Citrus Sinensis ID: 026652

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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-----
Protein Sequence
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDTW
Secondary Structure (PSIPRED)
cccccccEEEEEEEcccHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHEHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHcccccccccccccHHHHHHccEEEEEcccccccccccccccHHcccccccEEEccccccccccHHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHEEEEEEEHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEcccHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHccEEEEEEccccccccccccEEEHHHccccccEcccccccccccHHHHHHHHHHcccccccHcccccccccc
Coil and Loop (DISEMBL)
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFgamkgqttetgflhgaGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREvsdvydvtgvkglsEDMIQKLPECALHSEELIQLDNEIGCSIClekfeegdsarklpscghcfhsecvdkwltrngscpvcrecvckdtdtw
Flexible Loop (DISEMBL)
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLtrngscpvcrecvckdtdtw
Low Complexity Region (SEG)
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHgagigavagaiTALQLLESAADGEslskaallsslVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDTW
Disordered region (IsUnstruct)
*****VSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK*****
Disordered Region (DISOPRED)
********VIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLE********************DMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR**********
Disordered Region (DISEMBL)
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDTW
Disordered Region (DISPRO)
*SKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV*K*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDTW
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	235	2.2.26 [Sep-21-2011]
Q8GT75	236	NEP1-interacting protein	no	no	0.774	0.771	0.382	6e-37
Q8GT74	241	NEP1-interacting protein	no	no	0.782	0.763	0.376	1e-36
Q9FKX5	221	NEP1-interacting protein-	no	no	0.782	0.832	0.361	6e-34
Q8LBA0	223	NEP1-interacting protein-	no	no	0.8	0.843	0.388	1e-28
Q9FL42	159	Putative RING-H2 finger p	no	no	0.306	0.452	0.388	1e-11
Q8L9T5	304	RING-H2 finger protein AT	no	no	0.323	0.25	0.367	1e-11
P0CH01	372	Putative RING-H2 finger p	no	no	0.331	0.209	0.405	2e-11
Q7X843	349	RING-H2 finger protein AT	no	no	0.310	0.209	0.391	2e-11
Q9ZV51	181	RING-H2 finger protein AT	no	no	0.297	0.386	0.422	2e-11
Q9LM69	197	RING-H2 finger protein AT	no	no	0.306	0.365	0.438	3e-11

>sp|Q8GT75|NIP1_ARATH NEP1-interacting protein 1 OS=Arabidopsis thaliana GN=NIP1 PE=1 SV=2

 Score =  154 bits (389), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 75/196 (38%), Positives = 123/196 (62%), Gaps = 14/196 (7%)

Query: 43  VLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESA----A 98
           +L A LT  FAL G ++G + GA+ GQ TE+GF+ GA +GA++GA+ ++++ ES+     
Sbjct: 41  ILSAVLTFFFALVGTLLGALTGALIGQETESGFIRGAAVGAISGAVFSIEVFESSLVLWK 100

Query: 99  DGES-----LSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGV 153
             ES     L    ++ SL++G++  E + PA+L A Q Q+  +++ + E+S ++D  G 
Sbjct: 101 SNESRFGCLLYLIDVIVSLISGRLVRERIGPAMLSAVQSQMGAVDSTFEELSSIFDTGGS 160

Query: 154 KGLSEDMIQKLPECALHSEELIQLD---NEIGCSICLEKFEEGDSARKLPSCGHCFHSEC 210
           KGL+ D++ K+P+  +  +    LD   N+  CS+CL+ F+ G++ R LP C H FH  C
Sbjct: 161 KGLTGDLVDKIPKIKITGKN--NLDASGNKDSCSVCLQDFQLGETVRSLPHCHHMFHLPC 218

Query: 211 VDKWLTRNGSCPVCRE 226
           +D WL R+GSCP+CR 
Sbjct: 219 IDNWLFRHGSCPMCRR 234

Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8GT74|NIP2_ARATH NEP1-interacting protein 2 OS=Arabidopsis thaliana GN=NIP2 PE=1 SV=1

 Score =  152 bits (385), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 73/194 (37%), Positives = 121/194 (62%), Gaps = 10/194 (5%)

Query: 43  VLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAAD--- 99
           ++ A LT  FAL G ++G + GA+ GQ TE+GF+ GA IGA++GA+ ++++ ES+ D   
Sbjct: 46  IISAILTFFFALVGTLLGALTGALIGQETESGFIRGAAIGAISGAVFSIEVFESSLDLWK 105

Query: 100 ------GESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGV 153
                 G  L    ++ SL++G++  E + PA+L A Q Q+  ++TA+ + + ++D  G 
Sbjct: 106 SDESGFGCFLYLIDVIVSLLSGRLVRERIGPAMLSAVQSQMGAVDTAFDDHTSLFDTGGS 165

Query: 154 KGLSEDMIQKLPECALHSEELIQL-DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVD 212
           KGL+ D+++K+P+  +         +N   CS+CL+ F+ G++ R LP C H FH  C+D
Sbjct: 166 KGLTGDLVEKIPKMTITGNNNTDASENTDSCSVCLQDFQLGETVRSLPHCHHMFHLPCID 225

Query: 213 KWLTRNGSCPVCRE 226
            WL R+GSCP+CR 
Sbjct: 226 NWLLRHGSCPMCRR 239

Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKX5|NIPL1_ARATH NEP1-interacting protein-like 1 OS=Arabidopsis thaliana GN=ATL27 PE=2 SV=1

 Score =  144 bits (363), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 126/202 (62%), Gaps = 18/202 (8%)

Query: 37  IRAMKRVLYAAL-TCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLE 95
           + A+   L++AL T  FAL G ++G + GA+ GQ TE+GF+ GA +GA++GA+ ++++ E
Sbjct: 24  VSALLANLFSALFTFFFALVGTLLGALTGALIGQETESGFIRGAAVGAISGAVFSIEVFE 83

Query: 96  SA----ADGES-----LSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSD 146
           S+       ES     L    +++SL++G++  E + PA+L A Q Q+  +E+ +++ +D
Sbjct: 84  SSLLLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVESQFQDHTD 143

Query: 147 VYDVTGVKGLSEDMIQKLPECALH--SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGH 204
           ++D    KGL+ D + ++P+  +   S E++       CS+CL+ F+ G++ R LP C H
Sbjct: 144 IFDTAISKGLTGDSLNRIPKVRITDTSPEIVS------CSVCLQDFQVGETVRSLPHCHH 197

Query: 205 CFHSECVDKWLTRNGSCPVCRE 226
            FH  C+DKWL R+ SCP+CR 
Sbjct: 198 MFHLPCIDKWLRRHASCPLCRR 219

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LBA0|NIPL2_ARATH NEP1-interacting protein-like 2 OS=Arabidopsis thaliana GN=ATL24 PE=1 SV=2

 Score =  126 bits (317), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 115/201 (57%), Gaps = 13/201 (6%)

Query: 38  RAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLE-- 95
           R +  V   ALT IFA+ GA  G + GA+ G+  + G L GA +GAVAGAI ++++LE  
Sbjct: 24  RLIAGVFSGALTGIFAMAGAFTGAVTGAVAGRAAQYGVLRGAALGAVAGAILSVEVLEAS 83

Query: 96  --------SAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDV 147
                   S + G S S A  +  L  G++  E +   ++ ++ WQ+   + +Y E  DV
Sbjct: 84  RAYWYLELSGSRGPS-SMADFVEQLFRGRLVDEQLMSTMINSHHWQLRISDVSYEEREDV 142

Query: 148 YDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFH 207
           Y     +GLS D ++KLP C + S E+++      C+ICL+  + G+  R LP C H FH
Sbjct: 143 YGELEARGLSGDSLRKLP-CYIMSSEMVR-RQVTHCTICLQDIKTGEITRSLPKCDHTFH 200

Query: 208 SECVDKWLTRNGSCPVCRECV 228
             CVDKWL R+GSCP+CR+ V
Sbjct: 201 LVCVDKWLIRHGSCPICRQAV 221

May be involved in the early steps of the plant defense signaling pathway. Does not display E3 catalytic activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL42|ATL69_ARATH Putative RING-H2 finger protein ATL69 OS=Arabidopsis thaliana GN=ATL69 PE=3 SV=1

 Score = 70.1 bits (170), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 40/72 (55%)

Query: 155 GLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW 214
           GL   +I+  P   L     +   N   CSICL  +E  +  R +P C HCFH++CVD+W
Sbjct: 66  GLDRPVIESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTDCVDEW 125

Query: 215 LTRNGSCPVCRE 226
           L  + +CP+CR 
Sbjct: 126 LRTSATCPLCRN 137

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9T5|ATL2_ARATH RING-H2 finger protein ATL2 OS=Arabidopsis thaliana GN=ATL2 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 45/79 (56%), Gaps = 3/79 (3%)

Query: 150 VTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSE 209
           V   +GL  ++I+ LP      E      + I C++CL +FEE ++ R LP+C H FH +
Sbjct: 89  VVASRGLDPNVIKSLPVFTFSDE---THKDPIECAVCLSEFEESETGRVLPNCQHTFHVD 145

Query: 210 CVDKWLTRNGSCPVCRECV 228
           C+D W   + +CP+CR  V
Sbjct: 146 CIDMWFHSHSTCPLCRSLV 164

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH01|AT21A_ARATH Putative RING-H2 finger protein ATL21A OS=Arabidopsis thaliana GN=ATL21A PE=3 SV=1

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/79 (40%), Positives = 47/79 (59%), Gaps = 1/79 (1%)

Query: 149 DVTGVKGLSEDMIQKLPECAL-HSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFH 207
           +V    GL E +I+   +  L  S  L   +++I C ICL ++   ++ R +P C HCFH
Sbjct: 285 EVIVTTGLDESIIESYKKTELGESRRLPGNNDDIVCPICLSEYASKETVRCIPECDHCFH 344

Query: 208 SECVDKWLTRNGSCPVCRE 226
           SEC+D WL  +GSCP+CR 
Sbjct: 345 SECIDVWLKIHGSCPLCRN 363

Arabidopsis thaliana (taxid: 3702)

>sp|Q7X843|ATL48_ARATH RING-H2 finger protein ATL48 OS=Arabidopsis thaliana GN=ATL48 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 155 GLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW 214
           GL +  I  LP   L+    I L+    C++CL +F + D  R LP C H FH  C+D W
Sbjct: 180 GLDQTAIDALP-VFLYGNVTISLEQPFDCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTW 238

Query: 215 LTRNGSCPVCRECV 228
           L  N +CP+CR  +
Sbjct: 239 LLSNSTCPLCRRSL 252

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZV51|ATL56_ARATH RING-H2 finger protein ATL56 OS=Arabidopsis thaliana GN=ATL56 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/71 (42%), Positives = 40/71 (56%), Gaps = 1/71 (1%)

Query: 155 GLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW 214
           GLS   ++KLP+    SE       E  C +C + F +G   R LP CGH FH +CVD W
Sbjct: 83  GLSSRFVKKLPQFKF-SEPSTYTRYESDCVVCFDGFRQGQWCRNLPGCGHVFHRKCVDTW 141

Query: 215 LTRNGSCPVCR 225
           L +  +CP+CR
Sbjct: 142 LLKASTCPICR 152

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LM69|ATL80_ARATH RING-H2 finger protein ATL80 OS=Arabidopsis thaliana GN=ATL80 PE=1 SV=1

 Score = 68.9 bits (167), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 43/73 (58%), Gaps = 1/73 (1%)

Query: 154 KGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK 213
           KGL + ++Q LP+    S E  + +    C+ICL +F  GD  R LP CGH FH  C+D 
Sbjct: 83  KGLKKKVLQSLPKLTF-SPESPESEKFAECAICLAEFSAGDELRVLPQCGHGFHVACIDT 141

Query: 214 WLTRNGSCPVCRE 226
           WL  + SCP CR+
Sbjct: 142 WLGSHSSCPSCRQ 154

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

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	235
297737435	264	unnamed protein product [Vitis vinifera]	0.940	0.837	0.633	9e-76
224061431	245	predicted protein [Populus trichocarpa]	0.982	0.942	0.613	8e-75
359494038	180	PREDICTED: NEP1-interacting protein 2-li	0.761	0.994	0.618	4e-59
255583605	223	RING-H2 finger protein ATL2B, putative [	0.804	0.847	0.593	3e-58
351727337	236	uncharacterized protein LOC100305612 [Gl	0.829	0.826	0.543	2e-55
357494513	236	RING finger family protein [Medicago tru	0.821	0.817	0.561	1e-50
357494507	245	RING finger family protein [Medicago tru	0.919	0.881	0.502	5e-47
356524261	224	PREDICTED: NEP1-interacting protein 2-li	0.868	0.910	0.480	3e-46
356569798	210	PREDICTED: NEP1-interacting protein 2-li	0.808	0.904	0.457	6e-42
145332657	223	RING-finger domain-containing protein [A	0.927	0.977	0.411	2e-41

>gi|297737435|emb|CBI26636.3| unnamed protein product [Vitis vinifera]

 Score =  288 bits (738), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 142/224 (63%), Positives = 169/224 (75%), Gaps = 3/224 (1%)

Query: 10  IKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQ 69
           IK    C+E VS  +F+     G G++ R MK  + AA TCIFALGGA+VGTI GA+KGQ
Sbjct: 43  IKSHTMCREAVSFRVFSQTRDSGNGLVFRVMKSAVLAAFTCIFALGGAVVGTITGAIKGQ 102

Query: 70  TTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKA 129
           TTETGF  G+GIGAV GAITALQLLES A GESLSKAALL SLVNGKVFMEWVSPAVLKA
Sbjct: 103 TTETGFFRGSGIGAVTGAITALQLLESVAAGESLSKAALLCSLVNGKVFMEWVSPAVLKA 162

Query: 130 YQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECAL-HSEELIQLDNEIGCSICLE 188
           YQWQ+STLET Y E  D Y+++G KGL  + I+KLP+    HS    ++ NEI C+ICL+
Sbjct: 163 YQWQISTLETNYGETEDFYNISGAKGLPHNFIEKLPKSNFCHSNA--EMYNEISCTICLQ 220

Query: 189 KFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232
            F++G+  R LPSC H FH ECVD+WLT +GSCP+CR+ VC DT
Sbjct: 221 DFKDGEMTRGLPSCRHYFHMECVDQWLTLHGSCPMCRKDVCMDT 264

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061431|ref|XP_002300476.1| predicted protein [Populus trichocarpa] gi|222847734|gb|EEE85281.1| predicted protein [Populus trichocarpa]

 Score =  285 bits (730), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 149/243 (61%), Positives = 173/243 (71%), Gaps = 12/243 (4%)

Query: 3   KGLVSEVIKMSLTCKETVSLWLFAT-MCAFGTGVLIRA-MKRVLYAALTCIFALGGAIVG 60
           K   S V K S  CKE VS W+FA  +  FGTG+ IR+ +K  + AA TCIFALGGA+VG
Sbjct: 2   KRWFSGVTKASFRCKEAVSSWVFAAKLEGFGTGLFIRSVLKNSVLAASTCIFALGGALVG 61

Query: 61  TIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFME 120
           +I GAMKGQTTETGFL G+G+GAVAGAITA+QLLES  +GE LSK ALL SL+NGKVFME
Sbjct: 62  SIIGAMKGQTTETGFLRGSGVGAVAGAITAVQLLESITNGEPLSKVALLHSLLNGKVFME 121

Query: 121 WVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELI----- 175
           WV PAVLKAYQWQV+ LET YRE+SD+YD + V+GLSED I+KLPEC   S+  I     
Sbjct: 122 WVGPAVLKAYQWQVNALETTYREISDIYDTSEVRGLSEDCIKKLPECIFKSDSNIVEQCC 181

Query: 176 -QLDNEIGCSICLEK----FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
             L     C    +K    F++GDS RKLP CGH FH  C+DKWL  NGSCP CR  VC 
Sbjct: 182 PALVVLFACRFLTKKFCQDFKDGDSMRKLPRCGHYFHLSCLDKWLATNGSCPNCRNSVCD 241

Query: 231 DTD 233
           D D
Sbjct: 242 DND 244

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494038|ref|XP_002278195.2| PREDICTED: NEP1-interacting protein 2-like [Vitis vinifera]

 Score =  233 bits (595), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 120/194 (61%), Positives = 142/194 (73%), Gaps = 15/194 (7%)

Query: 40  MKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAAD 99
           MK  + AA TCIFALGGA+VGTI GA+KGQTTETGF  G+GIGAV GAITALQLLES A 
Sbjct: 1   MKSAVLAAFTCIFALGGAVVGTITGAIKGQTTETGFFRGSGIGAVTGAITALQLLESVAA 60

Query: 100 GESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSED 159
           GESLSKAALL SLVNGKVFMEW            +STLET Y E  D Y+++G KGL  +
Sbjct: 61  GESLSKAALLCSLVNGKVFMEW------------ISTLETNYGETEDFYNISGAKGLPHN 108

Query: 160 MIQKLPECAL-HSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN 218
            I+KLP+    HS    ++ NEI C+ICL+ F++G+  R LPSC H FH ECVD+WLT +
Sbjct: 109 FIEKLPKSNFCHSNA--EMYNEISCTICLQDFKDGEMTRGLPSCRHYFHMECVDQWLTLH 166

Query: 219 GSCPVCRECVCKDT 232
           GSCP+CR+ VC DT
Sbjct: 167 GSCPMCRKDVCMDT 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583605|ref|XP_002532558.1| RING-H2 finger protein ATL2B, putative [Ricinus communis] gi|223527713|gb|EEF29819.1| RING-H2 finger protein ATL2B, putative [Ricinus communis]

 Score =  230 bits (587), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 114/192 (59%), Positives = 143/192 (74%), Gaps = 3/192 (1%)

Query: 1   MSKGLVSEVIKMSLTCKETVSLWLFATMCAFGTGV-LIRAMKRVLYAALTCIFALGGAIV 59
           M+K L S +IK+ L C+E VS+ +   M  FGTG  +IR +K+ ++AA TCI ALGGA+V
Sbjct: 1   MTKWLFSGIIKVFLRCQEAVSMLVLGAMEGFGTGFFIIRMIKKAVFAAFTCILALGGAMV 60

Query: 60  GTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFM 119
           GT+ GAMKGQTTETGF+ G+GIGAVAGA+TA+QLLES ADGE  SK AL  SL+NGKVFM
Sbjct: 61  GTVIGAMKGQTTETGFIRGSGIGAVAGAVTAVQLLESVADGEPFSKVALFYSLMNGKVFM 120

Query: 120 EWVSPAVLKAYQWQVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDN 179
           EWVSPAVLKAYQWQ+S LET YRE+SD+ D +G +GLSE++IQ LP+    S       N
Sbjct: 121 EWVSPAVLKAYQWQMSALETTYREISDILDTSGNRGLSENLIQNLPDFTFQSSNTYVNGN 180

Query: 180 EIGCSICLEKFE 191
              CS+ +  F+
Sbjct: 181 T--CSLAMSGFQ 190

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727337|ref|NP_001237925.1| uncharacterized protein LOC100305612 [Glycine max] gi|255626083|gb|ACU13386.1| unknown [Glycine max]

 Score =  221 bits (563), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 107/197 (54%), Positives = 139/197 (70%), Gaps = 2/197 (1%)

Query: 34  GVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQL 93
           G+  + +K+VL+A  TCI ALGG IVGTI G +KGQTTE GFL GAG GA+ GAI AL+L
Sbjct: 37  GLFTKIIKKVLFALFTCILALGGPIVGTIAGGIKGQTTEAGFLDGAGKGAITGAIAALEL 96

Query: 94  LESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQ--VSTLETAYREVSDVYDVT 151
           +   A  E +SK ALLSSL+NGK+FMEW+ PAV K YQ    V+TLET  +EVSD+YD+ 
Sbjct: 97  INFDAFDEPISKVALLSSLLNGKIFMEWICPAVAKLYQLHVTVNTLETICQEVSDIYDIR 156

Query: 152 GVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECV 211
           GV+G+  ++I KLP    +S ++++  N   CSIC + FE+G+  R LP C H FH EC+
Sbjct: 157 GVRGIPHNVILKLPFQPFNSRKMLKSYNMSCCSICFQDFEDGELVRILPKCDHLFHLECI 216

Query: 212 DKWLTRNGSCPVCRECV 228
           DKWL + GSCP+ R  V
Sbjct: 217 DKWLVQQGSCPMYRTYV 233

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494513|ref|XP_003617545.1| RING finger family protein [Medicago truncatula] gi|355518880|gb|AET00504.1| RING finger family protein [Medicago truncatula]

 Score =  205 bits (521), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 109/194 (56%), Positives = 141/194 (72%), Gaps = 1/194 (0%)

Query: 36  LIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLE 95
            ++AM+R L+AA TCI ALGG+I+GTI GA+KGQTTETGFL GAG GA+AGAI A++L+ 
Sbjct: 37  FMKAMERFLFAAFTCILALGGSIIGTIAGAIKGQTTETGFLDGAGKGAIAGAIAAIELMS 96

Query: 96  SAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVSTLETAYREV-SDVYDVTGVK 154
            A+  E  SK ALL SL+NGKVFMEW+ P V +AY + +++LETAY  V SD+YD  GVK
Sbjct: 97  FASVAEPFSKVALLRSLLNGKVFMEWICPTVAQAYLFYINSLETAYGAVLSDIYDDLGVK 156

Query: 155 GLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW 214
           G+ +  I KLP     S ++++L NE  CSIC++ FE  +  R LP C H FH EC+DKW
Sbjct: 157 GMQQSCIMKLPCQQFSSNKMMKLYNESCCSICIQDFENEELVRLLPKCSHIFHLECIDKW 216

Query: 215 LTRNGSCPVCRECV 228
           L + GSCP+CR  V
Sbjct: 217 LVQQGSCPICRTYV 230

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494507|ref|XP_003617542.1| RING finger family protein [Medicago truncatula] gi|355518877|gb|AET00501.1| RING finger family protein [Medicago truncatula]

 Score =  193 bits (490), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 113/225 (50%), Positives = 147/225 (65%), Gaps = 9/225 (4%)

Query: 16  CKETVSLWLFATMCAFGTGVL---IRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTE 72
           CKE +SL     + A G  V    +  +++VL+A  TCI ALGG+I+GTI GA+KGQTTE
Sbjct: 24  CKEVLSL---KALNAIGCSVFEQFMNVLEKVLFATFTCILALGGSIIGTITGAIKGQTTE 80

Query: 73  TGFLHGAGIGAVAGAITALQLLESA--ADGESLSKAALLSSLVNGKVFMEWVSPAVLKAY 130
            GFL GAG GA+AGAI A++ +  A  A GE  SK ALL SL+NGKVF EW+ P V +AY
Sbjct: 81  VGFLDGAGKGAIAGAIAAIEFMSFAYVAVGEPFSKVALLRSLLNGKVFTEWICPTVAEAY 140

Query: 131 QWQVSTLETAYREV-SDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEK 189
            + +++LET Y  V SD+YD  GVKG+    I KLP     S ++++L NE  CSICL+ 
Sbjct: 141 LFYINSLETGYEGVLSDMYDNMGVKGMPHSCIMKLPFQQFCSNKMMKLYNESCCSICLQD 200

Query: 190 FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDT 234
           FE  +  R LP C H FH EC+DKWL + GSCP+CR  V    ++
Sbjct: 201 FENEELVRILPKCSHIFHLECIDKWLIQQGSCPICRTYVVDHINS 245

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524261|ref|XP_003530748.1| PREDICTED: NEP1-interacting protein 2-like [Glycine max]

 Score =  190 bits (483), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 101/210 (48%), Positives = 131/210 (62%), Gaps = 6/210 (2%)

Query: 16  CKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGF 75
           CKE  SL + A    +   + I+    V+ A  TCI ALGG+I+G I GA+KG T   GF
Sbjct: 15  CKEVFSLRVLAGSVGYAVDLFIK----VVIAEFTCILALGGSIMGIIAGAIKGHTRGAGF 70

Query: 76  LHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVS 135
           L GA  GAV GAI AL+L   AA  E LSK ALL SL+NGK+F+EW+ PAV +AYQ  V 
Sbjct: 71  LDGACKGAVTGAIAALELPNIAACDEPLSKVALLRSLLNGKIFVEWICPAVAQAYQCHVR 130

Query: 136 TLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDS 195
                Y +  D+     VKG++ ++IQKLP    +S ++ +L N+  CSIC + FE  + 
Sbjct: 131 IKSDIYND--DIVRGITVKGMAWNIIQKLPVQQFNSSKMFKLYNDSCCSICFQDFEYEEF 188

Query: 196 ARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
            R LP CGH FHS C+DKWL + GSCP+CR
Sbjct: 189 VRTLPKCGHFFHSVCIDKWLVQQGSCPMCR 218

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569798|ref|XP_003553083.1| PREDICTED: NEP1-interacting protein 2-like [Glycine max]

 Score =  176 bits (447), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 96/210 (45%), Positives = 125/210 (59%), Gaps = 20/210 (9%)

Query: 16  CKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGF 75
           CKE  S+ + A    +   + I+    V+ A  TCI ALGG+IVG I GA+KG T   GF
Sbjct: 15  CKEVFSMRVLAGSGGYAVDLFIK----VVIAEFTCILALGGSIVGIIAGAIKGHTRGAGF 70

Query: 76  LHGAGIGAVAGAITALQLLESAADGESLSKAALLSSLVNGKVFMEWVSPAVLKAYQWQVS 135
           L GA  GAV GAI AL+LL  AA  E LSK ALL SL+NGK+FMEW+ PAV +AY   V 
Sbjct: 71  LDGACKGAVTGAIAALELLNIAAYDEPLSKVALLRSLLNGKLFMEWICPAVAQAYHCHVR 130

Query: 136 TLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDS 195
            +E                G++ ++IQK P    +S ++ +L N+  CSIC + FE+ + 
Sbjct: 131 IIE----------------GVAWNIIQKPPVQQFNSSKMFKLYNDSCCSICFQDFEDEEF 174

Query: 196 ARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
            R LP CGH FH  C+DKWL +  SCP+CR
Sbjct: 175 VRTLPKCGHFFHLVCIDKWLVQRRSCPMCR 204

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145332657|ref|NP_001078194.1| RING-finger domain-containing protein [Arabidopsis thaliana] gi|98961805|gb|ABF59232.1| unknown protein [Arabidopsis thaliana] gi|332642852|gb|AEE76373.1| RING-finger domain-containing protein [Arabidopsis thaliana]

 Score =  174 bits (442), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 95/231 (41%), Positives = 131/231 (56%), Gaps = 13/231 (5%)

Query: 6   VSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGA 65
           +S++I +  T    VS W+   +         R +KR L  +   I A    +V  I GA
Sbjct: 3   ISKMILLKFT--YVVSFWITCVIFKMS-----RTIKRALLGSFIFILASASVVVAAIVGA 55

Query: 66  MKGQTTETGFLHGAGIGAVAGAITALQLLESAADG-ESLSKAALLSSLVNGKVFMEWVSP 124
           ++G TT+ GFL G+ +G VAG ITA+QL        + LSK ALL  +VNGK  M  V P
Sbjct: 56  IEGHTTDIGFLQGSVLGVVAGVITAVQLFGPVLHSDQPLSKVALLRRVVNGKAIMGLVRP 115

Query: 125 AVLKAYQWQVSTLETAYREVSDVYDVTG-VKGLSEDMIQKLPECALHSEELIQLDNEIGC 183
            VLKAYQWQ+  L+T+Y E S++YD     KGLS+  IQ +P     SE       +  C
Sbjct: 116 FVLKAYQWQIIALDTSYMESSNLYDFNHEKKGLSKSSIQNIPMFYNRSEH----QTKSSC 171

Query: 184 SICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDT 234
           SICL+ +EEG+  RKL  CGH FH  C+D+WL R  +CP+CR+ +  +T +
Sbjct: 172 SICLQDWEEGEVGRKLARCGHTFHMNCIDEWLLRQETCPICRDHLSHNTTS 222

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	235
TAIR|locus:4010713762	223	AT3G20395 [Arabidopsis thalian	0.919	0.968	0.371	9.5e-34
TAIR|locus:2125364	236	AT4G35840 [Arabidopsis thalian	0.825	0.822	0.318	2.1e-29
TAIR|locus:2019110	223	AT1G74410 [Arabidopsis thalian	0.812	0.856	0.325	1.2e-26
TAIR|locus:2156867	245	AT5G66070 [Arabidopsis thalian	0.378	0.363	0.354	6.4e-26
TAIR|locus:2011686	185	ATL8 [Arabidopsis thaliana (ta	0.306	0.389	0.410	8.4e-16
UNIPROTKB|Q9LRB7	325	EL5.1 "E3 ubiquitin-protein li	0.310	0.224	0.397	2.1e-14
TAIR|locus:2074678	158	AT3G11110 [Arabidopsis thalian	0.336	0.5	0.425	4.9e-14
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.370	0.290	0.344	6.2e-14
TAIR|locus:2124695	236	AT4G10150 [Arabidopsis thalian	0.306	0.305	0.413	7.9e-14
TAIR|locus:2825708	197	AT1G20823 [Arabidopsis thalian	0.306	0.365	0.438	1.6e-13

TAIR|locus:4010713762 AT3G20395 [Arabidopsis thaliana (taxid:3702)]

 Score = 367 (134.2 bits), Expect = 9.5e-34, P = 9.5e-34
 Identities = 85/229 (37%), Positives = 117/229 (51%)

Query:     6 VSEVIKMSLTCKETVSLWLFATMCAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGA 65
             +S++I +  T    VS W+  T   F    + R +KR L  +   I A    +V  I GA
Sbjct:     3 ISKMILLKFTY--VVSFWI--TCVIFK---MSRTIKRALLGSFIFILASASVVVAAIVGA 55

Query:    66 MKGQTTETGFLHXXXXXXXXXXXTALQLLESAADGEX-XXXXXXXXXXVNGKVFMEWVSP 124
             ++G TT+ GFL            TA+QL       +            VNGK  M  V P
Sbjct:    56 IEGHTTDIGFLQGSVLGVVAGVITAVQLFGPVLHSDQPLSKVALLRRVVNGKAIMGLVRP 115

Query:   125 AVLKAYQWQVSTLETAYREVSDVYDVTGVK-GLSEDMIQKLPECALHSEELIQLDNEIGC 183
              VLKAYQWQ+  L+T+Y E S++YD    K GLS+  IQ +P     SE       +  C
Sbjct:   116 FVLKAYQWQIIALDTSYMESSNLYDFNHEKKGLSKSSIQNIPMFYNRSEH----QTKSSC 171

Query:   184 SICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232
             SICL+ +EEG+  RKL  CGH FH  C+D+WL R  +CP+CR+ +  +T
Sbjct:   172 SICLQDWEEGEVGRKLARCGHTFHMNCIDEWLLRQETCPICRDHLSHNT 220

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2125364 AT4G35840 [Arabidopsis thaliana (taxid:3702)]

 Score = 326 (119.8 bits), Expect = 2.1e-29, P = 2.1e-29
 Identities = 66/207 (31%), Positives = 110/207 (53%)

Query:    29 CAFGTGVLIRAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHXXXXXXXXXXX 88
             C F    L   +  +L A LT  FAL G ++G + GA+ GQ TE+GF+            
Sbjct:    30 CRF---TLSAVLGTILSAVLTFFFALVGTLLGALTGALIGQETESGFIRGAAVGAISGAV 86

Query:    89 TALQLLESAAD---------GEXXXXXXXXXXXVNGKVFMEWVSPAVLKAYQWQVSTLET 139
              ++++ ES+           G            ++G++  E + PA+L A Q Q+  +++
Sbjct:    87 FSIEVFESSLVLWKSNESRFGCLLYLIDVIVSLISGRLVRERIGPAMLSAVQSQMGAVDS 146

Query:   140 AYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLD-NEIGCSICLEKFEEGDSARK 198
              + E+S ++D  G KGL+ D++ K+P+  +  +  +    N+  CS+CL+ F+ G++ R 
Sbjct:   147 TFEELSSIFDTGGSKGLTGDLVDKIPKIKITGKNNLDASGNKDSCSVCLQDFQLGETVRS 206

Query:   199 LPSCGHCFHSECVDKWLTRNGSCPVCR 225
             LP C H FH  C+D WL R+GSCP+CR
Sbjct:   207 LPHCHHMFHLPCIDNWLFRHGSCPMCR 233

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2019110 AT1G74410 [Arabidopsis thaliana (taxid:3702)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 66/203 (32%), Positives = 102/203 (50%)

Query:    38 RAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHXXXXXXXXXXXTALQLLESA 97
             R +  V   ALT IFA+ GA  G + GA+ G+  + G L             ++++LE++
Sbjct:    24 RLIAGVFSGALTGIFAMAGAFTGAVTGAVAGRAAQYGVLRGAALGAVAGAILSVEVLEAS 83

Query:    98 A-------DGEX--XXXXXXXXXXVNGKVFMEWVSPAVLKAYQWQVSTLETAYREVSDVY 148
                      G                G++  E +   ++ ++ WQ+   + +Y E  DVY
Sbjct:    84 RAYWYLELSGSRGPSSMADFVEQLFRGRLVDEQLMSTMINSHHWQLRISDVSYEEREDVY 143

Query:   149 DVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHS 208
                  +GLS D ++KLP C + S E+++      C+ICL+  + G+  R LP C H FH 
Sbjct:   144 GELEARGLSGDSLRKLP-CYIMSSEMVRRQ-VTHCTICLQDIKTGEITRSLPKCDHTFHL 201

Query:   209 ECVDKWLTRNGSCPVCRECVCKD 231
              CVDKWL R+GSCP+CR+ V KD
Sbjct:   202 VCVDKWLIRHGSCPICRQAV-KD 223

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

GO:0010200 "response to chitin" evidence=IEP

TAIR|locus:2156867 AT5G66070 [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 6.4e-26, Sum P(2) = 6.4e-26
 Identities = 33/93 (35%), Positives = 61/93 (65%)

Query:   133 QVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEE 192
             Q+  +E+ +++ +D++D    KGL+ D + ++P+  + ++   ++   + CS+CL+ F+ 
Sbjct:   154 QMGAVESQFQDHTDIFDTAISKGLTGDSLNRIPKVRI-TDTSPEI---VSCSVCLQDFQV 209

Query:   193 GDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
             G++ R LP C H FH  C+DKWL R+ SCP+CR
Sbjct:   210 GETVRSLPHCHHMFHLPCIDKWLRRHASCPLCR 242

GO:0005739 "mitochondrion" evidence=ISM

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

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

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

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2011686 ATL8 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 8.4e-16, Sum P(2) = 8.4e-16
 Identities = 30/73 (41%), Positives = 44/73 (60%)

Query:   154 KGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK 213
             KGL + +++ LP+   +S +    +  + C+ICL +F  GD  R LP CGH FH  C+D 
Sbjct:    76 KGLKKKVLRSLPKLT-YSPDSPPAEKLVECAICLTEFAAGDELRVLPQCGHGFHVSCIDT 134

Query:   214 WLTRNGSCPVCRE 226
             WL  + SCP CR+
Sbjct:   135 WLGSHSSCPSCRQ 147

GO:0005634 "nucleus" evidence=ISM

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

GO:0009744 "response to sucrose stimulus" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

UNIPROTKB|Q9LRB7 EL5.1 "E3 ubiquitin-protein ligase EL5" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 170 (64.9 bits), Expect = 2.1e-14, Sum P(2) = 2.1e-14
 Identities = 29/73 (39%), Positives = 45/73 (61%)

Query:   153 VKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVD 212
             ++ L   +  +    A   EE  + D+ + C++CL + E+G+ AR LP CGH FH+ECVD
Sbjct:   104 LRSLPVTVYSRSTAAAAAKEEEEEDDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVD 163

Query:   213 KWLTRNGSCPVCR 225
              WL  + +CP+CR
Sbjct:   164 MWLGSHSTCPLCR 176

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0048364 "root development" evidence=IMP

GO:0051301 "cell division" evidence=IMP

TAIR|locus:2074678 AT3G11110 [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 34/80 (42%), Positives = 45/80 (56%)

Query:   155 GLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW 214
             GL    I+ LP   L   E  + + E  C ICL  FEEG+  + LP C HC+H ECVD+W
Sbjct:    80 GLDPAEIRSLP-VVLCRRERAEEEEEKECCICLGGFEEGEKMKVLPPCSHCYHCECVDRW 138

Query:   215 LTRNGSCPVCRECVCKDTDT 234
             L    SCP+CR  +  D+ +
Sbjct:   139 LKTESSCPLCRVSIRVDSSS 158

GO:0005634 "nucleus" evidence=ISM

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

GO:0009741 "response to brassinosteroid stimulus" evidence=RCA

TAIR|locus:2010489 AT1G28040 [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 6.2e-14, Sum P(2) = 6.2e-14
 Identities = 30/87 (34%), Positives = 43/87 (49%)

Query:   139 TAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARK 198
             TA         V    GL +  I+   +  L     +   N I C ICL ++   ++ R 
Sbjct:   209 TARNTTQQPRGVVVTTGLDQSTIESYKKVELGESRRLPGTNGIICPICLSEYASKETVRC 268

Query:   199 LPSCGHCFHSECVDKWLTRNGSCPVCR 225
             +P C HCFH +C+D+WL  + SCPVCR
Sbjct:   269 MPECDHCFHVQCIDEWLKIHSSCPVCR 295

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2124695 AT4G10150 [Arabidopsis thaliana (taxid:3702)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 31/75 (41%), Positives = 49/75 (65%)

Query:   151 TGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSEC 210
             T   GLS+D+ + LP   ++ E  I  D++  CS+CL  ++  +  +++PSCGH FH EC
Sbjct:    82 TAELGLSKDIREMLP-VVIYKESFIVKDSQ--CSVCLGDYQAEEKLQQMPSCGHTFHMEC 138

Query:   211 VDKWLTRNGSCPVCR 225
             +D WLT + +CP+CR
Sbjct:   139 IDLWLTSHTTCPLCR 153

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2825708 AT1G20823 [Arabidopsis thaliana (taxid:3702)]

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 32/73 (43%), Positives = 43/73 (58%)

Query:   154 KGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK 213
             KGL + ++Q LP+    S E  + +    C+ICL +F  GD  R LP CGH FH  C+D 
Sbjct:    83 KGLKKKVLQSLPKLTF-SPESPESEKFAECAICLAEFSAGDELRVLPQCGHGFHVACIDT 141

Query:   214 WLTRNGSCPVCRE 226
             WL  + SCP CR+
Sbjct:   142 WLGSHSSCPSCRQ 154

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

GO:0009507 "chloroplast" evidence=ISM

GO:0010200 "response to chitin" evidence=IEP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	8e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-08
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-08
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-07
smart00184	40	smart00184, RING, Ring finger	8e-07
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	5e-06
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	6e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	2e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	4e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.001

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

 Score = 69.0 bits (169), Expect = 6e-16
 Identities = 24/43 (55%), Positives = 31/43 (72%), Gaps = 1/43 (2%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C ICL++FE G+    LP CGH FH EC+DKWL  + +CP+CR
Sbjct: 3   CPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 57.8 bits (140), Expect = 8e-12
 Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVCRECV 228
           C ICLE+F E      L  CGH F   C+DKWL +   +CP+CR  +
Sbjct: 2   CPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 56.5 bits (136), Expect = 2e-09
 Identities = 27/64 (42%), Positives = 31/64 (48%), Gaps = 12/64 (18%)

Query: 172 EELIQLDNE--------IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--RNGSC 221
             L  L  E        + C+IC+  F + D  R LP C H FH  CVDKWL    N  C
Sbjct: 307 GSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSN-KC 364

Query: 222 PVCR 225
           PVCR
Sbjct: 365 PVCR 368

Length = 374

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

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 9/52 (17%)

Query: 183 CSICLEKFEEGDSARKLPS---------CGHCFHSECVDKWLTRNGSCPVCR 225
           C+IC   F+      K P          CGH FH  C+ +WL    +CP+CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 48.6 bits (116), Expect = 2e-08
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
           C ICL+   +      L  CGH F  EC+ ++L +   CP+CR 
Sbjct: 5   CPICLDLLRD---PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 52.3 bits (125), Expect = 5e-08
 Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 12/67 (17%)

Query: 176 QLDNEIG-CSICLEKFEEGD----------SARKLPSCGHCFHSECVDKWLTRNGSCPVC 224
           QL N    C+IC+++    D          + ++LP CGH  H  C+  WL R  +CP+C
Sbjct: 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPIC 340

Query: 225 RECVCKD 231
           R  V  D
Sbjct: 341 RRPVIFD 347

Length = 491

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

 Score = 50.5 bits (121), Expect = 1e-07
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 4/58 (6%)

Query: 172 EELIQLDNEIGCSICLEKFEEGDSARK----LPSCGHCFHSECVDKWLTRNGSCPVCR 225
           E+L     +  C+IC+EK  + +        L +C H F  EC+D W     +CPVCR
Sbjct: 166 EKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 44.4 bits (105), Expect = 8e-07
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVC 224
           C ICLE++ +      LP CGH F   C+ KWL + N +CP+C
Sbjct: 1   CPICLEEYLK--DPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 46.2 bits (109), Expect = 5e-06
 Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 174 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229
           L  LD+ + C IC  +     S     +CGH F S C+ + L     CPVCRE  C
Sbjct: 19  LKGLDSMLRCRICDCRI----SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70

Length = 391

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

 Score = 43.1 bits (101), Expect = 6e-05
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 4/52 (7%)

Query: 174 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           L  LD  + C IC + F+       L SC H F S C+ + L+    CP+CR
Sbjct: 20  LYPLDTSLRCHICKDFFD----VPVLTSCSHTFCSLCIRRCLSNQPKCPLCR 67

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

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

 Score = 42.7 bits (100), Expect = 1e-04
 Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 9/50 (18%)

Query: 183  CSICLEKFEEGDSARKLPS--CGHC---FHSECVDKWLTRNGS--CPVCR 225
            C+IC    +  D  R LPS  C  C   FH+ C+ KW   +    CP+CR
Sbjct: 1472 CAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 19/47 (40%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWL---TRNGSCPVCRE 226
           C  C  KF   D       C H FH  C+ KWL   T  G CP+CR+
Sbjct: 35  CPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQ 79

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

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

 Score = 36.7 bits (85), Expect = 4e-04
 Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 4/43 (9%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVC 224
           C ICLE+ ++  +   LP CGH F S+C+  WL + N +CP+C
Sbjct: 1   CPICLEEPKDPVTI--LP-CGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 202 CGHCFHSECVDKWLTRNGSCPVCRE 226
           C H FH  C+ +WL   G CP+ R+
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQ 78

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.65
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.59
PHA02929	238	N1R/p28-like protein; Provisional	99.49
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.35
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.34
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.32
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.17
PHA02926	242	zinc finger-like protein; Provisional	99.16
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.14
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.08
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.07
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.07
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.06
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.96
PF14634	44	zf-RING_5: zinc-RING finger domain	98.92
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.91
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.91
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.9
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.89
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.88
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.8
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.68
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.64
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.6
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.5
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.5
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.49
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.48
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.46
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.43
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.43
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.38
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.34
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.31
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.28
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.21
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.14
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.07
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.03
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.95
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.85
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.73
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.64
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.47
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.33
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.27
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.24
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.15
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG2660	331	consensus Locus-specific chromosome binding protei	97.0
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
PHA02862	156	5L protein; Provisional	96.9
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.78
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.71
COG5152	259	Uncharacterized conserved protein, contains RING a	96.67
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.65
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.6
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.51
PHA03096	284	p28-like protein; Provisional	96.33
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.33
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.29
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.25
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.21
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.09
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.08
PF13436	118	Gly-zipper_OmpA: Glycine-zipper containing OmpA-li	95.98
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.89
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.86
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.68
PF04641	260	Rtf2: Rtf2 RING-finger	95.64
PF13441	45	Gly-zipper_YMGG: YMGG-like Gly-zipper	95.56
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.41
KOG1940	276	consensus Zn-finger protein [General function pred	95.4
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.33
PF13441	45	Gly-zipper_YMGG: YMGG-like Gly-zipper	94.91
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.83
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.74
PF05433	42	Rick_17kDa_Anti: Glycine zipper 2TM domain; InterP	94.6
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.57
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	94.55
PF13436	118	Gly-zipper_OmpA: Glycine-zipper containing OmpA-li	94.52
PF13488	46	Gly-zipper_Omp: Glycine zipper	94.48
PF13488	46	Gly-zipper_Omp: Glycine zipper	94.38
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.25
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.21
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.97
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.93
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	93.73
KOG3002	299	consensus Zn finger protein [General function pred	93.68
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	93.54
PRK10510	219	putative outer membrane lipoprotein; Provisional	93.32
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.12
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.04
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.02
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	92.8
KOG3053	293	consensus Uncharacterized conserved protein [Funct	92.36
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.76
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.34
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	90.43
PRK11280	170	hypothetical protein; Provisional	90.39
PRK10540	72	lipoprotein; Provisional	90.34
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	90.09
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.02
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	89.73
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.67
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	89.41
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.97
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	87.87
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	87.56
PRK10540	72	lipoprotein; Provisional	87.27
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.26
PRK10510	219	putative outer membrane lipoprotein; Provisional	87.09
KOG2068	327	consensus MOT2 transcription factor [Transcription	86.96
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	86.02
KOG3899	381	consensus Uncharacterized conserved protein [Funct	84.77
KOG1829	580	consensus Uncharacterized conserved protein, conta	84.42
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	84.33
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	83.8
PF06897	102	DUF1269: Protein of unknown function (DUF1269); In	83.59
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	82.83
KOG0269	839	consensus WD40 repeat-containing protein [Function	82.69
PF11023	114	DUF2614: Protein of unknown function (DUF2614); In	81.85
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	81.66
KOG0825	1134	consensus PHD Zn-finger protein [General function	81.64
TIGR03789	239	pdsO proteobacterial sortase system OmpA family pr	81.14
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	80.88

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

Probab=99.65  E-value=5.8e-17  Score=144.93  Aligned_cols=79  Identities=37%  Similarity=0.812  Sum_probs=66.2

Q ss_pred             CCCCCCHHHHhcCCcccccchhhhhcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCC-CccccccccC
Q 026652          152 GVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCK  230 (235)
Q Consensus       152 ~~~g~s~~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~s-CPlCR~~v~~  230 (235)
                      ..+.+.++.++++|...++..+..+  ....|+||+|+|+.++.+|.|| |+|.||..||++||.++++ ||+||+++.+
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~--~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDED--ATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccC--CCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            4557788999999998887654221  1259999999999999999999 9999999999999998866 9999998876


Q ss_pred             CCC
Q 026652          231 DTD  233 (235)
Q Consensus       231 ~~~  233 (235)
                      ..+
T Consensus       280 ~~~  282 (348)
T KOG4628|consen  280 DSG  282 (348)
T ss_pred             CCC
Confidence            543

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

Probab=99.59  E-value=3.5e-16  Score=100.44  Aligned_cols=44  Identities=61%  Similarity=1.427  Sum_probs=40.5

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      ++|+||++++..++.+..+| |+|.||.+||.+|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999998 999999999999999999999998

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.49  E-value=2.1e-14  Score=123.26  Aligned_cols=77  Identities=27%  Similarity=0.616  Sum_probs=60.3

Q ss_pred             CCCCCHHHHhcCCcccccchhhhhcccCcccccccccccCCCc----eeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652          153 VKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDS----ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV  228 (235)
Q Consensus       153 ~~g~s~~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~----~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v  228 (235)
                      .++.+++.++.+|..........+...+.+|+||++++..++.    +..+++|+|.||.+||.+|+.++.+||+||.++
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            3456888899999886554443344567899999999876542    234556999999999999999999999999987


Q ss_pred             c
Q 026652          229 C  229 (235)
Q Consensus       229 ~  229 (235)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            5

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

Probab=99.35  E-value=5.9e-13  Score=94.65  Aligned_cols=45  Identities=40%  Similarity=0.996  Sum_probs=35.5

Q ss_pred             CcccccccccccCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          180 EIGCSICLEKFEEG----------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       180 ~~~C~ICle~f~~~----------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      ++.|+||++++.++          ..+... .|+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            45699999999433          223334 4999999999999999999999998

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

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

Probab=99.34  E-value=5.1e-13  Score=116.27  Aligned_cols=52  Identities=46%  Similarity=1.070  Sum_probs=47.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~  230 (235)
                      ....+|+|||++|...+.++.+| |.|.||..|+++|+. -+..||+||.++++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            34578999999999999999999 999999999999999 55779999999986

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

Probab=99.32  E-value=6.7e-13  Score=118.29  Aligned_cols=52  Identities=37%  Similarity=1.056  Sum_probs=43.9

Q ss_pred             cccCccccccccc-ccCC---------CceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          177 LDNEIGCSICLEK-FEEG---------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~-f~~~---------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ..++..|.||+++ |+.+         ....+|| |||++|..|++.|++++.+||+||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            3467899999999 5544         2346788 9999999999999999999999999954

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

Probab=99.17  E-value=1.6e-11  Score=80.74  Aligned_cols=47  Identities=38%  Similarity=0.950  Sum_probs=39.2

Q ss_pred             CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      +..|.||++...+   +..+| |+|. ||..|+.+|++.+..||+||+++.+
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            4689999998655   56677 9999 9999999999999999999999863

...

>PHA02926 zinc finger-like protein; Provisional

Probab=99.16  E-value=3.7e-11  Score=101.00  Aligned_cols=57  Identities=28%  Similarity=0.674  Sum_probs=43.1

Q ss_pred             hhhhcccCcccccccccccCC-----CceeecCCCCCcccHHHHHHHHhcC------CCCcccccccc
Q 026652          173 ELIQLDNEIGCSICLEKFEEG-----DSARKLPSCGHCFHSECVDKWLTRN------GSCPVCRECVC  229 (235)
Q Consensus       173 ~~~~~~~~~~C~ICle~f~~~-----~~~~~Lp~C~H~Fh~~CI~~WL~~~------~sCPlCR~~v~  229 (235)
                      +..+...+.+|+||+|.....     .....|++|+|.||..||.+|...+      ++||+||..+.
T Consensus       163 ~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        163 DVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             HHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            333456678999999987432     2334677899999999999998743      45999998764

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.14  E-value=2.7e-11  Score=100.47  Aligned_cols=51  Identities=31%  Similarity=0.792  Sum_probs=41.4

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc----------------CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR----------------NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~----------------~~sCPlCR~~v~~~  231 (235)
                      ..++.+|+||++.+.++..   ++ |+|.||..||.+|+..                +..||+||.++...
T Consensus        15 ~~~~~~CpICld~~~dPVv---T~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVV---TL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCCccCCccCCCcCCCcEE---cC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            4467899999999887644   34 9999999999999852                34799999998654

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

Probab=99.08  E-value=7.4e-11  Score=73.64  Aligned_cols=39  Identities=46%  Similarity=1.217  Sum_probs=32.1

Q ss_pred             cccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652          183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC  224 (235)
                      |+||++.+.++  +..++ |||.||.+|+.+|++.+.+||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998883  23455 99999999999999999999998

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

Probab=99.07  E-value=8.3e-11  Score=85.10  Aligned_cols=52  Identities=35%  Similarity=0.744  Sum_probs=39.3

Q ss_pred             cCcccccccccccCCCc---------eeecCCCCCcccHHHHHHHHhc---CCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDS---------ARKLPSCGHCFHSECVDKWLTR---NGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~---------~~~Lp~C~H~Fh~~CI~~WL~~---~~sCPlCR~~v~~  230 (235)
                      +++.|.||...|+..-.         ...+-.|+|.||..||.+||..   +.+||+||++..-
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            47789999988873221         1122369999999999999985   3679999998653

>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=99.07  E-value=1.1e-10  Score=73.54  Aligned_cols=44  Identities=48%  Similarity=1.190  Sum_probs=35.8

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECV  228 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v  228 (235)
                      .|+||++.+..  ..... +|+|.||..|+.+|+.. +..||.||.++
T Consensus         1 ~C~iC~~~~~~--~~~~~-~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE--PVVLL-PCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC--ceEec-CCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            59999999833  33334 49999999999999997 77899999864

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

Probab=99.06  E-value=8.7e-11  Score=102.01  Aligned_cols=51  Identities=31%  Similarity=0.805  Sum_probs=45.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      +....|.+|++...++..+    +|||+||..||..|...+..||+||.++.+..
T Consensus       237 ~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            4567899999999887776    49999999999999999999999999988764

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

Probab=98.96  E-value=2.9e-10  Score=92.47  Aligned_cols=52  Identities=31%  Similarity=0.788  Sum_probs=43.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      +....|||||+.+.....+. . +|||+||..||..-++....||+||+.|..+
T Consensus       129 ~~~~~CPiCl~~~sek~~vs-T-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVS-T-KCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccCCCceecchhhccccc-c-ccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            34478999999998865431 2 6999999999999999999999999877654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.92  E-value=8.5e-10  Score=70.66  Aligned_cols=44  Identities=39%  Similarity=0.970  Sum_probs=37.6

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE  226 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~  226 (235)
                      .|+||++++.+....+.++ |+|+||..|+.++......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999996556677776 9999999999999866778999985

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

Probab=98.91  E-value=4.4e-10  Score=107.75  Aligned_cols=52  Identities=38%  Similarity=1.044  Sum_probs=45.3

Q ss_pred             ccCcccccccccccCCCc--eeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDS--ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~--~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ..+..|+||+|++..+..  ..++| |+|+||..|+.+|++++.+||.||..+.+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            457899999999998755  67787 99999999999999999999999995543

>smart00504 Ubox Modified RING finger domain

Probab=98.91  E-value=1.1e-09  Score=74.97  Aligned_cols=46  Identities=28%  Similarity=0.614  Sum_probs=40.5

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ..|+||.+.+.++..   +| |||+|++.||.+|+..+.+||+|+.++..
T Consensus         2 ~~Cpi~~~~~~~Pv~---~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDPVI---LP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCCEE---CC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            579999999998743   45 99999999999999999999999998854

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

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

Probab=98.90  E-value=6.7e-10  Score=70.51  Aligned_cols=38  Identities=39%  Similarity=0.984  Sum_probs=29.7

Q ss_pred             cccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccc
Q 026652          183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlC  224 (235)
                      |+||++.|.++..+    .|||.||..||.+|.+.+    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999997776    599999999999998754    359988

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.89  E-value=8.5e-10  Score=69.29  Aligned_cols=39  Identities=51%  Similarity=1.247  Sum_probs=33.3

Q ss_pred             cccccccccCCCceeecCCCCCcccHHHHHHHHh--cCCCCccc
Q 026652          183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--RNGSCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlC  224 (235)
                      |+||++.+..+.  ..+| |+|.||..|+.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988866  3455 999999999999999  55679998

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 ....

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

Probab=98.88  E-value=8.6e-10  Score=93.22  Aligned_cols=52  Identities=35%  Similarity=0.750  Sum_probs=43.1

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN---GSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~~v~~~~  232 (235)
                      .....+|.|||+.-++++..    .|||.||..||-+||..+   +.||+||..|..++
T Consensus        44 ~~~~FdCNICLd~akdPVvT----lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVT----LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCCCEEe----ecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            34568999999998887665    499999999999999854   45999999887654

>smart00184 RING Ring finger

Probab=98.80  E-value=4.1e-09  Score=64.03  Aligned_cols=38  Identities=50%  Similarity=1.322  Sum_probs=31.6

Q ss_pred             cccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccc
Q 026652          183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlC  224 (235)
                      |+||++..   .....+| |+|.||..|+++|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            89998883   3455566 999999999999998 66779987

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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.68  E-value=1.2e-08  Score=93.63  Aligned_cols=51  Identities=31%  Similarity=0.716  Sum_probs=43.7

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .+....|+||++.|..+..   +| |+|.||..||..|+..+..||+||.++...
T Consensus        23 Le~~l~C~IC~d~~~~Pvi---tp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVL---TS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhCccC---CC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            4567899999999988753   45 999999999999999888999999987643

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

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

Probab=98.64  E-value=1.5e-08  Score=71.83  Aligned_cols=29  Identities=38%  Similarity=1.047  Sum_probs=27.2

Q ss_pred             CCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          201 SCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       201 ~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .|.|.||..||.+||..++.||++|++..
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            59999999999999999999999999864

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

Probab=98.60  E-value=1e-08  Score=72.09  Aligned_cols=51  Identities=39%  Similarity=0.889  Sum_probs=37.7

Q ss_pred             cCcccccccccccCCCceeecC---------CCCCcccHHHHHHHHhc---CCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLP---------SCGHCFHSECVDKWLTR---NGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp---------~C~H~Fh~~CI~~WL~~---~~sCPlCR~~v~  229 (235)
                      .++.|-||.-.|...-.-.++|         .|.|.||..||.+|+..   +..||+||+...
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3458888888886533333333         59999999999999984   456999999754

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

Probab=98.50  E-value=6.6e-08  Score=89.98  Aligned_cols=48  Identities=31%  Similarity=0.777  Sum_probs=39.6

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccccccCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-----RNGSCPVCRECVCKD  231 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-----~~~sCPlCR~~v~~~  231 (235)
                      +..||||++....+...    .|||+||..||.+++.     ....||+||..|..+
T Consensus       186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            67899999987776655    5999999999998876     346799999988763

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

Probab=98.50  E-value=4e-08  Score=90.84  Aligned_cols=51  Identities=29%  Similarity=0.710  Sum_probs=40.0

Q ss_pred             cCcccccccccccCCCc--------------eeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDS--------------ARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~--------------~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~  230 (235)
                      ...+|+||+.+++....              ....| |.|+||..|+.+|+. .+-.||+||.++++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            34689999998763211              12346 999999999999999 55689999999875

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

Probab=98.49  E-value=5.9e-08  Score=83.59  Aligned_cols=50  Identities=32%  Similarity=0.759  Sum_probs=41.6

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHH-HHhcCCC-CccccccccCCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK-WLTRNGS-CPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~-WL~~~~s-CPlCR~~v~~~~  232 (235)
                      .+..|+||++....+...    .|||+||..||.. |-.++.. ||+||+.+.++.
T Consensus       214 ~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCCcccc----cccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            467899999988776655    4999999999999 9777655 999999887654

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

Probab=98.48  E-value=3.3e-08  Score=85.28  Aligned_cols=50  Identities=30%  Similarity=0.805  Sum_probs=42.2

Q ss_pred             cCcccccccccccCCC-------ceeecCCCCCcccHHHHHHHHh--cCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGD-------SARKLPSCGHCFHSECVDKWLT--RNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~-------~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlCR~~v~  229 (235)
                      ++..|+||-+.+...+       .+.+|. |+|+||..||+-|-.  ++.+||.|+..+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            4568999998887665       677886 999999999999964  7789999998774

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

Probab=98.46  E-value=3.4e-08  Score=69.57  Aligned_cols=51  Identities=33%  Similarity=0.830  Sum_probs=24.6

Q ss_pred             Cccccccccccc-CCCc-eeec--CCCCCcccHHHHHHHHhc---C--------CCCccccccccC
Q 026652          180 EIGCSICLEKFE-EGDS-ARKL--PSCGHCFHSECVDKWLTR---N--------GSCPVCRECVCK  230 (235)
Q Consensus       180 ~~~C~ICle~f~-~~~~-~~~L--p~C~H~Fh~~CI~~WL~~---~--------~sCPlCR~~v~~  230 (235)
                      +.+|.||++.+. .++. ....  ++|++.||..|+.+||..   .        ..||.|+.+|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            468999999876 3222 2333  379999999999999972   1        239999999864

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

Probab=98.43  E-value=1.6e-07  Score=61.52  Aligned_cols=42  Identities=26%  Similarity=0.869  Sum_probs=32.5

Q ss_pred             ccccccccccCCCceeecCCCC-----CcccHHHHHHHHhcC--CCCcccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCG-----HCFHSECVDKWLTRN--GSCPVCR  225 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~-----H~Fh~~CI~~WL~~~--~sCPlCR  225 (235)
                      .|.||++ ..+++.....| |.     |.+|.+|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 33444455778 75     999999999999754  4899995

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

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

Probab=98.43  E-value=1.6e-07  Score=59.81  Aligned_cols=38  Identities=39%  Similarity=0.979  Sum_probs=22.2

Q ss_pred             cccccccccCCC-ceeecCCCCCcccHHHHHHHHhcC----CCCc
Q 026652          183 CSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLTRN----GSCP  222 (235)
Q Consensus       183 C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCP  222 (235)
                      |+||.+ |..++ ....|| |||+|+.+|+++++.+.    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 75544 456788 99999999999999854    2476

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

Probab=98.38  E-value=1.7e-07  Score=66.48  Aligned_cols=49  Identities=24%  Similarity=0.582  Sum_probs=38.3

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      ++..|+|+.+-+.++..+   | +||+|.+.||.+|+.+ +.+||+|++++..+
T Consensus         3 ~~f~CpIt~~lM~dPVi~---~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVIL---P-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEE---T-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhhCceeC---C-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            457899999999997765   4 9999999999999998 88999999988754

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 ....

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

Probab=98.34  E-value=1.3e-07  Score=84.06  Aligned_cols=51  Identities=37%  Similarity=0.817  Sum_probs=44.2

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .+....|-||.+.|..+..+   | |+|.||.-||.+.|..+..||.|+.++...
T Consensus        20 lD~lLRC~IC~eyf~ip~it---p-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMIT---P-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             hHHHHHHhHHHHHhcCceec---c-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence            34557899999999997665   4 999999999999999999999999987643

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

Probab=98.31  E-value=2.7e-07  Score=80.54  Aligned_cols=48  Identities=38%  Similarity=0.809  Sum_probs=42.1

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .....|-||-+.|..+...    .|||.||.-||...|..|..||+||.+..
T Consensus        23 Ds~lrC~IC~~~i~ip~~T----tCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISIPCET----TCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeecceec----ccccchhHHHHHHHhcCCCCCccccccHH
Confidence            3456899999999887666    59999999999999999999999998754

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

Probab=98.28  E-value=2.6e-07  Score=91.01  Aligned_cols=53  Identities=26%  Similarity=0.822  Sum_probs=40.3

Q ss_pred             cccCcccccccccccCCC---ceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      ..+.++|+||+..+..-+   .-.++|.|.|-||..|+-+|++..  .+||+||.+++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            456689999998765211   123456899999999999999854  67999998765

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

Probab=98.28  E-value=3.7e-07  Score=78.71  Aligned_cols=46  Identities=48%  Similarity=0.975  Sum_probs=39.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE  226 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~  226 (235)
                      ..++..|+||++.|..+   ..+| |+|.||..|+..+......||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            45678999999999998   5566 9999999999998875567999994

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

Probab=98.21  E-value=4.8e-07  Score=83.01  Aligned_cols=49  Identities=37%  Similarity=0.977  Sum_probs=39.6

Q ss_pred             ccCcccccccccccCCCc-eeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDS-ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~-~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .+..+||||||.+..... ++.. .|.|.||..|+.+|  ...+||+||.-..
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeee-ecccccchHHHhhc--ccCcChhhhhhcC
Confidence            345789999999988653 3334 49999999999999  6789999997655

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

Probab=98.14  E-value=2.8e-07  Score=60.82  Aligned_cols=52  Identities=27%  Similarity=0.585  Sum_probs=39.2

Q ss_pred             CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHh-cCCCCccccccccCCCCCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLT-RNGSCPVCRECVCKDTDTW  235 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~~~  235 (235)
                      +.+|.||+|.-.+....    .|||. .|+.|-.+-++ .+..||+||.++.+--.+|
T Consensus         7 ~dECTICye~pvdsVlY----tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY   60 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLY----TCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTY   60 (62)
T ss_pred             ccceeeeccCcchHHHH----HcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhh
Confidence            36899999876664443    69995 79999766554 7899999999987654443

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

Probab=98.14  E-value=6.7e-07  Score=61.25  Aligned_cols=48  Identities=31%  Similarity=0.759  Sum_probs=26.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .++...|++|.+.+..+..+.   .|.|+||..||.+-+.  ..||+|+.|.-
T Consensus         4 le~lLrCs~C~~~l~~pv~l~---~CeH~fCs~Ci~~~~~--~~CPvC~~Paw   51 (65)
T PF14835_consen    4 LEELLRCSICFDILKEPVCLG---GCEHIFCSSCIRDCIG--SECPVCHTPAW   51 (65)
T ss_dssp             HHHTTS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred             HHHhcCCcHHHHHhcCCceec---cCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence            345678999999999876553   7999999999988554  34999998864

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

Probab=98.07  E-value=2.1e-06  Score=63.93  Aligned_cols=48  Identities=25%  Similarity=0.688  Sum_probs=36.5

Q ss_pred             Cccccccccccc-------------CCCceeecCCCCCcccHHHHHHHHhcCCCCcccccc
Q 026652          180 EIGCSICLEKFE-------------EGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCREC  227 (235)
Q Consensus       180 ~~~C~ICle~f~-------------~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~  227 (235)
                      -+.|+||..-+-             .++.+...-.|.|.||..||.+||+..+.||+|.++
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            357888875442             223333344699999999999999999999999875

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

Probab=98.03  E-value=2.4e-06  Score=76.67  Aligned_cols=49  Identities=31%  Similarity=0.811  Sum_probs=40.9

Q ss_pred             ccCcccccccccccCCCceeecCCCCC-cccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      +...+|.||+.+-.+   +..|| |.| ..|..|.+..--+++.||+||+++..
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            345789999998666   67788 999 57999998876678999999999864

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

Probab=98.01  E-value=2.9e-06  Score=76.71  Aligned_cols=52  Identities=38%  Similarity=0.862  Sum_probs=41.1

Q ss_pred             ccCcccccccccccCCC----ceeecCCCCCcccHHHHHHHH--hc-----CCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGD----SARKLPSCGHCFHSECVDKWL--TR-----NGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~----~~~~Lp~C~H~Fh~~CI~~WL--~~-----~~sCPlCR~~v~  229 (235)
                      ..+..|.||++......    ....+|+|.|.||..||++|-  .+     .+.||.||.+..
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            45789999999876643    234568899999999999997  34     467999998764

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

Probab=98.01  E-value=7.3e-07  Score=79.69  Aligned_cols=52  Identities=31%  Similarity=0.673  Sum_probs=42.6

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      ...+..|+|||+-++.   .+..+.|.|.||.+||.+-++. .+.||-||+.+...
T Consensus        40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            4567899999999887   3444689999999999998874 57899999987643

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

Probab=97.95  E-value=1.5e-06  Score=76.11  Aligned_cols=94  Identities=22%  Similarity=0.461  Sum_probs=63.8

Q ss_pred             hhhHHhhhhhcccCCCCCCHHHHhcCCcc-----------ccc--------chhhhhcccCcccccccccccCCCceeec
Q 026652          139 TAYREVSDVYDVTGVKGLSEDMIQKLPEC-----------ALH--------SEELIQLDNEIGCSICLEKFEEGDSARKL  199 (235)
Q Consensus       139 ~~~~e~~~~~~~~~~~g~s~~~i~~lp~~-----------~~~--------~~~~~~~~~~~~C~ICle~f~~~~~~~~L  199 (235)
                      ..|...+..+...+++|+++..++.+...           .+-        +-..........|.|||--|..+....+.
T Consensus        55 ~gYP~esPtvtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T  134 (368)
T KOG4445|consen   55 EGYPAESPTVTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVT  134 (368)
T ss_pred             CCCCCcCCceEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeee
Confidence            44555666666677888887765544221           000        00011123457899999999999988888


Q ss_pred             CCCCCcccHHHHHHHHhc-----------------------CCCCccccccccCCCC
Q 026652          200 PSCGHCFHSECVDKWLTR-----------------------NGSCPVCRECVCKDTD  233 (235)
Q Consensus       200 p~C~H~Fh~~CI~~WL~~-----------------------~~sCPlCR~~v~~~~~  233 (235)
                      + |.|.||..|+.++|..                       +..||+||..+..+.+
T Consensus       135 ~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~  190 (368)
T KOG4445|consen  135 A-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN  190 (368)
T ss_pred             h-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence            8 9999999999887640                       1239999999987654

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

Probab=97.85  E-value=5.6e-06  Score=80.53  Aligned_cols=52  Identities=27%  Similarity=0.728  Sum_probs=42.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~  232 (235)
                      ..+-..||+|-..+.+-..    ++|+|.||..|+.+-+. +++.||.|..++...+
T Consensus       640 yK~~LkCs~Cn~R~Kd~vI----~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  640 YKELLKCSVCNTRWKDAVI----TKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HHhceeCCCccCchhhHHH----HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3456789999877776333    37999999999999886 7789999999987654

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

Probab=97.73  E-value=6.2e-06  Score=80.17  Aligned_cols=50  Identities=28%  Similarity=0.518  Sum_probs=42.8

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ....|++|+..+.+.......+ |+|+||..|+..|-+.-.+||+||..+.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence            4467999999988776665565 9999999999999999999999998764

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

Probab=97.64  E-value=2.4e-05  Score=72.40  Aligned_cols=54  Identities=30%  Similarity=0.759  Sum_probs=45.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      ..++..|++|...+.++...  . .|+|.||..|+.+|+..+..||.||.++...++
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE   71 (391)
T ss_pred             CcccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhc
Confidence            35668999999999998774  2 599999999999999999999999988765543

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

Probab=97.47  E-value=4.4e-05  Score=51.55  Aligned_cols=42  Identities=33%  Similarity=0.808  Sum_probs=28.5

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--CCCCcc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPV  223 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPl  223 (235)
                      ....|||.+..|++|..-.   .|+|+|-++.|.+|+.+  ...||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~---~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSK---KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEES---SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcC---CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3578999999999876543   69999999999999954  345998

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

Probab=97.33  E-value=6.3e-05  Score=68.33  Aligned_cols=47  Identities=38%  Similarity=0.903  Sum_probs=38.9

Q ss_pred             Cccccccccccc-CCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccc
Q 026652          180 EIGCSICLEKFE-EGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCREC  227 (235)
Q Consensus       180 ~~~C~ICle~f~-~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~  227 (235)
                      +..|-.|=|.+. .++.+..|| |.|+||..|+...|.++  .+||.||+-
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            467999988875 456778898 99999999999999755  679999943

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

Probab=97.27  E-value=0.00024  Score=46.11  Aligned_cols=45  Identities=31%  Similarity=0.685  Sum_probs=23.1

Q ss_pred             cccccccccCC-CceeecCCCCCcccHHHHHHHHh-cCCCCccccccc
Q 026652          183 CSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECV  228 (235)
Q Consensus       183 C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v  228 (235)
                      ||+|.+++... ....-. .|++.+|..|..+-+. ....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            79999999433 333334 4999999999988876 478899999875

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

Probab=97.24  E-value=0.00012  Score=66.64  Aligned_cols=48  Identities=29%  Similarity=0.726  Sum_probs=37.4

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccccccCCC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPVCRECVCKDT  232 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPlCR~~v~~~~  232 (235)
                      .-|.||-+.=   ..++.-| |||..|..|+..|-..  ..+||.||.++...+
T Consensus       370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            4599996653   3356666 9999999999999753  467999999887543

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

Probab=97.19  E-value=0.00031  Score=61.20  Aligned_cols=49  Identities=24%  Similarity=0.502  Sum_probs=38.8

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      ..+.+|++|-++-..|-..  . +|+|+||+.||.+-+...  .+||.|-.++.
T Consensus       237 t~~~~C~~Cg~~PtiP~~~--~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVI--G-KCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeee--c-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4567999998886666555  2 499999999999876543  68999998876

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

Probab=97.15  E-value=0.00025  Score=65.53  Aligned_cols=49  Identities=33%  Similarity=0.844  Sum_probs=42.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ..+..|.||+.-+..+...   | |||.||..||++-+.+...||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~pv~t---p-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVT---P-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccc---c-ccccccHHHHHHHhccCCCCccccccccc
Confidence            4568999999999887665   5 99999999999988888889999998864

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

Probab=97.00  E-value=0.0006  Score=62.46  Aligned_cols=48  Identities=27%  Similarity=0.620  Sum_probs=39.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--------NGSCPVCRE  226 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPlCR~  226 (235)
                      .....|.||+++....+....+| |+|+||..|+..++..        .-.||-+.-
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            34578999999988888899999 9999999999999862        234877653

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

Probab=97.00  E-value=0.00019  Score=64.01  Aligned_cols=52  Identities=27%  Similarity=0.657  Sum_probs=44.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ......|.+|-..|.+...+.   .|-|.||..||.+.|...+.||.|...+...
T Consensus        12 ~n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            344578999999998876663   6999999999999999999999999877644

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

Probab=97.00  E-value=0.00046  Score=62.11  Aligned_cols=49  Identities=24%  Similarity=0.485  Sum_probs=40.8

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      .++..||||+..   +......| |+|.=|+.||.+.|.+.+.|=.|+..+.+
T Consensus       420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            467789999765   44455566 99999999999999999999999988764

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

Probab=96.91  E-value=0.00036  Score=61.38  Aligned_cols=47  Identities=28%  Similarity=0.548  Sum_probs=41.6

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..|-||.++|..|+..    +|+|.||..|-.+-+++...|++|.+.....
T Consensus       242 f~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             ccccccccccccchhh----cCCceeehhhhccccccCCcceecccccccc
Confidence            5699999999998887    7999999999999888889999998876543

>PHA02862 5L protein; Provisional

Probab=96.90  E-value=0.00074  Score=53.58  Aligned_cols=45  Identities=22%  Similarity=0.575  Sum_probs=33.1

Q ss_pred             cccccccccccCCCceeecC-CC---CCcccHHHHHHHHh--cCCCCcccccccc
Q 026652          181 IGCSICLEKFEEGDSARKLP-SC---GHCFHSECVDKWLT--RNGSCPVCRECVC  229 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp-~C---~H~Fh~~CI~~WL~--~~~sCPlCR~~v~  229 (235)
                      ..|-||+++-+++  .  -| .|   -..-|++|+.+|+.  ++.+||+|+.++.
T Consensus         3 diCWIC~~~~~e~--~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER--N--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC--c--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            4799999985433  2  33 24   25789999999997  3467999998764

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

Probab=96.78  E-value=0.00092  Score=69.19  Aligned_cols=53  Identities=30%  Similarity=0.677  Sum_probs=41.1

Q ss_pred             hcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----------CCCcccccccc
Q 026652          176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----------GSCPVCRECVC  229 (235)
Q Consensus       176 ~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----------~sCPlCR~~v~  229 (235)
                      +.+.+..|-||+.+--.......|. |+|+||..|..+-|++.          -+||+|+.++.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            3456788999988776666667776 99999999998766532          35999999875

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

Probab=96.71  E-value=0.0015  Score=55.52  Aligned_cols=53  Identities=26%  Similarity=0.660  Sum_probs=42.9

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccccccCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--------NGSCPVCRECVCKDT  232 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPlCR~~v~~~~  232 (235)
                      +-+..|..|-..+..++.+|.  .|-|.||.+|++.|-..        .-.||.|.++|.+..
T Consensus        48 DY~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            345689999999999988764  39999999999999753        235999999987653

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

Probab=96.67  E-value=0.0007  Score=56.44  Aligned_cols=44  Identities=30%  Similarity=0.705  Sum_probs=39.2

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV  228 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v  228 (235)
                      ..|.||-.+|..|...    .|||.||..|..+-.+....|-+|-+..
T Consensus       197 F~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             eeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchhh
Confidence            5799999999998877    7999999999988888888999997654

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

Probab=96.65  E-value=0.001  Score=65.79  Aligned_cols=50  Identities=30%  Similarity=0.768  Sum_probs=40.1

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-------CCCccccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-------GSCPVCRECV  228 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-------~sCPlCR~~v  228 (235)
                      ...+|.||++.+.....+-....|-|+||..||.+|-+..       =.||.|+...
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            3478999999998877777666799999999999998632       1399998433

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.60  E-value=0.0018  Score=55.71  Aligned_cols=53  Identities=19%  Similarity=0.364  Sum_probs=46.7

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ...||||.+.+.+......|.+|||+|+.+|..+.+.....||+|-.++.+.+
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            35799999999988777777779999999999999999999999999987765

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.58  E-value=0.002  Score=52.06  Aligned_cols=48  Identities=23%  Similarity=0.653  Sum_probs=35.0

Q ss_pred             ccCcccccccccccCCCceeecC-CCCC---cccHHHHHHHHhcC--CCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLP-SCGH---CFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp-~C~H---~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      ..+..|-||.++-..  ..  -| .|..   .-|.+|+.+|+..+  .+||+|+.++.
T Consensus         6 ~~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            456789999988432  22  24 3555   56999999999854  56999998764

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

Probab=96.51  E-value=0.002  Score=63.77  Aligned_cols=44  Identities=25%  Similarity=0.653  Sum_probs=35.1

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV  228 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v  228 (235)
                      ....|..|--.++.|...-   .|+|.||..|+.   .+...||-|+-+.
T Consensus       839 q~skCs~C~~~LdlP~VhF---~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHF---LCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccceeee---ecccHHHHHhhc---cCcccCCccchhh
Confidence            3468999988888775443   599999999998   4667899999744

>PHA03096 p28-like protein; Provisional

Probab=96.33  E-value=0.0019  Score=57.26  Aligned_cols=36  Identities=31%  Similarity=0.593  Sum_probs=29.5

Q ss_pred             cccccccccccCC----CceeecCCCCCcccHHHHHHHHh
Q 026652          181 IGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLT  216 (235)
Q Consensus       181 ~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~  216 (235)
                      ..|.||++.....    ..-..||.|.|.||..||..|-.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~  218 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT  218 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence            6799999987653    23346889999999999999976

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

Probab=96.33  E-value=0.0014  Score=49.04  Aligned_cols=34  Identities=26%  Similarity=0.740  Sum_probs=27.6

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHH
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVD  212 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~  212 (235)
                      ..++..|++|-..+.. ......| |+|+||..|++
T Consensus        75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            3456789999999988 4555677 99999999985

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

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

Probab=96.29  E-value=0.0018  Score=61.13  Aligned_cols=49  Identities=29%  Similarity=0.701  Sum_probs=39.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-----RNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-----~~~sCPlCR~~v~~  230 (235)
                      .++..|.+|-++-++....    .|.|.||.-||..+..     ..-+||.|-..+.-
T Consensus       534 k~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             cCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            4567899999887776555    6999999999988876     34679999887753

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

Probab=96.25  E-value=0.0031  Score=56.36  Aligned_cols=49  Identities=22%  Similarity=0.480  Sum_probs=40.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .+...||||+...+++..+.   .-|-+||+.||.+.+.+++.||+=..+..
T Consensus       298 ~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             CccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            34578999999998876653   36899999999999999999998765543

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

Probab=96.21  E-value=0.0036  Score=40.46  Aligned_cols=41  Identities=37%  Similarity=0.961  Sum_probs=26.6

Q ss_pred             cccccccccCCCceeecC-CCCC---cccHHHHHHHHh--cCCCCccc
Q 026652          183 CSICLEKFEEGDSARKLP-SCGH---CFHSECVDKWLT--RNGSCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp-~C~H---~Fh~~CI~~WL~--~~~sCPlC  224 (235)
                      |-||+++-.++. ....| .|.=   ..|.+|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679998877665 23345 3443   789999999998  44669987

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

Probab=96.09  E-value=0.0017  Score=52.48  Aligned_cols=31  Identities=42%  Similarity=0.881  Sum_probs=27.7

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccH
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHS  208 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~  208 (235)
                      ..+..+|.||+||+..++.+.+|| |--+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            345678999999999999999999 9999986

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

Probab=96.08  E-value=0.0028  Score=49.82  Aligned_cols=38  Identities=21%  Similarity=0.717  Sum_probs=30.0

Q ss_pred             CcccccccccccCCCceeecCCCC------CcccHHHHHHHHhcC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCG------HCFHSECVDKWLTRN  218 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~------H~Fh~~CI~~WL~~~  218 (235)
                      ..+|.||++.+.....+..++ |+      |.||.+|+.+|-+.+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence            578999999999855555565 66      899999999994433

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain

Probab=95.98  E-value=0.0047  Score=47.79  Aligned_cols=39  Identities=36%  Similarity=0.388  Sum_probs=26.2

Q ss_pred             HHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652           51 IFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA   90 (235)
Q Consensus        51 ~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s   90 (235)
                      ..+++|+++||++|+++|- ..+|...|+.+|++.|++..
T Consensus        54 ~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~g   92 (118)
T PF13436_consen   54 GGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAAG   92 (118)
T ss_pred             HHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHhh
Confidence            3455677777777777776 34466777777777777763

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

Probab=95.98  E-value=0.0045  Score=50.87  Aligned_cols=52  Identities=29%  Similarity=0.728  Sum_probs=34.6

Q ss_pred             cccccccccccCCC---ceeecCCCCCcccHHHHHHHHhc-----C------CCCccccccccCCC
Q 026652          181 IGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTR-----N------GSCPVCRECVCKDT  232 (235)
Q Consensus       181 ~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~-----~------~sCPlCR~~v~~~~  232 (235)
                      ..|-||+..--++.   .+..--+|+.-||.-|+..||+.     +      ..||+|..++.-+.
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            46777765433322   22222269999999999999973     2      24999999986543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.89  E-value=0.004  Score=41.43  Aligned_cols=46  Identities=30%  Similarity=0.614  Sum_probs=32.3

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ..|-.|...   +..-..+| |+|+.+..|.+-+  +-+.||.|-+++...+
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence            445555333   23344566 9999999998754  7788999999887543

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

Probab=95.86  E-value=0.0027  Score=57.32  Aligned_cols=47  Identities=32%  Similarity=0.617  Sum_probs=33.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ......|.||+++..+   ...+| |||+-|  |..--. .-.+||+||+.+..
T Consensus       302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIRL  348 (355)
T ss_pred             cCCCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence            3445789999998877   44556 999866  654431 23459999998754

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.68  E-value=0.0072  Score=54.34  Aligned_cols=56  Identities=27%  Similarity=0.574  Sum_probs=40.2

Q ss_pred             cCcccccccccccCCCce-eecCCCCCcccHHHHHHHHh-cCCCCccccccccCCCCCC
Q 026652          179 NEIGCSICLEKFEEGDSA-RKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDTDTW  235 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~-~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~~~  235 (235)
                      ++.-||.|++++...+.- .-+| ||...|.-|...--+ -...||-||+...+++--|
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~   70 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY   70 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence            455699999999876543 3355 999888888654322 3467999999887776443

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.64  E-value=0.012  Score=51.65  Aligned_cols=53  Identities=19%  Similarity=0.515  Sum_probs=41.2

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .....|||...+|........+-+|||+|...++..- .....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            4567999999999665555444459999999999986 2356799999988744

>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper

Probab=95.56  E-value=0.0097  Score=38.06  Aligned_cols=33  Identities=45%  Similarity=0.565  Sum_probs=20.0

Q ss_pred             HHhhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652           52 FALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT   89 (235)
Q Consensus        52 ~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~   89 (235)
                      .|..|+.+|+++|+++|     ...+|+.+||..|++.
T Consensus         6 GA~iGA~~GA~iG~~~g-----~~~~GA~iGA~~Ga~~   38 (45)
T PF13441_consen    6 GAAIGAAAGAVIGAIIG-----NGGKGAAIGAAAGALA   38 (45)
T ss_pred             HHHHHHHHHHHHHHhhC-----CCcccchhhhhhhhhh
Confidence            56677777777777777     2234555555555543

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

Probab=95.41  E-value=0.012  Score=53.01  Aligned_cols=47  Identities=28%  Similarity=0.694  Sum_probs=36.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHH--HHhcCCCCcccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK--WLTRNGSCPVCREC  227 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~--WL~~~~sCPlCR~~  227 (235)
                      .+++..|.||-+.+.-   ...+| |+|..|--|-.+  -|-.++.||+||.+
T Consensus        58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence            4556789999887665   45667 999999999865  35578999999974

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

Probab=95.40  E-value=0.0042  Score=54.68  Aligned_cols=50  Identities=30%  Similarity=0.673  Sum_probs=39.7

Q ss_pred             CcccccccccccCCCce-eecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          180 EIGCSICLEKFEEGDSA-RKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~-~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      +..||||.+.+...... ..+| |+|.-|..|.......+-+||+|.+ +.+.
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~  208 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDM  208 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHH
Confidence            45699999988766543 4555 9999999999998887799999988 5443

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

Probab=95.33  E-value=0.0071  Score=38.95  Aligned_cols=44  Identities=23%  Similarity=0.622  Sum_probs=25.4

Q ss_pred             ccccccccccCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccccccCC
Q 026652          182 GCSICLEKFEEGDSARKLPSCG-HCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~-H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .|.-|.-.  +...+    .|+ |..|..|+...|.+...||+|..+++.+
T Consensus         4 nCKsCWf~--~k~Li----~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFA--NKGLI----KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S----SSEE----E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhc--CCCee----eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            46666543  32233    465 9999999999999999999999999865

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

>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper

Probab=94.91  E-value=0.012  Score=37.66  Aligned_cols=34  Identities=47%  Similarity=0.644  Sum_probs=21.5

Q ss_pred             HHHHhhhhhhhhhhh-hccccccccCCccccchhhhhhHHH
Q 026652           50 CIFALGGAIVGTIFG-AMKGQTTETGFLHGAGIGAVAGAIT   89 (235)
Q Consensus        50 ~~~a~~g~~~g~~~g-a~~g~~t~~g~~~ga~~Ga~aGav~   89 (235)
                      .+.|.+|+++|+++| ...|      -+-|+.+|+++|++.
T Consensus         8 ~iGA~~GA~iG~~~g~~~~G------A~iGA~~Ga~~G~~~   42 (45)
T PF13441_consen    8 AIGAAAGAVIGAIIGNGGKG------AAIGAAAGALAGAAI   42 (45)
T ss_pred             HHHHHHHHHHHHhhCCCccc------chhhhhhhhhhhhhh
Confidence            455667777777777 4443      355667777777654

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

Probab=94.83  E-value=0.0046  Score=54.45  Aligned_cols=43  Identities=28%  Similarity=0.794  Sum_probs=31.6

Q ss_pred             CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      +.-|.||++.-.+   -..|+ |||. -|.+|-.+    -+.||+||+.+..
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHHH
Confidence            4579999876554   45566 9994 58888754    3489999998753

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

Probab=94.74  E-value=0.019  Score=50.88  Aligned_cols=43  Identities=30%  Similarity=0.781  Sum_probs=34.7

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRE  226 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~  226 (235)
                      ..|+.|..-+..+...   |.|+|.||.+||..-|. ....||.|.+
T Consensus       275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence            6799998877775544   67999999999997766 5577999954

>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []

Probab=94.60  E-value=0.012  Score=37.18  Aligned_cols=37  Identities=46%  Similarity=0.544  Sum_probs=23.4

Q ss_pred             hhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652           54 LGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ   92 (235)
Q Consensus        54 ~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e   92 (235)
                      ++|+++|+++|..++.  .++...++.+|++.|++..-+
T Consensus         4 ~~Ga~~Ga~~G~~ig~--~~g~~~g~~~Ga~~Ga~~G~~   40 (42)
T PF05433_consen    4 LIGAAVGAVAGSQIGG--GNGRTLGAVAGAVAGALIGNQ   40 (42)
T ss_pred             HHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHHHHhh
Confidence            4455555555554422  467778888888888887543

The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane

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

Probab=94.57  E-value=0.026  Score=35.76  Aligned_cols=41  Identities=27%  Similarity=0.824  Sum_probs=22.6

Q ss_pred             cccccccccCCCceeecCCCCCcccHHHHHHHHhcCC--CCccc
Q 026652          183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPVC  224 (235)
Q Consensus       183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPlC  224 (235)
                      |.+|.+-...+..-.. +.|+=.+|..|+.++++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~-~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSN-RDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCC-CccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            6677766666544321 14888999999999998665  69988

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.55  E-value=0.02  Score=48.63  Aligned_cols=44  Identities=30%  Similarity=0.736  Sum_probs=32.5

Q ss_pred             ccccccccccCCCceeecCCCCC-cccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          182 GCSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      .|-.|-+   .+..+..+| |.| .+|..|-..    -..||+|+.+......
T Consensus       160 ~Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~~~  204 (207)
T KOG1100|consen  160 SCRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSSVE  204 (207)
T ss_pred             cceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChhhceee
Confidence            3888854   456688898 998 688999754    4569999988765443

>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain

Probab=94.52  E-value=0.026  Score=43.70  Aligned_cols=39  Identities=38%  Similarity=0.445  Sum_probs=28.6

Q ss_pred             HHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652           51 IFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA   90 (235)
Q Consensus        51 ~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s   90 (235)
                      --+..|+++|+++||++|..... -.+|+.+||.+|++..
T Consensus        50 ~~~~~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G   88 (118)
T PF13436_consen   50 ENTAGGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVG   88 (118)
T ss_pred             hhHHHHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHH
Confidence            35677788888888888877664 5677777787777763

>PF13488 Gly-zipper_Omp: Glycine zipper

Probab=94.48  E-value=0.018  Score=37.03  Aligned_cols=36  Identities=39%  Similarity=0.519  Sum_probs=17.0

Q ss_pred             HhhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652           53 ALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT   89 (235)
Q Consensus        53 a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~   89 (235)
                      |+.|+++|+++|...+ .+..|-+.|+.+|++.|+..
T Consensus         3 a~iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G~~i   38 (46)
T PF13488_consen    3 AAIGAAAGAAIGAATG-GPGKGAAIGAAVGAAVGAAI   38 (46)
T ss_pred             HHHHHHHHHHHHHHhC-CchhhHHHHHHHHHHHHHHH
Confidence            3444444444444443 12234455555555555554

>PF13488 Gly-zipper_Omp: Glycine zipper

Probab=94.38  E-value=0.019  Score=36.92  Aligned_cols=35  Identities=43%  Similarity=0.536  Sum_probs=28.7

Q ss_pred             hhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652           55 GGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA   90 (235)
Q Consensus        55 ~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s   90 (235)
                      .|+.+|+++|+++|..+. +-..|+.+|++.|++..
T Consensus         1 ~Ga~iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G   35 (46)
T PF13488_consen    1 IGAAIGAAAGAAIGAATG-GPGKGAAIGAAVGAAVG   35 (46)
T ss_pred             CcHHHHHHHHHHHHHHhC-CchhhHHHHHHHHHHHH
Confidence            478899999999999886 56788888888888863

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.25  E-value=0.05  Score=36.14  Aligned_cols=45  Identities=33%  Similarity=0.839  Sum_probs=35.9

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcc--cccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPV--CREC  227 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPl--CR~~  227 (235)
                      ....|++|-+.|.+++.+...|.|+-.+|++|.++    ...|-.  |..+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            45689999999998888889999999999999754    455654  5443

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

Probab=94.21  E-value=0.018  Score=51.19  Aligned_cols=44  Identities=32%  Similarity=0.717  Sum_probs=30.2

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      -.|.-|  +|....--|..| |+|+||++|...  ...+.||.|-..|.
T Consensus        91 HfCd~C--d~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRC--DFPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             Eeeccc--CCcceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            346666  333333346677 999999999864  34578999987664

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

Probab=93.97  E-value=0.083  Score=48.37  Aligned_cols=53  Identities=26%  Similarity=0.700  Sum_probs=32.3

Q ss_pred             ccCcccccccccccC-------------CCceeecCCCC-----CcccHHHHHHHHhc-------------CCCCccccc
Q 026652          178 DNEIGCSICLEKFEE-------------GDSARKLPSCG-----HCFHSECVDKWLTR-------------NGSCPVCRE  226 (235)
Q Consensus       178 ~~~~~C~ICle~f~~-------------~~~~~~Lp~C~-----H~Fh~~CI~~WL~~-------------~~sCPlCR~  226 (235)
                      .+.+.|-=|++.-.+             +......|.|.     -..|.+|+.+|+..             +-.||.||+
T Consensus       269 ~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa  348 (358)
T PF10272_consen  269 QELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRA  348 (358)
T ss_pred             cccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcc
Confidence            455788888875332             11111222344     45578899998852             335999999


Q ss_pred             cccC
Q 026652          227 CVCK  230 (235)
Q Consensus       227 ~v~~  230 (235)
                      .+.-
T Consensus       349 ~FCi  352 (358)
T PF10272_consen  349 KFCI  352 (358)
T ss_pred             ccee
Confidence            8753

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

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

Probab=93.93  E-value=0.0043  Score=56.57  Aligned_cols=50  Identities=32%  Similarity=0.703  Sum_probs=41.4

Q ss_pred             cccccccccccCC-CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          181 IGCSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       181 ~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..|+||.+.+... +.+..+ .|+|.+|..|+.+||.....||-||+.++..
T Consensus       197 ~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            5799999988765 333334 4999999999999999989999999988653

>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=93.73  E-value=0.081  Score=42.79  Aligned_cols=38  Identities=24%  Similarity=0.545  Sum_probs=23.7

Q ss_pred             cCcccccccccccCCCceeecC--------CCCCc-ccHHHHHHHHh
Q 026652          179 NEIGCSICLEKFEEGDSARKLP--------SCGHC-FHSECVDKWLT  216 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp--------~C~H~-Fh~~CI~~WL~  216 (235)
                      ++..|||||+--.+.+.+.--.        -|+-. -|..|+++.-+
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            3568999999876644332100        14443 48899998754

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.

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

Probab=93.68  E-value=0.046  Score=48.91  Aligned_cols=47  Identities=23%  Similarity=0.499  Sum_probs=37.0

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      .+-.+||||.+.+..+..-+   .=||+-|..|-.+   .++.||.||.++.+
T Consensus        46 ~~lleCPvC~~~l~~Pi~QC---~nGHlaCssC~~~---~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPIFQC---DNGHLACSSCRTK---VSNKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCcccceec---CCCcEehhhhhhh---hcccCCcccccccc
Confidence            45679999999999876542   2469999999764   67889999999873

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

Probab=93.54  E-value=0.049  Score=50.19  Aligned_cols=29  Identities=41%  Similarity=1.108  Sum_probs=23.4

Q ss_pred             CCCCCcccHHHHHHHHhcC--CCCccccccc
Q 026652          200 PSCGHCFHSECVDKWLTRN--GSCPVCRECV  228 (235)
Q Consensus       200 p~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v  228 (235)
                      |.|+|.|-.+||++||.+.  ..||.|..+-
T Consensus        25 l~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen   25 LQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            3699999999999999632  4599997643

>PRK10510 putative outer membrane lipoprotein; Provisional

Probab=93.32  E-value=0.052  Score=46.43  Aligned_cols=39  Identities=33%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             HHhhhhhhhhhhhhccccccc--cCCccccchhhhhhHHHH
Q 026652           52 FALGGAIVGTIFGAMKGQTTE--TGFLHGAGIGAVAGAITA   90 (235)
Q Consensus        52 ~a~~g~~~g~~~ga~~g~~t~--~g~~~ga~~Ga~aGav~s   90 (235)
                      .|++|+++||++|+++|-.++  .|-+.|+.+|+.+|+...
T Consensus        38 ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~~~g   78 (219)
T PRK10510         38 GAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGGGVG   78 (219)
T ss_pred             hhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhhhhh
Confidence            566677777777777662211  245556666666666663

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

Probab=93.12  E-value=0.035  Score=57.52  Aligned_cols=47  Identities=34%  Similarity=0.878  Sum_probs=39.0

Q ss_pred             cccCcccccccccccC-CCceeecCCCCCcccHHHHHHHHhcCCCCcccccc
Q 026652          177 LDNEIGCSICLEKFEE-GDSARKLPSCGHCFHSECVDKWLTRNGSCPVCREC  227 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~-~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~  227 (235)
                      ......|+||++.+.. +-..    .|+|.+|..|...|+..+..||.|+..
T Consensus      1150 ~~~~~~c~ic~dil~~~~~I~----~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIA----GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             hhcccchHHHHHHHHhcCCee----eechhHhhhHHHHHHHHhccCcchhhh
Confidence            4455689999999884 3333    699999999999999999999999843

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

Probab=93.04  E-value=0.041  Score=54.45  Aligned_cols=44  Identities=32%  Similarity=0.785  Sum_probs=33.1

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      ..|+||++ ...   .... .|+|.||.+|+.+-+...  ..||+||..+.
T Consensus       455 ~~c~ic~~-~~~---~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LDS---FFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-ccc---ceee-cccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            78999999 333   2333 499999999999877633  35999997664

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

Probab=93.02  E-value=0.068  Score=53.56  Aligned_cols=37  Identities=30%  Similarity=0.763  Sum_probs=28.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHH
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL  215 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL  215 (235)
                      .+..+.|.+|...+... .-..-| |||.||.+|+.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            35667999998888764 344566 99999999997654

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

Probab=92.80  E-value=0.042  Score=47.32  Aligned_cols=49  Identities=24%  Similarity=0.558  Sum_probs=36.6

Q ss_pred             cCccccccccccc--CCCceeecCCCCCcccHHHHHHHHhc-CCCCc--ccccc
Q 026652          179 NEIGCSICLEKFE--EGDSARKLPSCGHCFHSECVDKWLTR-NGSCP--VCREC  227 (235)
Q Consensus       179 ~~~~C~ICle~f~--~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCP--lCR~~  227 (235)
                      .+..||||..|.-  ++..+..-|.|-|..|.+|.++-+.. ...||  -|.+-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI   62 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI   62 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence            4568999997743  33445556679999999999998874 46799  67543

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.36  E-value=0.053  Score=47.11  Aligned_cols=52  Identities=29%  Similarity=0.676  Sum_probs=35.8

Q ss_pred             cccCcccccccccccCCCce-eecCCCC-----CcccHHHHHHHHhcCC--------CCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSA-RKLPSCG-----HCFHSECVDKWLTRNG--------SCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~-~~Lp~C~-----H~Fh~~CI~~WL~~~~--------sCPlCR~~v~  229 (235)
                      .+.+..|-||+..=++.... -+-| |.     |..|..|+..|+..+.        +||.|+.+..
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            34567899998765543322 2234 54     7899999999997432        4999998653

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

Probab=91.76  E-value=0.055  Score=52.49  Aligned_cols=45  Identities=31%  Similarity=0.589  Sum_probs=33.0

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE  226 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~  226 (235)
                      .-..|+||+..|......-+-+.|||+.|..|+..-  .+.+|| |+.
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence            346899999888765444333479999999999875  456788 543

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

Probab=91.34  E-value=0.18  Score=39.59  Aligned_cols=55  Identities=22%  Similarity=0.468  Sum_probs=39.7

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccccccCCCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT---RNGSCPVCRECVCKDTD  233 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~---~~~sCPlCR~~v~~~~~  233 (235)
                      .--+|-||.|...+...+.--.-||-..|.-|-....+   .++.||+|+..+...+.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~  136 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS  136 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence            45689999988766554432225999999998765444   56789999998876543

>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=90.43  E-value=0.22  Score=32.79  Aligned_cols=43  Identities=28%  Similarity=0.614  Sum_probs=22.8

Q ss_pred             cccccccccCC------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          183 CSICLEKFEEG------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       183 C~ICle~f~~~------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      |.-|+..|..+      ......|.|++.||.+|=.--=+.-.+||-|.
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            55577777665      35677889999999999533212335699884

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.

>PRK11280 hypothetical protein; Provisional

Probab=90.39  E-value=0.15  Score=41.81  Aligned_cols=38  Identities=24%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             hhhhhhhhhhhcccccc--ccCCccccchhhhhhHHHHHH
Q 026652           55 GGAIVGTIFGAMKGQTT--ETGFLHGAGIGAVAGAITALQ   92 (235)
Q Consensus        55 ~g~~~g~~~ga~~g~~t--~~g~~~ga~~Ga~aGav~s~e   92 (235)
                      .|+++|+++|+++|..-  .+|..-++.+||++|+++.-+
T Consensus        66 ~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~  105 (170)
T PRK11280         66 AGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQ  105 (170)
T ss_pred             hhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHH
Confidence            34555555555554432  245556778888888887554

>PRK10540 lipoprotein; Provisional

Probab=90.34  E-value=0.4  Score=33.85  Aligned_cols=36  Identities=31%  Similarity=0.294  Sum_probs=21.3

Q ss_pred             HhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652           53 ALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ   92 (235)
Q Consensus        53 a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e   92 (235)
                      +..|+..|+++|+++|.    |-..|+.+||+.|++..-+
T Consensus        34 ~~~Ga~~Ga~~Ga~~g~----g~~~g~~~Ga~~G~~~G~~   69 (72)
T PRK10540         34 TAIGAGAGALGGAVLTD----GSTLGTLGGAAVGGVIGHQ   69 (72)
T ss_pred             hHHHHHHHHHHHHHhcC----CcHHHHHHHHHHHHHHhHh
Confidence            34566666666666642    3335667777777776443

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

Probab=90.09  E-value=0.083  Score=51.85  Aligned_cols=50  Identities=28%  Similarity=0.683  Sum_probs=39.7

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN---GSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~~v~~~  231 (235)
                      ....+|+||++.+..+..+    +|.|.|+..|+..-+...   ..||+|+..+.+.
T Consensus        19 ~k~lEc~ic~~~~~~p~~~----kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   19 QKILECPICLEHVKEPSLL----KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR   71 (684)
T ss_pred             hhhccCCceeEEeeccchh----hhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence            4567899999999998444    799999999998766544   4699999776544

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

Probab=90.02  E-value=0.16  Score=44.96  Aligned_cols=49  Identities=31%  Similarity=0.732  Sum_probs=35.4

Q ss_pred             CcccccccccccCCCc-eeecCCCC-----CcccHHHHHHHHh--cCCCCcccccccc
Q 026652          180 EIGCSICLEKFEEGDS-ARKLPSCG-----HCFHSECVDKWLT--RNGSCPVCRECVC  229 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~-~~~Lp~C~-----H~Fh~~CI~~WL~--~~~sCPlCR~~v~  229 (235)
                      +..|-||.++...... ....| |.     +..|..|+.+|+.  ....|.+|.....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            4789999997765432 23344 54     5679999999998  4566999987554

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

Probab=89.73  E-value=0.16  Score=33.13  Aligned_cols=43  Identities=16%  Similarity=0.563  Sum_probs=20.7

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhc---C--CCCcccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR---N--GSCPVCREC  227 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~---~--~sCPlCR~~  227 (235)
                      ..|||....+..|..-.   .|.|.-|.+ +..||..   .  -.||+|+++
T Consensus         3 L~CPls~~~i~~P~Rg~---~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGK---NCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEET---T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCC---cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            46999998887755443   699975433 3456552   2  249999874

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

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

Probab=89.67  E-value=0.27  Score=45.21  Aligned_cols=49  Identities=18%  Similarity=0.481  Sum_probs=39.2

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC---CCcccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG---SCPVCREC  227 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~---sCPlCR~~  227 (235)
                      .....|||=.+.-.+......|+ |||+...+=+++.-++..   .||+|=.+
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            34468999888888878888887 999999999999766443   49999543

>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=89.41  E-value=0.21  Score=28.11  Aligned_cols=23  Identities=35%  Similarity=0.700  Sum_probs=16.0

Q ss_pred             ccccccccccCCCceeecCCCCCcc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCF  206 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~F  206 (235)
                      .||-|...+.  ...+..|.|||.|
T Consensus         2 ~CP~C~~~V~--~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVP--ESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCch--hhcCcCCCCCCCC
Confidence            5888877753  4455677888877

Several members are annotated as putative helicases.

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

Probab=87.97  E-value=0.23  Score=46.03  Aligned_cols=37  Identities=30%  Similarity=0.669  Sum_probs=27.5

Q ss_pred             cCcccccccccccCC-CceeecCCCCCcccHHHHHHHHh
Q 026652          179 NEIGCSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLT  216 (235)
Q Consensus       179 ~~~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~  216 (235)
                      ....|.||..+.... .... ...|+|.||.+|..+.+.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence            356899999554444 4444 446999999999998876

>TIGR00622 ssl1 transcription factor ssl1

Probab=87.87  E-value=0.63  Score=35.63  Aligned_cols=45  Identities=20%  Similarity=0.315  Sum_probs=35.0

Q ss_pred             cccccccccccCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          181 IGCSICLEKFEEG----------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       181 ~~C~ICle~f~~~----------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      ..|--|+..|..+          ......|.|++.||.+|=.-+-+.-.+||-|.
T Consensus        56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~  110 (112)
T TIGR00622        56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI  110 (112)
T ss_pred             CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence            4699999988753          22345778999999999877766667899996

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

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=87.56  E-value=0.33  Score=48.12  Aligned_cols=23  Identities=35%  Similarity=1.054  Sum_probs=21.3

Q ss_pred             CCCCcccHHHHHHHHhcCCCCcc
Q 026652          201 SCGHCFHSECVDKWLTRNGSCPV  223 (235)
Q Consensus       201 ~C~H~Fh~~CI~~WL~~~~sCPl  223 (235)
                      .|+|+.|.+|...|++....||-
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            59999999999999999999983

>PRK10540 lipoprotein; Provisional

Probab=87.27  E-value=0.45  Score=33.59  Aligned_cols=15  Identities=27%  Similarity=0.516  Sum_probs=6.7

Q ss_pred             hhhhhhhhhhhcccc
Q 026652           55 GGAIVGTIFGAMKGQ   69 (235)
Q Consensus        55 ~g~~~g~~~ga~~g~   69 (235)
                      .|+++|+.+|+++|+
T Consensus        54 ~g~~~Ga~~G~~~G~   68 (72)
T PRK10540         54 LGTLGGAAVGGVIGH   68 (72)
T ss_pred             HHHHHHHHHHHHHhH
Confidence            344444444444443

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

Probab=87.26  E-value=0.41  Score=47.88  Aligned_cols=52  Identities=21%  Similarity=0.539  Sum_probs=36.4

Q ss_pred             ccCcccccccccccCCCceeecCCCC---CcccHHHHHHHHhcC--CCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCG---HCFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~---H~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      +++..|-||..+=..++.+-.--+|.   ...|++|+.+|+.-.  ..|-+|..++.
T Consensus        10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            45579999987766655543211333   468999999999843  55999997764

>PRK10510 putative outer membrane lipoprotein; Provisional

Probab=87.09  E-value=0.45  Score=40.65  Aligned_cols=35  Identities=40%  Similarity=0.430  Sum_probs=22.0

Q ss_pred             hhhhhhhhhhhccccccccCCc--cccchhhhhhHHH
Q 026652           55 GGAIVGTIFGAMKGQTTETGFL--HGAGIGAVAGAIT   89 (235)
Q Consensus        55 ~g~~~g~~~ga~~g~~t~~g~~--~ga~~Ga~aGav~   89 (235)
                      .|+.+||++||++|..+....-  .|+.+||..|+..
T Consensus        37 ~ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~   73 (219)
T PRK10510         37 IGAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAAL   73 (219)
T ss_pred             hhhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhh
Confidence            4677777777777777653332  2456666666655

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=86.96  E-value=0.6  Score=42.08  Aligned_cols=52  Identities=27%  Similarity=0.556  Sum_probs=39.3

Q ss_pred             CcccccccccccCCC-ceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          180 EIGCSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       180 ~~~C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ...|+||.++....+ ...-. .|+|..|..|+..-...+.+||.||++.....
T Consensus       249 ~~s~p~~~~~~~~~d~~~lP~-~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t  301 (327)
T KOG2068|consen  249 PPSCPICYEDLDLTDSNFLPC-PCGFRLCLFCHKTISDGDGRCPGCRKPYERNT  301 (327)
T ss_pred             CCCCCCCCCcccccccccccc-cccccchhhhhhcccccCCCCCccCCccccCc
Confidence            468999999874322 22233 49999999999988888999999998776443

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

Probab=86.02  E-value=0.49  Score=41.86  Aligned_cols=32  Identities=41%  Similarity=0.858  Sum_probs=24.7

Q ss_pred             eeecCCCCCcccHHHHHHHHhcC-CCCccccccc
Q 026652          196 ARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECV  228 (235)
Q Consensus       196 ~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v  228 (235)
                      .+.| +|||.||..|+.+-+... ..||.||.+.
T Consensus        22 p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   22 PRVL-KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             Cccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            3444 599999999998776644 4599999984

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.77  E-value=0.52  Score=41.84  Aligned_cols=28  Identities=25%  Similarity=0.847  Sum_probs=21.3

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCcccccccc
Q 026652          202 CGHCFHSECVDKWLT-------------RNGSCPVCRECVC  229 (235)
Q Consensus       202 C~H~Fh~~CI~~WL~-------------~~~sCPlCR~~v~  229 (235)
                      |....|.+|+.+|+.             ++-+||.||+++.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc  365 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC  365 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence            455677899988875             3456999999875

>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]

Probab=84.42  E-value=0.34  Score=46.98  Aligned_cols=42  Identities=29%  Similarity=0.850  Sum_probs=28.0

Q ss_pred             Cccccccccc-----ccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          180 EIGCSICLEK-----FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       180 ~~~C~ICle~-----f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      ...|.+|...     |+ .+.+++.-.|+++||..|...   ....||.|-
T Consensus       511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~  557 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE  557 (580)
T ss_pred             eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence            4567777322     22 234455557999999999765   556699994

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

Probab=84.33  E-value=0.53  Score=45.53  Aligned_cols=46  Identities=37%  Similarity=0.901  Sum_probs=37.2

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .....|.||+++.    ..+..| |.   |..|+.+|+..+..||+|+..+..+
T Consensus       477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~  522 (543)
T KOG0802|consen  477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED  522 (543)
T ss_pred             cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence            4457899999998    344455 88   8999999999999999999877544

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=83.80  E-value=0.74  Score=38.83  Aligned_cols=41  Identities=34%  Similarity=0.859  Sum_probs=29.9

Q ss_pred             Cccccccccc-----ccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652          180 EIGCSICLEK-----FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE  226 (235)
Q Consensus       180 ~~~C~ICle~-----f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~  226 (235)
                      ...|-+|-++     |+. +.+...+.|+-+||..|..     +..||.|.+
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R  197 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR  197 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence            4578888643     222 3567788999999999976     367999954

>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues

Probab=83.59  E-value=0.9  Score=34.19  Aligned_cols=21  Identities=38%  Similarity=0.599  Sum_probs=13.7

Q ss_pred             hhhhhhhhhhhccccccccCC
Q 026652           55 GGAIVGTIFGAMKGQTTETGF   75 (235)
Q Consensus        55 ~g~~~g~~~ga~~g~~t~~g~   75 (235)
                      +|+.+||.+||+.|-.++.|+
T Consensus        20 ~G~~~GA~~Gal~G~l~d~gI   40 (102)
T PF06897_consen   20 LGAAVGAAAGALAGALSDYGI   40 (102)
T ss_pred             HHHHHHHHHHHHHhHHhhCCC
Confidence            666666666666666666554

However, these proteins are predicted to contain two or more transmembrane segments.

>smart00249 PHD PHD zinc finger

Probab=82.83  E-value=0.76  Score=28.12  Aligned_cols=31  Identities=23%  Similarity=0.614  Sum_probs=21.9

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHH
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDK  213 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~  213 (235)
                      .|.+|.... .+..+.....|.+.||..|+..
T Consensus         1 ~C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPD-DGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcC-CCCCEEECCCCCchhhhhhCCC
Confidence            377887765 3344444557999999999864

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=82.69  E-value=1.1  Score=44.65  Aligned_cols=41  Identities=20%  Similarity=0.491  Sum_probs=30.5

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPV  223 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPl  223 (235)
                      ..|.+|-..+..  .....+.|+|.-|.+|+.+|+..+.-||.
T Consensus       780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence            468888544333  23345679999999999999998887776

>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins

Probab=81.85  E-value=1.1  Score=34.25  Aligned_cols=28  Identities=36%  Similarity=0.689  Sum_probs=19.8

Q ss_pred             cCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          199 LPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       199 Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      +|+|+|.      .+-|.+...|+.||+|+.-+.
T Consensus        72 CP~C~K~------TKmLGr~D~CM~C~~pLTLd~   99 (114)
T PF11023_consen   72 CPNCGKQ------TKMLGRVDACMHCKEPLTLDP   99 (114)
T ss_pred             CCCCCCh------HhhhchhhccCcCCCcCccCc
Confidence            4567763      245667788999999987553

; GO: 0005887 integral to plasma membrane

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=81.66  E-value=0.84  Score=27.75  Aligned_cols=27  Identities=37%  Similarity=0.886  Sum_probs=17.6

Q ss_pred             cccccccccccCCCc-------eeecCCCCCccc
Q 026652          181 IGCSICLEKFEEGDS-------ARKLPSCGHCFH  207 (235)
Q Consensus       181 ~~C~ICle~f~~~~~-------~~~Lp~C~H~Fh  207 (235)
                      ..||-|...|..++.       ..+.|+|+|.|.
T Consensus         3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            368888777765543       345667888774

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

Probab=81.64  E-value=0.85  Score=45.58  Aligned_cols=51  Identities=12%  Similarity=0.238  Sum_probs=35.1

Q ss_pred             cCcccccccccccCCC---ceeecCCCCCcccHHHHHHHHhc------CCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTR------NGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~------~~sCPlCR~~v~  229 (235)
                      ....|.+|.-++..++   ....+.+|+|.||..||.+|+.+      +-.||.|...+.
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            3457788877776632   22222369999999999999863      345899877654

>TIGR03789 pdsO proteobacterial sortase system OmpA family protein

Probab=81.14  E-value=0.76  Score=39.87  Aligned_cols=14  Identities=36%  Similarity=0.655  Sum_probs=6.9

Q ss_pred             ccchhhhhhHHHHH
Q 026652           78 GAGIGAVAGAITAL   91 (235)
Q Consensus        78 ga~~Ga~aGav~s~   91 (235)
                      |+.+|++.|++.+-
T Consensus        62 G~~~G~~~G~~~g~   75 (239)
T TIGR03789        62 GAIIGGITGGLIGQ   75 (239)
T ss_pred             HHHHHHHHHHHhhh
Confidence            44555555555433

A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.

>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]

Probab=80.88  E-value=0.77  Score=38.96  Aligned_cols=44  Identities=30%  Similarity=0.717  Sum_probs=35.0

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR  225 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR  225 (235)
                      +-..|-+|..-...+.   ++-+|+-.+|..|+.+.+.+.+.||.|.
T Consensus       180 nlk~Cn~Ch~LvIqg~---rCg~c~i~~h~~c~qty~q~~~~cphc~  223 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQGI---RCGSCNIQYHRGCIQTYLQRRDICPHCG  223 (235)
T ss_pred             HHHHHhHhHHHhheee---ccCcccchhhhHHHHHHhcccCcCCchh
Confidence            3468999987665533   3336888999999999999999999994

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-11
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		7e-09
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-08
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-07
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		6e-07
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		3e-05
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		3e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		4e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		4e-04

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

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 25/49 (51%), Positives = 37/49 (75%)
Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           +D+ + C++CL + E+G+ AR LP CGH FH+ECVD WL  + +CP+CR
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 24/43 (55%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C+ICL   EEG+  R+LP C H FH  CVD+WL  N  CP+CR
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 157 SEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT 216
           S++ I  LPE  L +E+   +  E+ C IC  ++ +GD A +LP C H FH  CV  WL 
Sbjct: 18  SKESIDALPE-ILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 217 RNGSCPVCR 225
           ++G+CPVCR
Sbjct: 76  KSGTCPVCR 84

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C +C+  FE     R LP C H FH++CVDKWL  N +CP+CR
Sbjct: 26  CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
           C +C E +  G+S R+LP C H FH  C+  WL ++ SCPVCR+
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRK 60

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           L+NE+ C IC E F E  +     +C H F S C+++W+ R   CP+CR
Sbjct: 50  LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICR 94

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           L+NE+ C IC E F E  +     +C H F S C+++W+ R   CP+CR
Sbjct: 50  LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICR 94

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 4/50 (8%)
Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
           L+NE+ C IC E F E  +     +C H F S C+++W+ R   CP+CR+
Sbjct: 61  LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRK 106

>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 141 Length = 70

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           QL +E  C IC++    G +   LP C H F  +C+DKW  R+ +CP+CR
Sbjct: 11  QLTDEEECCICMD----GRADLILP-CAHSFCQKCIDKWSDRHRNCPICR 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-27
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-23
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-22
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-22
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-22
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-21
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	6e-15
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	9e-15
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-14
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	9e-13
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	9e-12
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	6e-11
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-10
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-10
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-10
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	5e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-10
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	8e-10
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-09
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-09
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-09
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-08
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-08
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	6e-08
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-06
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	8e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	8e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-05
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-05
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	5e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	5e-05
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	5e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	7e-04

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

 Score = 99.7 bits (249), Expect = 2e-27
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 2/80 (2%)

Query: 149 DVTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHS 208
            +      S++ I  LPE  + +E+   +  E+ C IC  ++ +GD A +LP C H FH 
Sbjct: 10  HMVANPPASKESIDALPEILV-TEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHK 67

Query: 209 ECVDKWLTRNGSCPVCRECV 228
            CV  WL ++G+CPVCR   
Sbjct: 68  PCVSIWLQKSGTCPVCRCMF 87

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

 Score = 88.5 bits (220), Expect = 3e-23
 Identities = 25/76 (32%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 157 SEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT 216
           S     +LP    +            C +C+  FE     R LP C H FH++CVDKWL 
Sbjct: 2   SSGSSGQLPSYRFNPNNHQSEQTL--CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLK 58

Query: 217 RNGSCPVCRECVCKDT 232
            N +CP+CR      +
Sbjct: 59  ANRTCPICRADSGPSS 74

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

 Score = 86.5 bits (215), Expect = 1e-22
 Identities = 26/52 (50%), Positives = 38/52 (73%)

Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           +D+ + C++CL + E+G+ AR LP CGH FH+ECVD WL  + +CP+CR  V
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 86.0 bits (213), Expect = 3e-22
 Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
           S ++ +L+    C++CLE F+  D     P C H FH +C+ KWL     CP+C   V +
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQ 64

Query: 231 DTDT 234
               
Sbjct: 65  LAQL 68

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

 Score = 85.5 bits (212), Expect = 3e-22
 Identities = 28/54 (51%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 172 EELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           EE  + D E  C+ICL   EEG+  R+LP C H FH  CVD+WL  N  CP+CR
Sbjct: 6   EEGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

 Score = 84.4 bits (209), Expect = 1e-21
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 1/56 (1%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231
            + + + C +C E +  G+S R+LP C H FH  C+  WL ++ SCPVCR+ +   
Sbjct: 11  HVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65

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

 Score = 75.4 bits (186), Expect = 2e-18
 Identities = 15/48 (31%), Positives = 19/48 (39%)

Query: 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
               GC ICLE          +  CGH  H  C ++ L     CP+C 
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 73.6 bits (181), Expect = 1e-17
 Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 5/64 (7%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
           S  + QL +E  C IC++   +      LP C H F  +C+DKW  R+ +CP+CR  +  
Sbjct: 6   SGRVKQLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTG 60

Query: 231 DTDT 234
             ++
Sbjct: 61  ANES 64

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

 Score = 66.3 bits (162), Expect = 6e-15
 Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 3/43 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C ICLE     + +  LP C H F   C+ +W+ +N +CP+C+
Sbjct: 8   CPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 66.5 bits (162), Expect = 9e-15
 Identities = 13/43 (30%), Positives = 22/43 (51%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C  C  + ++ D       C H FH+ C+  W+ +N  CP+C+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 65.7 bits (160), Expect = 3e-14
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 4/65 (6%)

Query: 168 ALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRE 226
            +  + +  +     C IC+EK  +   AR  P C       C+ +WLT     CP CR 
Sbjct: 10  HMDEQSVESIAEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRA 66

Query: 227 CVCKD 231
            +   
Sbjct: 67  PLQLR 71

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 173 ELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
            +  +D+ + C IC E F     A  +P C H + S C+ K+L+    CP C  
Sbjct: 15  VMKTIDDLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCV 65

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

 Score = 62.6 bits (152), Expect = 1e-13
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPS---CGHCFHSECVDKWLTRNGSCPVCRE 226
           S   ++    + C IC++ + E     +L     CGH F S+C+   L    +CP CR+
Sbjct: 6   SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 64

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

 Score = 60.6 bits (147), Expect = 9e-13
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 3/50 (6%)

Query: 180 EIGCSICLEKFEEGDSARKLPS---CGHCFHSECVDKWLTRNGSCPVCRE 226
            + C IC++ + E     +L     CGH F S+C+   L    +CP CR+
Sbjct: 3   MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 52

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

 Score = 60.2 bits (146), Expect = 1e-12
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 3/61 (4%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
           S  L +L   I CSIC     +   A  +  C H F   C+ +    +  CP C   V +
Sbjct: 6   SGNLSELTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

Query: 231 D 231
            
Sbjct: 63  T 63

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

 Score = 60.2 bits (146), Expect = 1e-12
 Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 178 DNEIGCSICLEKFEEGDSARKLPS---CGHCFHSECVDKWLTRNGSCPVCRE 226
              + C IC++ + E     +L     CGH F S+C+   L    +CP CR+
Sbjct: 8   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59

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

 Score = 59.1 bits (143), Expect = 9e-12
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 174 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           + +L+  + C +C   F +   A  +  C H F   C+ ++L  +  CP+C   V
Sbjct: 9   ITELNPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

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

 Score = 59.4 bits (143), Expect = 1e-11
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 178 DNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDT 234
              + C IC++ + E     +L     CGH F S+C+   L    +CP CR+ +      
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 235 W 235
            
Sbjct: 65  P 65

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

 Score = 47.9 bits (113), Expect = 2e-07
 Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 3/74 (4%)

Query: 161 IQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPS---CGHCFHSECVDKWLTR 217
             +          +      + C IC++ + E     +L     CGH F S+C+   L  
Sbjct: 53  TCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN 112

Query: 218 NGSCPVCRECVCKD 231
             +CP CR+ +   
Sbjct: 113 ANTCPTCRKKINHK 126

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

 Score = 58.1 bits (140), Expect = 6e-11
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 4/53 (7%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
            L+NE+ C IC E F E        +C H F S C+++W+ R   CP+CR+ +
Sbjct: 60  VLENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

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

 Score = 56.0 bits (134), Expect = 1e-10
 Identities = 21/99 (21%), Positives = 31/99 (31%), Gaps = 26/99 (26%)

Query: 151 TGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEG--------------DSA 196
           +G  G  E +I+K  E    + E         C IC+EK                     
Sbjct: 3   SGSSGEPEQVIRKYTEELKVAPEED-------CIICMEKLAVASGYSDMTDSKALGPMVV 55

Query: 197 RKLPSCGHCFHSECVDKWLTR-----NGSCPVCRECVCK 230
            +L  C H FH  C+           +  CP C+    +
Sbjct: 56  GRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE 94

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

 Score = 58.7 bits (141), Expect = 2e-10
 Identities = 14/78 (17%), Positives = 29/78 (37%), Gaps = 15/78 (19%)

Query: 164 LPECALHSEELIQLDNEIGCSICLEKFEEGDSARKL----PSCGHCFHSECVDKWL---- 215
           +P+ +   +   + + E+ C+IC     +G     +      C    H+ C+++W     
Sbjct: 292 MPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLM 351

Query: 216 -------TRNGSCPVCRE 226
                     G CP C+ 
Sbjct: 352 DGKTFLEVSFGQCPFCKA 369

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

 Score = 54.9 bits (131), Expect = 4e-10
 Identities = 10/43 (23%), Positives = 14/43 (32%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C          +       C H FH  C+ +WL     CP+  
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 54.4 bits (130), Expect = 5e-10
 Identities = 10/43 (23%), Positives = 14/43 (32%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
           C          +       C H FH  C+ +WL     CP+  
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 57.5 bits (138), Expect = 6e-10
 Identities = 14/65 (21%), Positives = 22/65 (33%), Gaps = 5/65 (7%)

Query: 170 HSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVCRECV 228
           +            C IC E  ++    +  P CGH   + C+  W  +    CP CR  +
Sbjct: 322 YELYCEMGSTFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 377

Query: 229 CKDTD 233
                
Sbjct: 378 KGTEP 382

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

 Score = 53.2 bits (128), Expect = 8e-10
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPVCRE 226
             E   + +E+ C IC +   +   A  +P CG+ +  EC+   L  +   +CP C +
Sbjct: 4   GSEDDPIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58

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

 Score = 52.4 bits (126), Expect = 1e-09
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPVCRE 226
           S E   + +E+ C IC +   +   A  +P CG+ +  EC+   L  +   +CP C +
Sbjct: 6   SGEDDPIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60

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

 Score = 52.5 bits (126), Expect = 1e-09
 Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 4/44 (9%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
           C IC + F+     +    C H F   C  +       C +C +
Sbjct: 18  CFICRQAFQNPVVTK----CRHYFCESCALEHFRATPRCYICDQ 57

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

 Score = 52.1 bits (125), Expect = 1e-09
 Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 4/61 (6%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
           S           C+ICL+          LP C H F   CV         C +CR+ + +
Sbjct: 6   SGNTAPSLTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE 61

Query: 231 D 231
           D
Sbjct: 62  D 62

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

 Score = 52.0 bits (125), Expect = 2e-09
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 3/62 (4%)

Query: 170 HSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG---SCPVCRE 226
            S  L  L   + C IC+E F E     KL  CGH    +C++K L  +     CP C +
Sbjct: 5   SSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

Query: 227 CV 228
             
Sbjct: 65  IT 66

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

 Score = 51.5 bits (123), Expect = 3e-09
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS--CPVCRE 226
           C+IC     +G   +   +CG   H  CV K+   N    CP C +
Sbjct: 18  CNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

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

 Score = 52.6 bits (126), Expect = 3e-09
 Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 5/55 (9%)

Query: 174 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           L +L+  + CS C     E      L  C H F S CV   +     CPVC    
Sbjct: 16  LDRLEKLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

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

 Score = 49.7 bits (118), Expect = 1e-08
 Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDTDTW 235
           ++ + C +C+E  E  D      +CG+     C  +  T  NG CP CR+   +D   +
Sbjct: 9   EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVY 67

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

 Score = 50.7 bits (121), Expect = 3e-08
 Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVCRECVCK 230
           L +E+ C ICL+  +          C H F ++C+   L + N  CP CR+ +  
Sbjct: 51  LHSELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS 102

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

 Score = 48.8 bits (116), Expect = 6e-08
 Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 5/59 (8%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG-SCPVCRECV 228
            ++ I   +E  C IC+E   E      LP C H     C    + +    CP CR  V
Sbjct: 6   PKDAIPSLSECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRV 60

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

 Score = 46.5 bits (110), Expect = 7e-07
 Identities = 14/57 (24%), Positives = 20/57 (35%), Gaps = 11/57 (19%)

Query: 174 LIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG-SCPVCRE 226
           L +L+    C  C E   +       P    C H    +C+ +       SCP CR 
Sbjct: 72  LKKLEQSFMCVCCQELVYQ-------PVTTECFHNVCKDCLQRSFKAQVFSCPACRH 121

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

 Score = 45.7 bits (108), Expect = 9e-07
 Identities = 13/70 (18%), Positives = 22/70 (31%), Gaps = 5/70 (7%)

Query: 158 EDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR 217
             +  +    +     L +++    C  C E             C H    +C+D+    
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRA 85

Query: 218 NG-SCPVCRE 226
              SCP CR 
Sbjct: 86  QVFSCPACRY 95

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

 Score = 43.6 bits (103), Expect = 1e-06
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 11/60 (18%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG-SCPVCRECVCKD 231
            ++++  C  C             P    CGH F   C+   L+ +   C  C+E + KD
Sbjct: 11  TVEDKYKCEKCHLVLCS-------PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD 63

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

 Score = 46.3 bits (109), Expect = 2e-06
 Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 5/51 (9%)

Query: 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS--CPVCRE 226
           D    C+IC     +G       +CG   H  CV K+   N    CP C +
Sbjct: 178 DAVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCND 225

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

 Score = 43.8 bits (103), Expect = 4e-06
 Identities = 17/55 (30%), Positives = 20/55 (36%), Gaps = 11/55 (20%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNGS-CPVCRE 226
                I C IC     +       P   SC H F   C+ + L   GS CP CR 
Sbjct: 19  HFVKSISCQICEHILAD-------PVETSCKHLFCRICILRCLKVMGSYCPSCRY 66

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

 Score = 41.6 bits (98), Expect = 8e-06
 Identities = 7/44 (15%), Positives = 16/44 (36%), Gaps = 3/44 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226
           C+I  +           P     F    +++++   G+ P+  E
Sbjct: 6   CAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNE 46

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

 Score = 43.9 bits (103), Expect = 8e-06
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 5/57 (8%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCKD 231
            L+++  C ICL    E         CGH F   C+ K +   G  CPV  E + ++
Sbjct: 14  PLESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN 66

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

 Score = 42.5 bits (100), Expect = 1e-05
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 11/55 (20%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNGS-CPVCRE 226
            L+++  C ICL    E            CGH F   C+ K +   G  CPV  E
Sbjct: 14  PLESKYECPICLMALRE-------AVQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

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

 Score = 41.2 bits (97), Expect = 1e-05
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 13/64 (20%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG---SCPVC 224
            + + +L  E+ C ICL+  ++       P    CGH F  +C+ +    +     CP+C
Sbjct: 11  GQFVNKLQEEVICPICLDILQK-------PVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

Query: 225 RECV 228
           +  V
Sbjct: 64  KTSV 67

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

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 13/64 (20%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG---SCPVC 224
              +  +   + C ICLE  +E       P    C H F   C+ K L +      CP+C
Sbjct: 12  QNVINAMQKILECPICLELIKE-------PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLC 64

Query: 225 RECV 228
           +  +
Sbjct: 65  KNDI 68

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

 Score = 41.6 bits (97), Expect = 3e-05
 Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 5/59 (8%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCKDTD 233
           +L+ +  CS C           +   CGH + S C+   L+     C  C      +  
Sbjct: 27  KLEAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYEEG 81

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

 Score = 39.3 bits (92), Expect = 5e-05
 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 7/46 (15%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           C  C  + +     + LP C H   S C++        CP+C+   
Sbjct: 9   CQQCQAEAKC---PKLLP-CLHTLCSGCLEA---SGMQCPICQAPW 47

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

 Score = 40.1 bits (94), Expect = 5e-05
 Identities = 20/65 (30%), Positives = 25/65 (38%), Gaps = 16/65 (24%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG------SC 221
           S  L  +  E+ C ICLE  +E       P    C H F   C+      N       +C
Sbjct: 10  SSVLEMIKEEVTCPICLELLKE-------PVSADCNHSFCRACITLNYESNRNTDGKGNC 62

Query: 222 PVCRE 226
           PVCR 
Sbjct: 63  PVCRV 67

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

 Score = 42.2 bits (98), Expect = 5e-05
 Identities = 19/121 (15%), Positives = 40/121 (33%), Gaps = 12/121 (9%)

Query: 120 EWVSPAVLKAYQWQVSTLETAYREVSDVYD-VTGVKGLSEDMIQKLPECALHSEE----L 174
           E  +P + + Y    +         +D    +  +  +  D    +P+    ++E    +
Sbjct: 116 ELTAPKLSELYLNMPTPEPATMVNNTDTLKILKVLPYIWNDPTCVIPDLQNPADEDDLQI 175

Query: 175 IQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS--CPV--CRECVCK 230
                E+ C I  + +E          C H F  + +  +L    +  CP   C + V  
Sbjct: 176 EGGKIELTCPITCKPYEA---PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM 232

Query: 231 D 231
            
Sbjct: 233 R 233

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

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 18/68 (26%), Positives = 21/68 (30%), Gaps = 17/68 (25%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG-------S 220
           S     +  E+ C ICLE   E       P    CGH     C+               S
Sbjct: 3   SGSSGNVQEEVTCPICLELLTE-------PLSLDCGHSLCRACITVSNKEAVTSMGGKSS 55

Query: 221 CPVCRECV 228
           CPVC    
Sbjct: 56  CPVCGISY 63

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

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 20/67 (29%), Positives = 27/67 (40%), Gaps = 16/67 (23%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLP---SCGHCFHSECVDKWLTRNG------SC 221
           S  L+ +  E+ C ICLE   +       P    CGH F   C+     ++       SC
Sbjct: 10  SGILVNVKEEVTCPICLELLTQ-------PLSLDCGHSFCQACLTANHKKSMLDKGESSC 62

Query: 222 PVCRECV 228
           PVCR   
Sbjct: 63  PVCRISY 69

>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* Length = 63

 Score = 36.4 bits (84), Expect = 5e-04
 Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCR 225
           CS+C +     D        GH      C  +      SCP+C+
Sbjct: 10  CSLCEK--RPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICK 51

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

 Score = 36.1 bits (83), Expect = 7e-04
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 179 NEIGCSICLEKFEEGDSARKLPS-CGHCFHSECVDKWLTRN-GSCPVCRECVCK 230
           ++ GC  C        S + + + CGH     CVD    R  G+CP C   + K
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK 55

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.73
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.69
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.63
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.6
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.6
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.59
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.57
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.51
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.51
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.5
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.49
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.49
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.48
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.45
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.42
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.41
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.4
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.38
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.38
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.37
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.36
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.34
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.33
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.33
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.33
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.31
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.31
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.3
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.3
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.28
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.28
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.27
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.25
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.23
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.23
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.22
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.22
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.2
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.2
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.19
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.19
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.18
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.12
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.11
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.11
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.08
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.08
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.03
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.03
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.97
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.97
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.93
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.92
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.85
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.84
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.82
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.81
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.78
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.74
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.71
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.6
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.57
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.55
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.31
3nw0_A	238	Non-structural maintenance of chromosomes element	98.05
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.06
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.32
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.3
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.29
1we9_A	64	PHD finger family protein; structural genomics, PH	93.88
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.55
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	92.38
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	91.9
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	91.74
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	90.84
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	90.14
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.83
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	89.55
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	89.54
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.52
2yt5_A	66	Metal-response element-binding transcription facto	88.72
1z60_A	59	TFIIH basal transcription factor complex P44 subun	88.57
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	88.37
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	87.86
1weu_A	91	Inhibitor of growth family, member 4; structural g	87.64
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	87.54
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	87.48
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	86.92
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	86.18
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	84.5
1wem_A	76	Death associated transcription factor 1; structura	82.81
1wee_A	72	PHD finger family protein; structural genomics, PH	82.31
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	82.14
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	80.92
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	80.52
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	80.06

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

Probab=99.73  E-value=2.4e-18  Score=126.14  Aligned_cols=80  Identities=35%  Similarity=0.768  Sum_probs=68.6

Q ss_pred             ccCCCCCCHHHHhcCCcccccchhhhhcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          150 VTGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       150 ~~~~~g~s~~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ....++++++.++.||...+..... ...++..|+||+++|..++.++.+| |+|.||..||.+|+..+.+||+||.++.
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~-~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCS-SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CcCCCCCCHHHHHhCCCeeeccccc-ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            3567899999999999887765431 2345678999999999999899998 9999999999999999999999999987


Q ss_pred             CC
Q 026652          230 KD  231 (235)
Q Consensus       230 ~~  231 (235)
                      ..
T Consensus        89 ~~   90 (91)
T 2l0b_A           89 PP   90 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

Probab=99.69  E-value=3.6e-18  Score=120.47  Aligned_cols=71  Identities=34%  Similarity=0.785  Sum_probs=59.1

Q ss_pred             HHHhcCCcccccchhhhhcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          159 DMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       159 ~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      +.++++|...+...+  ...++..|+||++++..++.++.+| |+|.||..||.+|++.+.+||+||+++....
T Consensus         4 ~~i~~lp~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNN--HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPSS   74 (75)
T ss_dssp             CCCSSCCCEEBCSSS--CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCCC
T ss_pred             hhHhhCCcEEecCcc--ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCCC
Confidence            345677777665432  2345678999999999999889998 9999999999999999999999999998764

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

Probab=99.63  E-value=1.5e-16  Score=105.30  Aligned_cols=52  Identities=50%  Similarity=1.210  Sum_probs=47.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      +++..|+||++++..++.+..+|.|+|.||..||.+|++++.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4567899999999998888888789999999999999999999999999874

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

Probab=99.60  E-value=4.3e-16  Score=109.25  Aligned_cols=55  Identities=36%  Similarity=0.792  Sum_probs=49.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ...+..|+||++++..++.+..+| |+|.||..||.+|++.+.+||+||+++....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            345678999999999999888898 9999999999999999999999999987543

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

Probab=99.60  E-value=7.6e-16  Score=106.56  Aligned_cols=55  Identities=47%  Similarity=1.021  Sum_probs=48.9

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ...+..|+||++.+..+..++.+| |+|.||..||.+|+..+.+||+||.++....
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            345678999999999888888898 9999999999999999999999999987653

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

Probab=99.59  E-value=6.2e-16  Score=109.55  Aligned_cols=55  Identities=38%  Similarity=1.030  Sum_probs=49.4

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.|..++.++.+| |+|.||..||.+|+..+.+||+||+++...+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            345679999999999998888898 9999999999999999999999999987653

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

Probab=99.57  E-value=1.3e-15  Score=109.29  Aligned_cols=52  Identities=27%  Similarity=0.691  Sum_probs=42.6

Q ss_pred             cCcccccccccccC-----------CCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          179 NEIGCSICLEKFEE-----------GDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~-----------~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ++..|+||+++|.+           ++.++.+|+|+|.||.+||++||.++++||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            34567777777754           45566777799999999999999999999999999764

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

Probab=99.51  E-value=4.1e-15  Score=103.12  Aligned_cols=55  Identities=27%  Similarity=0.710  Sum_probs=46.3

Q ss_pred             cccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.+.++    .....+| |+|.||..||.+|+.++.+||+||+++..++
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            34567899999999774    4445666 9999999999999999999999999988653

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

Probab=99.51  E-value=1e-14  Score=96.23  Aligned_cols=50  Identities=36%  Similarity=0.839  Sum_probs=43.2

Q ss_pred             cCcccccccccccCCC-ceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ++..|+||++++.+++ .+..+| |+|.||..||.+|+..+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4678999999996643 456676 9999999999999999999999999875

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

Probab=99.50  E-value=1.3e-14  Score=109.86  Aligned_cols=53  Identities=30%  Similarity=0.620  Sum_probs=42.6

Q ss_pred             cCcccccccccccCCC---------------ceeecCCCCCcccHHHHHHHH-----hcCCCCccccccccCCC
Q 026652          179 NEIGCSICLEKFEEGD---------------SARKLPSCGHCFHSECVDKWL-----TRNGSCPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~---------------~~~~Lp~C~H~Fh~~CI~~WL-----~~~~sCPlCR~~v~~~~  232 (235)
                      .+..|+||+++|..+.               .++.+| |+|.||..||.+|+     ..+.+||+||..+....
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCC
Confidence            3568999999997754               233565 99999999999999     45678999999886543

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

Probab=99.49  E-value=5.3e-15  Score=102.55  Aligned_cols=54  Identities=35%  Similarity=0.891  Sum_probs=47.1

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDTW  235 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~~~  235 (235)
                      ..++..|+||++.+.+    ..+| |+|.||..||.+|+.++.+||+||+++...+..|
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   65 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS   65 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCCC
T ss_pred             CCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCCccc
Confidence            3456789999999887    5566 9999999999999999999999999999877655

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

Probab=99.49  E-value=7.8e-15  Score=100.96  Aligned_cols=53  Identities=28%  Similarity=0.735  Sum_probs=44.7

Q ss_pred             cccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          177 LDNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ..++..|+||++.+.++    ..+..+| |+|.||..||.+|+..+.+||+||+++..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34567899999999875    2335666 99999999999999999999999999864

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

Probab=99.48  E-value=1.2e-14  Score=98.55  Aligned_cols=53  Identities=28%  Similarity=0.731  Sum_probs=44.8

Q ss_pred             cCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          179 NEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ++..|+||++.+.++    ..+..+| |+|.||..|+.+|+.++.+||+||+++..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            456899999999864    3445666 9999999999999999999999999987653

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

Probab=99.45  E-value=4.3e-14  Score=106.50  Aligned_cols=50  Identities=24%  Similarity=0.523  Sum_probs=42.4

Q ss_pred             cCcccccccccccCCC---------------ceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGD---------------SARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~---------------~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ++..|+||+++|..+.               .++.+| |+|.||..||.+||..+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4678999999998652               245566 9999999999999999999999999854

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

Probab=99.42  E-value=6.5e-14  Score=96.37  Aligned_cols=49  Identities=35%  Similarity=0.804  Sum_probs=42.3

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      .+..|+||++.+.++.  ..+| |+|.||..|+.+|+.++.+||+||+++..
T Consensus         4 ~~~~C~IC~~~~~~~~--~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYS--MALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCE--EETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCc--EecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            4568999999987643  5566 99999999999999999999999998864

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

Probab=99.41  E-value=9.3e-14  Score=96.94  Aligned_cols=53  Identities=26%  Similarity=0.550  Sum_probs=44.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.+.++..+  +| |+|.||..||.+|+..+.+||+||+++..++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~--~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATTI--TE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEEC--SS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             cCCCCCCCCCChHHHCcCEE--CC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            34567999999999874332  35 9999999999999999999999999987654

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

Probab=99.40  E-value=1.5e-13  Score=98.89  Aligned_cols=54  Identities=31%  Similarity=0.755  Sum_probs=45.5

Q ss_pred             cccCcccccccccccCCCc-eeecCCCCCcccHHHHHHHHhcC---CCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDS-ARKLPSCGHCFHSECVDKWLTRN---GSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~-~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.|.+.+. ...+| |+|.||..||.+|+..+   .+||+||+++...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            4556889999999988654 56676 99999999999999876   7899999988654

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

Probab=99.38  E-value=2.1e-13  Score=97.66  Aligned_cols=53  Identities=23%  Similarity=0.626  Sum_probs=44.4

Q ss_pred             ccCcccccccccccCCCceeecCCCC-----CcccHHHHHHHHhcC--CCCccccccccCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCG-----HCFHSECVDKWLTRN--GSCPVCRECVCKDT  232 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~-----H~Fh~~CI~~WL~~~--~sCPlCR~~v~~~~  232 (235)
                      .++..|.||++++..++.+ .+| |+     |.||.+||++||..+  .+||+||.++..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            4567899999999877766 578 86     999999999999866  48999999987554

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

Probab=99.38  E-value=1e-13  Score=96.49  Aligned_cols=49  Identities=29%  Similarity=0.545  Sum_probs=42.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      .++..|+||++.+.++   ..+| |+|.||..||.+|+..+.+||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            4567899999998775   4456 99999999999999999999999999864

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

Probab=99.37  E-value=3.2e-13  Score=92.49  Aligned_cols=52  Identities=25%  Similarity=0.649  Sum_probs=43.7

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.+.++..   +| |||.||..||.+|+. .+.+||+||+++..++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQ---TE-CGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCCEECTTTCCEESSCCC---CS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CCcCCCCCCCChHhcCeeE---CC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            3456789999999988765   45 999999999999995 5678999999987653

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

Probab=99.36  E-value=2.7e-13  Score=95.17  Aligned_cols=53  Identities=25%  Similarity=0.697  Sum_probs=43.7

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.|.++..   +|.|+|.||..||.+|+..+  .+||+||+++...+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVV---IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEE---CSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCCcCCChHHhCCeE---cCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            3456899999999998655   44599999999999999865  68999999876544

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

Probab=99.34  E-value=4.6e-13  Score=93.22  Aligned_cols=52  Identities=31%  Similarity=0.722  Sum_probs=42.9

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccccccCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT---RNGSCPVCRECVCKDT  232 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~---~~~sCPlCR~~v~~~~  232 (235)
                      ..++..|+||++.+.++.   .+| |+|.||..||.+|+.   .+..||+||+++..++
T Consensus        17 ~~~~~~C~IC~~~~~~~~---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPV---TID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEE---ECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCCeE---EcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            345689999999998744   345 999999999999997   4568999999987654

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

Probab=99.33  E-value=3e-13  Score=106.11  Aligned_cols=50  Identities=40%  Similarity=0.947  Sum_probs=43.0

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..|+||++.|.++.   .+| |||.||..||.+|+..+.+||+||+++...
T Consensus        51 ~~~~~C~iC~~~~~~~~---~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAV---TLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHSBCTTTCSBCSSEE---EET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cccCCCcccCcccCCce---ECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            34568999999998754   456 999999999999999999999999998643

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

Probab=99.33  E-value=1.2e-13  Score=105.76  Aligned_cols=51  Identities=24%  Similarity=0.524  Sum_probs=1.0

Q ss_pred             cCcccccccccccCCCc--------------eeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGDS--------------ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~--------------~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ++..|+||+++|..+..              ...+++|+|.||..||++||..+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            45789999999976321              2222349999999999999999999999999854

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

Probab=99.33  E-value=4.2e-13  Score=95.62  Aligned_cols=48  Identities=21%  Similarity=0.511  Sum_probs=42.1

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      ..+..|+||++.+.++.   .+| |+|.||..||.+|+..+.+||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNPV---VTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSEE---ECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCee---Ecc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            45678999999998754   456 9999999999999999999999999986

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

Probab=99.31  E-value=1.2e-12  Score=89.29  Aligned_cols=53  Identities=30%  Similarity=0.688  Sum_probs=42.3

Q ss_pred             cCcccccccc-cccCCCcee-ecCCCCCcccHHHHHHHHhc-CCCCccccccccCCC
Q 026652          179 NEIGCSICLE-KFEEGDSAR-KLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle-~f~~~~~~~-~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~~  232 (235)
                      ++..|+||++ .+.++.... .+| |||.||..||.+|+.+ +.+||+||+++..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3568999999 787776533 355 9999999999999764 467999999987653

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

Probab=99.31  E-value=3.7e-13  Score=100.01  Aligned_cols=52  Identities=27%  Similarity=0.675  Sum_probs=43.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.|.++..  .+| |||.||..||.+|+..+ .+||+||.++..+
T Consensus        19 l~~~~~C~IC~~~~~~p~~--~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARL--CPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEE--CTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCccCCccccCccc--cCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            4567899999999987443  145 99999999999999987 6999999998654

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

Probab=99.30  E-value=6.5e-13  Score=98.16  Aligned_cols=51  Identities=31%  Similarity=0.727  Sum_probs=42.9

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      ..++..|+||++.+.++..+  +| |||.||..||.+|+..+.+||+||.++..
T Consensus        19 ~~~~~~C~IC~~~~~~p~~~--~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           19 IDDLLRCGICFEYFNIAMII--PQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHHHTBCTTTCSBCSSEEEC--TT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCCCcccCChhhCCcCEE--CC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            34567899999999874322  35 99999999999999999999999998875

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

Probab=99.30  E-value=7.3e-13  Score=101.97  Aligned_cols=53  Identities=28%  Similarity=0.752  Sum_probs=45.2

Q ss_pred             ccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..|+||++.|.++    .....+| |||.||..||.+|++.+.+||+||+++...
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            3567899999999875    3445666 999999999999999999999999998754

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

Probab=99.30  E-value=9.6e-13  Score=92.91  Aligned_cols=51  Identities=22%  Similarity=0.549  Sum_probs=43.5

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.|.++..   +| |||.||..||.+|+.. +.+||+||+++..+
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~---~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVI---VS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEE---ET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CcccCCCCCccccccCCEE---cC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            3457899999999988654   45 9999999999999987 78899999998754

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

Probab=99.28  E-value=1.6e-12  Score=92.54  Aligned_cols=51  Identities=33%  Similarity=0.718  Sum_probs=43.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc------CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR------NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~------~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++.   .+| |+|.||..||.+|+..      ...||+||.++..+
T Consensus        16 ~~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEPV---SAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CCTTTSCTTTCSCCSSCE---ECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             CccCCCCcCCChhhCcce---eCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            345679999999998865   456 9999999999999987      67899999998754

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

Probab=99.28  E-value=6.7e-13  Score=93.71  Aligned_cols=51  Identities=35%  Similarity=0.729  Sum_probs=43.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-------CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-------NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-------~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++..   +| |||.||..||.+|+..       +..||+||.++..+
T Consensus         9 ~~~~~~C~IC~~~~~~p~~---l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLS---LD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCEETTTTEECSSCCC---CS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cccCCCCcCCCcccCCeeE---CC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            3457899999999988654   45 9999999999999986       56899999998653

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

Probab=99.27  E-value=2.3e-12  Score=91.77  Aligned_cols=51  Identities=37%  Similarity=0.808  Sum_probs=43.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc------CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR------NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~------~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++..   +| |+|.||..|+.+|+..      +..||+||.++..+
T Consensus        16 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLS---LD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBC---CS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             ccCCCCCCCCCcccCCcee---CC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            3456799999999988644   45 9999999999999987      78899999998754

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

Probab=99.25  E-value=4.1e-12  Score=95.33  Aligned_cols=52  Identities=27%  Similarity=0.674  Sum_probs=43.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++..  .+| |||.||..||.+|+..+.+||+||.++...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~--~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATT--IIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEE--ETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCcCE--eCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            4567899999999987432  235 999999999999999999999999998754

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

Probab=99.23  E-value=6.7e-12  Score=89.29  Aligned_cols=57  Identities=28%  Similarity=0.591  Sum_probs=43.5

Q ss_pred             cccCcccccccccccCCC-ceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCCCCC
Q 026652          177 LDNEIGCSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDTDT  234 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~~  234 (235)
                      ..++..|+||++.+...+ ....+| |||.||..|+.+++. ....||.||+++...+..
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             cccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            356789999999886432 232344 999999999999875 457899999999876543

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

Probab=99.23  E-value=3.6e-12  Score=92.73  Aligned_cols=50  Identities=26%  Similarity=0.719  Sum_probs=41.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~  229 (235)
                      ..++..|+||++.|.++..+   |.|||.||..||.+|+..+  ..||+||.++.
T Consensus        10 ~~~~~~C~IC~~~~~~p~~~---~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAVVI---PCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSSCEEC---TTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcCceEC---CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            45678999999999986544   4499999999999999754  58999999974

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

Probab=99.22  E-value=8.5e-12  Score=87.84  Aligned_cols=52  Identities=31%  Similarity=0.659  Sum_probs=43.1

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCccccccccCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVCKDT  232 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~~~~  232 (235)
                      +....|+||++.+..++.   .+.|+|.||..||.+||+.+  .+||+||++...+.
T Consensus        13 ~~i~~C~IC~~~i~~g~~---C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEE---CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCCcCcchhhHcccCCc---cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            345789999999987543   33699999999999999977  88999999887543

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

Probab=99.22  E-value=6e-12  Score=85.22  Aligned_cols=44  Identities=32%  Similarity=0.788  Sum_probs=37.1

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh---cCCCCccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT---RNGSCPVC  224 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~---~~~sCPlC  224 (235)
                      ..++..|+||++.+.++..   +| |+|.||..||.+|++   .+.+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVT---ID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEE---CT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEE---eC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4567899999999988544   45 999999999999998   45689998

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

Probab=99.22  E-value=4.1e-12  Score=97.66  Aligned_cols=50  Identities=24%  Similarity=0.543  Sum_probs=42.2

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccccccC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG-SCPVCRECVCK  230 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~-sCPlCR~~v~~  230 (235)
                      ..++..|+||++.|.++..   +| |||.||..||.+|+..+. +||+||.++..
T Consensus        49 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           49 VEETFQCICCQELVFRPIT---TV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHHTBCTTTSSBCSSEEE---CT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CccCCCCCcCChHHcCcEE---ee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            3456789999999997544   46 999999999999998554 89999999976

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

Probab=99.20  E-value=5.3e-12  Score=97.08  Aligned_cols=53  Identities=28%  Similarity=0.752  Sum_probs=44.6

Q ss_pred             ccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .+...|+||++.+..+    .....++ |+|.||..||++|+..+++||+||.++..+
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            4567899999999864    2334555 999999999999999999999999998765

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

Probab=99.20  E-value=8.7e-12  Score=82.72  Aligned_cols=44  Identities=43%  Similarity=1.040  Sum_probs=36.6

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh---cCCCCccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT---RNGSCPVC  224 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~---~~~sCPlC  224 (235)
                      ..++..|+||++.+.++..   +| |+|.||..||.+|+.   ++.+||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVI---IE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCC---CS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCccEe---CC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456789999999988644   45 999999999999954   56789998

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

Probab=99.19  E-value=9e-12  Score=93.59  Aligned_cols=50  Identities=34%  Similarity=0.731  Sum_probs=42.1

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC---CCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG---SCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~---sCPlCR~~v~~~  231 (235)
                      .+...|+||++.+.++..   +| |||.||..||.+|+..+.   +||+||.++...
T Consensus        19 ~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           19 QKILECPICLELIKEPVS---TK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HHHTSCSSSCCCCSSCCB---CT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             cCCCCCcccChhhcCeEE---CC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            345789999999988655   45 999999999999998654   899999998754

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

Probab=99.19  E-value=1.2e-11  Score=99.67  Aligned_cols=50  Identities=30%  Similarity=0.693  Sum_probs=41.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~  230 (235)
                      .++..|+||++.|.++.  ..+| |||.||..||.+|+.. +..||+||.++..
T Consensus        52 ~~~~~C~IC~~~~~~p~--~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKNTM--TTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSSEE--EETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHhhCcC--EeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            34578999999998742  2235 9999999999999997 7889999999854

>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=99.18  E-value=5.8e-12  Score=95.62  Aligned_cols=51  Identities=25%  Similarity=0.555  Sum_probs=43.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++..   +| |||.||..||.+|+.. +.+||+||.++...
T Consensus        20 ~~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           20 FVKSISCQICEHILADPVE---TS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HHHHTBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             ccCCCCCCCCCcHhcCcEE---cC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            3456789999999987554   45 9999999999999987 67899999998754

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

Probab=99.12  E-value=1.7e-11  Score=97.58  Aligned_cols=51  Identities=24%  Similarity=0.544  Sum_probs=43.2

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG-SCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~-sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.|.++..   +| |+|.||..||.+|+.... +||+||.++...
T Consensus        75 l~~~~~C~IC~~~~~~pv~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           75 LEQSFMCVCCQELVYQPVT---TE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHHTBCTTTSSBCSSEEE---CT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CccCCEeecCChhhcCCEE---cC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            3456789999999988655   56 999999999999998764 899999998865

>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=99.11  E-value=1.4e-11  Score=93.91  Aligned_cols=51  Identities=35%  Similarity=0.788  Sum_probs=42.9

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG-SCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~-sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++.   .+| |||.||..||.+|+..+. +||+||.++..+
T Consensus        15 ~~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALREAV---QTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSSEE---ECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcCeE---ECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            345679999999998863   356 999999999999998765 899999998754

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

Probab=99.11  E-value=2.1e-11  Score=90.67  Aligned_cols=51  Identities=12%  Similarity=0.167  Sum_probs=44.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..++..||||++.|.+|+.+   | |||.|+..||.+|+..+.+||+||.++..+
T Consensus        26 ~p~~~~CpI~~~~m~dPV~~---~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVRL---P-SGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEEE---T-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             CcHhhCCcCccCcccCCeEC---C-CCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            34578999999999997765   4 999999999999999899999999998754

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

Probab=99.11  E-value=1.5e-11  Score=84.09  Aligned_cols=52  Identities=29%  Similarity=0.469  Sum_probs=41.6

Q ss_pred             ccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..|+||++...+.. +..+| |||. ||.+|+.+|...+..||+||+++...
T Consensus         6 ~~~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~   58 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGC-IVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQMI   58 (64)
T ss_dssp             GGGSCCTTTSSSCSCEE-EEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCEE
T ss_pred             CCcCCCCcCCCCCCCEE-EECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhce
Confidence            34568999999876632 11348 9999 89999999999899999999998643

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

Probab=99.10  E-value=2.6e-11  Score=87.51  Aligned_cols=51  Identities=12%  Similarity=0.172  Sum_probs=44.6

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..++..||||++.|.++..+   | |||.|+..||.+|+..+.+||+||.++..+
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~---~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRL---P-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEEC---T-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CchheECcccCchhcCCeEC---C-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            34578999999999997665   4 999999999999999999999999988654

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

Probab=99.08  E-value=1.2e-11  Score=93.75  Aligned_cols=49  Identities=31%  Similarity=0.695  Sum_probs=41.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~  230 (235)
                      .++..|+||++.+.++..+   | |||.||..||.+|+.. +.+||+||+++..
T Consensus        13 ~~~~~C~iC~~~~~~p~~~---~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVEPVTL---P-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSSCEEC---T-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCceeEc---C-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            3467899999999876544   5 9999999999999976 6789999998863

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

Probab=99.08  E-value=4.2e-11  Score=88.75  Aligned_cols=50  Identities=14%  Similarity=0.098  Sum_probs=44.3

Q ss_pred             ccCcccccccccccCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCG-HCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~-H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..||||++.|.+|+.+   | || |.|+..||.+|+..+.+||+||+++..+
T Consensus        20 p~~~~CpI~~~~m~dPV~~---~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVVL---P-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEEC---T-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cHhcCCcCccccccCCeEC---C-CCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            4578999999999997765   4 99 9999999999999989999999998754

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

Probab=99.07  E-value=1.9e-11  Score=85.78  Aligned_cols=49  Identities=27%  Similarity=0.647  Sum_probs=40.2

Q ss_pred             cccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      ..++..|+||++.+.++   ..+| |||. ||..|+.+|    ..||+||+++.....
T Consensus        21 ~~~~~~C~iC~~~~~~~---~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~~~   70 (74)
T 4ic3_A           21 LQEEKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEAV----DKCPMCYTVITFKQK   70 (74)
T ss_dssp             HHHHTBCTTTSSSBCCE---EEET-TCCBCCCHHHHTTC----SBCTTTCCBCSEEEE
T ss_pred             CccCCCCCCCCCCCCCE---EEcC-CCChhHHHHhhhcC----ccCCCcCcCccCcEE
Confidence            34567899999988773   4456 9999 999999998    889999999876543

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

Probab=99.04  E-value=5.1e-11  Score=79.10  Aligned_cols=49  Identities=24%  Similarity=0.498  Sum_probs=40.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      .++..|+||++.+.++.   .+| |+|.||..|+.+|   ...||+||+++....+
T Consensus         4 ~~~~~C~IC~~~~~~p~---~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPK---LLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCCSSCSSSCSSCBCCS---CST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             ccCCCceEeCCccCCeE---EcC-CCCcccHHHHccC---CCCCCcCCcEeecCCc
Confidence            45678999999999864   456 9999999999884   6789999999876543

>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=99.03  E-value=4.5e-11  Score=81.39  Aligned_cols=51  Identities=22%  Similarity=0.449  Sum_probs=41.0

Q ss_pred             cCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .+..|+||++...+.. +..+| |||. ||..|+.+|.+++..||+||+++...
T Consensus         6 ~~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~   57 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQLV   57 (63)
T ss_dssp             GGSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCEE
T ss_pred             cCCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhce
Confidence            4568999999866532 22347 9998 99999999998888999999998643

>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=99.03  E-value=6.5e-11  Score=93.32  Aligned_cols=49  Identities=24%  Similarity=0.505  Sum_probs=41.5

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC-CCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG-SCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~-sCPlCR~~v~  229 (235)
                      ..++..|+||++.+.++..   ++ |||.||..||.+|+.... +||+||.++.
T Consensus        28 l~~~~~C~IC~~~~~~pv~---~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRPFQ---AQ-CGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CCGGGBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CCcCcCCCCCChhhcCcEE---CC-CCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4567899999999998744   45 999999999999998665 8999999764

>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=98.97  E-value=1.3e-10  Score=88.46  Aligned_cols=50  Identities=30%  Similarity=0.590  Sum_probs=41.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.|.++..+  .| |||.||..||.+|+.  ..||+||.++...
T Consensus        19 l~~~~~C~IC~~~~~~pv~~--~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           19 LEKLLRCSRCTNILREPVCL--GG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HHHTTSCSSSCSCCSSCBCC--CS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             chhCCCCCCCChHhhCccEe--CC-CCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            45678999999999875433  15 999999999999987  8899999998543

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

Probab=98.97  E-value=1.2e-10  Score=103.43  Aligned_cols=54  Identities=24%  Similarity=0.676  Sum_probs=42.2

Q ss_pred             ccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcC-----------CCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRN-----------GSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~-----------~sCPlCR~~v~~~  231 (235)
                      +...+|+||++.+.+.    +.....|+|+|.||..|+.+||+..           ++||+||+++..+
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            4567899999999872    2333345799999999999999743           4699999998754

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

Probab=98.93  E-value=3.5e-10  Score=102.53  Aligned_cols=48  Identities=29%  Similarity=0.701  Sum_probs=41.2

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKD  231 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~  231 (235)
                      ...|+||++.+.++   ..+| |||.||..|+.+|+. .+.+||+||.++...
T Consensus       332 ~~~C~ICle~~~~p---v~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCCe---EEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            36899999998763   4566 999999999999999 788999999998754

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

Probab=98.92  E-value=4e-10  Score=79.07  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=40.0

Q ss_pred             ccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCCCCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKDTDTW  235 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~~~~~  235 (235)
                      .++..|+||++.+.++.   .+| |+|. ||..|+.+    ...||+||+++......|
T Consensus        23 ~~~~~C~IC~~~~~~~~---~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~~~i~   73 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIV---FVP-CGHLVTCKQCAEA----VDKCPMCYTVITFKQKIF   73 (75)
T ss_dssp             HHHHSCSSSCSSCCCBC---CSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCCCBCC
T ss_pred             CCCCCCCcCCCCCCCEE---Eec-CCCHHHHHHHhhC----CCCCccCCceecCcEEEe
Confidence            45678999999987743   456 9999 99999964    478999999998765544

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

Probab=98.86  E-value=5.6e-10  Score=90.05  Aligned_cols=51  Identities=33%  Similarity=0.727  Sum_probs=42.8

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      ..++..|+||++.+.++..   +| |||.||..||.+|+... .+||+||.++..+
T Consensus        15 ~~~~~~C~IC~~~~~~pv~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           15 LESKYECPICLMALREAVQ---TP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCGGGBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCChhhcCcEE---CC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            4456899999999998643   55 99999999999999865 4899999998754

>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=98.85  E-value=6.8e-10  Score=81.38  Aligned_cols=47  Identities=19%  Similarity=0.574  Sum_probs=39.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC------CCCcc--cccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN------GSCPV--CREC  227 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~------~sCPl--CR~~  227 (235)
                      ..+..||||++.|.+|+.+   |.|||.|+..||.+|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dPV~~---~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKN---KVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEE---SSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCCEEc---CCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4567899999999997665   3499999999999999864      48999  9865

>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=98.84  E-value=9e-10  Score=94.61  Aligned_cols=50  Identities=20%  Similarity=0.297  Sum_probs=42.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      .....||||++.|.+|+.+   | |||+||..||.+|+..+ .+||+||.++...
T Consensus       206 ~~~~~c~i~~~~~~dPv~~---~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCIT---P-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEEC---S-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CcccCCcCcCCHhcCCeEC---C-CCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            3567899999999997665   4 99999999999999864 4599999998643

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

Probab=98.82  E-value=1.6e-09  Score=74.79  Aligned_cols=48  Identities=29%  Similarity=0.643  Sum_probs=38.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      .++..|.||++...+   +..+| |+|. ||..|+..    ...||+||+++.....
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~~~   61 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQESFA   61 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCEEC
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhceEE
Confidence            346789999987655   55677 9999 99999984    5789999999876543

>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=98.81  E-value=6.2e-10  Score=79.15  Aligned_cols=46  Identities=33%  Similarity=0.692  Sum_probs=37.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..|+||++.+.+   ...+| |||. ||..|+.+|    ..||+||.++...
T Consensus        16 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           16 KEAMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHHTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCCCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            445689999998766   45567 9999 999999877    4899999988654

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.78  E-value=1.8e-09  Score=78.91  Aligned_cols=51  Identities=22%  Similarity=0.582  Sum_probs=41.5

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--------CCCCcc--cccc--ccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--------NGSCPV--CREC--VCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPl--CR~~--v~~  230 (235)
                      +...|+||++++..++.+...| |+|.||.+|+..++..        ...||.  ||..  +.+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            4568999999998877766566 9999999999999863        236999  9988  543

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

Probab=98.74  E-value=6e-09  Score=70.22  Aligned_cols=50  Identities=26%  Similarity=0.594  Sum_probs=37.8

Q ss_pred             ccCcccccccccccCCCceeecC-CCCC---cccHHHHHHHHhc--CCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLP-SCGH---CFHSECVDKWLTR--NGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp-~C~H---~Fh~~CI~~WL~~--~~sCPlCR~~v~~  230 (235)
                      ++...|.||+++..+  .+ .+| +|.|   .||..|+.+|+..  +.+||+||.++..
T Consensus         4 ~~~~~CrIC~~~~~~--~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELGN--ER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSC--CC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCCC--ce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456789999998432  23 467 3445   9999999999974  5789999998753

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

Probab=98.71  E-value=4.8e-09  Score=85.74  Aligned_cols=50  Identities=22%  Similarity=0.301  Sum_probs=42.5

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      .++..||||++.|.+|+.+   | |||.|+..||.+|+..+ .+||+||.++...
T Consensus       104 p~~f~CPI~~elm~DPV~~---~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREPCIT---P-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEEC---T-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCCeEC---C-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            4568999999999997665   5 99999999999999864 4699999988653

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

Probab=98.60  E-value=6.4e-09  Score=93.23  Aligned_cols=49  Identities=31%  Similarity=0.751  Sum_probs=40.3

Q ss_pred             cccCcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      ..++..|+||++.+.+   ...+| |||. ||..|+.+|    ..||+||.++.....
T Consensus       292 l~~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~~~~  341 (345)
T 3t6p_A          292 LQEERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKGTVR  341 (345)
T ss_dssp             HHTTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCEEEE
T ss_pred             CcCCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccCeEE
Confidence            4567899999999877   34456 9999 999999988    789999999876543

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

Probab=98.57  E-value=1.6e-08  Score=68.27  Aligned_cols=48  Identities=15%  Similarity=0.278  Sum_probs=41.3

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..|+||++.+.++.   .+|.|||+|.+.||.+|+.++.+||++++++..+
T Consensus         4 ~~CpIs~~~m~dPV---~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            4 MLCAISGKVPRRPV---LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             CCCTTTCSCCSSEE---EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             EEecCCCCCCCCCE---EeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            57999999999863   3424999999999999999888999999998654

>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=98.55  E-value=1.9e-08  Score=86.46  Aligned_cols=49  Identities=24%  Similarity=0.584  Sum_probs=40.9

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcc--ccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPV--CRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPl--CR~~v~~  230 (235)
                      .+..||||++.|.+|+..  . .|||.||..||.+|+..+  .+||+  ||+.+..
T Consensus       180 ~el~CPIcl~~f~DPVts--~-~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEAPLIS--R-KCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSSEEEE--S-SSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccCCeee--C-CCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            457899999999997753  2 599999999999999864  46999  9998754

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

Probab=98.31  E-value=3.3e-07  Score=67.31  Aligned_cols=46  Identities=26%  Similarity=0.538  Sum_probs=36.6

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK  230 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~  230 (235)
                      -|++|--.+.  .-.|..| |+|.||++|+..|.+ +.++||.||.++..
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4778855543  3567788 999999999999985 46889999998864

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

Probab=98.05  E-value=3.5e-06  Score=71.71  Aligned_cols=49  Identities=29%  Similarity=0.677  Sum_probs=40.6

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC--CCccccccccCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPVCRECVCKD  231 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPlCR~~v~~~  231 (235)
                      ...|.||.+-...+   ..+|+|+|.||..|+.+|++.+.  .||.|+.+.+.+
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            57899999988864   44567999999999999998654  899999987644

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

Probab=95.32  E-value=0.0082  Score=43.42  Aligned_cols=36  Identities=14%  Similarity=0.421  Sum_probs=25.8

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHH-HH
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK-WL  215 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~-WL  215 (235)
                      ++..|+||.+++..+....-++ |+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHHhc
Confidence            4578999998743333332354 999999999998 53

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

Probab=95.30  E-value=0.014  Score=39.46  Aligned_cols=48  Identities=21%  Similarity=0.398  Sum_probs=34.7

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~~v~  229 (235)
                      .....|.||.+.   + .+.....|...||..|++..|....    .||.|+....
T Consensus        10 ~~~~~C~vC~~~---~-~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~   61 (66)
T 2lri_C           10 APGARCGVCGDG---T-DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVT   61 (66)
T ss_dssp             CTTCCCTTTSCC---T-TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCC
T ss_pred             CCCCCcCCCCCC---C-eEEECCCCCCceecccCCCccCcCCCCCEECccccCCCc
Confidence            345679999643   3 3445557999999999998876543    4999986543

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=94.29  E-value=0.039  Score=38.99  Aligned_cols=36  Identities=22%  Similarity=0.538  Sum_probs=25.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHH
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW  214 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~W  214 (235)
                      ...+..|.|| +.+...+...-- -|+.+||..|+.+-
T Consensus        12 ~~~D~~C~VC-~~~t~~~l~pCR-vC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCCCcccCcc-ccccccceeccc-cccccccHhhcccc
Confidence            3467899999 445544433211 48999999999985

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=93.88  E-value=0.019  Score=38.22  Aligned_cols=52  Identities=21%  Similarity=0.416  Sum_probs=36.7

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-----cCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-----RNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-----~~~sCPlCR~~v~  229 (235)
                      ++...|+||...+.++......-.|..-||..|+.--..     .+-.||.|+..-.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k~~   60 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG   60 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTC
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCcCC
Confidence            456789999988765555555557999999999863221     3456999986543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=93.55  E-value=0.041  Score=36.40  Aligned_cols=47  Identities=23%  Similarity=0.565  Sum_probs=32.9

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCcccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCREC  227 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~~  227 (235)
                      ...+..|.||.+.    ..+.....|...||..|+..-+...    =.||.|+..
T Consensus         8 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            3456789999763    3444555788999999998755432    249999753

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=92.38  E-value=0.018  Score=37.94  Aligned_cols=51  Identities=27%  Similarity=0.625  Sum_probs=35.8

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCccccccccCCCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRECVCKDTD  233 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~~v~~~~~  233 (235)
                      ++..|.||.+.   + .+.....|...||..|+.+=+....    .||.|+.....+++
T Consensus         4 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~~~~   58 (60)
T 2puy_A            4 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKEE   58 (60)
T ss_dssp             CCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHTTT
T ss_pred             CCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhchhc
Confidence            46789999763   3 3445557999999999986554322    39999877665544

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=91.90  E-value=0.036  Score=36.66  Aligned_cols=48  Identities=21%  Similarity=0.438  Sum_probs=32.8

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~~v~  229 (235)
                      .++..|.||.+.   + .+.....|...||..|+.+-|...    =.||.|+....
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            7 HHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            356789999752   2 344455688999999998654432    24999987543

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=91.74  E-value=0.06  Score=36.89  Aligned_cols=52  Identities=23%  Similarity=0.419  Sum_probs=36.2

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR----NGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~----~~sCPlCR~~v~~~  231 (235)
                      +...|+||..... ++.......|...||..|+..-+..    .-.||.|+..+...
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k~   72 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKD   72 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCSC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhhc
Confidence            4467999977643 4445555579999999999754432    23599998877643

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=90.84  E-value=0.088  Score=37.58  Aligned_cols=49  Identities=27%  Similarity=0.533  Sum_probs=34.0

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCcccccccc
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRECVC  229 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~~v~  229 (235)
                      ..++..|.+|.+.   + .+.....|.-.||..|+++=|..-+    .||.|+..-.
T Consensus        22 d~n~~~C~vC~~~---g-~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~~   74 (88)
T 1fp0_A           22 DDSATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   74 (88)
T ss_dssp             SSSSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCcCcCcCCC---C-CEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCCc
Confidence            3456789999764   3 3445557888999999977554322    4999986543

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=90.14  E-value=0.15  Score=50.87  Aligned_cols=50  Identities=10%  Similarity=0.094  Sum_probs=42.7

Q ss_pred             ccCcccccccccccCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCG-HCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~-H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..|||-++-+.+|+.+   | -| |.|-+.+|.+||..+.+||.=|+++...
T Consensus       889 P~~F~cPIs~~lM~DPVil---p-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDPVIL---P-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CGGGBCTTTCSBCSSEEEC---T-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             cHHhCCcchhhHHhCCeEc---C-CCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            3457899999999997765   4 76 6999999999999999999999988754

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.83  E-value=0.041  Score=35.69  Aligned_cols=45  Identities=29%  Similarity=0.679  Sum_probs=31.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRE  226 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~  226 (235)
                      .++..|.||.+.   + .+.....|...||..|+.+=|....    .||.|+.
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            456789999764   3 3444557999999999986554322    3998864

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=89.55  E-value=0.31  Score=30.95  Aligned_cols=44  Identities=18%  Similarity=0.351  Sum_probs=31.1

Q ss_pred             ccccccccccCCCceeecC-CCCCcccHHHHHHH----HhcCCCCcccc
Q 026652          182 GCSICLEKFEEGDSARKLP-SCGHCFHSECVDKW----LTRNGSCPVCR  225 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp-~C~H~Fh~~CI~~W----L~~~~sCPlCR  225 (235)
                      .|.+|.....++....... .|..-||..|+.--    ...+-.||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            5889988886666555555 58889999997421    12556799986

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=89.54  E-value=0.07  Score=35.77  Aligned_cols=48  Identities=25%  Similarity=0.544  Sum_probs=33.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~~v~  229 (235)
                      .++..|.||.+.   + .+.....|...||..|+.+-|...    =.||.|+..-.
T Consensus         6 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~~   57 (66)
T 1xwh_A            6 KNEDECAVCRDG---G-ELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATV   57 (66)
T ss_dssp             SCCCSBSSSSCC---S-SCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTCC
T ss_pred             CCCCCCccCCCC---C-CEEEcCCCChhhcccccCCCcCcCCCCCeECccccCccc
Confidence            456789999763   3 344555788999999998654432    23999976443

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=89.52  E-value=0.18  Score=31.71  Aligned_cols=44  Identities=30%  Similarity=0.626  Sum_probs=29.8

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRE  226 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~  226 (235)
                      .|.||.+.-.. ..+.....|...||..|+++=+...    =.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            58899765333 3444555799999999997644432    23999975

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=88.72  E-value=0.067  Score=35.65  Aligned_cols=52  Identities=21%  Similarity=0.477  Sum_probs=35.9

Q ss_pred             ccCcccccccccc-cCCCceeecCCCCCcccHHHHHHHHh-------cCCCCcccccccc
Q 026652          178 DNEIGCSICLEKF-EEGDSARKLPSCGHCFHSECVDKWLT-------RNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f-~~~~~~~~Lp~C~H~Fh~~CI~~WL~-------~~~sCPlCR~~v~  229 (235)
                      .++..|.||.... ..+..+.....|...||..|+..=+.       ..=.||.|+....
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~   63 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT   63 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTS
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCccc
Confidence            4567899998764 23455566668999999999986432       1234999976543

>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=88.57  E-value=0.32  Score=32.03  Aligned_cols=43  Identities=21%  Similarity=0.384  Sum_probs=31.3

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC  224 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC  224 (235)
                      ..|--|...|.+.. ....|+|++.||.+|=.---+.-.+||-|
T Consensus        16 ~~C~~C~~~~~~~~-~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           16 RFCYGCQGELKDQH-VYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTSE-EECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CcccccCcccCCCc-cEECCccCcCcccchhHHHHhhccCCcCC
Confidence            46999999986432 35688999999999954322233679988

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=88.37  E-value=0.34  Score=32.37  Aligned_cols=35  Identities=29%  Similarity=0.599  Sum_probs=27.2

Q ss_pred             ccCcccccccccccCCCceeecC-CCCCcccHHHHH
Q 026652          178 DNEIGCSICLEKFEEGDSARKLP-SCGHCFHSECVD  212 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp-~C~H~Fh~~CI~  212 (235)
                      .....|++|...+.+++..+... .|...||..|+.
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            44578999999988777777676 799999999983

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=87.86  E-value=0.59  Score=32.65  Aligned_cols=40  Identities=23%  Similarity=0.497  Sum_probs=31.0

Q ss_pred             ccCcccccccccccCCCceeecC-CCCCcccHHHHHHHHhcC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLP-SCGHCFHSECVDKWLTRN  218 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp-~C~H~Fh~~CI~~WL~~~  218 (235)
                      .....|.+|.+.+++...+. .| .=.|.||..|-...++++
T Consensus        13 ~a~l~CtlC~erLEdtHFVQ-CPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEE-CSSCSSCEECHHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceee-CCCccCCeeeccccHHHHHhc
Confidence            34678999999999977763 22 235999999999988754

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=87.64  E-value=0.36  Score=34.56  Aligned_cols=47  Identities=28%  Similarity=0.556  Sum_probs=29.7

Q ss_pred             cCcccccccccccCCCceeecCC--CC-CcccHHHHHHHHhc----CCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPS--CG-HCFHSECVDKWLTR----NGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~--C~-H~Fh~~CI~~WL~~----~~sCPlCR~~v~~  230 (235)
                      +...| ||.+... ++ .....+  |. ..||..|+.  |..    +-.||.|+..-.+
T Consensus        35 e~~yC-iC~~~~~-g~-MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~~k   88 (91)
T 1weu_A           35 EPTYC-LCHQVSY-GE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESGP   88 (91)
T ss_dssp             CCBCS-TTCCBCC-SC-CCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCCSS
T ss_pred             CCcEE-ECCCCCC-CC-EeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcCCc
Confidence            44567 9987643 33 333334  55 689999997  332    2349999876544

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=87.54  E-value=0.17  Score=37.40  Aligned_cols=45  Identities=38%  Similarity=0.670  Sum_probs=31.1

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRE  226 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~  226 (235)
                      .|.||.+.-.+++.+.....|...||..|+++-|...    =.||.||.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            5888876533434555555799999999997655432    24999985

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=87.48  E-value=0.17  Score=34.56  Aligned_cols=51  Identities=22%  Similarity=0.445  Sum_probs=34.4

Q ss_pred             cccCcccccccccc-cCCCceeecCCCCCcccHHHHHHHHhc--CCCCcccccc
Q 026652          177 LDNEIGCSICLEKF-EEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPVCREC  227 (235)
Q Consensus       177 ~~~~~~C~ICle~f-~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPlCR~~  227 (235)
                      ..++..|.||.+.- .++..+.....|.-.||..|+..-..-  .=.||.|+..
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~~   66 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   66 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcCc
Confidence            34567899998653 344556666679999999999753221  1239999754

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=86.92  E-value=0.18  Score=35.79  Aligned_cols=53  Identities=21%  Similarity=0.419  Sum_probs=35.6

Q ss_pred             ccCcccccccccc-cCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccccccC
Q 026652          178 DNEIGCSICLEKF-EEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f-~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPlCR~~v~~  230 (235)
                      .++..|.||.+.- ..+..+.....|.-.||..|+..-+.-  .=.||.|+.....
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            4567899998653 233456666679999999999753321  1239999865443

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=86.18  E-value=0.53  Score=32.47  Aligned_cols=48  Identities=21%  Similarity=0.472  Sum_probs=32.5

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHH-----hcCCCCccccccc
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-----TRNGSCPVCRECV  228 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL-----~~~~sCPlCR~~v  228 (235)
                      ...| ||...............|...||..|+.---     ..+-.||.|+..-
T Consensus        12 ~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           12 PVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             ccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            4456 9988775445555555799999999985211     1345699998754

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=84.50  E-value=0.63  Score=31.58  Aligned_cols=47  Identities=28%  Similarity=0.556  Sum_probs=29.8

Q ss_pred             cCcccccccccccCCCceeecCC--CC-CcccHHHHHHHHhcC----CCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPS--CG-HCFHSECVDKWLTRN----GSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~--C~-H~Fh~~CI~~WL~~~----~sCPlCR~~v~~  230 (235)
                      +...| ||.+... +. ....-.  |. ..||..|+.  |...    -.||.|+..-..
T Consensus        15 ~~~~C-~C~~~~~-g~-MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~~k   68 (71)
T 1wen_A           15 EPTYC-LCHQVSY-GE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESGP   68 (71)
T ss_dssp             SCCCS-TTCCCSC-SS-EECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCSSS
T ss_pred             CCCEE-ECCCCCC-CC-EeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccccc
Confidence            44567 8977543 33 333334  66 689999997  4332    249999876543

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.81  E-value=0.45  Score=32.49  Aligned_cols=50  Identities=24%  Similarity=0.472  Sum_probs=32.9

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHH------H---hcCCCCccccccccCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW------L---TRNGSCPVCRECVCKD  231 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~W------L---~~~~sCPlCR~~v~~~  231 (235)
                      ...| ||......+ .......|...||..|+.--      +   ..+-.||.|+..-.+.
T Consensus        16 ~~~C-~C~~~~~~~-~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~p~   74 (76)
T 1wem_A           16 ALYC-ICRQPHNNR-FMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGPS   74 (76)
T ss_dssp             CCCS-TTCCCCCSS-CEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCSS
T ss_pred             CCEE-ECCCccCCC-CEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccCcC
Confidence            3556 898876543 34445569999999998421      1   2456799998765443

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=82.31  E-value=0.22  Score=33.84  Aligned_cols=51  Identities=24%  Similarity=0.445  Sum_probs=34.2

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHH----HhcCCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW----LTRNGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~W----L~~~~sCPlCR~~v~~  230 (235)
                      ....| ||......++.......|..-||..|+.--    +..+-.||.|+..-.+
T Consensus        15 ~~~~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~~~~p   69 (72)
T 1wee_A           15 WKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSGP   69 (72)
T ss_dssp             SEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHCSS
T ss_pred             cceEe-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccCCCCC
Confidence            34678 798876555545555579899999998632    1233459999875443

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=82.14  E-value=0.36  Score=38.17  Aligned_cols=49  Identities=24%  Similarity=0.547  Sum_probs=33.4

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHH-----hcCCCCcccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-----TRNGSCPVCREC  227 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL-----~~~~sCPlCR~~  227 (235)
                      .+...| +|......+........|...||..|+.--.     ...-.||.|+..
T Consensus         6 ~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~   59 (174)
T 2ri7_A            6 DTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST   59 (174)
T ss_dssp             -CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHH
T ss_pred             CCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcch
Confidence            345678 9988765555555566799999999995211     134469999863

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=80.92  E-value=1.1  Score=37.19  Aligned_cols=53  Identities=23%  Similarity=0.506  Sum_probs=35.1

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHh--------cCCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--------RNGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~--------~~~sCPlCR~~v~~~  231 (235)
                      ++..|.+|...|..-..--....||++||..|-.....        ..+.|-.|-..+...
T Consensus       163 ~~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~~~~p~~~~~~~~RVC~~C~~~l~~~  223 (226)
T 3zyq_A          163 DAEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPCYEQLNRK  223 (226)
T ss_dssp             CCSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEEEEEGGGTEEEEEEECHHHHHHHCC-
T ss_pred             cCCCCcCcCCCCCccccccccCCCcCEeChhhcCCcccCCCCCCCCCCEeCHHHHHHhhhh
Confidence            34689999999986443334457999999999875432        123477776655543

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=80.52  E-value=0.2  Score=35.50  Aligned_cols=53  Identities=17%  Similarity=0.470  Sum_probs=36.3

Q ss_pred             ccCcccccccccccC-CCceeecCCCCCcccHHHHHHHHhc--------CCCCccccccccC
Q 026652          178 DNEIGCSICLEKFEE-GDSARKLPSCGHCFHSECVDKWLTR--------NGSCPVCRECVCK  230 (235)
Q Consensus       178 ~~~~~C~ICle~f~~-~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPlCR~~v~~  230 (235)
                      +.+..|.||...-.. +..+.....|...||..|+.+=|..        .=.||.|+.....
T Consensus        14 e~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~~   75 (88)
T 1wev_A           14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKR   75 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCC
T ss_pred             CCCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhhh
Confidence            346789999875332 2455566679999999999865431        2249999876543

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=80.06  E-value=0.53  Score=34.45  Aligned_cols=38  Identities=21%  Similarity=0.454  Sum_probs=26.7

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT  216 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~  216 (235)
                      .++..|.||.+.=+. +.+.....|...||..|+...+.
T Consensus         5 ~~~~~C~~C~~~g~~-~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            5 SSGANCAVCDSPGDL-LDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCSCBTTTCCCCCT-TTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCcCCCCCCCC-cCCeECCCCCCCcChHHhCCccc
Confidence            456789999765332 22344457999999999987654

---

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	235
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	6e-20
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-12
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-10
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-09
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-07
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 78.0 bits (192), Expect = 6e-20
 Identities = 26/52 (50%), Positives = 38/52 (73%)

Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           +D+ + C++CL + E+G+ AR LP CGH FH+ECVD WL  + +CP+CR  V
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 60.7 bits (147), Expect = 3e-13
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228
           C ICLE             C H F   C+ +W+ +N +CP+C+  V
Sbjct: 8   CPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.1 bits (140), Expect = 4e-12
 Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 10/64 (15%)

Query: 171 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVC 224
           ++E  +L  E+G     C IC E  ++    +  P CGH   + C+  W  +    CP C
Sbjct: 9   TQEQYELYCEMGSTFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFC 64

Query: 225 RECV 228
           R  +
Sbjct: 65  RCEI 68

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.3 bits (135), Expect = 1e-11
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKD 231
           C +C+E  E  D      +CG+     C  +  T  NG CP CR+   +D
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.4 bits (130), Expect = 1e-10
 Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 2/60 (3%)

Query: 166 ECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225
            CA+    ++  D  I C          +       C H FH  C+ +WL     CP+  
Sbjct: 23  NCAICRNHIM--DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (124), Expect = 4e-10
 Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 183 CSICLEKFEEGDSARKLP-SCGHCFHSECVDKWLT-RNGSCPVCRECVCK 230
           C  C        S + +   CGH     CVD       G+CP C   + K
Sbjct: 6   CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK 55

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.3 bits (124), Expect = 1e-09
 Identities = 23/103 (22%), Positives = 35/103 (33%), Gaps = 26/103 (25%)

Query: 151 TGVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEE--------------GDSA 196
           +G  G  E +I+K  E        +++  E  C IC+EK                     
Sbjct: 3   SGSSGEPEQVIRKYTEE-------LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVV 55

Query: 197 RKLPSCGHCFHSECVDKWLTR-----NGSCPVCRECVCKDTDT 234
            +L  C H FH  C+           +  CP C+    + T T
Sbjct: 56  GRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGT 98

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.5 bits (118), Expect = 3e-09
 Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 7/52 (13%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTDT 234
           C  C  + +     + LP C H   S C++        CP+C+       DT
Sbjct: 9   CQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADT 53

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.1 bits (119), Expect = 6e-09
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 13/79 (16%)

Query: 156 LSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL 215
           LS   ++++         +  +   + C ICLE  +E         C H F   C+ K L
Sbjct: 3   LSALRVEEV------QNVINAMQKILECPICLELIKE---PVSTK-CDHIFCKFCMLKLL 52

Query: 216 TRNG---SCPVCRECVCKD 231
            +      CP+C+  + K 
Sbjct: 53  NQKKGPSQCPLCKNDITKR 71

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 2e-08
 Identities = 17/61 (27%), Positives = 21/61 (34%), Gaps = 5/61 (8%)

Query: 171 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230
              L +L+  + CS C     E      L  C H F S CV   +     CPVC      
Sbjct: 13  RAALDRLEKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWI 67

Query: 231 D 231
            
Sbjct: 68  Q 68

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.0 bits (114), Expect = 2e-08
 Identities = 16/55 (29%), Positives = 19/55 (34%), Gaps = 5/55 (9%)

Query: 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCK 230
               I C IC     +        SC H F   C+ + L   GS CP CR     
Sbjct: 20  FVKSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP 70

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 43.3 bits (101), Expect = 6e-07
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 183 CSICLEKFEEGDSARKLPS-CGHCFHSECVDKWLTRNG--SCPVCREC 227
           C IC E+           +      H  C+  WLT +   +C +C   
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.4 bits (91), Expect = 1e-05
 Identities = 7/49 (14%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231
           C+I  +       + K       F    +++++   G+ P+  E +  +
Sbjct: 3   CAISGKVPRRPVLSPK---SRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 9/53 (16%), Positives = 18/53 (33%), Gaps = 9/53 (16%)

Query: 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--------RNGSCPVCREC 227
           C +CL ++        +  C   F + C+ +++            SCP     
Sbjct: 8   CKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 8/58 (13%), Positives = 14/58 (24%), Gaps = 4/58 (6%)

Query: 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD 233
           +      C I LE  ++          G  +    + KWL          +       
Sbjct: 4   EFPEYFRCPISLELMKDPVIVS----TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	235
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.74
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.55
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.5
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.49
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.48
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.45
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.38
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.3
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.3
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.28
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.17
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.16
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.07
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.07
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.96
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.63
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.05
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.07
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	93.71
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	91.89
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	91.28
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	91.24
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	90.36
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	90.01
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	89.84
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.56
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	88.41
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	87.12
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	84.76

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.74  E-value=3.4e-19  Score=117.46  Aligned_cols=52  Identities=50%  Similarity=1.210  Sum_probs=47.6

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      +++.+|+||+++|..++.++.+|.|+|.||.+||.+|++++++||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4556899999999999999888889999999999999999999999999874

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=8.1e-16  Score=99.80  Aligned_cols=50  Identities=30%  Similarity=0.576  Sum_probs=41.1

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      +|+||+++|..++....+.+|+|.||.+|+.+|+..+ .+||+||+++.++
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            7999999998766544332499999999999999864 5699999998764

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.53  E-value=1.3e-15  Score=104.16  Aligned_cols=48  Identities=35%  Similarity=0.841  Sum_probs=41.3

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK  230 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~  230 (235)
                      .+.|+||++.+.++  ++.+| |+|.||.+||.+|++++++||+||+++..
T Consensus         5 ~d~C~IC~~~~~~~--~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCccCC--cEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            35799999999764  34566 99999999999999999999999998853

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=4.1e-15  Score=111.31  Aligned_cols=53  Identities=30%  Similarity=0.600  Sum_probs=41.2

Q ss_pred             cCcccccccccccCC---------------CceeecCCCCCcccHHHHHHHHhcC-----CCCccccccccCCC
Q 026652          179 NEIGCSICLEKFEEG---------------DSARKLPSCGHCFHSECVDKWLTRN-----GSCPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle~f~~~---------------~~~~~Lp~C~H~Fh~~CI~~WL~~~-----~sCPlCR~~v~~~~  232 (235)
                      .+..|+||++++..+               ..++.+| |+|.||.+||.+||+.+     .+||+||..+..+.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            456899999998643               2334555 99999999999999853     47999999886554

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=7.7e-15  Score=99.38  Aligned_cols=53  Identities=28%  Similarity=0.618  Sum_probs=41.3

Q ss_pred             cCcccccccccccCC-C-ceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCCC
Q 026652          179 NEIGCSICLEKFEEG-D-SARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKDT  232 (235)
Q Consensus       179 ~~~~C~ICle~f~~~-~-~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~~  232 (235)
                      ++..||||++++..+ + .+..+| |+|.||.+||.+|+.+ +.+||+||+++...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467899999986543 2 334455 9999999999999965 567999999986543

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=8.7e-15  Score=104.91  Aligned_cols=50  Identities=24%  Similarity=0.501  Sum_probs=41.6

Q ss_pred             cCcccccccccccCCCc---------------eeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652          179 NEIGCSICLEKFEEGDS---------------ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~---------------~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~  229 (235)
                      .++.|+||++++..+..               +..+| |+|.||..||.+||+.+++||+||++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            45679999998876432               34565 9999999999999999999999999864

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=3.2e-14  Score=99.96  Aligned_cols=50  Identities=28%  Similarity=0.690  Sum_probs=41.8

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCCCC
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDTD  233 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~  233 (235)
                      ...|+||++.+.+   .+.+| |||.||.+||.+||. ++++||+||+++...+.
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            3569999998876   45667 999999999999997 45789999999986553

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.38  E-value=4.7e-14  Score=92.63  Aligned_cols=48  Identities=15%  Similarity=0.282  Sum_probs=41.9

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT  232 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~  232 (235)
                      .|+||++.+.++...   |.|||+||.+||.+||+++++||+||+++..++
T Consensus         2 ~C~Ic~~~~~~Pv~~---~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSEEEE---TTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhcCcc---CCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999885543   469999999999999999999999999987653

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=3e-13  Score=96.30  Aligned_cols=49  Identities=27%  Similarity=0.590  Sum_probs=41.0

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      ++..|+||++.+.++.   .+| |||.||..||.+|++. +.+||.||.++...
T Consensus        22 ~~l~C~IC~~~~~~pv---~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          22 KSISCQICEHILADPV---ETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHTBCTTTCSBCSSEE---ECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCcCCccCCcchhcce---ecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            4578999999998854   455 9999999999999974 46799999988754

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=5.4e-13  Score=97.92  Aligned_cols=50  Identities=34%  Similarity=0.731  Sum_probs=41.7

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC---CCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG---SCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~---sCPlCR~~v~~~  231 (235)
                      .+...|+||++.|.++..   +| |||.||..||.+|+.+++   .||+||.++..+
T Consensus        19 ~~~l~CpIC~~~~~~pv~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          19 QKILECPICLELIKEPVS---TK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCB---CT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             ccCcCCCccCchhCCeEE---cC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            455789999999988654   45 999999999999997653   799999998644

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=3.1e-13  Score=88.66  Aligned_cols=48  Identities=25%  Similarity=0.539  Sum_probs=39.9

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD  233 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~  233 (235)
                      +...|+||++.+.++.   .+| |+|.||..||++|   +.+||+||+++....+
T Consensus         5 ~~l~C~IC~~~~~~p~---~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           5 QFLRCQQCQAEAKCPK---LLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCSSCSSSCSSCBCCS---CST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCCcccCcccCCCE---Eec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            4468999999998854   456 9999999999875   6789999999986654

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.17  E-value=7.6e-12  Score=82.86  Aligned_cols=54  Identities=24%  Similarity=0.458  Sum_probs=40.1

Q ss_pred             cccCcccccccccccCCCcee-ecCCCCCcccHHHHHHHHh--cCCCCccccccccC
Q 026652          177 LDNEIGCSICLEKFEEGDSAR-KLPSCGHCFHSECVDKWLT--RNGSCPVCRECVCK  230 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~-~Lp~C~H~Fh~~CI~~WL~--~~~sCPlCR~~v~~  230 (235)
                      .++...|+||++++..+.... ....|+|.||..||.+|+.  ++.+||+||+++.-
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            345678999999987654331 1223569999999999996  45689999998753

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=3.2e-12  Score=92.67  Aligned_cols=50  Identities=30%  Similarity=0.603  Sum_probs=40.5

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      ..+...|+||++.|.++..+  . .|||.||..||.+|+.  ..||.||.++...
T Consensus        19 l~~~l~C~IC~~~~~~pv~~--~-~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          19 LEKLLRCSRCTNILREPVCL--G-GCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             HHHTTSCSSSCSCCSSCBCC--C-SSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hhhcCCCccCCchhhcCcee--C-CCCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            34567899999999887543  2 4999999999999984  4599999987653

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=2e-11  Score=85.35  Aligned_cols=50  Identities=20%  Similarity=0.302  Sum_probs=42.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~  231 (235)
                      .++..|+||++.|.++..   +| |||.||..||.+|+.+ +.+||.||.++..+
T Consensus         5 P~~l~CpIc~~l~~dPv~---~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMREPCI---TP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEE---CS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhhhcc---cC-CcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            467899999999999754   45 9999999999999975 56799999988643

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.07  E-value=3.4e-11  Score=83.68  Aligned_cols=50  Identities=22%  Similarity=0.541  Sum_probs=42.8

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v~~~  231 (235)
                      .++..|+||++.|.++..   +| |||.||+.||.+|+..+ ..||.||.++..+
T Consensus         6 P~~l~CpIc~~~m~dPV~---~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVI---VS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE---ET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CccCCCcCcCchhhCceE---cc-CCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            467899999999999754   45 99999999999999864 5699999998754

>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=98.96  E-value=1.9e-10  Score=83.41  Aligned_cols=51  Identities=16%  Similarity=0.102  Sum_probs=43.3

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD  231 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~  231 (235)
                      .++..||||.+-|.+++.+   |.|+|.|++.||.+||.++.+||+||+++..+
T Consensus        20 P~~f~CPI~~~lm~dPV~~---~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVVL---PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEEC---TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cHHhCCcCchhHHHHHHhc---ccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            4578999999999997655   44556899999999999999999999998754

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=5.3e-09  Score=74.62  Aligned_cols=46  Identities=22%  Similarity=0.553  Sum_probs=36.6

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--------CCCcccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--------GSCPVCR  225 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--------~sCPlCR  225 (235)
                      ....|+||++++...+.+..++ |+|.||.+|+..|++.+        -.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            4568999999998766666555 99999999999999622        2499864

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.05  E-value=0.0032  Score=40.48  Aligned_cols=52  Identities=21%  Similarity=0.414  Sum_probs=37.8

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHH---Hh--cCCCCccccccccC
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW---LT--RNGSCPVCRECVCK  230 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~W---L~--~~~sCPlCR~~v~~  230 (235)
                      ....|.+|.+....+........|++.||..|+..=   ..  .+-.||.|+..-.+
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~p   61 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGP   61 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCS
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCCC
Confidence            456899999887776666667789999999999531   11  23469999875544

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.07  E-value=0.012  Score=35.89  Aligned_cols=44  Identities=30%  Similarity=0.644  Sum_probs=31.5

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRE  226 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~  226 (235)
                      .|.||...-.. ..+.....|...||..|++.-+...+    .||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58899665433 44555667999999999988665332    3999985

>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=93.71  E-value=0.023  Score=35.79  Aligned_cols=46  Identities=22%  Similarity=0.413  Sum_probs=33.6

Q ss_pred             ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652          178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC  224 (235)
Q Consensus       178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC  224 (235)
                      .....|.-|...+.+ ......|+|++.||.+|=.---+.-.+||-|
T Consensus        13 ~~~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          13 NGERFCYGCQGELKD-QHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CSCCEETTTTEECTT-SEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCCccCCCCcCCC-CceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            345689999988865 4556788999999999954322233579988

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.89  E-value=0.019  Score=36.41  Aligned_cols=46  Identities=20%  Similarity=0.418  Sum_probs=31.8

Q ss_pred             cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccccccc
Q 026652          179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRECV  228 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~~v  228 (235)
                      .+..|.+|.+.    ..+.....|...||..|+...+...    -.||.|+...
T Consensus         8 ~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            44579999742    3344555788999999997655432    2499998654

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.28  E-value=0.041  Score=35.75  Aligned_cols=46  Identities=28%  Similarity=0.587  Sum_probs=31.7

Q ss_pred             CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC----CCcccccccc
Q 026652          180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG----SCPVCRECVC  229 (235)
Q Consensus       180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~----sCPlCR~~v~  229 (235)
                      ...|.+|.+   .++ +.....|...||..|+.+.+...+    .||.|+..-.
T Consensus         7 c~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           7 ATICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            346777753   233 445567999999999998775433    3999976544

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.24  E-value=0.07  Score=35.79  Aligned_cols=36  Identities=22%  Similarity=0.564  Sum_probs=26.7

Q ss_pred             cccCcccccccccccCCCceeecCCCCCcccHHHHHHH
Q 026652          177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW  214 (235)
Q Consensus       177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~W  214 (235)
                      ..++..|.|| +.+...+.. -.--|+.+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            4567899999 777765544 11148899999999986

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.36  E-value=0.069  Score=34.84  Aligned_cols=46  Identities=30%  Similarity=0.532  Sum_probs=26.7

Q ss_pred             cccccccccccCCCceee-cCCCC-CcccHHHHHHHHhcC----CCCccccccccC
Q 026652          181 IGCSICLEKFEEGDSARK-LPSCG-HCFHSECVDKWLTRN----GSCPVCRECVCK  230 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~-Lp~C~-H~Fh~~CI~~WL~~~----~sCPlCR~~v~~  230 (235)
                      ..| ||.+... ++.+.. ...|. ..||..|+.  |...    -.||.||..-.+
T Consensus        17 ~~C-iC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~~gp   68 (71)
T d1wesa_          17 TYC-LCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGDSGP   68 (71)
T ss_dssp             CCS-TTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSCCSC
T ss_pred             CEE-EeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccccCc
Confidence            445 9987643 333322 22454 469999984  3322    249999865443

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.01  E-value=0.18  Score=33.27  Aligned_cols=48  Identities=21%  Similarity=0.488  Sum_probs=33.1

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHH--HHH-h--cCCCCcccccccc
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVD--KWL-T--RNGSCPVCRECVC  229 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~--~WL-~--~~~sCPlCR~~v~  229 (235)
                      ..| ||.+.............|.-.||..|+.  ..- .  .+-.||.|+....
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            345 9988766655556667899999999984  221 1  2356999987543

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=89.84  E-value=0.037  Score=36.68  Aligned_cols=52  Identities=21%  Similarity=0.379  Sum_probs=32.5

Q ss_pred             cCcccccccccccCCCceee-cCCCCCcccHHHHHH----HHh-----cCCCCccccccccCC
Q 026652          179 NEIGCSICLEKFEEGDSARK-LPSCGHCFHSECVDK----WLT-----RNGSCPVCRECVCKD  231 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~-Lp~C~H~Fh~~CI~~----WL~-----~~~sCPlCR~~v~~~  231 (235)
                      +...| ||.+....+..+.. ...|...||..|+.-    .-.     .+-.||.|+..-.+.
T Consensus        15 ~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~ps   76 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGPS   76 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSCC
T ss_pred             CccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCCCC
Confidence            34567 99887766554422 125999999999841    101     124599998665443

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.56  E-value=0.045  Score=36.95  Aligned_cols=51  Identities=18%  Similarity=0.453  Sum_probs=33.9

Q ss_pred             cCcccccccccccC-CCceeecCCCCCcccHHHHHHHHh-----c---CCCCcccccccc
Q 026652          179 NEIGCSICLEKFEE-GDSARKLPSCGHCFHSECVDKWLT-----R---NGSCPVCRECVC  229 (235)
Q Consensus       179 ~~~~C~ICle~f~~-~~~~~~Lp~C~H~Fh~~CI~~WL~-----~---~~sCPlCR~~v~  229 (235)
                      ....|.||...... ...+.....|...||..|+...+.     .   .-.||.|+....
T Consensus        15 ~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            35679999865433 334555667999999999864331     1   235999976543

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.41  E-value=0.25  Score=32.02  Aligned_cols=39  Identities=23%  Similarity=0.506  Sum_probs=30.3

Q ss_pred             cCcccccccccccCCCceeecC-CCCCcccHHHHHHHHhcC
Q 026652          179 NEIGCSICLEKFEEGDSARKLP-SCGHCFHSECVDKWLTRN  218 (235)
Q Consensus       179 ~~~~C~ICle~f~~~~~~~~Lp-~C~H~Fh~~CI~~WL~~~  218 (235)
                      ....|.+|.+.+++...+. .| .=+|.||..|-...++++
T Consensus         7 ~~l~CtlC~erLEdtHFVQ-CPsv~~HkFCFpCsr~sik~q   46 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKAQ   46 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEE-CSSCSSCEECHHHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEe-CCCCcCCceeccccHHHHHhc
Confidence            4578999999999877763 22 235999999999988744

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.12  E-value=0.029  Score=34.38  Aligned_cols=45  Identities=18%  Similarity=0.452  Sum_probs=30.4

Q ss_pred             ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652          182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE  226 (235)
Q Consensus       182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~  226 (235)
                      .|.+|...|..-..-.....||++||.+|..+.-..+..|..|.+
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhh
Confidence            588998888764443444479999999997665555566888754

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=84.76  E-value=0.084  Score=34.19  Aligned_cols=49  Identities=22%  Similarity=0.435  Sum_probs=33.6

Q ss_pred             cccccccccccCCCceeecCCCCCcccHHHHHHHHh----cCCCCccccccccC
Q 026652          181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT----RNGSCPVCRECVCK  230 (235)
Q Consensus       181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~----~~~sCPlCR~~v~~  230 (235)
                      ..| ||......+........|...||..|+..-..    ..-.||.|+..-.+
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~~p   69 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSGP   69 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHCSS
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcCCc
Confidence            457 78776666666666668999999999853211    33459999876443