCDN--CAASMAFEDKEIHDQN  158 (170)
T ss_dssp             TSEEECT----TTCCEEEGGGHHHHHHHTCTTCEEECTT--TCCEEEGGGHHHHHTT
T ss_pred             ceeeECC----CCChHHHHHHHHHHhhhhCCCCCeECCC--CCCccCHHHHHhHHHh
Confidence            3467887    899999999999999 599999999984  9999999999999864

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

Probab=95.48  E-value=0.0064  Score=42.62  Aligned_cols=48  Identities=15%  Similarity=0.119  Sum_probs=35.2

Q ss_pred             eCCeeeecCCcccccCCCCceEEccC-----CceecccChhhhc-----CCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGN-----GHIVCNRCCIELM-----NKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~-----GH~~C~~C~~~~~-----~~CP~Cr~~~~   61 (252)
                      +.+...|.||++.+-+ ..++. -+|     +|.|-..|+.+|.     ..||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~-~~~l~-~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           12 PSSQDICRICHCEGDD-ESPLI-TPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             CTTSCCCSSSCCCCCS-SSCEE-CSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCCCeEcCccccC-CCeeE-eccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            4556789999987622 34554 345     3999999999872     48999999874

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

Probab=94.77  E-value=0.0059  Score=54.25  Aligned_cols=48  Identities=21%  Similarity=0.427  Sum_probs=37.0

Q ss_pred             CeeeecCCcccccC-CCCceEEcc---CCceecccChhhhc--------------CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIF-TLLSVAECG---NGHIVCNRCCIELM--------------NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~-~~~Pi~qc~---~GH~~C~~C~~~~~--------------~~CP~Cr~~~~   61 (252)
                      ..-+|+||+..+.+ ..-|...|.   |||.|=+.|+.+|-              +.||.||.++.
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            44679999999832 223767784   89999999998861              46999999875

>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=94.64  E-value=0.0068  Score=45.34  Aligned_cols=62  Identities=11%  Similarity=0.161  Sum_probs=39.5

Q ss_pred             HHhheeeeEeeccccCCCCceeeccchHHh---HhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCC
Q 048313           68 MEKVLESIQVTCENEDHGCKEKMSYSKKYD---HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKH  133 (252)
Q Consensus        68 le~~~~~l~v~C~~~~~GC~~~~~~~~~~~---H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~  133 (252)
                      +++.+..-...||.    |...+...++..   =++.=.-..+.||+.||+|.+...+|.+|++..+..
T Consensus        45 i~~~~~~~~~~CP~----Cr~~~~~~~~~~~~~l~~~i~~l~v~C~n~gC~~~~~~~~l~~H~~~c~~~  109 (118)
T 3hct_A           45 IIKSIRDAGHKCPV----DNEILLENQLFPDNFAKREILSLMVKCPNEGCLHKMELRHLEDHQAHCEFA  109 (118)
T ss_dssp             HHHHHHHHCSBCTT----TCCBCCGGGCEECHHHHHHHHTSEEECSSTTCCCEEEGGGSGGGTSSSCC-
T ss_pred             HHHHHhhCCCCCCC----CCCCcCHHhcccCHHHHHHHccceeECCCCCCCCEEeeHHHHHHHHHchhh
Confidence            33433333337885    777766543210   011222356889999999999999999999877664

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

Probab=94.26  E-value=0.032  Score=38.45  Aligned_cols=44  Identities=23%  Similarity=0.386  Sum_probs=35.3

Q ss_pred             CeeeecCCcccccCCCCceEEc-cCCceecccChhhh---c--CCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAEC-GNGHIVCNRCCIEL---M--NKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc-~~GH~~C~~C~~~~---~--~~CP~Cr~~~~   61 (252)
                      ..-.|.||++++   .+ -..| .|+|.|=..|+.++   .  ..||.|+.+..
T Consensus        14 ~i~~C~IC~~~i---~~-g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           14 AVKICNICHSLL---IQ-GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSCBCSSSCCBC---SS-SEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCcCcchhhHc---cc-CCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            346799999999   64 4568 49999999999876   2  68999998864

>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.00  E-value=0.049  Score=35.55  Aligned_cols=53  Identities=15%  Similarity=0.436  Sum_probs=39.8

Q ss_pred             EeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCccc-ChhhHhhHhhcccCC
Q 048313           76 QVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVG-SFNQIYQHFRGVHKH  133 (252)
Q Consensus        76 ~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~  133 (252)
                      .+.|+.    |+..+...++..|++.+.-+|+.|++ .|+... .+.+|..|++..+..
T Consensus        10 ~~~C~~----C~k~f~~~~L~~H~~~~~~~p~~C~~-~C~k~f~~~~~L~~H~~~hc~~   63 (66)
T 2eod_A           10 TQPCTY----CTKEFVFDTIQSHQYQCPRLPVACPN-QCGVGTVAREDLPGHLKDSCNT   63 (66)
T ss_dssp             EEECSS----SCCEEEHHHHHHHHHHCSSSEEECTT-CCSCCEEETTTHHHHHHTTSSS
T ss_pred             Ceeccc----cCCccCHHHHHHHHHHcCCcCccCCc-ccCcccccHHHHHHHHHhhccc
Confidence            466764    88877777788998888888999973 488764 456899998865543

>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=93.89  E-value=0.016  Score=42.96  Aligned_cols=75  Identities=16%  Similarity=0.315  Sum_probs=47.5

Q ss_pred             CCCCCCCcCCcc---cch------hHHHhheeeeEeeccccCCCCceeeccchHH----hHhhhCcccCcCCCCCCCCcc
Q 048313           51 NKCPSCRLPIGH---SRS------IAMEKVLESIQVTCENEDHGCKEKMSYSKKY----DHGKACHHARCSCPLAACNFV  117 (252)
Q Consensus        51 ~~CP~Cr~~~~~---~r~------~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~----~H~~~C~~~p~~CP~~gC~~~  117 (252)
                      ..||+|...+..   ..+      .-+++.+......||.    |...+...++.    .-++.=.-..+.||+.||+|.
T Consensus        24 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~----Cr~~~~~~~~~~~~~~l~~~i~~l~v~C~~~gC~~~   99 (116)
T 1rmd_A           24 ISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPS----CRYPCFPTDLESPVKSFLNILNSLMVKCPAQDCNEE   99 (116)
T ss_dssp             TBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTT----TCCBCCGGGCBCCCHHHHHHHHHCEEECCSTTCCCE
T ss_pred             CCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCC----CCCCCCHhhccccHHHHHHHHHHhcCCCCCCCCcch
Confidence            478998876542   111      1244444433456885    77776654432    112222345678999999999


Q ss_pred             cChhhHhhHhhc
Q 048313          118 GSFNQIYQHFRG  129 (252)
Q Consensus       118 g~~~~L~~Hl~~  129 (252)
                      +...++..|+..
T Consensus       100 ~~~~~~~~H~~~  111 (116)
T 1rmd_A          100 VSLEKYNHHVSS  111 (116)
T ss_dssp             EEHHHHHHHHHT
T ss_pred             hhHhHHHHHHHH
Confidence            999999999975

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

Probab=93.65  E-value=0.022  Score=41.12  Aligned_cols=32  Identities=16%  Similarity=0.241  Sum_probs=27.7

Q ss_pred             CeeeecCCcc-cccCCCCceEEcc-CCceecccChhh
Q 048313           14 TVLHCFISFS-SFIFTLLSVAECG-NGHIVCNRCCIE   48 (252)
Q Consensus        14 ~~l~C~iC~~-~l~~~~~Pi~qc~-~GH~~C~~C~~~   48 (252)
                      +.+.|++|.+ +.   .+|+..|. |||.||..|+..
T Consensus         2 ee~~C~~C~~~~~---~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPA---QDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSC---CBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCC---CCceEECCcCChHHhHHHCHH
Confidence            5688999996 47   88998876 999999999987

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.87  E-value=0.033  Score=38.01  Aligned_cols=42  Identities=19%  Similarity=0.260  Sum_probs=33.9

Q ss_pred             chHHhHhh-hCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCee
Q 048313           93 SKKYDHGK-ACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEE  137 (252)
Q Consensus        93 ~~~~~H~~-~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~  137 (252)
                      .++..|+. .|+++|+.|++  |+......+|..|. ..+......
T Consensus         3 ~~L~~H~~~~c~~r~~~C~~--C~~~~~~~~L~~H~-~~c~~~~~~   45 (75)
T 2d9k_A            3 SGSSGHEETECPLRLAVCQH--CDLELSILKLKEHE-DYCGARTEL   45 (75)
T ss_dssp             CCCSCCCCCCCCCCCEECSS--SCCEECHHHHHHHH-HHHHHCEEE
T ss_pred             hHHHhhCcccCCCcccCCcc--cChHhhHHHHHHHH-hHcCCCceE
Confidence            46788987 89999999985  99999999999998 555444333

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=91.80  E-value=0.24  Score=34.14  Aligned_cols=77  Identities=13%  Similarity=0.203  Sum_probs=48.4

Q ss_pred             CCCCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhhCcc---cCcCCCCCCCCccc-ChhhHh
Q 048313           52 KCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKACHH---ARCSCPLAACNFVG-SFNQIY  124 (252)
Q Consensus        52 ~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C~~---~p~~CP~~gC~~~g-~~~~L~  124 (252)
                      .|+.|...+.......  +..-.+...+.|+.    |+..+. ...+..|+..-.-   .++.|+.  |+... ....|.
T Consensus         9 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~~~C~~--C~~~f~~~~~L~   82 (95)
T 2yt9_A            9 ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPV----CGLRFKRKDRMSYHVRSHDGSVGKPYICQS--CGKGFSRPDHLN   82 (95)
T ss_dssp             ECSSSCCEESSSHHHHHHHHHSCSSCSEECSS----SCCEESCHHHHHHHHHHHCCCCCSSBCCSS--SCCCBSSHHHHH
T ss_pred             ECCCCCCccCChHHHHHHHHhcCCCCCCcCCC----CCCccCCHHHHHHHHHHhcCCCCCceECCC--ccchhCCHHHHH
Confidence            4666666554322211  22222334567775    887765 4567788875433   6889985  88776 468899


Q ss_pred             hHhhcccCCC
Q 048313          125 QHFRGVHKHA  134 (252)
Q Consensus       125 ~Hl~~~H~~~  134 (252)
                      .|++..|..+
T Consensus        83 ~H~~~~H~~~   92 (95)
T 2yt9_A           83 GHIKQVHSGP   92 (95)
T ss_dssp             HHHHHTSCCC
T ss_pred             HHHHHhcCCC
Confidence            9999888754

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=90.09  E-value=0.43  Score=34.41  Aligned_cols=108  Identities=16%  Similarity=0.181  Sum_probs=65.0

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhHHHh-----heeeeEeeccccCCCCce
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEK-----VLESIQVTCENEDHGCKE   88 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~-----~~~~l~v~C~~~~~GC~~   88 (252)
                      ..+.|++|...+   .....  -.-|.-  .-.......|+.|...+....+...-.     -.....+.|+.    |+.
T Consensus         6 ~~~~C~~C~~~f---~~~~~--l~~H~~--~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~C~~----C~~   74 (124)
T 2dlq_A            6 SGVECPTCHKKF---LSKYY--LKVHNR--KHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSV----CQE   74 (124)
T ss_dssp             SSCCCTTTCCCC---SSHHH--HHHHHH--HHSSCCSCBCTTTCCBCSSHHHHHHHHHHCCCCSCCCCEECSS----SCC
T ss_pred             CCCCCCCCCCcC---CCHHH--HHHHHH--hCCCCCCeECCCCCchhcCHHHHHHHHhhhhcCCCCCCeECCC----CCC
Confidence            457788888777   43211  012210  000001257999988775433322111     12345678875    888


Q ss_pred             eec-cchHHhHhhh-CcccCcCCCCCCCCccc-ChhhHhhHhhcccCCC
Q 048313           89 KMS-YSKKYDHGKA-CHHARCSCPLAACNFVG-SFNQIYQHFRGVHKHA  134 (252)
Q Consensus        89 ~~~-~~~~~~H~~~-C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~~  134 (252)
                      .+. ...+..|+.. -.-.|+.|+.  |+... ...+|..|++..|..+
T Consensus        75 ~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~  121 (124)
T 2dlq_A           75 TFRRRMELRLHMVSHTGEMPYKCSS--CSQQFMQKKDLQSHMIKLHSGP  121 (124)
T ss_dssp             EESSHHHHHHHHHHHSSSCSEECSS--SCCEESSHHHHHHHHHHTSSCS
T ss_pred             ccCCHHHHHHHHHHcCCCCCccCCC--ccchhCCHHHHHHHHHHHCCCC
Confidence            775 4567888874 3456789985  98876 4688999999888764

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=88.78  E-value=0.56  Score=32.25  Aligned_cols=78  Identities=17%  Similarity=0.347  Sum_probs=50.1

Q ss_pred             CCCCCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhhC-cccCcCCCCCCCCccc-ChhhHhh
Q 048313           51 NKCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKAC-HHARCSCPLAACNFVG-SFNQIYQ  125 (252)
Q Consensus        51 ~~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C-~~~p~~CP~~gC~~~g-~~~~L~~  125 (252)
                      ..|+.|...+.......  +..-.....+.|+.    |+..+. ...+..|+..- .-.++.|+.  |+... ...+|..
T Consensus         9 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~   82 (96)
T 2dmd_A            9 HKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKT----CDYAAADSSSLNKHLRIHSDERPFKCQI--CPYASRNSSQLTV   82 (96)
T ss_dssp             CCBTTTTBCCCCHHHHHHHGGGCCCCCSEECSS----SCCEESSHHHHHHHHHHSCCCCCEECSS--SSCEESSHHHHHH
T ss_pred             eECCCCCCccCCHHHHHHHHHhcCCCCCEeCCC----CCCccCCHHHHHHHHHHhCCCCCccCCC--CCCccCCHHHHHH
Confidence            46888887765332221  22222334567874    888765 45677888753 346789985  88776 4688999


Q ss_pred             HhhcccCCC
Q 048313          126 HFRGVHKHA  134 (252)
Q Consensus       126 Hl~~~H~~~  134 (252)
                      |++..|...
T Consensus        83 H~~~h~~~~   91 (96)
T 2dmd_A           83 HLRSHTGDS   91 (96)
T ss_dssp             HHTTCCSCC
T ss_pred             HHHHhcCCC
Confidence            998776543

>2gli_A Protein (five-finger GLI); protein/DNA complex, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=88.38  E-value=0.76  Score=34.61  Aligned_cols=55  Identities=25%  Similarity=0.503  Sum_probs=27.2

Q ss_pred             eEeeccccCCCCceeec-cchHHhHh-h-hCcccCcCCCCCCCCcccC-hhhHhhHhhccc
Q 048313           75 IQVTCENEDHGCKEKMS-YSKKYDHG-K-ACHHARCSCPLAACNFVGS-FNQIYQHFRGVH  131 (252)
Q Consensus        75 l~v~C~~~~~GC~~~~~-~~~~~~H~-~-~C~~~p~~CP~~gC~~~g~-~~~L~~Hl~~~H  131 (252)
                      ..+.|+..  ||+..+. ...+..|+ . --.-.|+.|+.++|+.... ...|..|++..|
T Consensus        96 ~~~~C~~~--~C~~~f~~~~~L~~H~~~~H~~~~~~~C~~~~C~~~f~~~~~L~~H~~~hh  154 (155)
T 2gli_A           96 KPYMCEHE--GCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH  154 (155)
T ss_dssp             CCEECCST--TCCCEESSSSTTHHHHHHTTCSCCCEECCSTTTCCEESSHHHHHHHHHHSC
T ss_pred             CCeeCCCC--CCCCccCCHHHHHHHHHHhcCCCCCeeCCCCCCccccCCHHHHHHHHHhhc
Confidence            34555432  4655543 34455555 2 1233455665555665542 455666665544

>1ubd_C Protein (YY1 zinc finger domain); transcription initiation, initiator element, zinc finger protein, DNA- protein recognition; HET: DNA; 2.50A {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1znm_A*

Probab=88.17  E-value=0.44  Score=34.54  Aligned_cols=112  Identities=17%  Similarity=0.214  Sum_probs=63.6

Q ss_pred             EeCCeeeec--CCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhH--HHhheeeeEeeccccCCCC
Q 048313           11 LCTTVLHCF--ISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGC   86 (252)
Q Consensus        11 ~~~~~l~C~--iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC   86 (252)
                      |++..+.|+  +|...+   .....  -..|.-=.   ......|+.|...+.......  +..-.+.-.+.|+..  +|
T Consensus         1 ~~~~~~~C~~~~C~~~f---~~~~~--l~~H~~~h---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~--~C   70 (124)
T 1ubd_C            1 MEPRTIACPHKGCTKMF---RDNSA--MRKHLHTH---GPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFE--GC   70 (124)
T ss_dssp             ----CEECCSTTCCCEE---SSHHH--HHHHHGGG---SCCCEECTTTCCEESSHHHHHHHGGGTSCCCCEECCST--TC
T ss_pred             CCCCcccCCCCCCcCcc---CCHHH--HHHHHHHc---CCCCeECCCCCchhCCHHHHHHHHHHcCCCCCeeCCCC--CC
Confidence            355667888  788777   43210  01222100   111247999988765332221  222233445778642  68


Q ss_pred             ceeec-cchHHhHhhh-CcccCcCCCCCCCCccc-ChhhHhhHhhcccC
Q 048313           87 KEKMS-YSKKYDHGKA-CHHARCSCPLAACNFVG-SFNQIYQHFRGVHK  132 (252)
Q Consensus        87 ~~~~~-~~~~~~H~~~-C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~  132 (252)
                      +..+. ...+..|++. -.-.++.||..+|+... ....|..|++..+.
T Consensus        71 ~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~L~~H~~~H~~  119 (124)
T 1ubd_C           71 GKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAK  119 (124)
T ss_dssp             CCEESCHHHHHHHHHHHHCCCCCCCCSTTCCCCCSSTTTTHHHHHHHC-
T ss_pred             cCccCCHHHHHHHHHHhCCCCceECCCCCCCCccCCHHHHHHHHHHHcc
Confidence            88775 4567788763 34468899877898877 46889999887544

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=87.75  E-value=0.27  Score=32.17  Aligned_cols=37  Identities=22%  Similarity=0.678  Sum_probs=28.6

Q ss_pred             eecCCcccccCCCCc-eEEcc-CCceecccChh---hhcCCCCCC
Q 048313           17 HCFISFSSFIFTLLS-VAECG-NGHIVCNRCCI---ELMNKCPSC   56 (252)
Q Consensus        17 ~C~iC~~~l~~~~~P-i~qc~-~GH~~C~~C~~---~~~~~CP~C   56 (252)
                      .|-.|...+   .++ .|+|+ |++.||..|=.   .....||.|
T Consensus        17 ~C~~C~~~~---~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGEL---KDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEEC---TTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             cccccCccc---CCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            499999998   444 48998 89999999943   222789988

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=87.60  E-value=0.21  Score=35.69  Aligned_cols=46  Identities=22%  Similarity=0.451  Sum_probs=35.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~   61 (252)
                      .+=|.|..|..+|   ....+.-..|.++|..|..++ ..+|..|.++|.
T Consensus        31 ~~CF~C~~C~~~L---~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~   77 (101)
T 2cup_A           31 DTCFRCAKCLHPL---ANETFVAKDNKILCNKCTTREDSPKCKGCFKAIV   77 (101)
T ss_dssp             TTTCCCSSSCCCT---TSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCC
T ss_pred             hcCCcccccCCCC---CcCeeECcCCEEEChhHhhhhcCCccccCCCccc
Confidence            3447899999999   554344368999999998875 478999998875

>2rpc_A Zinc finger protein ZIC 3; ZF-C2H2, zinc finger protein of the cerebellum 3, disease mutation, DNA-binding, metal-binding, nucleus, polymorphism; NMR {Homo sapiens}

Probab=86.95  E-value=0.95  Score=34.16  Aligned_cols=81  Identities=11%  Similarity=0.204  Sum_probs=52.7

Q ss_pred             CCCCCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhhC-cccCcCCCCCCCCcccC-hhhHhh
Q 048313           51 NKCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKAC-HHARCSCPLAACNFVGS-FNQIYQ  125 (252)
Q Consensus        51 ~~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C-~~~p~~CP~~gC~~~g~-~~~L~~  125 (252)
                      ..|+.|...+.......  +..-.+.-.+.|+..  +|+..+. ...+..|++.- .-.|+.|+.++|+.... ...|..
T Consensus        63 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~--~C~~~f~~~~~L~~H~~~h~~~~~~~C~~~~C~k~f~~~~~L~~  140 (155)
T 2rpc_A           63 EECPREGKSFKAKYKLVNHIRVHTGEKPFPCPFP--GCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKK  140 (155)
T ss_dssp             TTCTTSSCCCSSHHHHHHHTHHHHCCCSEECSCT--TTCCEESCHHHHHHHHTTTCSSCSBCCSSTTCCCCBSSHHHHHH
T ss_pred             cCCCCcccccCCHHHHHHHHHhcCCCCcccCCcC--CCCCccCCHHHHHHHHHhhCCCCCccCCCCCCCCccCCHHHHHH
Confidence            36999988775332221  222223445778742  6888775 45678888742 34678998778988774 578999


Q ss_pred             HhhcccCC
Q 048313          126 HFRGVHKH  133 (252)
Q Consensus       126 Hl~~~H~~  133 (252)
                      |++..+..
T Consensus       141 H~~~H~~~  148 (155)
T 2rpc_A          141 HMHVHTSD  148 (155)
T ss_dssp             SSTTTTSC
T ss_pred             HHHHhcCC
Confidence            98865543

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=86.91  E-value=0.13  Score=37.06  Aligned_cols=38  Identities=32%  Similarity=0.660  Sum_probs=29.8

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh--cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--~~~CP~Cr~~~~   61 (252)
                      ..||.|...|   ..     ..|+..|..|-...  ...||.|.+++.
T Consensus        33 ~~CP~Cq~eL---~~-----~g~~~hC~~C~~~f~~~a~CPdC~q~Le   72 (101)
T 2jne_A           33 LHCPQCQHVL---DQ-----DNGHARCRSCGEFIEMKALCPDCHQPLQ   72 (101)
T ss_dssp             CBCSSSCSBE---EE-----ETTEEEETTTCCEEEEEEECTTTCSBCE
T ss_pred             ccCccCCCcc---ee-----cCCEEECccccchhhccccCcchhhHHH
Confidence            7899999999   32     35666799997763  368999999875

>2j7j_A Transcription factor IIIA; zinc finger module, alternative initiation, nuclear protein, phosphorylation, hydrophobic core, zinc, RNA-binding; 1.65A {Xenopus laevis} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1un6_B 2hgh_A

Probab=85.84  E-value=0.52  Score=31.42  Aligned_cols=76  Identities=21%  Similarity=0.484  Sum_probs=44.3

Q ss_pred             CC--CCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhhCcccCcCCCCCC-CCcccC-hhhHh
Q 048313           52 KC--PSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKACHHARCSCPLAA-CNFVGS-FNQIY  124 (252)
Q Consensus        52 ~C--P~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C~~~p~~CP~~g-C~~~g~-~~~L~  124 (252)
                      .|  +.|...+....+..  +..-.+...+.|+.  .||+..+. ..++..|++.-.-  +.|+.++ |+.... ...|.
T Consensus         3 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--~~C~~~f~~~~~l~~H~~~h~~--~~C~~~~~C~~~f~~~~~l~   78 (85)
T 2j7j_A            3 VCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPH--EGCDKRFSLPSRLKRHEKVHAG--YPCKKDDSCSFVGKTWTLYL   78 (85)
T ss_dssp             ECCSTTCCCEESSHHHHHHHHHHHHTTCCEECCS--TTCCCEESSHHHHHHHHHHHHS--EECCSCSSCCCEESSHHHHH
T ss_pred             cCCCCCCCcccCCHHHHHHHHHHhCCCCCeeCCC--CCCcCccCCHHHHHHHHHHhCC--CCCCCCCCCCCccCCHHHHH
Confidence            46  66766554222211  22222334567864  27887765 4456777764221  7787665 888774 57888


Q ss_pred             hHhhccc
Q 048313          125 QHFRGVH  131 (252)
Q Consensus       125 ~Hl~~~H  131 (252)
                      .|++..|
T Consensus        79 ~H~~~hh   85 (85)
T 2j7j_A           79 KHVAECH   85 (85)
T ss_dssp             HHHHHCC
T ss_pred             HHHHhcC
Confidence            8887655

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=85.29  E-value=0.42  Score=35.55  Aligned_cols=46  Identities=22%  Similarity=0.358  Sum_probs=36.6

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~   61 (252)
                      ++-|.|..|..+|   ...-+.-..|..+|..|..++ ..+|..|.++|.
T Consensus        28 ~~CF~C~~C~~~L---~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~   74 (126)
T 2xqn_T           28 LKHFCCFDCDSIL---AGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAID   74 (126)
T ss_dssp             GGGSBCTTTCCBC---TTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCC
T ss_pred             CCCCCcCCCCCCC---CcCEEEeECCEEechHHhCcCcCccCcccCCcCC
Confidence            3458899999999   553344478999999999875 478999999876

>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=84.54  E-value=0.25  Score=38.01  Aligned_cols=26  Identities=19%  Similarity=0.485  Sum_probs=22.7

Q ss_pred             ccCcCCCCCCCCcccChhhHhh-Hhhc
Q 048313          104 HARCSCPLAACNFVGSFNQIYQ-HFRG  129 (252)
Q Consensus       104 ~~p~~CP~~gC~~~g~~~~L~~-Hl~~  129 (252)
                      -.++.||+.||+|.+...++.+ |+..
T Consensus       102 ~L~v~Cpn~GC~~~~~l~~l~~~H~~~  128 (141)
T 3knv_A          102 SLPAVCPSDGCTWKGTLKEYESCHEGR  128 (141)
T ss_dssp             TSEEECCSTTCCCEEEHHHHHHHTTTC
T ss_pred             ccccccCCCCCCCEeEHHHHHHHHHHH
Confidence            4567999999999999999998 9864

>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=84.39  E-value=1.3  Score=29.38  Aligned_cols=42  Identities=14%  Similarity=0.209  Sum_probs=33.0

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCC
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPI   60 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~   60 (252)
                      -.|..|..-+   .-+.++|.||..||+.=+..-...|+..-+..
T Consensus        16 ~rC~~C~kkv---gl~~f~CrCg~~FC~~HR~~e~H~C~fDyk~~   57 (64)
T 1wg2_A           16 NRCFSCNKKV---GVMGFKCKCGSTFCGSHRYPEKHECSFDFKEV   57 (64)
T ss_dssp             CSCTTTCCCC---TTSCEECTTSCEECSSSCSSTTTTCCCCCSCS
T ss_pred             CcChhhCCcc---cccCeEeecCCEecccCCCccccCCCcchhHH
Confidence            4799999977   55558999999999998776557888765544

>2gli_A Protein (five-finger GLI); protein/DNA complex, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=84.03  E-value=1.2  Score=33.39  Aligned_cols=58  Identities=17%  Similarity=0.287  Sum_probs=37.8

Q ss_pred             eeEeeccccCCCCceeec-cchHHhHhhhC-cccCcCCCCCCCCccc-ChhhHhhHhhcccCC
Q 048313           74 SIQVTCENEDHGCKEKMS-YSKKYDHGKAC-HHARCSCPLAACNFVG-SFNQIYQHFRGVHKH  133 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C-~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~  133 (252)
                      ...+.|+..  +|+..+. ...+..|++.- .-.|+.|+.++|+... ...+|..|+...|..
T Consensus        65 ~~~~~C~~~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~L~~H~~~~H~~  125 (155)
T 2gli_A           65 EKPHKCTFE--GCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSN  125 (155)
T ss_dssp             CCCCCCCST--TCCCCCSSHHHHHHHHHHTTTCCCEECCSTTCCCEESSSSTTHHHHHHTTCS
T ss_pred             CCCccCCCC--CCCCcccCHHHHHHHHHHcCCCCCeeCCCCCCCCccCCHHHHHHHHHHhcCC
Confidence            345667632  5777665 44577887642 3457888877788776 457888888666653

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=83.81  E-value=1.6  Score=30.50  Aligned_cols=77  Identities=14%  Similarity=0.170  Sum_probs=49.0

Q ss_pred             CCCCCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhh-CcccCcCCCCCCCCccc-ChhhHhh
Q 048313           51 NKCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKA-CHHARCSCPLAACNFVG-SFNQIYQ  125 (252)
Q Consensus        51 ~~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~-C~~~p~~CP~~gC~~~g-~~~~L~~  125 (252)
                      ..|+.|...+....+..  +..-.+...+.|+.    |...+. ...+..|+.. -.-.++.|+.  |+... ....|..
T Consensus        18 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~   91 (106)
T 2ee8_A           18 FICKFCGRHFTKSYNLLIHERTHTDERPYTCDI----CHKAFRRQDHLRDHRYIHSKEKPFKCQE--CGKGFCQSRTLAV   91 (106)
T ss_dssp             CBCSSSCCBCSSHHHHHHHHHHHCCSCCCBCSS----SCCBCSCHHHHHHHGGGSCCCCTTSCSS--SCCCCSSHHHHHH
T ss_pred             eECCCCCCccCCHHHHHHHHHHcCCCCCcCCCC----ccchhCCHHHHHHHHHHhCCCCCeECCC--cCCcccCHHHHHH
Confidence            46888887765332221  22223344567774    887764 4567888874 3346789985  88776 4688999


Q ss_pred             HhhcccCC
Q 048313          126 HFRGVHKH  133 (252)
Q Consensus       126 Hl~~~H~~  133 (252)
                      |++..+..
T Consensus        92 H~~~H~~~   99 (106)
T 2ee8_A           92 HKTLHMQT   99 (106)
T ss_dssp             HHHHTTSC
T ss_pred             HHHHhCCC
Confidence            98765543

>1wfh_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=83.12  E-value=1.6  Score=28.91  Aligned_cols=42  Identities=14%  Similarity=0.158  Sum_probs=32.7

Q ss_pred             eeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcC
Q 048313           15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLP   59 (252)
Q Consensus        15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~   59 (252)
                      .-.|..|.+-+   .-+-++|.||..||+.=+..-...|+..-+.
T Consensus        15 ~~rC~~C~kkv---gl~~f~CrCg~~FC~~HRy~e~H~C~fDyk~   56 (64)
T 1wfh_A           15 PNRCTVCRKRV---GLTGFMCRCGTTFCGSHRYPEVHGCTFDFKS   56 (64)
T ss_dssp             CCCCTTTCCCC---CTTCEECSSSCEECTTTCSTTTTTCCCCCSC
T ss_pred             CCcChhhCCcc---CccCEEeecCCEeccccCCcccCCCCchhhH
Confidence            45799999976   5545899999999999877655788866443

>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic acid binding, KIAA1227 protein, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=82.60  E-value=0.46  Score=33.68  Aligned_cols=77  Identities=19%  Similarity=0.320  Sum_probs=47.3

Q ss_pred             CCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCceeec-cchHHhHhhhCcccCcCCCCCCCCccc-ChhhHhhHhh
Q 048313           51 NKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKACHHARCSCPLAACNFVG-SFNQIYQHFR  128 (252)
Q Consensus        51 ~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~  128 (252)
                      ..|+.|...+....+...-...-.-.+.|+.    |...+. ...+..|+..-.-.|+.|+.  |+... ....|..|++
T Consensus        17 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~C~~----C~~~f~~~~~l~~H~~H~~~~~~~C~~--C~~~f~~~~~L~~H~~   90 (107)
T 1wjp_A           17 YQCRLCNAKLSSLLEQGSHERLCRNAAVCPY----CSLRFFSPELKQEHESKCEYKKLTCLE--CMRTFKSSFSIWRHQV   90 (107)
T ss_dssp             CBCTTTCCBCSSHHHHHHHHHHHHHSBCCTT----TCCCBSSHHHHHHHHHHCSTGGGEEGG--GTEECSSHHHHHHHHH
T ss_pred             eECCCCCCccCCHHHHHHHHHHCCCCccCCC----CCCccCCHHHHHHHHHcCCCCCccCcc--ccchhCCHHHHHHHHH
Confidence            4688888776533222111111112456764    777664 34567887544456788975  88776 4688999998


Q ss_pred             cccCC
Q 048313          129 GVHKH  133 (252)
Q Consensus       129 ~~H~~  133 (252)
                      ..|..
T Consensus        91 ~~H~~   95 (107)
T 1wjp_A           91 EVHNQ   95 (107)
T ss_dssp             HTSCC
T ss_pred             HHcCC
Confidence            77764

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3

Probab=81.22  E-value=1.1  Score=30.02  Aligned_cols=45  Identities=16%  Similarity=0.085  Sum_probs=33.5

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecc-cChhhh-cCCCCCCCcCC
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCN-RCCIEL-MNKCPSCRLPI   60 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~-~C~~~~-~~~CP~Cr~~~   60 (252)
                      .+-|.|..|..+|   ..-.+.-..|.++|. .|..++ ..+|..|...+
T Consensus        25 ~~CF~C~~C~~~L---~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~   71 (76)
T 1iml_A           25 RPCLKCEKCGKTL---TSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAE   71 (76)
T ss_dssp             TTTCBCTTTCCBC---CTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSS
T ss_pred             CCCCCccccCccC---CCCceECcCCeEeeCHHHHHHHhCccCCCcCCce
Confidence            4557899999999   542233378999999 698875 47898888654

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=81.05  E-value=1.1  Score=29.53  Aligned_cols=73  Identities=15%  Similarity=0.299  Sum_probs=43.7

Q ss_pred             CCCCCCcCCcccchhH--HHhheeeeEeeccccCCCCceeec-cchHHhHhhh-CcccCcCCCCCCCCccc-ChhhHhhH
Q 048313           52 KCPSCRLPIGHSRSIA--MEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGKA-CHHARCSCPLAACNFVG-SFNQIYQH  126 (252)
Q Consensus        52 ~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~~-C~~~p~~CP~~gC~~~g-~~~~L~~H  126 (252)
                      .|+.|...+.......  +..-.+.-.+.|+.    |+..+. ...+..|+.. -.-.++.|+.  |+... ...+|..|
T Consensus         3 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H   76 (82)
T 2kmk_A            3 DCKICGKSFKRSSTLSTHLLIHSDTRPYPCQY----CGKRFHQKSDMKKHTFIHTGEKPHKCQV--CGKAFSQSSNLITH   76 (82)
T ss_dssp             ECSSSCCEESSHHHHHHHHHHHHTCCCEECSS----SCCEESSHHHHHHHHHHHHTCCCEECTT--TSCEESSHHHHHHH
T ss_pred             cCCCCcccccCchhHHHHHHHcCCCCCeeCCc----CChhhCCHHHHHHHHHHhcCCCCCcCCC--cchhhCChHHHHHH
Confidence            4777766554322211  22222344567774    877764 4456777763 3346788975  88776 46789999


Q ss_pred             hhcc
Q 048313          127 FRGV  130 (252)
Q Consensus       127 l~~~  130 (252)
                      ++..
T Consensus        77 ~~~H   80 (82)
T 2kmk_A           77 SRKH   80 (82)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            8754

---

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	252
d1k2fa_	190	b.8.1.2 (A:) SIAH, seven in absentia homolog {Mous	5e-20

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]} Length = 190

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 82.4 bits (203), Expect = 5e-20
 Identities = 33/188 (17%), Positives = 62/188 (32%), Gaps = 13/188 (6%)

Query: 74  SIQVTCENEDHGCKEKMSYSKKYDHGKACHHA--RCSCPLAACNFVGSFNQIYQHFRGVH 131
           S+   C+    GC+  + +++K +H + C      C CP A+C + GS + +  H    H
Sbjct: 1   SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60

Query: 132 KHAAEEFVYDKVLRITLSVHHDLIF--LQEEKNGDLFILNNS----TEPHGYRISVNCIA 185
           K        D V   T       +   + +   G  F+L        + H    ++  + 
Sbjct: 61  KSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIVQLI 120

Query: 186 PP--CKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVASLLVPSD---FFGSYGQ 240
                     Y +          + +  +SI         +   L+  +     F   G 
Sbjct: 121 GTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFAENGN 180

Query: 241 LNLEVRIQ 248
           L + V I 
Sbjct: 181 LGINVTIS 188

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	252
d1k2fa_	190	SIAH, seven in absentia homolog {Mouse (Mus muscul	100.0
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.97
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.94
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.93
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.91
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.89
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.75
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.67
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.65
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.61
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.61
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.53
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.47
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	97.85
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.78
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.34
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	96.25
d1zfda_	32	SWI5 zinc-finger domains {Baker's yeast (Saccharom	94.91
d1ubdc4	28	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	94.53
d1sp2a_	31	Transcription factor sp1 {Human (Homo sapiens) [Ta	93.99
d2glia3	30	Five-finger GLI1 {Human (Homo sapiens) [TaxId: 960	93.38
d1a1ia1	29	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	93.36
d1ubdc3	30	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	92.44
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	90.83
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	90.82
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	89.42
d2glia5	29	Five-finger GLI1 {Human (Homo sapiens) [TaxId: 960	87.44
d1wfha_	64	Zinc finger A20 and AN1 domains containing protein	86.3
d2j7ja2	29	Transcription factor IIIA, TFIIIA {Xenopus laevis	85.95
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	85.89
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	84.49
d1ncsa_	47	SWI5 zinc-finger domains {Baker's yeast (Saccharom	83.54
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	82.84
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	82.56
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	81.7
d1wffa_	85	ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus	81.32
d1x3ca1	61	Zinc finger protein 292, ZNF292 {Human (Homo sapie	80.46

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.3e-34  Score=239.09  Aligned_cols=175  Identities=19%  Similarity=0.293  Sum_probs=145.2

Q ss_pred             eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCC--CCCcccChhhHhhHhhcccCCCCeeEEeCcEEEEEEe--
Q 048313           74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLA--ACNFVGSFNQIYQHFRGVHKHAAEEFVYDKVLRITLS--  149 (252)
Q Consensus        74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~--gC~~~g~~~~L~~Hl~~~H~~~~~~~~y~~~~~~~l~--  149 (252)
                      ++++||+|+.+||++.++|.++..||++|.|+|+.||.+  +|+|+|+.++|..|++..|++....+.++..+.....  
T Consensus         1 Sv~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~C~~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~~~~~~~~~~~~   80 (190)
T d1k2fa_           1 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTLQGEDIVFLATDINL   80 (190)
T ss_dssp             CCCCCCTTGGGTCCCCCCGGGHHHHHHTCTTSCEECCSSSTTCCCEECHHHHHHHHHHSSCCCEEEESSEEEEEECCTTC
T ss_pred             CeeEecCCCCCCCCEeccccchhhHHhcCCCcccCCCCCCCCCccCCCHhHHHHHHHhcCCcccccCccceEEeeecccc
Confidence            467999999999999999999999999999999888766  5999999999999999999977666566544432211  


Q ss_pred             ccCcEEEEEEeeCCcEEEEecCCCCc-----ccEEEEEeecCC-CCCCeEEEEEEeeCCCeEEEeeeeeeecccccCCCC
Q 048313          150 VHHDLIFLQEEKNGDLFILNNSTEPH-----GYRISVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPP  223 (252)
Q Consensus       150 ~~~~~~vl~~~~~~~lFll~~~~~~~-----g~~vsv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~~~~~~~~  223 (252)
                      ......+++..++|.+|+|+.+....     ..++.|++||++ +|++|.|+|++.+++++|+|++.++++++...+..+
T Consensus        81 ~~~~~~v~~~~~~g~~F~l~~~~~~~~~~~~~~~~~v~~~G~~~~a~~f~Yel~l~~~~r~l~~~~~~~si~e~~~~~~~  160 (190)
T d1k2fa_          81 PGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIM  160 (190)
T ss_dssp             TTCCEEEEEEEETTEEEEEEEEEEEETTTEEEEEEEEEESSCHHHHTTEEEEEEEEETTEEEEEEECCEETTTCSHHHHH
T ss_pred             ccceeEEEEEecCCCEEEEEEEEEeccCCCCeEEEEEEEECCHHHhhCccEEEEecCCCceEEEeccccccccccccccC
Confidence            12345567778999999998754322     246778899999 999999999999999999999999999863333467


Q ss_pred             CcceeEEcCc---ccCCCCceeEEEEEe
Q 048313          224 SVASLLVPSD---FFGSYGQLNLEVRIQ  248 (252)
Q Consensus       224 ~~~fL~VP~~---~l~~~~~l~l~V~I~  248 (252)
                      +.+||+||..   +|+++|+|+|+|+|+
T Consensus       161 ~~d~lvi~~~~~~~F~~~g~L~l~v~I~  188 (190)
T d1k2fa_         161 NSDCLVFDTSIAQLFAENGNLGINVTIS  188 (190)
T ss_dssp             TTCSEEEEHHHHHHHCBTTBEEEEEEEE
T ss_pred             CCCEEEECHHHHhhcccCCcEEEEEEEE
Confidence            8899999985   889999999999997

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=6e-11  Score=85.82  Aligned_cols=58  Identities=21%  Similarity=0.420  Sum_probs=47.6

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc---ccchhHHHhheee
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG---HSRSIAMEKVLES   74 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~---~~r~~~le~~~~~   74 (252)
                      +.|.||||.+.+   ..|+....|||.||..|+.++ ..+||.||.++.   ..+|++++++++.
T Consensus        21 ~~l~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~l~~n~~l~~lv~~   82 (97)
T d1jm7b_          21 KLLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQL   82 (97)
T ss_dssp             HTTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHH
T ss_pred             hcCCCccCCchh---hcCceeCCCCCchhHHHHHHHHhccccccCCcCchhhCcccHHHHHHHHH
Confidence            357899999999   999865579999999999886 467999998864   3467888877664

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.94  E-value=1.2e-10  Score=81.21  Aligned_cols=59  Identities=20%  Similarity=0.170  Sum_probs=50.2

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||.++|   ++|+. ..|||+||.+|+.++    ...||.|+.++.   ..+|.+|+++|++.
T Consensus         5 P~~l~CpIc~~l~---~dPv~-~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~   70 (80)
T d2c2la2           5 PDYLCGKISFELM---REPCI-TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAF   70 (80)
T ss_dssp             CSTTBCTTTCSBC---SSEEE-CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHH
T ss_pred             CccccCcCcCchh---hhhcc-cCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHH
Confidence            5789999999999   99985 589999999999874    257999999885   45788999888774

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=9.6e-11  Score=76.16  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=41.7

Q ss_pred             eCCeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCccc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHS   63 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~   63 (252)
                      +.+.|.|+||.+.+   .+|+. ..|||.||..|+.+...+||.||.++...
T Consensus         3 e~~~l~C~IC~~~~---~~p~~-lpCgH~fC~~Ci~~~~~~CP~Cr~~~~~~   50 (56)
T d1bora_           3 EFQFLRCQQCQAEA---KCPKL-LPCLHTLCSGCLEASGMQCPICQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSC---BCCSC-STTSCCSBTTTCSSSSSSCSSCCSSSSCC
T ss_pred             ccCCCCCcccCccc---CCCEE-ecCCCHHhHHHHHcCCCcCcCCCCcccCC
Confidence            44668999999999   89976 58999999999999888999999987633

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.91  E-value=1e-10  Score=82.68  Aligned_cols=55  Identities=25%  Similarity=0.460  Sum_probs=42.8

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc----cchhHHHhhe
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH----SRSIAMEKVL   72 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~----~r~~~le~~~   72 (252)
                      +.+.||||.+++   ..|+. ..|||.||..|+.++    ..+||.||.++..    .+.+++.+++
T Consensus        22 ~~l~C~IC~~~~---~~pv~-~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~l   84 (86)
T d1rmda2          22 KSISCQICEHIL---ADPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNIL   84 (86)
T ss_dssp             HHTBCTTTCSBC---SSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHH
T ss_pred             cCcCCccCCcch---hccee-cCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHHh
Confidence            447899999999   99986 489999999999875    2579999998752    2344555544

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.89  E-value=1.3e-10  Score=80.69  Aligned_cols=59  Identities=12%  Similarity=0.192  Sum_probs=48.8

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||.++|   ++|+.. .|||+||.+|+.++    ...||.|+.++.   ..+|.+++++|+++
T Consensus         6 P~~l~CpIc~~~m---~dPV~~-~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~~   71 (78)
T d1t1ha_           6 PEYFRCPISLELM---KDPVIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALW   71 (78)
T ss_dssp             SSSSSCTTTSCCC---SSEEEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHH
T ss_pred             CccCCCcCcCchh---hCceEc-cCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHHH
Confidence            5789999999999   999864 89999999999875    246999999875   34688888877654

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=2.5e-10  Score=83.38  Aligned_cols=63  Identities=25%  Similarity=0.609  Sum_probs=46.7

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---c---CCCCCCCcCCc---ccchhHHHhheeee-Eeecc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---M---NKCPSCRLPIG---HSRSIAMEKVLESI-QVTCE   80 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~---~~CP~Cr~~~~---~~r~~~le~~~~~l-~v~C~   80 (252)
                      +.|.||||.+++   ..|+. ..|||.||..|+.++   .   ..||.||.++.   ..+|..+.++++++ ++.|+
T Consensus        20 ~~l~CpIC~~~~---~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~l~~~~~~   92 (103)
T d1jm7a_          20 KILECPICLELI---KEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICA   92 (103)
T ss_dssp             HHTSCSSSCCCC---SSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHHHHHHH
T ss_pred             cCcCCCccCchh---CCeEE-cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHHHHHHHcc
Confidence            347899999999   99986 589999999999874   1   47999999874   23455555555544 34444

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.67  E-value=2.6e-09  Score=69.14  Aligned_cols=43  Identities=16%  Similarity=0.071  Sum_probs=37.9

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      |.||||.+++   ++|+..-.|||+||.+|+.++   .++||.||+++.
T Consensus         1 l~C~Ic~~~~---~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             CCCccCCchH---HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCC
Confidence            5799999999   999876569999999999986   478999999875

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=2.1e-09  Score=68.53  Aligned_cols=46  Identities=22%  Similarity=0.600  Sum_probs=34.7

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~   61 (252)
                      ++||||++.+-+....+..+.|||.||..|+.++.    .+||+||+++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            58999999872211223456899999999999862    46999999875

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.61  E-value=9.1e-09  Score=69.18  Aligned_cols=45  Identities=20%  Similarity=0.397  Sum_probs=38.5

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      ..-.||||++.+   ..|++.-.|||.||..|+.++   +..||.||.++.
T Consensus         4 ~~d~C~IC~~~~---~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCC---CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCc---cCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            445799999999   888776689999999999886   479999999875

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=3.7e-09  Score=76.36  Aligned_cols=60  Identities=10%  Similarity=-0.050  Sum_probs=49.0

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESI   75 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l   75 (252)
                      ++.|.||||..+|   .+||....+||.||..|+.++   .+.||.|+.++.   ...|.+|++.|+..
T Consensus        20 P~~f~CPI~~~lm---~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~~   85 (98)
T d1wgma_          20 CDEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRW   85 (98)
T ss_dssp             CTTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHH
T ss_pred             cHHhCCcCchhHH---HHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHHH
Confidence            5789999999999   999875334568999999986   478999999986   34788888887654

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=2.6e-09  Score=74.14  Aligned_cols=47  Identities=26%  Similarity=0.416  Sum_probs=38.5

Q ss_pred             CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCccc
Q 048313           13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGHS   63 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~~   63 (252)
                      .+...|+||++.+   ..|+. ..|||.||..|+.+|    ...||.||..+...
T Consensus        21 ~~~~~C~IC~~~~---~~~~~-~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          21 STFQLCKICAEND---KDVKI-EPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             CCTTBCTTTSSSB---CCEEC-SSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCCCccCCCcC---CCeEE-eCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            3445799999999   89876 479999999999875    25799999998643

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=1.1e-08  Score=68.17  Aligned_cols=49  Identities=22%  Similarity=0.403  Sum_probs=36.4

Q ss_pred             CCeeeecCCcccccC-CCCceEEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313           13 TTVLHCFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG   61 (252)
Q Consensus        13 ~~~l~C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~   61 (252)
                      +|...||||++.+.. +...++...|||.||..|+.++    ...||.||+++.
T Consensus         1 ~dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~   54 (65)
T d1g25a_           1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CCTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcc
Confidence            356889999986521 1123455679999999999886    257999999875

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.47  E-value=4.5e-08  Score=62.92  Aligned_cols=46  Identities=20%  Similarity=0.329  Sum_probs=35.9

Q ss_pred             CeeeecCCcccccCCCCceEEcc-CCceecccChhhh---cCCCCCCCcCC
Q 048313           14 TVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIEL---MNKCPSCRLPI   60 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~---~~~CP~Cr~~~   60 (252)
                      +..+|+||++.+-+ ...+.+.+ |||.||..|+.+|   ++.||.||.++
T Consensus         4 d~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELED-GEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCT-TSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCeEECccccC-CCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            34689999999832 23455654 9999999999986   47899999875

>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=97.85  E-value=2.4e-06  Score=62.52  Aligned_cols=47  Identities=19%  Similarity=0.424  Sum_probs=34.2

Q ss_pred             eeeecCCcccccC--------------CCCceEEccCCceecccChhhhc--------CCCCCCCcCCc
Q 048313           15 VLHCFISFSSFIF--------------TLLSVAECGNGHIVCNRCCIELM--------NKCPSCRLPIG   61 (252)
Q Consensus        15 ~l~C~iC~~~l~~--------------~~~Pi~qc~~GH~~C~~C~~~~~--------~~CP~Cr~~~~   61 (252)
                      .-.|+||.+.|.+              +...+....|||.||..|+.+|.        .+||+||..++
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            4579999998821              01123455799999999998862        26999998775

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=1e-05  Score=56.41  Aligned_cols=57  Identities=18%  Similarity=0.119  Sum_probs=40.9

Q ss_pred             eEEEEEEeCCeeeecCCcccccCCC--------------CceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313            5 CVCHFVLCTTVLHCFISFSSFIFTL--------------LSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG   61 (252)
Q Consensus         5 ~~~~~~~~~~~l~C~iC~~~l~~~~--------------~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~   61 (252)
                      .|..-.-|...-.|+||.+.+.+..              .++..-.|||.|+..|+.++   ++.||+||.++.
T Consensus        11 av~~w~~d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          11 AVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             EEEEEEESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             EEEEEeecCCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3444456677778999998883300              02344469999999999986   478999999865

>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=97.34  E-value=2.3e-05  Score=50.47  Aligned_cols=47  Identities=19%  Similarity=0.301  Sum_probs=35.1

Q ss_pred             eCCeeeecCCcccccCCCCceE-Ecc---CCceecccChhhh-----cCCCCCCCcCCc
Q 048313           12 CTTVLHCFISFSSFIFTLLSVA-ECG---NGHIVCNRCCIEL-----MNKCPSCRLPIG   61 (252)
Q Consensus        12 ~~~~l~C~iC~~~l~~~~~Pi~-qc~---~GH~~C~~C~~~~-----~~~CP~Cr~~~~   61 (252)
                      |-+...|+||++.+   ..+.. -|.   ++|.|+..|+.+|     ...||.||.++.
T Consensus         3 ded~~~C~IC~~~~---~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEEL---GNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEEC---SCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccC---CCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45678899999887   44432 233   4799999999986     247999999764

>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=96.25  E-value=0.00089  Score=46.45  Aligned_cols=34  Identities=12%  Similarity=0.215  Sum_probs=23.4

Q ss_pred             CeeeecCCcccccCCCCceEEccCCceecccChhh
Q 048313           14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE   48 (252)
Q Consensus        14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~   48 (252)
                      ....|+||++.+.. ...+..-.|||.||..|+..
T Consensus         4 ~~~~C~IC~~~~~~-~~~~~~~~C~H~fC~~Cl~~   37 (94)
T d1wima_           4 GSSGCKLCLGEYPV-EQMTTIAQCQCIFCTLCLKQ   37 (94)
T ss_dssp             SBCCCSSSCCCCBG-GGEEEETTTTEEEEHHHHHH
T ss_pred             CCCcCccCCCcccC-CceEEECCCCCEeCCcCHHH
Confidence            34689999987711 12122236999999999986

>d1zfda_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.91  E-value=0.0092  Score=32.91  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=21.3

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.|+.+||++... ..+|..|++.
T Consensus         2 rP~~C~~pgC~k~F~r~~~L~~H~r~   27 (32)
T d1zfda_           2 RPYSCDHPGCDKAFVRNHDLIRHKKS   27 (32)
T ss_dssp             CSBCCCCTTCCCCBSSSHHHHHHHGG
T ss_pred             cCeECcCCCCCCeeCCHHHHHHHhhh
Confidence            689999999999985 5789999765

>d1ubdc4 g.37.1.1 (C:381-408) Ying-yang 1 (yy1, zinc finger domain) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.53  E-value=0.0088  Score=31.94  Aligned_cols=25  Identities=20%  Similarity=0.368  Sum_probs=20.7

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.|+.+||++... ..+|..|++.
T Consensus         1 rPf~C~~~gC~K~F~~~~~L~~H~r~   26 (28)
T d1ubdc4           1 RPYVCPFDGCNKKFAQSTNLKSHILT   26 (28)
T ss_dssp             CCCCCCSTTCCCCCSSTTTTHHHHHH
T ss_pred             CCcCCCCCCcCCcCCCHHHHHHHHhh
Confidence            588999999999885 5788888764

>d1sp2a_ g.37.1.1 (A:) Transcription factor sp1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcription factor sp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.99  E-value=0.018  Score=31.39  Aligned_cols=25  Identities=16%  Similarity=0.255  Sum_probs=21.3

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.||.+||+.... ...|..|++.
T Consensus         1 kpf~C~~~~C~k~F~~~~~L~~H~r~   26 (31)
T d1sp2a_           1 RPFMCTWSYCGKRFTRSDELQRHKRT   26 (31)
T ss_dssp             CCCBCCSTTCCCBCSSHHHHHHHHTT
T ss_pred             CcCCCcCCCCCcCcCChhHhhhhcCc
Confidence            588999999999885 5889999875

>d2glia3 g.37.1.1 (A:168-197) Five-finger GLI1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Five-finger GLI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.025  Score=30.56  Aligned_cols=25  Identities=20%  Similarity=0.464  Sum_probs=20.8

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.|+.+||+.... ...|..|++.
T Consensus         1 kp~~C~~~gCgk~F~~~~~L~~H~r~   26 (30)
T d2glia3           1 KPHKCTFEGCRKSYSRLENLKTHLRS   26 (30)
T ss_dssp             CCCCCCSTTCCCCCSSHHHHHHHHHH
T ss_pred             CCeeCCCCCCCceECChhHhhhhcCc
Confidence            588999999999885 5788999764

>d1a1ia1 g.37.1.1 (A:103-131) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.36  E-value=0.016  Score=31.13  Aligned_cols=25  Identities=24%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.|+.+||++... ..+|..|.+.
T Consensus         1 Kp~~C~~~gC~k~F~~~~~L~~H~r~   26 (29)
T d1a1ia1           1 RPYACPVESCDRRFSRSADLTRHIRI   26 (29)
T ss_dssp             CCEECCSTTCCCEESSHHHHHHHTHH
T ss_pred             CCeECCCCCCCcEECchhHhhhhcCc
Confidence            578999999999885 5788888763

>d1ubdc3 g.37.1.1 (C:351-380) Ying-yang 1 (yy1, zinc finger domain) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.44  E-value=0.027  Score=30.47  Aligned_cols=25  Identities=20%  Similarity=0.218  Sum_probs=20.8

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +|+.|+.+||+.... ...|..|++.
T Consensus         1 kp~~C~~~gCgk~F~~~~~L~~H~r~   26 (30)
T d1ubdc3           1 KPFQCTFEGCGKRFSLDFNLRTHVRI   26 (30)
T ss_dssp             CCEECCSTTCCCEESCHHHHHHHHHH
T ss_pred             CCccCCCCCCCceECcHHHcCccccc
Confidence            578999999999875 5789999864

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.83  E-value=0.057  Score=33.71  Aligned_cols=39  Identities=21%  Similarity=0.607  Sum_probs=29.2

Q ss_pred             eeecCCcccccCCCCceEEcc-CCceecccChh---hhcCCCCCC
Q 048313           16 LHCFISFSSFIFTLLSVAECG-NGHIVCNRCCI---ELMNKCPSC   56 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~---~~~~~CP~C   56 (252)
                      -.|--|...+.  ...+|+|+ |++.||-.|=.   +...+||.|
T Consensus        16 ~~C~gC~~~l~--~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          16 RFCYGCQGELK--DQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECT--TSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCccCCCCcCC--CCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            46999999882  24468998 89999999943   223789987

>d1wfpa_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At1g12440 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At1g12440
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.82  E-value=0.14  Score=33.48  Aligned_cols=42  Identities=12%  Similarity=0.193  Sum_probs=33.9

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCC
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPI   60 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~   60 (252)
                      -.|..|..-+   .-..++|.||+.||...+..-...|+..-+..
T Consensus        26 ~RC~~C~KKl---~l~~~~CrCg~~FC~~HR~pe~H~C~fDyK~~   67 (74)
T d1wfpa_          26 TRCLSCNKKV---GVTGFKCRCGSTFCGTHRYPESHECQFDFKGV   67 (74)
T ss_dssp             CBCSSSCCBC---TTTCEECTTSCEECTTTCSTTTSCCCSCTTSC
T ss_pred             CcChhcCCcc---CCCceecCCCChhhhccCCccCcCCCCcchhc
Confidence            5699999887   66668999999999999876667888765544

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=89.42  E-value=0.06  Score=34.75  Aligned_cols=38  Identities=32%  Similarity=0.660  Sum_probs=30.5

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhh--cCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--MNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--~~~CP~Cr~~~~   61 (252)
                      +.||.|...|   .+     ..||..|..|-...  ...||.|..++.
T Consensus         3 ~~CP~C~~eL---~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le   42 (71)
T d2jnea1           3 LHCPQCQHVL---DQ-----DNGHARCRSCGEFIEMKALCPDCHQPLQ   42 (71)
T ss_dssp             CBCSSSCSBE---EE-----ETTEEEETTTCCEEEEEEECTTTCSBCE
T ss_pred             CcCCCccCcc---cc-----cCCCEehhhhhhhheeEEeCCccccHHH
Confidence            6899999999   32     35899999997763  378999999875

>d2glia5 g.37.1.1 (A:229-257) Five-finger GLI1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Five-finger GLI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.44  E-value=0.14  Score=26.86  Aligned_cols=28  Identities=21%  Similarity=0.381  Sum_probs=22.8

Q ss_pred             cCcCCCCCCCCccc-ChhhHhhHhhcccC
Q 048313          105 ARCSCPLAACNFVG-SFNQIYQHFRGVHK  132 (252)
Q Consensus       105 ~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~  132 (252)
                      .|+.|..+||+..- ....|..|+++.|.
T Consensus         1 KPY~Ck~~gC~K~YtdPSSLRKH~k~~HG   29 (29)
T d2glia5           1 KPYVCKLPGCTKRYTDPSSLRKHVKTVHG   29 (29)
T ss_dssp             CCEECCSTTTCCEESSHHHHHHHHHHSCC
T ss_pred             CCeecccCCCCcccCCHHHHHHHHHhhCC
Confidence            47889999998765 46889999998873

>d1wfha_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At2g36320 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At2g36320
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.30  E-value=0.44  Score=30.01  Aligned_cols=43  Identities=16%  Similarity=0.213  Sum_probs=32.4

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIG   61 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~   61 (252)
                      -.|..|..-+   .---++|.||+.||+.-+..-...|+..-+..+
T Consensus        16 ~RC~~C~KKl---~l~~~~CrCg~~FC~~HR~pe~H~CtfDyK~~G   58 (64)
T d1wfha_          16 NRCTVCRKRV---GLTGFMCRCGTTFCGSHRYPEVHGCTFDFKSAG   58 (64)
T ss_dssp             CCCTTTCCCC---CTTCEECSSSCEECTTTCSTTTTTCCCCCSCCC
T ss_pred             CcChhhCCCc---cceeeeccCCCEehhhcCCCcCcCCCCcchhcc
Confidence            4699998877   443389999999999998765578887655443

>d2j7ja2 g.37.1.1 (A:29-57) Transcription factor IIIA, TFIIIA {Xenopus laevis [TaxId: 8355]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcription factor IIIA, TFIIIA
species: Xenopus laevis [TaxId: 8355]

Probab=85.95  E-value=0.18  Score=25.98  Aligned_cols=24  Identities=21%  Similarity=0.366  Sum_probs=18.2

Q ss_pred             cCcCCCCCCCCcccC-hhhHhhHhh
Q 048313          105 ARCSCPLAACNFVGS-FNQIYQHFR  128 (252)
Q Consensus       105 ~p~~CP~~gC~~~g~-~~~L~~Hl~  128 (252)
                      .|+.||..||+...+ ...|..|.+
T Consensus         2 ~py~c~hegcdk~fs~ps~lkrhek   26 (29)
T d2j7ja2           2 LPYECPHEGCDKRFSLPSRLKRHEK   26 (29)
T ss_dssp             CCEECCSTTCCCEESSHHHHHHHHH
T ss_pred             CCccCCccCccccccCHHHHhhhhh
Confidence            478899999988764 567777765

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=85.89  E-value=0.11  Score=27.25  Aligned_cols=30  Identities=20%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhh
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE   48 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~   48 (252)
                      |.|..|.+.|   ......=..|.++|..|..+
T Consensus         1 frca~cgk~l---estt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSL---ESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEE---CSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCcc---ccceeeccCCcEEEeeeeec
Confidence            5799999999   65544446899999999864

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.49  E-value=0.39  Score=31.19  Aligned_cols=40  Identities=20%  Similarity=0.383  Sum_probs=29.9

Q ss_pred             eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCc
Q 048313           16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRL   58 (252)
Q Consensus        16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~   58 (252)
                      -.|.+|..-+   .---++|.||..||...+..-...|...-+
T Consensus        26 ~RC~~C~KKl---~l~~~~CrCg~~FC~~HR~pe~H~CtfDyK   65 (74)
T d1wfla_          26 NRCFMCRKKV---GLTGFDCRCGNLFCGLHRYSDKHNCPYDYK   65 (74)
T ss_dssp             TBCSSSCCBC---GGGCEECTTSCEECSSSCSTTTTTCCCCGG
T ss_pred             CcChhhCCcc---cceeeEccCCCEehhhcCCCcCcCCCCccc
Confidence            4699998766   332379999999999998755567876543

>d1ncsa_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.54  E-value=0.12  Score=30.71  Aligned_cols=39  Identities=13%  Similarity=0.097  Sum_probs=27.0

Q ss_pred             ccchHHhHhhhCcccCcCCCCCCCCcccC-hhhHhhHhhc
Q 048313           91 SYSKKYDHGKACHHARCSCPLAACNFVGS-FNQIYQHFRG  129 (252)
Q Consensus        91 ~~~~~~~H~~~C~~~p~~CP~~gC~~~g~-~~~L~~Hl~~  129 (252)
                      +.+.+..|...=.-+|+.|+++||+.... +..|..|++.
T Consensus         3 p~~~l~~h~~h~gekpy~C~~~~C~k~F~~~~~L~~H~r~   42 (47)
T d1ncsa_           3 PRGSIDKYVKEMPDKTFECLFPGCTKTFKRRYNIRSHIQT   42 (47)
T ss_dssp             CCSSGGGSCEEETTTEEECCCTTCCCEECSSSSHHHHHHH
T ss_pred             CcchhcchhhccCCCCeECCcCCCCccccCchHHHhhccc
Confidence            33444555443344889999999999885 5788888764

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=82.84  E-value=0.47  Score=26.38  Aligned_cols=27  Identities=33%  Similarity=0.481  Sum_probs=14.7

Q ss_pred             CceEEcc-CCceecccChhhhcCCCCCCCcCC
Q 048313           30 LSVAECG-NGHIVCNRCCIELMNKCPSCRLPI   60 (252)
Q Consensus        30 ~Pi~qc~-~GH~~C~~C~~~~~~~CP~Cr~~~   60 (252)
                      ..++.|. |||+.=+    +...+||+|..+-
T Consensus         3 ~~~~vC~vCGyi~~g----~~Pe~CPvCg~~~   30 (36)
T d1yuza2           3 DKFHLCPICGYIHKG----EDFEKCPICFRPK   30 (36)
T ss_dssp             CCEEECSSSCCEEES----SCCSBCTTTCCBG
T ss_pred             CCEEECCCCCCEeeC----CCCCcCCCCCCcH
Confidence            3445555 5665311    2235788887653

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=82.56  E-value=0.47  Score=26.55  Aligned_cols=26  Identities=31%  Similarity=0.571  Sum_probs=14.9

Q ss_pred             CceEEcc-CCceecccChhhhcCCCCCCCcC
Q 048313           30 LSVAECG-NGHIVCNRCCIELMNKCPSCRLP   59 (252)
Q Consensus        30 ~Pi~qc~-~GH~~C~~C~~~~~~~CP~Cr~~   59 (252)
                      ..++.|. |||+.=+    +....||+|..+
T Consensus         3 ~~~~~C~vCG~i~~g----~~P~~CPvCg~~   29 (37)
T d1nnqa2           3 KKVYICPICGYTAVD----EAPEYCPVCGAP   29 (37)
T ss_dssp             SCEEECTTTCCEEES----CCCSBCTTTCCB
T ss_pred             CcEEECCCCCCEecC----CCCCcCCCCCCc
Confidence            3455565 5665422    233679999765

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.70  E-value=0.54  Score=30.21  Aligned_cols=39  Identities=23%  Similarity=0.338  Sum_probs=28.9

Q ss_pred             EeCCeeeecCCcccccC-CCCceEEc-cCCceecccChhhh
Q 048313           11 LCTTVLHCFISFSSFIF-TLLSVAEC-GNGHIVCNRCCIEL   49 (252)
Q Consensus        11 ~~~~~l~C~iC~~~l~~-~~~Pi~qc-~~GH~~C~~C~~~~   49 (252)
                      .|++.--||-|..+++- +..+.++| .||+.||..|...+
T Consensus        14 ~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w   54 (73)
T d2ct7a1          14 RDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   54 (73)
T ss_dssp             SCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             HCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcch
Confidence            35566779999886632 34566888 59999999998875

>d1wffa_ g.80.1.1 (A:) ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: ANUBL1 (AN1, ubiquitin-like, homolog)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.32  E-value=0.8  Score=30.46  Aligned_cols=41  Identities=22%  Similarity=0.316  Sum_probs=31.7

Q ss_pred             eeecCCcccccCCCC-ceEEccCCceecccChhhhcCCCCCCCcC
Q 048313           16 LHCFISFSSFIFTLL-SVAECGNGHIVCNRCCIELMNKCPSCRLP   59 (252)
Q Consensus        16 l~C~iC~~~l~~~~~-Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~   59 (252)
                      -.|.+|..-+   .- --++|.||+.||+..+..-...|+..-..
T Consensus        26 ~RC~~C~KKl---~l~~~~~CrCg~~FC~~HR~pe~H~CtfDyK~   67 (85)
T d1wffa_          26 KHCFLCGKKT---GLATSFECRCGNNFCASHRYAEAHGCNYDYKS   67 (85)
T ss_dssp             CBCSSSCCBC---SSSSCEECTTCCEECTTTCSTGGGTCCSCCSS
T ss_pred             CcChhcCCee---cCCcCeecCCCCEehhhcCCCcCcCCCcchHH
Confidence            3699999887   53 13799999999999987655788876543

>d1x3ca1 g.37.1.1 (A:8-68) Zinc finger protein 292, ZNF292 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 292, ZNF292
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.46  E-value=0.57  Score=28.05  Aligned_cols=37  Identities=19%  Similarity=0.287  Sum_probs=29.9

Q ss_pred             CcccCcCCCCCCCCccc-ChhhHhhHhhcccCCCCeeE
Q 048313          102 CHHARCSCPLAACNFVG-SFNQIYQHFRGVHKHAAEEF  138 (252)
Q Consensus       102 C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~~~~~~  138 (252)
                      =+|+|++|-..||.... -...|.-|.+..|+.....|
T Consensus        16 spyrpyrcvhqgc~aaftiq~nlilhy~avh~s~lp~~   53 (61)
T d1x3ca1          16 SPYRPYRCVHQGCFAAFTIQQNLILHYQAVHKSDLPAF   53 (61)
T ss_dssp             CSSCSCBCCSTTCCCBCSSHHHHHHHHHHHSSSCCCCC
T ss_pred             CCCCceeeeccchhhhhhhhhhHHHHHHHHhhhcCchh
Confidence            47999999999997665 36889999999999765443