Citrus Sinensis ID: 029203

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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-------
Protein Sequence
MSTPATPSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQYAADRRRR
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccEEEEccccccccccccccccccEEccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccEEEEccccHHHHHccccHHHccccccHHHHHHccEEEEEEEEEcccccccccccEEEEEEccccccccEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccHcccccccc
Coil and Loop (DISEMBL)
mstpatpspnyltniGLGYSIAIALGFLVLLSTVLLASYICcrrnnsshnsnanphennnsvsndgiilpriifvaeddgqeenrnqdddnlvVGLDQAvinsypkfqftkesvsgnnnsnninttCSIClceykdlemlrmmpecrhYFHLCCVDAWlklngscpvcrnsplptplstplqevvplsqyaadrrrr
Flexible Loop (DISEMBL)
mstpatpspnYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSshnsnanphennnsvsndgIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKEsvsgnnnsnnintTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPlptplstplqevvplsqyaadrrrr
Low Complexity Region (SEG)
MSTPATPSPNYLTNIGLGYSIAIalgflvllstvllasYICCRRnnsshnsnanphennnsvsnDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGnnnsnninttcsicLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNsplptplstplQEVVPLSQYAADRRRR
Disordered region (IsUnstruct)
**********YLTNIGLGYSIAIALGFLVLLSTVLLASYICCR**********************GIILPRIIFVA**************NLVVGLDQAVINSYPKFQFTKE*******SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN***************************
Disordered Region (DISOPRED)
***************GLGYSIAIALGFLVLLSTVLLASYICCRRNNS***********************************************GLDQAVINSYPKFQFT**************TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSP*************************
Disordered Region (DISEMBL)
********PNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQYAADRRRR
Disordered Region (DISPRO)
**********YLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRN*********************IILPRIIFVAEDDGQE**R******LVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL************************
Transmembrane Helix (TMHMM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSTPATPSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQYAADRRRR
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	197	2.2.26 [Sep-21-2011]
Q9M313	212	RING-H2 finger protein AT	yes	no	0.918	0.853	0.629	2e-62
O82353	214	RING-H2 finger protein AT	no	no	0.873	0.803	0.652	1e-57
Q9FG21	197	Putative RING-H2 finger p	no	no	0.873	0.873	0.390	2e-30
Q9FL42	159	Putative RING-H2 finger p	no	no	0.746	0.924	0.392	1e-26
Q8RX29	217	RING-H2 finger protein AT	no	no	0.776	0.705	0.377	2e-24
P0CH01	372	Putative RING-H2 finger p	no	no	0.401	0.212	0.464	7e-16
Q9SKK8	377	RING-H2 finger protein AT	no	no	0.395	0.206	0.493	4e-15
Q9SL78	390	Putative RING-H2 finger p	no	no	0.355	0.179	0.421	4e-15
Q5XF85	432	E3 ubiquitin-protein liga	no	no	0.411	0.187	0.367	8e-15
Q9C7E9	299	RING-H2 finger protein AT	no	no	0.421	0.277	0.461	1e-14

>sp|Q9M313|ATL68_ARATH RING-H2 finger protein ATL68 OS=Arabidopsis thaliana GN=ATL68 PE=2 SV=1

 Score =  238 bits (607), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 124/197 (62%), Positives = 148/197 (75%), Gaps = 16/197 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
            Y+T++GLGYSIAIALGFLVL+ST++L+SYICCR +    +++A     N S S+ G+I+
Sbjct: 19  TYITSLGLGYSIAIALGFLVLISTIILSSYICCRASRLRFSASAANANANASFSDRGVIV 78

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVG-LDQAVINSYPKFQFTKESVS-----GNNNSNNI 123
           PRIIFVAEDD  E        N+VVG LD +VINSYPKF FTK+  +     G ++    
Sbjct: 79  PRIIFVAEDDDLESG------NVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGR 132

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP----TPLST 179
            TTCSICLCEY + EMLRMMPEC+HYFH+ C+DAWLKLNGSCPVCRNSPLP    TP ST
Sbjct: 133 ETTCSICLCEYMEEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQST 192

Query: 180 PLQEVVPLSQYAADRRR 196
           PL EVVPLSQYAADRRR
Sbjct: 193 PLSEVVPLSQYAADRRR 209

Arabidopsis thaliana (taxid: 3702)

>sp|O82353|ATL67_ARATH RING-H2 finger protein ATL67 OS=Arabidopsis thaliana GN=ATL67 PE=2 SV=1

 Score =  222 bits (565), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 122/187 (65%), Positives = 142/187 (75%), Gaps = 15/187 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
           +YLT +G GYSIAIALGFLVLLSTVLL+SYICCR +     +  +  +   SV     IL
Sbjct: 28  SYLTTLGFGYSIAIALGFLVLLSTVLLSSYICCRDSRRRTTAVESTGDRGGSV-----IL 82

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKES--VSGNNNSNNINTTC 127
           PRIIFVAE+D    N + +  ++VVGLDQAVINSYPKF F+K++   S +      +TTC
Sbjct: 83  PRIIFVAEED----NEDLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTC 138

Query: 128 SICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP----TPLSTPLQE 183
           SICLCEYK+ EMLRMMPEC+HYFHLCC+DAWLKLNGSCPVCRNSPLP    TPLSTPL E
Sbjct: 139 SICLCEYKEAEMLRMMPECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTSTPLSTPLSE 198

Query: 184 VVPLSQY 190
           VVPLSQY
Sbjct: 199 VVPLSQY 205

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG21|ATL71_ARATH Putative RING-H2 finger protein ATL71 OS=Arabidopsis thaliana GN=ATL71 PE=3 SV=1

 Score =  132 bits (332), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 75/192 (39%), Positives = 111/192 (57%), Gaps = 20/192 (10%)

Query: 8   SPNYLTNI----GLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVS 63
           S ++LTN     GL Y I +++G L+L++T+ L SY C R + S+  +           S
Sbjct: 10  SGHWLTNTDRMGGLAYGIGVSIGILMLITTITLTSYYCTRSHISASPTTTPRTRRRQRES 69

Query: 64  NDGIILPRIIFVAEDDGQEENRNQDD--DNLVV---GLDQAVINSYPKFQFTKESVSGNN 118
           N G + P         GQE    +DD  D +VV   GL + VI  +PK  + +  VS + 
Sbjct: 70  N-GTLPP---------GQERFDFEDDESDTVVVEVLGLTEEVIKGFPKLPYEEARVSYSL 119

Query: 119 NSNNINTTC-SICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL 177
              +  T+C SICL +YK ++M+R++P+C H FH  CVD WL+L+ +CPVCR SPLP+P 
Sbjct: 120 QKESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDNCVDPWLRLHPTCPVCRTSPLPSPA 179

Query: 178 STPLQEVVPLSQ 189
            TP+ +VVP S+
Sbjct: 180 MTPVADVVPFSR 191

Arabidopsis thaliana (taxid: 3702)

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

 Score =  119 bits (299), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 69/176 (39%), Positives = 96/176 (54%), Gaps = 29/176 (16%)

Query: 13  TNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIILPRI 72
           + +GLGY IAIA+  LVL+S ++LASYIC R  ++  +      E  + V  D   LP  
Sbjct: 9   SGVGLGYGIAIAVSILVLISFIMLASYICIRSKSTGRD------EATSDVVLD---LP-- 57

Query: 73  IFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLC 132
                              + +GLD+ VI SYP+            N    N  CSICLC
Sbjct: 58  --------------SPAAEVKLGLDRPVIESYPRIVLGDSRRLPRPN----NGPCSICLC 99

Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLS 188
           +Y+  E +R +PEC H FH  CVD WL+ + +CP+CRNSP P+ L+TPL ++VPL+
Sbjct: 100 DYEAREPVRCIPECNHCFHTDCVDEWLRTSATCPLCRNSPAPSRLATPLSDLVPLA 155

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 68/180 (37%), Positives = 94/180 (52%), Gaps = 27/180 (15%)

Query: 16  GLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIILPRIIFV 75
           G  Y I +++G L+L++T+ L SY C R   SS  S  N                     
Sbjct: 63  GFRYGIGVSIGVLLLITTITLTSYYCTRNQLSSSPSQTN--------------------- 101

Query: 76  AEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYK 135
            +      + +    ++V GLD+  I SYPK  +++             + C+ICL +YK
Sbjct: 102 QDSTRIHHHHHHVIIDVVPGLDEDTIQSYPKILYSEA------KGPTTASCCAICLGDYK 155

Query: 136 DLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQYAADRR 195
              +LR +P+C H FHL C+D WL+LN +CPVCR SPLPTPLSTPL EVVPL+   A  R
Sbjct: 156 GKHLLRQLPDCNHLFHLKCIDTWLRLNPTCPVCRTSPLPTPLSTPLAEVVPLASSVAATR 215

Arabidopsis thaliana (taxid: 3702)

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

 Score = 83.6 bits (205), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 39/84 (46%), Positives = 54/84 (64%), Gaps = 5/84 (5%)

Query: 92  LVVGLDQAVINSYPKFQFTK-ESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYF 150
           +  GLD+++I SY K +  +   + GNN+    +  C ICL EY   E +R +PEC H F
Sbjct: 288 VTTGLDESIIESYKKTELGESRRLPGNND----DIVCPICLSEYASKETVRCIPECDHCF 343

Query: 151 HLCCVDAWLKLNGSCPVCRNSPLP 174
           H  C+D WLK++GSCP+CRNSP P
Sbjct: 344 HSECIDVWLKIHGSCPLCRNSPSP 367

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKK8|ATL22_ARATH RING-H2 finger protein ATL22 OS=Arabidopsis thaliana GN=ATL22 PE=2 SV=2

 Score = 81.3 bits (199), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 52/81 (64%), Gaps = 3/81 (3%)

Query: 94  VGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLC 153
           +GLD++ I SY K +   ES      SN++   C ICL EY   E +R +PEC H FH  
Sbjct: 297 IGLDESTIESYKKVEL-GESRRLPTGSNDV--VCPICLSEYATKETVRCLPECEHCFHTE 353

Query: 154 CVDAWLKLNGSCPVCRNSPLP 174
           C+DAWLKL+ SCPVCR++P P
Sbjct: 354 CIDAWLKLHSSCPVCRSNPSP 374

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SL78|ATL12_ARATH Putative RING-H2 finger protein ATL12 OS=Arabidopsis thaliana GN=ATL12 PE=3 SV=1

 Score = 81.3 bits (199), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 52/76 (68%), Gaps = 6/76 (7%)

Query: 95  GLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCC 154
           GLD+  I S P F+F+  ++ G          CS+CL +++D+E+LR++P+CRH FH+ C
Sbjct: 98  GLDKKAIESLPFFRFS--ALKGLKQ----GLECSVCLSKFEDVEILRLLPKCRHAFHIGC 151

Query: 155 VDAWLKLNGSCPVCRN 170
           +D WL+ + +CP+CRN
Sbjct: 152 IDQWLEQHATCPLCRN 167

Arabidopsis thaliana (taxid: 3702)

>sp|Q5XF85|ATL42_ARATH E3 ubiquitin-protein ligase ATL42 OS=Arabidopsis thaliana GN=ATL42 PE=1 SV=2

 Score = 80.1 bits (196), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 32/87 (36%), Positives = 56/87 (64%), Gaps = 6/87 (6%)

Query: 84  NRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMM 143
           NR+    +   GLD+  I S P F+F+  ++ G+         CS+CL +++ +E+LR++
Sbjct: 86  NRSTASSDRFSGLDKTAIESLPLFRFS--ALKGSKQ----GLDCSVCLSKFESVEILRLL 139

Query: 144 PECRHYFHLCCVDAWLKLNGSCPVCRN 170
           P+CRH FH+ C+D WL+ + +CP+CR+
Sbjct: 140 PKCRHAFHIGCIDQWLEQHATCPLCRD 166

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C7E9|ATL20_ARATH RING-H2 finger protein ATL20 OS=Arabidopsis thaliana GN=ATL20 PE=2 SV=2

 Score = 79.7 bits (195), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/91 (46%), Positives = 52/91 (57%), Gaps = 8/91 (8%)

Query: 84  NRNQDDDNLVV--GLDQAVINSYPKFQFTK-ESVSGNNNSNNINTTCSICLCEYKDLEML 140
           N  Q    +VV  GLDQ+ I SY K +  +   + G N        C ICL EY   E +
Sbjct: 212 NTTQQPRGVVVTTGLDQSTIESYKKVELGESRRLPGTNG-----IICPICLSEYASKETV 266

Query: 141 RMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
           R MPEC H FH+ C+D WLK++ SCPVCRNS
Sbjct: 267 RCMPECDHCFHVQCIDEWLKIHSSCPVCRNS 297

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	197
224127780	205	predicted protein [Populus trichocarpa]	0.974	0.936	0.709	2e-70
147832281	641	hypothetical protein VITISV_040608 [Viti	0.873	0.268	0.670	3e-65
297745339	279	unnamed protein product [Vitis vinifera]	0.873	0.616	0.670	3e-65
224064077	171	predicted protein [Populus trichocarpa]	0.802	0.923	0.640	4e-61
15233144	212	RING-H2 finger protein ATL68 [Arabidopsi	0.918	0.853	0.629	1e-60
297817474	211	zinc finger family protein [Arabidopsis	0.918	0.857	0.614	2e-59
87162786	179	Zinc finger, RING-type [Medicago truncat	0.903	0.994	0.619	5e-59
357507627	298	Ring finger protein [Medicago truncatula	0.903	0.597	0.619	6e-59
356531933	184	PREDICTED: RING-H2 finger protein ATL68-	0.873	0.934	0.668	8e-58
15225932	214	RING-H2 finger protein ATL67 [Arabidopsi	0.873	0.803	0.652	7e-56

>gi|224127780|ref|XP_002320162.1| predicted protein [Populus trichocarpa] gi|222860935|gb|EEE98477.1| predicted protein [Populus trichocarpa]

 Score =  271 bits (692), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 139/196 (70%), Positives = 159/196 (81%), Gaps = 4/196 (2%)

Query: 2   STPATPSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNS 61
           +T   P  NYLTN+GLGYSIAIAL FLVLLST+LLASYICCR N     ++ N + N  +
Sbjct: 14  ATSPPPPANYLTNLGLGYSIAIALFFLVLLSTILLASYICCRTNRHRSRNSNNNNNNYAN 73

Query: 62  VSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSN 121
            + DGIILPRIIFVAEDD ++E   +D ++  VGL+QAVINSYPKFQF+K+    +  +N
Sbjct: 74  STADGIILPRIIFVAEDDEEQE---RDLESAAVGLNQAVINSYPKFQFSKDG-GFSERTN 129

Query: 122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPL 181
           N   TCSICLCEYKDLEMLRMMP+CRHYFHL C+DAWLKLNGSCPVCRNSPLPTPLSTPL
Sbjct: 130 NFCNTCSICLCEYKDLEMLRMMPDCRHYFHLLCLDAWLKLNGSCPVCRNSPLPTPLSTPL 189

Query: 182 QEVVPLSQYAADRRRR 197
            EVVPLSQYAADRRRR
Sbjct: 190 SEVVPLSQYAADRRRR 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147832281|emb|CAN73279.1| hypothetical protein VITISV_040608 [Vitis vinifera]

 Score =  253 bits (646), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 126/188 (67%), Positives = 148/188 (78%), Gaps = 16/188 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
            YL+N+GLGY+IAIA  FLVLLSTVLLASY+CCRR   S + + NP    NS  +DGI+L
Sbjct: 26  TYLSNLGLGYAIAIAFAFLVLLSTVLLASYLCCRRRPLSPHHSRNPASAANS--SDGIVL 83

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSI 129
           PRIIFVAED+ +       D N+VVGLDQAVI+SYPKF F+K       ++ ++++ CSI
Sbjct: 84  PRIIFVAEDEDE-------DQNVVVGLDQAVIDSYPKFPFSK-------SNTHLDSVCSI 129

Query: 130 CLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQ 189
           CLCEYKD EMLRM+P+CRH FHL CVDAWLKLN SCPVCRNSPLPTPLSTPL E+VPLSQ
Sbjct: 130 CLCEYKDSEMLRMLPDCRHCFHLYCVDAWLKLNASCPVCRNSPLPTPLSTPLSELVPLSQ 189

Query: 190 YAADRRRR 197
           Y ADRRRR
Sbjct: 190 YPADRRRR 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745339|emb|CBI40419.3| unnamed protein product [Vitis vinifera]

 Score =  253 bits (646), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 126/188 (67%), Positives = 148/188 (78%), Gaps = 16/188 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
            YL+N+GLGY+IAIA  FLVLLSTVLLASY+CCRR   S + + NP    NS  +DGI+L
Sbjct: 83  TYLSNLGLGYAIAIAFAFLVLLSTVLLASYLCCRRRPLSPHHSRNPASAANS--SDGIVL 140

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSI 129
           PRIIFVAED+ +       D N+VVGLDQAVI+SYPKF F+K       ++ ++++ CSI
Sbjct: 141 PRIIFVAEDEDE-------DQNVVVGLDQAVIDSYPKFPFSK-------SNTHLDSVCSI 186

Query: 130 CLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQ 189
           CLCEYKD EMLRM+P+CRH FHL CVDAWLKLN SCPVCRNSPLPTPLSTPL E+VPLSQ
Sbjct: 187 CLCEYKDSEMLRMLPDCRHCFHLYCVDAWLKLNASCPVCRNSPLPTPLSTPLSELVPLSQ 246

Query: 190 YAADRRRR 197
           Y ADRRRR
Sbjct: 247 YPADRRRR 254

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064077|ref|XP_002301380.1| predicted protein [Populus trichocarpa] gi|222843106|gb|EEE80653.1| predicted protein [Populus trichocarpa]

 Score =  239 bits (610), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 123/192 (64%), Positives = 138/192 (71%), Gaps = 34/192 (17%)

Query: 7   PSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRN-NSSHNSNANPHENNNSVSND 65
           PS NYLTN+GLGYSIAIALGFLVL+ST+LLASYICCR   N SH                
Sbjct: 13  PSSNYLTNLGLGYSIAIALGFLVLVSTILLASYICCRATRNRSH---------------- 56

Query: 66  GIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINT 125
                           +E + +D +   VGLDQAVINSYPKFQF+++       ++N+N+
Sbjct: 57  ----------------DEEQERDLEGAAVGLDQAVINSYPKFQFSRDG-GFCERTDNLNS 99

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVV 185
           TCSICLCEYKDLEMLRMMPECRHYFH  C+DAWLKLNGSCPVCRNSPLPTPLSTPL EVV
Sbjct: 100 TCSICLCEYKDLEMLRMMPECRHYFHSLCLDAWLKLNGSCPVCRNSPLPTPLSTPLSEVV 159

Query: 186 PLSQYAADRRRR 197
           PLSQYA DRRRR
Sbjct: 160 PLSQYAEDRRRR 171

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233144|ref|NP_191714.1| RING-H2 finger protein ATL68 [Arabidopsis thaliana] gi|68565321|sp|Q9M313.1|ATL68_ARATH RecName: Full=RING-H2 finger protein ATL68 gi|16226239|gb|AAL16112.1|AF428280_1 AT3g61550/F2A19_150 [Arabidopsis thaliana] gi|6850846|emb|CAB71085.1| putative protein [Arabidopsis thaliana] gi|21436049|gb|AAM51602.1| AT3g61550/F2A19_150 [Arabidopsis thaliana] gi|62320670|dbj|BAD95337.1| hypothetical protein [Arabidopsis thaliana] gi|332646700|gb|AEE80221.1| RING-H2 finger protein ATL68 [Arabidopsis thaliana]

 Score =  238 bits (607), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 124/197 (62%), Positives = 148/197 (75%), Gaps = 16/197 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
            Y+T++GLGYSIAIALGFLVL+ST++L+SYICCR +    +++A     N S S+ G+I+
Sbjct: 19  TYITSLGLGYSIAIALGFLVLISTIILSSYICCRASRLRFSASAANANANASFSDRGVIV 78

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVG-LDQAVINSYPKFQFTKESVS-----GNNNSNNI 123
           PRIIFVAEDD  E        N+VVG LD +VINSYPKF FTK+  +     G ++    
Sbjct: 79  PRIIFVAEDDDLESG------NVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGR 132

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP----TPLST 179
            TTCSICLCEY + EMLRMMPEC+HYFH+ C+DAWLKLNGSCPVCRNSPLP    TP ST
Sbjct: 133 ETTCSICLCEYMEEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQST 192

Query: 180 PLQEVVPLSQYAADRRR 196
           PL EVVPLSQYAADRRR
Sbjct: 193 PLSEVVPLSQYAADRRR 209

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817474|ref|XP_002876620.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297322458|gb|EFH52879.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  234 bits (596), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 121/197 (61%), Positives = 147/197 (74%), Gaps = 16/197 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
            Y+T++GLGYSIAIALGFLVL+ST++L+SYICCR +    +++A     N S  +  +I+
Sbjct: 18  TYITSLGLGYSIAIALGFLVLISTIILSSYICCRASRLRFSASAATANANASFRDRSVIV 77

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVG-LDQAVINSYPKFQFTKESVS-----GNNNSNNI 123
           PRIIFVAEDD  E        N+VVG LD ++INSYPKF FTK+  +     G ++    
Sbjct: 78  PRIIFVAEDDDLESG------NVVVGGLDHSIINSYPKFHFTKDITAVVDGDGFHDGERG 131

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP----TPLST 179
           +TTCSICLCEY + EMLRMMPEC+HYFH+ C+DAWLKLNGSCPVCRNSPLP    TP ST
Sbjct: 132 DTTCSICLCEYMEEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQST 191

Query: 180 PLQEVVPLSQYAADRRR 196
           PL EVVPLSQYAADRRR
Sbjct: 192 PLSEVVPLSQYAADRRR 208

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|87162786|gb|ABD28581.1| Zinc finger, RING-type [Medicago truncatula]

 Score =  232 bits (592), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 122/197 (61%), Positives = 151/197 (76%), Gaps = 19/197 (9%)

Query: 1   MSTPATPSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNN 60
           MS+P +    + TN+GLGYSIAI L FLVLL+T++L+ Y+CCR+NN+ +N+  N    N 
Sbjct: 1   MSSPHS----FFTNLGLGYSIAITLAFLVLLATLILSFYLCCRKNNNPNNNLNN--NTNT 54

Query: 61  SVSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNS 120
               +G+I+   IF+AE+D         ++N VVGL+  +INSYP+FQF+++S +     
Sbjct: 55  LNYTEGVIVRTDIFIAEND---------EENAVVGLEDNMINSYPRFQFSRDSATVLGQ- 104

Query: 121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTP 180
              NTTCSICLCEYKD EMLRMMPECRHYFHLCC+D+WLKLNGSCPVCRNSPLPTPLSTP
Sbjct: 105 ---NTTCSICLCEYKDSEMLRMMPECRHYFHLCCLDSWLKLNGSCPVCRNSPLPTPLSTP 161

Query: 181 LQEVVPLSQYAADRRRR 197
           LQEVVPLSQYAADRRRR
Sbjct: 162 LQEVVPLSQYAADRRRR 178

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357507627|ref|XP_003624102.1| Ring finger protein [Medicago truncatula] gi|355499117|gb|AES80320.1| Ring finger protein [Medicago truncatula]

 Score =  232 bits (591), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 122/197 (61%), Positives = 151/197 (76%), Gaps = 19/197 (9%)

Query: 1   MSTPATPSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNN 60
           MS+P +    + TN+GLGYSIAI L FLVLL+T++L+ Y+CCR+NN+ +N+  N    N 
Sbjct: 1   MSSPHS----FFTNLGLGYSIAITLAFLVLLATLILSFYLCCRKNNNPNNNLNN--NTNT 54

Query: 61  SVSNDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNS 120
               +G+I+   IF+AE+D         ++N VVGL+  +INSYP+FQF+++S +     
Sbjct: 55  LNYTEGVIVRTDIFIAEND---------EENAVVGLEDNMINSYPRFQFSRDSATVLGQ- 104

Query: 121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTP 180
              NTTCSICLCEYKD EMLRMMPECRHYFHLCC+D+WLKLNGSCPVCRNSPLPTPLSTP
Sbjct: 105 ---NTTCSICLCEYKDSEMLRMMPECRHYFHLCCLDSWLKLNGSCPVCRNSPLPTPLSTP 161

Query: 181 LQEVVPLSQYAADRRRR 197
           LQEVVPLSQYAADRRRR
Sbjct: 162 LQEVVPLSQYAADRRRR 178

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531933|ref|XP_003534530.1| PREDICTED: RING-H2 finger protein ATL68-like [Glycine max]

 Score =  228 bits (582), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 125/187 (66%), Positives = 148/187 (79%), Gaps = 15/187 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
           ++  ++GLGYSIAIAL FL LLST+LL+SY+CCR     HN     H    + S+ GI+L
Sbjct: 11  DHFPHLGLGYSIAIALAFLFLLSTLLLSSYLCCR-----HNRRRLRHTTAAATSDGGIVL 65

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSI 129
           PR+IFVAED+        +D ++ VG DQ+VINSYP+FQF +++     N+N INTTCSI
Sbjct: 66  PRVIFVAEDE-------DEDGSVAVGFDQSVINSYPRFQFNRDNA---RNNNIINTTCSI 115

Query: 130 CLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQ 189
           CLCEYKD EMLRMMPECRHYFHLCC+D+WLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQ
Sbjct: 116 CLCEYKDSEMLRMMPECRHYFHLCCLDSWLKLNGSCPVCRNSPLPTPLSTPLQEVVPLSQ 175

Query: 190 YAADRRR 196
           YAADRRR
Sbjct: 176 YAADRRR 182

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15225932|ref|NP_182139.1| RING-H2 finger protein ATL67 [Arabidopsis thaliana] gi|68565091|sp|O82353.1|ATL67_ARATH RecName: Full=RING-H2 finger protein ATL67 gi|3702333|gb|AAC62890.1| hypothetical protein [Arabidopsis thaliana] gi|18491265|gb|AAL69457.1| At2g46160/T3F17.19 [Arabidopsis thaliana] gi|330255556|gb|AEC10650.1| RING-H2 finger protein ATL67 [Arabidopsis thaliana]

 Score =  222 bits (565), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 122/187 (65%), Positives = 142/187 (75%), Gaps = 15/187 (8%)

Query: 10  NYLTNIGLGYSIAIALGFLVLLSTVLLASYICCRRNNSSHNSNANPHENNNSVSNDGIIL 69
           +YLT +G GYSIAIALGFLVLLSTVLL+SYICCR +     +  +  +   SV     IL
Sbjct: 28  SYLTTLGFGYSIAIALGFLVLLSTVLLSSYICCRDSRRRTTAVESTGDRGGSV-----IL 82

Query: 70  PRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKES--VSGNNNSNNINTTC 127
           PRIIFVAE+D    N + +  ++VVGLDQAVINSYPKF F+K++   S +      +TTC
Sbjct: 83  PRIIFVAEED----NEDLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTC 138

Query: 128 SICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP----TPLSTPLQE 183
           SICLCEYK+ EMLRMMPEC+HYFHLCC+DAWLKLNGSCPVCRNSPLP    TPLSTPL E
Sbjct: 139 SICLCEYKEAEMLRMMPECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTSTPLSTPLSE 198

Query: 184 VVPLSQY 190
           VVPLSQY
Sbjct: 199 VVPLSQY 205

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	197
TAIR|locus:2062892	214	AT2G46160 [Arabidopsis thalian	0.944	0.869	0.482	3.2e-42
TAIR|locus:2082762	212	AT3G61550 [Arabidopsis thalian	0.949	0.882	0.472	1.4e-41
TAIR|locus:2169399	159	AT5G07040 [Arabidopsis thalian	0.461	0.572	0.336	1.1e-15
TAIR|locus:2144088	197	AT5G06490 [Arabidopsis thalian	0.903	0.903	0.281	6.9e-15
TAIR|locus:2039170	217	AT2G35910 [Arabidopsis thalian	0.497	0.451	0.390	3.8e-14
TAIR|locus:2044742	302	AT2G34990 [Arabidopsis thalian	0.365	0.238	0.430	7.3e-12
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.411	0.270	0.406	9.2e-12
TAIR|locus:2173772	376	AT5G40250 [Arabidopsis thalian	0.375	0.196	0.4	3.9e-11
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.507	0.309	0.351	4.3e-11
TAIR|locus:2040085	377	AT2G25410 [Arabidopsis thalian	0.375	0.196	0.415	6.5e-11

TAIR|locus:2062892 AT2G46160 [Arabidopsis thaliana (taxid:3702)]

 Score = 447 (162.4 bits), Expect = 3.2e-42, P = 3.2e-42
 Identities = 97/201 (48%), Positives = 112/201 (55%)

Query:     2 STPATPSPNYLTNIGLGYSIAIXXXXXXXXXXXXXXXYICCRRXXXXXXXXXXXXXXXXX 61
             S P   + +YLT +G GYSIAI               YICCR                  
Sbjct:    20 SPPQAGNHSYLTTLGFGYSIAIALGFLVLLSTVLLSSYICCR-----DSRRRTTAVESTG 74

Query:    62 XXXDGIILPRIIFVAEDDGQEENRNQDDDNLVVGLDQAVINSYPKFQFTKES--VSGXXX 119
                  +ILPRIIFVAE+D    N + +  ++VVGLDQAVINSYPKF F+K++   S    
Sbjct:    75 DRGGSVILPRIIFVAEED----NEDLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGF 130

Query:   120 XXXXXXXXXXXLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNXX----XXX 175
                        LCEYK+ EMLRMMPEC+HYFHLCC+DAWLKLNGSCPVCRN         
Sbjct:   131 GGGGDTTCSICLCEYKEAEMLRMMPECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTST 190

Query:   176 XXXXXXQEVVPLSQYAADRRR 196
                    EVVPLSQYAADRRR
Sbjct:   191 PLSTPLSEVVPLSQYAADRRR 211

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

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2082762 AT3G61550 [Arabidopsis thaliana (taxid:3702)]

 Score = 441 (160.3 bits), Expect = 1.4e-41, P = 1.4e-41
 Identities = 96/203 (47%), Positives = 109/203 (53%)

Query:     4 PATPSPNYLTNIGLGYSIAIXXXXXXXXXXXXXXXYICCRRXXXXXXXXXXXXXXXXXXX 63
             P  P P Y+T++GLGYSIAI               YICCR                    
Sbjct:    13 PPVPIPTYITSLGLGYSIAIALGFLVLISTIILSSYICCRASRLRFSASAANANANASFS 72

Query:    64 XDGIILPRIIFVAEDDGQEENRNQDDDNLVVG-LDQAVINSYPKFQFTKESVS-----GX 117
               G+I+PRIIFVAEDD  E        N+VVG LD +VINSYPKF FTK+  +     G 
Sbjct:    73 DRGVIVPRIIFVAEDDDLESG------NVVVGGLDHSVINSYPKFHFTKDITAVVNGDGF 126

Query:   118 XXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNXXX---- 173
                          LCEY + EMLRMMPEC+HYFH+ C+DAWLKLNGSCPVCRN       
Sbjct:   127 HDGEGRETTCSICLCEYMEEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQ 186

Query:   174 XXXXXXXXQEVVPLSQYAADRRR 196
                      EVVPLSQYAADRRR
Sbjct:   187 STPQSTPLSEVVPLSQYAADRRR 209

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2169399 AT5G07040 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 1.1e-15, Sum P(2) = 1.1e-15
 Identities = 32/95 (33%), Positives = 46/95 (48%)

Query:    94 VGLDQAVINSYPKFQFTKESVSGXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYFHLC 153
             +GLD+ VI SYP+                        LC+Y+  E +R +PEC H FH  
Sbjct:    65 LGLDRPVIESYPRIVLG----DSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTD 120

Query:   154 CVDAWLKLNGSCPVCRNXXXXXXXXXXXQEVVPLS 188
             CVD WL+ + +CP+CRN            ++VPL+
Sbjct:   121 CVDEWLRTSATCPLCRNSPAPSRLATPLSDLVPLA 155

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2144088 AT5G06490 [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 56/199 (28%), Positives = 80/199 (40%)

Query:     2 STPATP-SPNYLTNI----GLGYSIAIXXXXXXXXXXXXXXXYICCRRXXXXXXXXXXXX 56
             +T   P S ++LTN     GL Y I +               Y C R             
Sbjct:     3 ATVVPPYSGHWLTNTDRMGGLAYGIGVSIGILMLITTITLTSYYCTR-SHISASPTTTPR 61

Query:    57 XXXXXXXXDGIILPRIIFVAEDDGQEENRNQDD--DNLVV---GLDQAVINSYPKFQFTK 111
                     +G + P         GQE    +DD  D +VV   GL + VI  +PK  + +
Sbjct:    62 TRRRQRESNGTLPP---------GQERFDFEDDESDTVVVEVLGLTEEVIKGFPKLPYEE 112

Query:   112 ESVS-GXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN 170
               VS                L +YK ++M+R++P+C H FH  CVD WL+L+ +CPVCR 
Sbjct:   113 ARVSYSLQKESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDNCVDPWLRLHPTCPVCRT 172

Query:   171 XXXXXXXXXXXQEVVPLSQ 189
                         +VVP S+
Sbjct:   173 SPLPSPAMTPVADVVPFSR 191

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2039170 AT2G35910 [Arabidopsis thaliana (taxid:3702)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 41/105 (39%), Positives = 54/105 (51%)

Query:    91 NLVVGLDQAVINSYPKFQFTKESVSGXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYF 150
             ++V GLD+  I SYPK  +++    G              L +YK   +LR +P+C H F
Sbjct:   117 DVVPGLDEDTIQSYPKILYSE--AKGPTTASCCAIC----LGDYKGKHLLRQLPDCNHLF 170

Query:   151 HLCCVDAWLKLNGSCPVCRNXXXXXXXXXXXQEVVPL-SQYAADR 194
             HL C+D WL+LN +CPVCR             EVVPL S  AA R
Sbjct:   171 HLKCIDTWLRLNPTCPVCRTSPLPTPLSTPLAEVVPLASSVAATR 215

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2044742 AT2G34990 [Arabidopsis thaliana (taxid:3702)]

 Score = 164 (62.8 bits), Expect = 7.3e-12, P = 7.3e-12
 Identities = 34/79 (43%), Positives = 46/79 (58%)

Query:    93 VVGLDQAVINSYPKFQFT--KESVSGXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYF 150
             V GLD+A+INS+P F ++  KE   G              +CE++D E LR+MPEC H F
Sbjct:    65 VRGLDEAIINSFPTFLYSEVKERRIGIGGVECAVC-----ICEFEDHETLRLMPECCHVF 119

Query:   151 HLCCVDAWLKLNGSCPVCR 169
             H  CV  WL  + +CP+CR
Sbjct:   120 HADCVSVWLSDHSTCPLCR 138

GO:0005576 "extracellular region" evidence=ISM

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

GO:0006863 "purine nucleobase transport" evidence=RCA

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

 Score = 163 (62.4 bits), Expect = 9.2e-12, P = 9.2e-12
 Identities = 37/91 (40%), Positives = 46/91 (50%)

Query:    84 NRNQDDDNLVV--GLDQAVINSYPKFQFTKESVSGXXXXXXXXXXXXXXLC--EYKDLEM 139
             N  Q    +VV  GLDQ+ I SY K +       G              +C  EY   E 
Sbjct:   212 NTTQQPRGVVVTTGLDQSTIESYKKVEL------GESRRLPGTNGIICPICLSEYASKET 265

Query:   140 LRMMPECRHYFHLCCVDAWLKLNGSCPVCRN 170
             +R MPEC H FH+ C+D WLK++ SCPVCRN
Sbjct:   266 VRCMPECDHCFHVQCIDEWLKIHSSCPVCRN 296

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2173772 AT5G40250 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 3.9e-11, P = 3.9e-11
 Identities = 32/80 (40%), Positives = 44/80 (55%)

Query:    95 GLDQAVINSYPKFQFTKESVS-----GXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHY 149
             GLDQA I++ P F + KE V      G              LCE+ + + LR++P C H 
Sbjct:   107 GLDQAFIDALPVFHY-KEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEKDKLRLLPMCSHA 165

Query:   150 FHLCCVDAWLKLNGSCPVCR 169
             FHL C+D WL+ N +CP+CR
Sbjct:   166 FHLNCIDTWLQSNSTCPLCR 185

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2140069 AT4G40070 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 4.3e-11, P = 4.3e-11
 Identities = 38/108 (35%), Positives = 53/108 (49%)

Query:    84 NRNQDDDNLVVGLDQAVINSYPKFQFT--KESVSGXXXXXXXXXXXXXXLCEYKDLEMLR 141
             NR  D  +   GLD AV+ S+P F ++  KES  G              L E +D E +R
Sbjct:    84 NRANDGSSRRGGLDNAVVESFPVFAYSSVKESKIGSKDLECAIC-----LNELEDHETVR 138

Query:   142 MMPECRHYFHLCCVDAWLKLNGSCPVCR-NXXXXXXXXXXXQEVVPLS 188
             ++P C H FH+ C+D WL  + +CPVCR N            + VPL+
Sbjct:   139 LLPICNHLFHIDCIDTWLYSHATCPVCRSNLTAKSNKPGDEDDGVPLA 186

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2040085 AT2G25410 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 6.5e-11, P = 6.5e-11
 Identities = 32/77 (41%), Positives = 42/77 (54%)

Query:    94 VGLDQAVINSYPKFQFTKESVSGXXXXXXXXXXXXXXLCEYKDLEMLRMMPECRHYFHLC 153
             +GLD++ I SY K +  +   S               L EY   E +R +PEC H FH  
Sbjct:   297 IGLDESTIESYKKVELGE---SRRLPTGSNDVVCPICLSEYATKETVRCLPECEHCFHTE 353

Query:   154 CVDAWLKLNGSCPVCRN 170
             C+DAWLKL+ SCPVCR+
Sbjct:   354 CIDAWLKLHSSCPVCRS 370

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M313	ATL68_ARATH	No assigned EC number	0.6294	0.9187	0.8537	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	197
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-05
smart00184	40	smart00184, RING, Ring finger	5e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	8e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	0.002
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.004

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

 Score = 59.3 bits (144), Expect = 1e-12
 Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 1/44 (2%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
            C ICL E++  E + ++P C H FH  C+D WL+ + +CP+CR
Sbjct: 2   ECPICLDEFEPGEEVVVLP-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 = 50.9 bits (122), Expect = 2e-09
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 4/45 (8%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCR 169
            C ICL E+++     ++  C H F   C+D WLK    +CP+CR
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 49.0 bits (117), Expect = 2e-08
 Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 126 TCSICLCEYKDLEMLRMMP---------ECRHYFHLCCVDAWLKLNGSCPVCR 169
            C+IC   +         P         EC H FHL C+  WLK   +CP+CR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 46.5 bits (110), Expect = 2e-06
 Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 3/51 (5%)

Query: 127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL-KLNGSCPVCRNSPLPTP 176
           C+IC+  +   + LR++P C H FH+ CVD WL   +  CPVCR + +P P
Sbjct: 326 CAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCR-TAIPPP 374

Length = 374

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
              C ICL   +D   + + P C H F   C+  +LK    CP+CR
Sbjct: 2   ELECPICLDLLRD--PVVLTP-CGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 127 CSICLCEYKDLEMLRM----MPECRHYFHLCCVDAWLKLNGSCPVCRN 170
           C+IC+ +  D E+  M    +  C H F + C+D W K   +CPVCR 
Sbjct: 177 CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

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

 Score = 39.0 bits (91), Expect = 5e-05
 Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVC 168
           C ICL EY  L+   ++P C H F   C+  WL+  N +CP+C
Sbjct: 1   CPICLEEY--LKDPVILP-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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 35.5 bits (82), Expect = 8e-04
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)

Query: 127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVC 168
           C ICL E KD      +  C H F   C+ +WL+    +CP+C
Sbjct: 1   CPICLEEPKDPVT---ILPCGHLFCSKCILSWLESGNVTCPLC 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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 38.0 bits (88), Expect = 0.002
 Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 9/59 (15%)

Query: 122 NINTTCSICLCE---------YKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
           N + TC+IC+ E          + L+M      C H  HL C+  WL+   +CP+CR  
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRP 343

Length = 491

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

 Score = 35.2 bits (81), Expect = 0.004
 Identities = 11/24 (45%), Positives = 13/24 (54%)

Query: 146 CRHYFHLCCVDAWLKLNGSCPVCR 169
           C H FH  C+  WL   G CP+ R
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	197
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.85
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.68
PHA02929	238	N1R/p28-like protein; Provisional	99.52
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.5
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.48
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.29
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.22
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.21
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.2
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.18
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.14
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.08
PHA02926	242	zinc finger-like protein; Provisional	99.07
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.06
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.03
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.0
PF14634	44	zf-RING_5: zinc-RING finger domain	99.0
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.99
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.93
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.89
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.87
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.78
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.77
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.65
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.61
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.59
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.57
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.48
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.39
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.33
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.3
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.26
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.2
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.18
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.16
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.16
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.15
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.13
KOG4445	368	consensus Uncharacterized conserved protein, conta	98.08
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.08
KOG0825	1134	consensus PHD Zn-finger protein [General function	98.01
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.98
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.89
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.75
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.7
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.64
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.58
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.47
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.44
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.42
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.39
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.38
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.34
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.2
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.89
KOG2660	331	consensus Locus-specific chromosome binding protei	96.87
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.85
PHA02862	156	5L protein; Provisional	96.74
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.72
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.7
COG5152	259	Uncharacterized conserved protein, contains RING a	96.7
PHA03096	284	p28-like protein; Provisional	96.59
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.5
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.39
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.37
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.13
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.04
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.03
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.75
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.7
KOG4739	233	consensus Uncharacterized protein involved in syna	95.69
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.58
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	95.32
PF15102	146	TMEM154: TMEM154 protein family	95.25
PF04641	260	Rtf2: Rtf2 RING-finger	94.84
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.71
KOG1940	276	consensus Zn-finger protein [General function pred	94.64
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.47
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	94.43
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.27
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	94.16
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.12
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.99
PF12273	130	RCR: Chitin synthesis regulation, resistance to Co	93.91
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.77
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.65
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.39
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.38
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	93.31
KOG3053	293	consensus Uncharacterized conserved protein [Funct	93.23
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.89
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	92.04
PF05568	189	ASFV_J13L: African swine fever virus J13L protein;	92.02
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	91.99
KOG3002	299	consensus Zn finger protein [General function pred	91.99
KOG1609	323	consensus Protein involved in mRNA turnover and st	91.93
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.89
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.87
PF13908	179	Shisa: Wnt and FGF inhibitory regulator	91.17
PF08693	40	SKG6: Transmembrane alpha-helix domain; InterPro:	90.99
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	90.8
PHA02650	81	hypothetical protein; Provisional	90.73
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.42
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.32
PHA02844	75	putative transmembrane protein; Provisional	90.23
PF06024	101	DUF912: Nucleopolyhedrovirus protein of unknown fu	90.09
KOG3899	381	consensus Uncharacterized conserved protein [Funct	89.79
PHA02819	71	hypothetical protein; Provisional	88.84
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	87.86
PF15176	102	LRR19-TM: Leucine-rich repeat family 19 TM domain	87.61
PF02480	439	Herpes_gE: Alphaherpesvirus glycoprotein E; InterP	87.46
PF04478	154	Mid2: Mid2 like cell wall stress sensor; InterPro:	87.4
PF07010	259	Endomucin: Endomucin; InterPro: IPR010740 This fam	86.62
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	86.56
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	86.55
PF12273	130	RCR: Chitin synthesis regulation, resistance to Co	85.94
PHA03054	72	IMV membrane protein; Provisional	85.1
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	84.42
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	84.3
PTZ00370	296	STEVOR; Provisional	84.2
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	84.0
KOG0269	839	consensus WD40 repeat-containing protein [Function	83.2
KOG1829	580	consensus Uncharacterized conserved protein, conta	82.93
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	82.9
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	82.84
KOG3005	276	consensus GIY-YIG type nuclease [General function	82.78
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	81.94
PHA02975	69	hypothetical protein; Provisional	81.51
PF06365	202	CD34_antigen: CD34/Podocalyxin family; InterPro: I	81.38
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	81.25
PF02060	129	ISK_Channel: Slow voltage-gated potassium channel;	81.07
KOG0825	1134	consensus PHD Zn-finger protein [General function	80.93
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	80.9
PF14575	75	EphA2_TM: Ephrin type-A receptor 2 transmembrane d	80.51
PF13209	60	DUF4017: Protein of unknown function (DUF4017)	80.05

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

Probab=99.85  E-value=1.6e-21  Score=166.20  Aligned_cols=85  Identities=35%  Similarity=0.772  Sum_probs=68.6

Q ss_pred             CCCHHHHhcCCCeeeccccccCCCCCCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCC-CcccCCCCC
Q 029203           95 GLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGS-CPVCRNSPL  173 (197)
Q Consensus        95 ~l~~~~~~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~t-CPlCR~~l~  173 (197)
                      .+.+..++++|...|.+....     .. ...|+||||+|++||++|.|| |+|.||..|||+||..+.+ ||+||.++.
T Consensus       206 r~~k~~l~~~p~~~f~~~~~~-----~~-~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  206 RLIKRLLKKLPVRTFTKGDDE-----DA-TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             hhHHHHHhhCCcEEecccccc-----CC-CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            477889999999999877431     12 279999999999999999999 9999999999999988765 999999886


Q ss_pred             CCCCCCCCccccc
Q 029203          174 PTPLSTPLQEVVP  186 (197)
Q Consensus       174 ~~~~~~~~~~~~~  186 (197)
                      .......-.|-+|
T Consensus       279 ~~~~~~~~~e~tp  291 (348)
T KOG4628|consen  279 TDSGSEPVSEDTP  291 (348)
T ss_pred             CCCCCCCccCCCc
Confidence            6544444344333

>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=99.68  E-value=1.2e-17  Score=102.66  Aligned_cols=44  Identities=52%  Similarity=1.174  Sum_probs=40.6

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccC
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR  169 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR  169 (197)
                      .+|+||+++|.+++.+..++ |+|.||.+||.+|++.+.+||+||
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            37999999999999999999 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.52  E-value=8.7e-15  Score=119.89  Aligned_cols=77  Identities=25%  Similarity=0.584  Sum_probs=58.1

Q ss_pred             CCCCCHHHHhcCCCeeeccccccCCCCCCCCCCccccccccccCCc----ceeecCCCCCccchhhHHHHhhCCCCCccc
Q 029203           93 VVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLE----MLRMMPECRHYFHLCCVDAWLKLNGSCPVC  168 (197)
Q Consensus        93 ~~~l~~~~~~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~~----~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlC  168 (197)
                      .++.....++.+|.+........    ....+.+|+|||+.+.++.    .+.+++.|+|.||.+||.+|+..+.+||+|
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~----~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlC  222 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLY----NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVC  222 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhh----cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCC
Confidence            35557888889998765433211    2345689999999987653    233455599999999999999999999999


Q ss_pred             CCCCC
Q 029203          169 RNSPL  173 (197)
Q Consensus       169 R~~l~  173 (197)
                      |..+.
T Consensus       223 R~~~~  227 (238)
T PHA02929        223 RTPFI  227 (238)
T ss_pred             CCEee
Confidence            99764

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

Probab=99.50  E-value=1.2e-14  Score=120.72  Aligned_cols=51  Identities=41%  Similarity=1.046  Sum_probs=47.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhh-CCCCCcccCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~  174 (197)
                      .+.+|+|||++|..+|++++|| |.|.||..|+++|+. .+..||+||..+.|
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3589999999999999999999 999999999999998 56689999998865

>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=99.48  E-value=2.7e-14  Score=97.05  Aligned_cols=45  Identities=40%  Similarity=0.993  Sum_probs=36.1

Q ss_pred             CCccccccccccCC----------cceeecCCCCCccchhhHHHHhhCCCCCcccC
Q 029203          124 NTTCSICLCEYKDL----------EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR  169 (197)
Q Consensus       124 ~~~CaICL~~~~~~----------~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR  169 (197)
                      +..|+||+++|.+.          -.+...+ |||.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            45699999999322          2455556 999999999999999999999998

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 ....

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

Probab=99.29  E-value=2.4e-12  Score=109.75  Aligned_cols=53  Identities=34%  Similarity=0.901  Sum_probs=44.2

Q ss_pred             CCCCCcccccccc-ccCCc---------ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          121 NNINTTCSICLCE-YKDLE---------MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       121 ~~~~~~CaICL~~-~~~~~---------~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...+..|+|||++ |..+.         +-..|| |||+||-+|+..|+++++|||+||.++.-
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            4557899999999 44431         346788 99999999999999999999999999653

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

Probab=99.22  E-value=7.2e-12  Score=103.75  Aligned_cols=52  Identities=29%  Similarity=0.756  Sum_probs=45.0

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ......|.+||+...+.   .-+| |||+||..||..|...+..||+||.+.-|+.
T Consensus       236 ~~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            44568999999997666   5777 9999999999999999999999999887654

>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=99.21  E-value=1.2e-11  Score=74.85  Aligned_cols=44  Identities=43%  Similarity=1.092  Sum_probs=37.2

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSP  172 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l  172 (197)
                      +|+||++.+  .+.+..++ |+|.||..|++.|++. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  34556666 9999999999999987 77899999764

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.20  E-value=1.4e-11  Score=97.57  Aligned_cols=51  Identities=27%  Similarity=0.669  Sum_probs=40.9

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----------------CCCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----------------NGSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----------------~~tCPlCR~~l~~~  175 (197)
                      .....+|+||++.+.+.   .+++ |||.||..||..|+..                +.+||+||..+...
T Consensus        15 ~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         15 SGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            34568999999998765   4566 9999999999999852                34799999988554

>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=99.18  E-value=1.6e-11  Score=73.26  Aligned_cols=39  Identities=44%  Similarity=1.031  Sum_probs=33.3

Q ss_pred             cccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCccc
Q 029203          127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlC  168 (197)
                      |+||++.+.+  .+..++ |||.|+.+||..|++.+.+||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998877  556777 99999999999999998899998

>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=99.14  E-value=2.6e-11  Score=76.25  Aligned_cols=46  Identities=33%  Similarity=0.832  Sum_probs=38.7

Q ss_pred             CCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      +..|.||++...+   +..+| |||. |+..|+..|+....+||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4689999998544   67788 9999 999999999999999999999873

...

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

Probab=99.08  E-value=6e-11  Score=95.65  Aligned_cols=51  Identities=31%  Similarity=0.649  Sum_probs=40.6

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC---CCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN---GSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l~~~  175 (197)
                      ....++|.|||+.-++.  | ++. |||+||+.||-+||..+   +.||+||..|..+
T Consensus        44 ~~~~FdCNICLd~akdP--V-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--V-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCCceeeeeeccccCCC--E-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            46679999999985554  4 444 99999999999999654   3689999987544

>PHA02926 zinc finger-like protein; Provisional

Probab=99.07  E-value=8.8e-11  Score=94.26  Aligned_cols=52  Identities=23%  Similarity=0.721  Sum_probs=40.2

Q ss_pred             CCCCCccccccccccCC-----cceeecCCCCCccchhhHHHHhhCC------CCCcccCCCC
Q 029203          121 NNINTTCSICLCEYKDL-----EMLRMMPECRHYFHLCCVDAWLKLN------GSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~-----~~vr~l~~C~H~FH~~CI~~Wl~~~------~tCPlCR~~l  172 (197)
                      .+.+.+|+||||..-+.     ..-.+|++|+|.||..||..|...+      .+||+||..+
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            34568999999986432     1234666799999999999999753      3599999965

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

Probab=99.06  E-value=8.3e-11  Score=91.23  Aligned_cols=56  Identities=25%  Similarity=0.520  Sum_probs=46.3

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ....-..|+|||+.|.+...+  ..+|||+||+.||..-++...+||+|++.|..+.+
T Consensus       127 ~~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             ccccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            344558999999999887553  23599999999999999999999999998876544

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

Probab=99.03  E-value=1.7e-10  Score=79.76  Aligned_cols=49  Identities=33%  Similarity=0.822  Sum_probs=38.0

Q ss_pred             CCCcccccccccc--------CCc--ceeecCCCCCccchhhHHHHhhC---CCCCcccCCCC
Q 029203          123 INTTCSICLCEYK--------DLE--MLRMMPECRHYFHLCCVDAWLKL---NGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~--------~~~--~vr~l~~C~H~FH~~CI~~Wl~~---~~tCPlCR~~l  172 (197)
                      .++.|.||...|+        +||  .+..- .|+|.||..||.+||..   +.+||+||+..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g-~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWG-KCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeec-cCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            3778999999986        222  23333 49999999999999975   46899999865

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

Probab=99.00  E-value=1.2e-10  Score=106.58  Aligned_cols=54  Identities=30%  Similarity=0.699  Sum_probs=46.9

Q ss_pred             CCCCccccccccccCCcc--eeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEM--LRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~--vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      .....|.||+|++..+..  ...++ |+|+||..|+..|+++.++||.||..+....
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYV  344 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence            347899999999998765  67888 9999999999999999999999999665443

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.00  E-value=3.3e-10  Score=69.35  Aligned_cols=44  Identities=30%  Similarity=0.754  Sum_probs=38.5

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      .|.||++.|.+....++++ |||+|+..|+..+......||+||+
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            5999999996666788887 9999999999999866779999985

>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=98.99  E-value=2.8e-10  Score=68.43  Aligned_cols=39  Identities=38%  Similarity=1.008  Sum_probs=33.8

Q ss_pred             cccccccccCCcceeecCCCCCccchhhHHHHhh--CCCCCccc
Q 029203          127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK--LNGSCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~--~~~tCPlC  168 (197)
                      |+||++.+.+..  ..++ |||.|+..||.+|++  ....||+|
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            899999988764  5677 999999999999998  45589998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>smart00184 RING Ring finger

Probab=98.93  E-value=7.2e-10  Score=64.63  Aligned_cols=38  Identities=47%  Similarity=1.142  Sum_probs=32.3

Q ss_pred             cccccccccCCcceeecCCCCCccchhhHHHHhh-CCCCCccc
Q 029203          127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlC  168 (197)
                      |+||++.   ......++ |+|.||..|++.|++ .+.+||+|
T Consensus         1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899998   34567777 999999999999998 66689987

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)

>smart00504 Ubox Modified RING finger domain

Probab=98.89  E-value=1.9e-09  Score=70.55  Aligned_cols=47  Identities=23%  Similarity=0.421  Sum_probs=40.6

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ..|+||++.+.++   ..++ |||.|+..||.+|+..+.+||+|+..+..+
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~   48 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE   48 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence            5799999998876   4567 999999999999999889999999877443

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=98.87  E-value=1.4e-09  Score=65.98  Aligned_cols=38  Identities=42%  Similarity=0.881  Sum_probs=29.3

Q ss_pred             cccccccccCCcceeecCCCCCccchhhHHHHhhCC----CCCccc
Q 029203          127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN----GSCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~----~tCPlC  168 (197)
                      |+||++.|.+.   ..|+ |||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999988   4666 99999999999999654    369988

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.78  E-value=5.3e-09  Score=91.65  Aligned_cols=54  Identities=24%  Similarity=0.531  Sum_probs=44.9

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~  178 (197)
                      ......|+||++.|...   .+++ |||.||..||..|+.....||+||..+....+.
T Consensus        23 Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr   76 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLR   76 (397)
T ss_pred             cccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccCc
Confidence            34568999999999765   3567 999999999999999888999999987654443

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

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

Probab=98.77  E-value=1.2e-09  Score=89.84  Aligned_cols=55  Identities=20%  Similarity=0.532  Sum_probs=45.4

Q ss_pred             CCCCCccccccccccCCc-------ceeecCCCCCccchhhHHHHh--hCCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLE-------MLRMMPECRHYFHLCCVDAWL--KLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~-------~vr~l~~C~H~FH~~CI~~Wl--~~~~tCPlCR~~l~~~~  176 (197)
                      .-++..|+||-..+....       +...|. |+|.||..||.-|-  -.+++||+||..+..+.
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r  284 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR  284 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence            446789999999887655       677887 99999999999997  56779999999885543

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

Probab=98.65  E-value=1.9e-08  Score=62.93  Aligned_cols=42  Identities=33%  Similarity=0.881  Sum_probs=32.4

Q ss_pred             ccccccccccCCcceeecCCCC-----CccchhhHHHHhhCC--CCCcccC
Q 029203          126 TCSICLCEYKDLEMLRMMPECR-----HYFHLCCVDAWLKLN--GSCPVCR  169 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~-----H~FH~~CI~~Wl~~~--~tCPlCR  169 (197)
                      .|.||++. .+++....+| |.     |.||..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48999994 3344445778 85     999999999999654  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

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

Probab=98.62  E-value=4.7e-08  Score=86.39  Aligned_cols=53  Identities=30%  Similarity=0.696  Sum_probs=41.2

Q ss_pred             CCCCCccccccccccCCc---c-----------eeecCCCCCccchhhHHHHhh-CCCCCcccCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLE---M-----------LRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNSPLP  174 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~---~-----------vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~  174 (197)
                      ......|+|||.+++-..   .           -..+| |.|+||..|+..|.. .+-.||.||.+|.+
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            445679999999875222   1           22457 999999999999998 55599999998854

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

Probab=98.61  E-value=1.9e-08  Score=82.61  Aligned_cols=52  Identities=33%  Similarity=0.723  Sum_probs=42.8

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHH-HhhCCCC-CcccCCCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDA-WLKLNGS-CPVCRNSPLPTPL  177 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~-Wl~~~~t-CPlCR~~l~~~~~  177 (197)
                      ..+..|+||++.....   ..++ |||+||..||.. |-.++.- ||+||+.+-|+..
T Consensus       213 ~~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            4578999999986665   5666 999999999999 8877765 9999998877543

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

Probab=98.59  E-value=3.9e-08  Score=66.56  Aligned_cols=28  Identities=39%  Similarity=0.904  Sum_probs=26.1

Q ss_pred             CCCCccchhhHHHHhhCCCCCcccCCCC
Q 029203          145 ECRHYFHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       145 ~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      .|+|.||..||.+||..+..||++|+..
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w   80 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTW   80 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence            3999999999999999999999999865

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

Probab=98.57  E-value=1.4e-08  Score=68.18  Aligned_cols=48  Identities=35%  Similarity=0.813  Sum_probs=35.9

Q ss_pred             CCcccccccccc--------CCc--ceeecCCCCCccchhhHHHHhhC---CCCCcccCCCC
Q 029203          124 NTTCSICLCEYK--------DLE--MLRMMPECRHYFHLCCVDAWLKL---NGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~--------~~~--~vr~l~~C~H~FH~~CI~~Wl~~---~~tCPlCR~~l  172 (197)
                      ++.|-||...|+        ++|  .+..- .|.|.||..||.+|+..   +..||+||+..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWG-YCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHH-HHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            458999998885        333  23222 49999999999999954   45799999864

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

Probab=98.48  E-value=9.7e-08  Score=58.04  Aligned_cols=38  Identities=32%  Similarity=0.673  Sum_probs=22.3

Q ss_pred             cccccccccCCc-ceeecCCCCCccchhhHHHHhhCC----CCCc
Q 029203          127 CSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLKLN----GSCP  166 (197)
Q Consensus       127 CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~~~----~tCP  166 (197)
                      |+||.+ |...+ .-.+|+ |||.|+.+||.+|+...    .+||
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 86544 446788 99999999999999743    2687

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

Probab=98.40  E-value=1.6e-07  Score=83.48  Aligned_cols=51  Identities=27%  Similarity=0.535  Sum_probs=39.6

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhC-----CCCCcccCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-----NGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-----~~tCPlCR~~l~~~~~~  178 (197)
                      +..|+|||++....   ..+ .|||+||..||.+++..     ...||+||..+-++.+.
T Consensus       186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            67999999986554   233 49999999999998743     34899999988775443

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

Probab=98.39  E-value=7e-08  Score=64.94  Aligned_cols=49  Identities=31%  Similarity=0.722  Sum_probs=23.5

Q ss_pred             CCccccccccccCCcc--eeec--CCCCCccchhhHHHHhhC----C-------CCCcccCCCC
Q 029203          124 NTTCSICLCEYKDLEM--LRMM--PECRHYFHLCCVDAWLKL----N-------GSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~--vr~l--~~C~H~FH~~CI~~Wl~~----~-------~tCPlCR~~l  172 (197)
                      +.+|.||++.+.+++.  ..+.  +.|++.||..|+.+||..    +       .+||.|+.+|
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            4689999998763332  2333  269999999999999942    1       2699999876

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

Probab=98.33  E-value=2.5e-07  Score=62.70  Aligned_cols=51  Identities=22%  Similarity=0.412  Sum_probs=38.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      +.+.|+|+.+-+.+.   .+++ +||.|.+.||..|+.. +.+||+|+..+....+
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l   54 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDL   54 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred             cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence            357999999998887   4667 9999999999999988 7899999988765443

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.30  E-value=6.9e-07  Score=75.77  Aligned_cols=54  Identities=26%  Similarity=0.583  Sum_probs=40.3

Q ss_pred             CCcccccccc-ccCCc-ceeecCCCCCccchhhHHHHh-hCCCCCcccCCCCCCCCCC
Q 029203          124 NTTCSICLCE-YKDLE-MLRMMPECRHYFHLCCVDAWL-KLNGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       124 ~~~CaICL~~-~~~~~-~vr~l~~C~H~FH~~CI~~Wl-~~~~tCPlCR~~l~~~~~~  178 (197)
                      +..|+||+.+ |...+ ++.+.+ |||.||..|++..+ .....||.|+..+-...+.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr   59 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR   59 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence            4689999996 44444 333445 99999999999965 4456899999988776654

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=98.26  E-value=2.9e-07  Score=78.21  Aligned_cols=53  Identities=25%  Similarity=0.582  Sum_probs=45.4

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~  178 (197)
                      +.-..|.||.+-|...   ..+| |+|-||.-||..+|..+..||.|+..+-.+.+.
T Consensus        21 D~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR   73 (442)
T ss_pred             HHHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence            3457999999999887   5667 999999999999999999999999987665554

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

Probab=98.20  E-value=8e-07  Score=63.11  Aligned_cols=48  Identities=29%  Similarity=0.652  Sum_probs=35.6

Q ss_pred             CCcccccccccc-------------CCc-ceeecCCCCCccchhhHHHHhhCCCCCcccCCCC
Q 029203          124 NTTCSICLCEYK-------------DLE-MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~-------------~~~-~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      -+.|+||...+-             .++ .|.-- .|+|.||..||.+||+.+..||||.++-
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG-~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWG-VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEee-ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            568998865541             111 23333 4999999999999999999999997653

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

Probab=98.18  E-value=4.4e-07  Score=85.58  Aligned_cols=53  Identities=23%  Similarity=0.635  Sum_probs=39.5

Q ss_pred             CCCCCccccccccccCCc---ceeecCCCCCccchhhHHHHhhC--CCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLE---MLRMMPECRHYFHLCCVDAWLKL--NGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~---~vr~l~~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~  173 (197)
                      .+..++||||...+..-|   +-...+.|.|-||..|+-+|++.  +.+||+||.++.
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            355789999988776222   12233459999999999999965  458999998763

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

Probab=98.16  E-value=9.8e-07  Score=73.63  Aligned_cols=51  Identities=29%  Similarity=0.613  Sum_probs=42.2

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      +.-..|-||-+-|...   ..++ |||-||.-||...|..+..||+||.+.....
T Consensus        23 Ds~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esr   73 (391)
T COG5432          23 DSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESR   73 (391)
T ss_pred             hhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence            3456899998887765   3555 9999999999999999999999999765443

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

Probab=98.16  E-value=8.4e-07  Score=73.34  Aligned_cols=46  Identities=35%  Similarity=0.735  Sum_probs=40.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      ..+...|+||++.|.+.   ..++ |+|.|+..||..|+.....||.||.
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   7888 9999999999999985558999993

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

Probab=98.15  E-value=1.2e-06  Score=76.84  Aligned_cols=52  Identities=33%  Similarity=0.735  Sum_probs=41.8

Q ss_pred             CCCCCCccccccccccCCc-ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...+..+|+||||.+.+.. .++... |.|-||..|+..|..  .+||+||.-..|
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~~--~scpvcR~~q~p  223 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWWD--SSCPVCRYCQSP  223 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeee-cccccchHHHhhccc--CcChhhhhhcCc
Confidence            5567789999999998665 445555 999999999999964  589999986654

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

Probab=98.13  E-value=1.6e-06  Score=75.31  Aligned_cols=50  Identities=32%  Similarity=0.739  Sum_probs=38.4

Q ss_pred             CCCccccccccccC-CcceeecCCCCCccchhhHHHHhhC--CCCCcccCCCC
Q 029203          123 INTTCSICLCEYKD-LEMLRMMPECRHYFHLCCVDAWLKL--NGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~-~~~vr~l~~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l  172 (197)
                      ....|+|||+.|+- ++...+.+.|||.|..+||+.||.+  ...||+|..+-
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            35799999999984 4444444459999999999999952  23699997754

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

Probab=98.08  E-value=9.4e-07  Score=73.97  Aligned_cols=53  Identities=32%  Similarity=0.803  Sum_probs=44.7

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-----------------------CCCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-----------------------NGSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-----------------------~~tCPlCR~~l~  173 (197)
                      +......|.|||.-|.+++.+.+++ |-|+||..|+.++|..                       +..||+||..+.
T Consensus       111 nn~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  111 NNHPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            4455679999999999999999999 9999999999888731                       136999999874

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

Probab=98.08  E-value=1.6e-06  Score=74.92  Aligned_cols=47  Identities=28%  Similarity=0.770  Sum_probs=35.2

Q ss_pred             CccccccccccCC-cceeecCCCCCccchhhHHHHhhCC---CCCcccCCCC
Q 029203          125 TTCSICLCEYKDL-EMLRMMPECRHYFHLCCVDAWLKLN---GSCPVCRNSP  172 (197)
Q Consensus       125 ~~CaICL~~~~~~-~~vr~l~~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l  172 (197)
                      -.|.|| +++.+. ..+.-+..|||+||..|+.+|+..-   .+||.|+-.+
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            489999 555444 3555444599999999999999653   4799999444

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

Probab=98.01  E-value=1.1e-06  Score=81.56  Aligned_cols=53  Identities=26%  Similarity=0.485  Sum_probs=45.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      .....|++||..|.++......+ |+|+||..||+.|-+.-.+||+||..+..-
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            44568999999998887777777 999999999999999999999999876443

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

Probab=97.98  E-value=1.3e-06  Score=57.06  Aligned_cols=52  Identities=25%  Similarity=0.602  Sum_probs=24.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTP  180 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~~  180 (197)
                      ...|++|.+-+.+.  |. +.+|+|+|+..||..-+.  ..||+|+.+...+.+..+
T Consensus         7 lLrCs~C~~~l~~p--v~-l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~N   58 (65)
T PF14835_consen    7 LLRCSICFDILKEP--VC-LGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQIN   58 (65)
T ss_dssp             TTS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----
T ss_pred             hcCCcHHHHHhcCC--ce-eccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhh
Confidence            46899999987765  33 335999999999988554  359999998776666544

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

Probab=97.97  E-value=3.9e-06  Score=72.49  Aligned_cols=51  Identities=29%  Similarity=0.817  Sum_probs=40.3

Q ss_pred             CCCCccccccccccCCc----ceeecCCCCCccchhhHHHHh--hC-----CCCCcccCCCC
Q 029203          122 NINTTCSICLCEYKDLE----MLRMMPECRHYFHLCCVDAWL--KL-----NGSCPVCRNSP  172 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~----~vr~l~~C~H~FH~~CI~~Wl--~~-----~~tCPlCR~~l  172 (197)
                      ..+.+|.|||+...+..    ....+|+|.|.|+..||..|-  .+     ...||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            55789999999876543    134567899999999999999  44     35799999854

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

Probab=97.93  E-value=5.4e-06  Score=71.04  Aligned_cols=48  Identities=31%  Similarity=0.755  Sum_probs=39.8

Q ss_pred             CCCCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      +...+|.|||.+-.+   +.+|| |.|. .|..|.+.---++..||+||+++.
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence            557899999998443   47899 9996 788999987667889999999874

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

Probab=97.89  E-value=1.4e-06  Score=74.36  Aligned_cols=53  Identities=32%  Similarity=0.639  Sum_probs=43.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~  175 (197)
                      ....+..|.|||+-+...   +..+.|.|.||.+||..-+.. +.+||.||+.+..+
T Consensus        39 ~~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             HhhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            345578999999998776   444569999999999998865 56899999998654

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

Probab=97.75  E-value=7.9e-06  Score=62.84  Aligned_cols=31  Identities=23%  Similarity=0.584  Sum_probs=28.5

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccch
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHL  152 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~  152 (197)
                      .++.-||.||||+++.++++..|| |-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            455689999999999999999999 9999997

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

Probab=97.70  E-value=1.3e-05  Score=74.44  Aligned_cols=51  Identities=25%  Similarity=0.570  Sum_probs=40.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhh-CCCCCcccCCCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~~~  177 (197)
                      .-..|++|-..+.+.    ++++|+|+||..||.+-+. ++..||.|...+-+..+
T Consensus       642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            356899999776663    4445999999999999884 56689999988866654

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

Probab=97.68  E-value=3.6e-05  Score=62.28  Aligned_cols=54  Identities=24%  Similarity=0.642  Sum_probs=45.2

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC--------CCCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL--------NGSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~--------~~tCPlCR~~l~~~  175 (197)
                      +.+....|..|--.+..+|.+|..  |-|+||.+|+++|-.+        ...||.|-.++.|.
T Consensus        46 DsDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   46 DSDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             hcCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            345678999999999999999864  9999999999999843        23799999888664

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

Probab=97.64  E-value=1.6e-05  Score=50.16  Aligned_cols=45  Identities=29%  Similarity=0.660  Sum_probs=32.6

Q ss_pred             CCccccccccccCCcceeecCCCCCc-cchhhHHHHh-hCCCCCcccCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWL-KLNGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl-~~~~tCPlCR~~l  172 (197)
                      ..+|.||+|.-.+.  |..  .|||. .+.+|-.+-+ ..+..||+||+++
T Consensus         7 ~dECTICye~pvds--VlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPVDS--VLY--TCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCcchH--HHH--HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            47999999974443  322  39996 5778865544 4788999999975

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

Probab=97.58  E-value=4.6e-05  Score=64.04  Aligned_cols=49  Identities=27%  Similarity=0.436  Sum_probs=39.1

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPT  175 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~  175 (197)
                      ...+|+||+....-+   ..|+ |+|.||..||.--... ..+|++||.++...
T Consensus         6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            457999999886555   4666 9999999999886654 45799999988654

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

Probab=97.47  E-value=4.1e-05  Score=66.45  Aligned_cols=48  Identities=40%  Similarity=0.818  Sum_probs=40.0

Q ss_pred             CCCCccccccccccC-CcceeecCCCCCccchhhHHHHhhCCC--CCcccCC
Q 029203          122 NINTTCSICLCEYKD-LEMLRMMPECRHYFHLCCVDAWLKLNG--SCPVCRN  170 (197)
Q Consensus       122 ~~~~~CaICL~~~~~-~~~vr~l~~C~H~FH~~CI~~Wl~~~~--tCPlCR~  170 (197)
                      +.+.-|..|=+.+-. ++.+.-|| |.|+||..|+.+.|.++.  +||-||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            346789999888864 44678898 999999999999997765  7999984

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

Probab=97.44  E-value=7.2e-05  Score=66.09  Aligned_cols=52  Identities=29%  Similarity=0.561  Sum_probs=43.6

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      .+....|++|+..+.+.-..  +. |||.|+..|+..|+..+..||.|+..+...
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             CcccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchh
Confidence            35568999999998887332  34 999999999999999999999998887654

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

Probab=97.42  E-value=4.3e-05  Score=66.48  Aligned_cols=50  Identities=26%  Similarity=0.652  Sum_probs=40.4

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC--CCCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL--NGSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~  173 (197)
                      ++..-..|-||-+.   +..|+.-| |||+.|..|+..|-..  .++||.||..+-
T Consensus       365 MgsTFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  365 MGSTFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             ccchHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            44556789999775   44677888 9999999999999844  569999999774

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

Probab=97.39  E-value=0.0001  Score=47.51  Aligned_cols=43  Identities=28%  Similarity=0.605  Sum_probs=29.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcc
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPV  167 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPl  167 (197)
                      .....|+|.+..|+++  |+-.. |+|.|-++.|.+||..+  ..||+
T Consensus         9 ~~~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            4467999999998865  55555 99999999999999443  36998

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

Probab=97.38  E-value=8.9e-05  Score=65.36  Aligned_cols=49  Identities=29%  Similarity=0.662  Sum_probs=42.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ..+++|.||+.-+.+.   ..+| |||-|+..||++-+.....||+||..+..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            5679999999988876   4667 99999999999988888889999998854

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

Probab=97.38  E-value=0.00011  Score=72.44  Aligned_cols=69  Identities=26%  Similarity=0.523  Sum_probs=50.5

Q ss_pred             hcCCCeeeccccccCCCCCCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC----------CCCcccCCC
Q 029203          102 NSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN----------GSCPVCRNS  171 (197)
Q Consensus       102 ~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~----------~tCPlCR~~  171 (197)
                      .-+|.+...+...     ..+.+..|.||+.+--.......|- |+|+||..|...-|+++          -+||+|+.+
T Consensus      3469 ~CLPCl~Cdks~t-----kQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~ 3542 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSAT-----KQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNK 3542 (3738)
T ss_pred             hcccccccChhhh-----hcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccch
Confidence            3456655444322     3556789999999877777788887 99999999998766543          279999998


Q ss_pred             CCCCC
Q 029203          172 PLPTP  176 (197)
Q Consensus       172 l~~~~  176 (197)
                      +....
T Consensus      3543 InH~~ 3547 (3738)
T KOG1428|consen 3543 INHIV 3547 (3738)
T ss_pred             hhhHH
Confidence            75543

>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=97.34  E-value=6.8e-05  Score=56.21  Aligned_cols=38  Identities=16%  Similarity=0.391  Sum_probs=30.8

Q ss_pred             CCccccccccccCCcceeecCCCC------CccchhhHHHHhhCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECR------HYFHLCCVDAWLKLN  162 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~------H~FH~~CI~~Wl~~~  162 (197)
                      ..+|+||++.+.+.+-|..++ |+      |.||.+|+.+|-..+
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            679999999999955566666 64      999999999995433

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.

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

Probab=97.20  E-value=0.00023  Score=67.06  Aligned_cols=50  Identities=30%  Similarity=0.708  Sum_probs=41.1

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-------CCCCcccCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-------NGSCPVCRN  170 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-------~~tCPlCR~  170 (197)
                      .....+|.||.+.+...+.+--...|-|+||..||..|-..       ...||.|+.
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            34567999999999988877766679999999999999953       226999984

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

Probab=96.93  E-value=0.0013  Score=54.89  Aligned_cols=52  Identities=19%  Similarity=0.438  Sum_probs=39.2

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC--CCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL--NGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~~  174 (197)
                      ......+|++|-+.=..  .....+ |+|+||.-||..=+..  ..+||.|-.++.+
T Consensus       235 ~~t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             cccCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            56778999999776333  334444 9999999999986643  3589999887764

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

Probab=96.89  E-value=0.00082  Score=41.51  Aligned_cols=41  Identities=37%  Similarity=1.010  Sum_probs=26.6

Q ss_pred             cccccccccCCcceeecC-CCC---CccchhhHHHHhh--CCCCCccc
Q 029203          127 CSICLCEYKDLEMLRMMP-ECR---HYFHLCCVDAWLK--LNGSCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~-~C~---H~FH~~CI~~Wl~--~~~tCPlC  168 (197)
                      |-||++.-.+.+.+ +.| .|.   ...|..|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            67999987776633 344 233   3789999999996  44579987

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

Probab=96.87  E-value=0.00021  Score=60.78  Aligned_cols=51  Identities=29%  Similarity=0.552  Sum_probs=43.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      .....|.+|-.-|.+...|.   .|-|-||+.||...|....+||.|...+-..
T Consensus        13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            44679999999888876554   4999999999999999999999998876444

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.85  E-value=0.0011  Score=51.14  Aligned_cols=51  Identities=24%  Similarity=0.612  Sum_probs=36.2

Q ss_pred             CCCCCCccccccccccCCcceeecC-CCCC---ccchhhHHHHhhCC--CCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMP-ECRH---YFHLCCVDAWLKLN--GSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~-~C~H---~FH~~CI~~Wl~~~--~tCPlCR~~l~~  174 (197)
                      ....+..|=||.++-.  +..  .| +|..   .-|.+|+..|+...  .+|++|+++..-
T Consensus         4 ~s~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          4 VSLMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             cCCCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3455789999998843  222  35 2444   67999999999654  479999987643

>PHA02862 5L protein; Provisional

Probab=96.74  E-value=0.00081  Score=50.92  Aligned_cols=47  Identities=19%  Similarity=0.510  Sum_probs=34.7

Q ss_pred             CCccccccccccCCcceeecCCC-----CCccchhhHHHHhhC--CCCCcccCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPEC-----RHYFHLCCVDAWLKL--NGSCPVCRNSPLPT  175 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C-----~H~FH~~CI~~Wl~~--~~tCPlCR~~l~~~  175 (197)
                      ...|=||+++-+++  +  -| |     ...-|.+|+.+|+..  +.+||+|+.+..-+
T Consensus         2 ~diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            35899999985433  3  34 5     368899999999964  44799999987443

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

Probab=96.72  E-value=0.0016  Score=55.48  Aligned_cols=48  Identities=21%  Similarity=0.445  Sum_probs=37.9

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      .......|+||+....++.-+-+   -|-+||..||..++..++.||+=-.
T Consensus       296 l~~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  296 LPPDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             CCCccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCC
Confidence            34556799999999777643322   5999999999999999999997543

>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=96.70  E-value=0.00063  Score=48.67  Aligned_cols=33  Identities=27%  Similarity=0.730  Sum_probs=28.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHH
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVD  156 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~  156 (197)
                      .....|++|-..+.. ....+.| |||+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            456789999999987 5677888 99999999975

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 [].

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

Probab=96.70  E-value=0.00088  Score=53.35  Aligned_cols=46  Identities=26%  Similarity=0.562  Sum_probs=39.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS  171 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~  171 (197)
                      .-.+.|.||-.+|+.+   .++. |||.||..|...-++...+|-+|-+.
T Consensus       194 ~IPF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         194 KIPFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             CCceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence            4457999999999987   4554 99999999999988888899999654

>PHA03096 p28-like protein; Provisional

Probab=96.59  E-value=0.001  Score=56.36  Aligned_cols=48  Identities=21%  Similarity=0.482  Sum_probs=35.7

Q ss_pred             CccccccccccCCc----ceeecCCCCCccchhhHHHHhhCC---C---CCcccCCCC
Q 029203          125 TTCSICLCEYKDLE----MLRMMPECRHYFHLCCVDAWLKLN---G---SCPVCRNSP  172 (197)
Q Consensus       125 ~~CaICL~~~~~~~----~vr~l~~C~H~FH~~CI~~Wl~~~---~---tCPlCR~~l  172 (197)
                      ..|.|||+......    .-..|++|.|.|+..||..|-...   .   .||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            68999999887542    344777899999999999999543   2   455555544

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

Probab=96.50  E-value=0.0012  Score=57.75  Aligned_cols=48  Identities=25%  Similarity=0.631  Sum_probs=38.9

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--------CCCcccCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--------GSCPVCRN  170 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--------~tCPlCR~  170 (197)
                      .....|.||+++..-......+| |+|+||+.|+..++..+        -.||-++-
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            34679999999977667888999 99999999999998543        26877654

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

Probab=96.39  E-value=0.0033  Score=53.13  Aligned_cols=53  Identities=28%  Similarity=0.651  Sum_probs=39.6

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHh-hCCCCCccc-CCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL-KLNGSCPVC-RNSPLPTPLST  179 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl-~~~~tCPlC-R~~l~~~~~~~  179 (197)
                      ...|+.|-.-+.+.  + .++.|+|.|+.+||..-| .....||.| |.+++-.++..
T Consensus       274 ~LkCplc~~Llrnp--~-kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~p  328 (427)
T COG5222         274 SLKCPLCHCLLRNP--M-KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTP  328 (427)
T ss_pred             cccCcchhhhhhCc--c-cCccccchHHHHHHhhhhhhccccCCCcccccchhhccCc
Confidence            47899998876665  2 336699999999999776 556799999 55666555443

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

Probab=96.37  E-value=0.0038  Score=38.66  Aligned_cols=44  Identities=25%  Similarity=0.587  Sum_probs=22.6

Q ss_pred             cccccccccCCc-ceeecCCCCCccchhhHHHHhh-CCCCCcccCCC
Q 029203          127 CSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNS  171 (197)
Q Consensus       127 CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~  171 (197)
                      |++|.+++...+ .+.--+ |++..+..|...-++ ....||-||.+
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            789999995444 444444 899999999888775 47799999975

>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=96.13  E-value=0.0045  Score=37.47  Aligned_cols=41  Identities=20%  Similarity=0.492  Sum_probs=24.5

Q ss_pred             cccccccccCCcceeecCCCCCccchhhHHHHhhCCC--CCccc
Q 029203          127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG--SCPVC  168 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~--tCPlC  168 (197)
                      |.+|-+-...|..-.... |+=.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678888777776554433 999999999999997766  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=96.04  E-value=0.00032  Score=60.88  Aligned_cols=55  Identities=22%  Similarity=0.475  Sum_probs=47.5

Q ss_pred             CCCCccccccccccCC-cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          122 NINTTCSICLCEYKDL-EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~-~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      .....|+||.+.+... +++..+- |||++|.+||.+||.....||-|+..|...++
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~  249 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGF  249 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhH
Confidence            4467999999999887 7888887 99999999999999988899999998865544

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

Probab=96.03  E-value=0.003  Score=57.09  Aligned_cols=49  Identities=27%  Similarity=0.607  Sum_probs=37.4

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh-----CCCCCcccCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-----LNGSCPVCRNSP  172 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-----~~~tCPlCR~~l  172 (197)
                      ......+|-+|-++-++.   .+.. |.|.||+-||.+++.     .+.+||.|-..|
T Consensus       532 enk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             cccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            445678999998874443   4555 999999999999884     345899996655

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

Probab=95.75  E-value=0.0042  Score=52.30  Aligned_cols=47  Identities=23%  Similarity=0.460  Sum_probs=39.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      .-.+.|-||-..|..+   .++. |+|.||..|...=++....|++|-+..
T Consensus       239 ~~Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  239 LLPFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             cCCccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccc
Confidence            4467899999999987   4554 999999999999888888999997654

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

Probab=95.70  E-value=0.0067  Score=52.38  Aligned_cols=46  Identities=33%  Similarity=0.590  Sum_probs=33.8

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      .......|.||+++..+   ...+| |||.=+  |..-- +...+||+||..+
T Consensus       301 ~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI  346 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRI  346 (355)
T ss_pred             ccCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHH
Confidence            34557899999999777   46777 999955  65552 3344699999876

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

Probab=95.69  E-value=0.0046  Score=50.68  Aligned_cols=43  Identities=28%  Similarity=0.641  Sum_probs=32.2

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      -|..|.-- -.+++...+. |.|+||..|...-  ....||+||..+
T Consensus         5 hCn~C~~~-~~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFRF-PSQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSI   47 (233)
T ss_pred             Eecccccc-CCCCceeeee-chhhhhhhhcccC--Ccccccccccee
Confidence            46666543 3478888887 9999999997652  223899999986

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.58  E-value=0.012  Score=48.43  Aligned_cols=53  Identities=11%  Similarity=0.148  Sum_probs=47.2

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ....|+||.+.+.+...+.+|..|||+|..+|..+.+..-..||+|-.++-..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            45789999999999998888888999999999999999999999998877544

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=95.32  E-value=0.023  Score=36.04  Aligned_cols=42  Identities=26%  Similarity=0.590  Sum_probs=34.8

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcc
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPV  167 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPl  167 (197)
                      .....|.+|=+.|.+++.+.+-|.|+-.+|++|-+.    ...|-.
T Consensus         3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             ccCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            346789999999999999999999999999999554    555644

>PF15102 TMEM154: TMEM154 protein family

Probab=95.25  E-value=0.02  Score=43.64  Aligned_cols=34  Identities=26%  Similarity=0.330  Sum_probs=14.0

Q ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHhheecccc
Q 029203           13 TNIGLGYSIAIALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        13 ~~~~~~~~I~i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      ++..|.+.|+|-+.++++++++++++++.++|++
T Consensus        53 ~q~efiLmIlIP~VLLvlLLl~vV~lv~~~kRkr   86 (146)
T PF15102_consen   53 SQLEFILMILIPLVLLVLLLLSVVCLVIYYKRKR   86 (146)
T ss_pred             CCcceEEEEeHHHHHHHHHHHHHHHheeEEeecc
Confidence            3445555555543333333333333333333433

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.84  E-value=0.037  Score=46.31  Aligned_cols=55  Identities=16%  Similarity=0.314  Sum_probs=43.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      .......|+|...+|........+-.|||+|-..+|.+- .....||+|-.++...
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            356678999999999766666666559999999999996 3355799998877543

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

Probab=94.71  E-value=0.045  Score=47.30  Aligned_cols=48  Identities=27%  Similarity=0.632  Sum_probs=37.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHH--HhhCCCCCcccCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDA--WLKLNGSCPVCRNS  171 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~--Wl~~~~tCPlCR~~  171 (197)
                      ..++...|.||-+...   -+.++| |+|..|.-|-..  -|-..+.||+||..
T Consensus        57 tDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          57 TDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             cccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence            4566789999977643   346888 999999999865  34567899999985

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

Probab=94.64  E-value=0.019  Score=48.32  Aligned_cols=46  Identities=24%  Similarity=0.540  Sum_probs=38.4

Q ss_pred             CCccccccccccCCc-ceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          124 NTTCSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       124 ~~~CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      ...|+||.+.+-... .+..++ |||.-|..|+......+-+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            345999999887655 455677 9999999999999887899999977

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

Probab=94.47  E-value=0.028  Score=44.19  Aligned_cols=30  Identities=33%  Similarity=0.877  Sum_probs=24.1

Q ss_pred             CCCCccchhhHHHHhhC-----------CCCCcccCCCCCC
Q 029203          145 ECRHYFHLCCVDAWLKL-----------NGSCPVCRNSPLP  174 (197)
Q Consensus       145 ~C~H~FH~~CI~~Wl~~-----------~~tCPlCR~~l~~  174 (197)
                      .||.-||.-|+..||+.           -..||+|-.++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999942           1379999887643

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

Probab=94.43  E-value=0.018  Score=55.05  Aligned_cols=37  Identities=22%  Similarity=0.414  Sum_probs=30.0

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHh
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL  159 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl  159 (197)
                      .+.+++|.+|.-.+... .-.+-| |||.||.+||.+-.
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            35578999999887765 566777 99999999997754

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

Probab=94.41  E-value=0.031  Score=48.38  Aligned_cols=50  Identities=20%  Similarity=0.480  Sum_probs=41.5

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ...++..|+||...   .-.....| |+|.=|+.||.+-+.+.+.|=.|+.-+.
T Consensus       418 p~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  418 PDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence            44678899999765   33345677 9999999999999999999999998765

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

Probab=94.27  E-value=0.021  Score=54.37  Aligned_cols=42  Identities=24%  Similarity=0.599  Sum_probs=32.4

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS  171 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~  171 (197)
                      ...|..|-..++-+  ...-- |||.||.+|+.   .....||-|+.+
T Consensus       840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchh
Confidence            36999998777655  33333 99999999998   455689999873

>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane

Probab=94.16  E-value=0.042  Score=40.81  Aligned_cols=31  Identities=23%  Similarity=0.337  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhheeccccCCC
Q 029203           19 YSIAIALGFLVLLSTVLLASYICCRRNNSSH   49 (197)
Q Consensus        19 ~~I~i~i~~~vli~~i~l~~~~~~~~~~~~~   49 (197)
                      -+++|++|++.-+..++++++||+||++.+.
T Consensus        65 ~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~   95 (122)
T PF01102_consen   65 AIIGIIFGVMAGVIGIILLISYCIRRLRKKS   95 (122)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred             ceeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            3555555555444445555566666655443

Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.

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

Probab=94.12  E-value=0.038  Score=46.81  Aligned_cols=48  Identities=27%  Similarity=0.609  Sum_probs=38.4

Q ss_pred             CCccccccccccCCcce---eecCCCCCccchhhHHHHhhCCC-CCcccCCCC
Q 029203          124 NTTCSICLCEYKDLEML---RMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~v---r~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l  172 (197)
                      ..+|-||-++|..++..   +.|. |||-|+..|+.+-+.+.. .||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            45899999999977532   4555 999999999998776544 799999974

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.99  E-value=0.032  Score=35.44  Aligned_cols=44  Identities=20%  Similarity=0.440  Sum_probs=31.6

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ..|-.|...   +.+-.++| |+|+.+..|.+-  .+-+-||+|-.++..
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEF   51 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccCh--hhccCCCCCCCcccC
Confidence            455555443   44457888 999999999876  455679999887754

>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls

Probab=93.91  E-value=0.023  Score=42.52  Aligned_cols=7  Identities=29%  Similarity=0.947  Sum_probs=2.5

Q ss_pred             hheeccc
Q 029203           39 YICCRRN   45 (197)
Q Consensus        39 ~~~~~~~   45 (197)
                      ++|+.++
T Consensus        19 ~~~~~rR   25 (130)
T PF12273_consen   19 FYCHNRR   25 (130)
T ss_pred             HHHHHHH
Confidence            3333333

Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].

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

Probab=93.77  E-value=0.01  Score=49.96  Aligned_cols=41  Identities=24%  Similarity=0.603  Sum_probs=29.6

Q ss_pred             CCccccccccccCCcceeecCCCCCcc-chhhHHHHhhCCCCCcccCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYF-HLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~F-H~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      ...|+|||+.   ......|+ |||.. |..|-..    -..||+||+.+
T Consensus       300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence            5789999987   44457888 99964 4456433    23899999865

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

Probab=93.65  E-value=0.027  Score=53.19  Aligned_cols=46  Identities=28%  Similarity=0.662  Sum_probs=35.5

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcccCCCCCCC
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPVCRNSPLPT  175 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~  175 (197)
                      ..|.||++    .+.....+ |+|.|+.+|+..-+...  ..||+||..+..+
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            79999999    34445565 99999999999877542  3699999876443

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

Probab=93.39  E-value=0.03  Score=47.61  Aligned_cols=45  Identities=29%  Similarity=0.655  Sum_probs=30.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ...|--|=-.+.  ---|+.| |.|+||.+|...  ..-+.||+|-..|.
T Consensus        90 VHfCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   90 VHFCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eEeecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            456776633322  1236788 999999999765  44568999977664

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

Probab=93.38  E-value=0.023  Score=56.23  Aligned_cols=46  Identities=26%  Similarity=0.649  Sum_probs=38.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      .....|.||++.+.+..-+.   .|||.|+..|+..|+..+..||.|+.
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhh
Confidence            44569999999988543333   39999999999999999999999984

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

Probab=93.31  E-value=0.093  Score=49.95  Aligned_cols=69  Identities=23%  Similarity=0.525  Sum_probs=49.6

Q ss_pred             CCCCCCccccccccccCCcceeecCCCC---CccchhhHHHHhhCCC--CCcccCCCCCCCC-CCCCCcccccCc
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECR---HYFHLCCVDAWLKLNG--SCPVCRNSPLPTP-LSTPLQEVVPLS  188 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~---H~FH~~CI~~Wl~~~~--tCPlCR~~l~~~~-~~~~~~~~~~~~  188 (197)
                      .++++..|-||..+=.+++++-.--+|.   ...|.+|+.+|+...+  .|-+|+.+.--+. +.++-++..|.+
T Consensus         8 mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP~~IPfs   82 (1175)
T COG5183           8 MNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMPQIIPFS   82 (1175)
T ss_pred             CCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCCccccee
Confidence            4566789999999988888775532342   5789999999997544  6999999886553 345545555544

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.23  E-value=0.038  Score=45.78  Aligned_cols=53  Identities=25%  Similarity=0.750  Sum_probs=37.3

Q ss_pred             CCCCCCccccccccccCCcce-eecCCC-----CCccchhhHHHHhhCC--------CCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEML-RMMPEC-----RHYFHLCCVDAWLKLN--------GSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~v-r~l~~C-----~H~FH~~CI~~Wl~~~--------~tCPlCR~~l~  173 (197)
                      +.+.+..|=||+.-=++...- -+-| |     .|-.|..|+..|+..+        .+||.|+.+.+
T Consensus        16 ~~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   16 NQELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             ccccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            456678999999874443311 2334 5     4889999999999543        26999998764

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

Probab=92.89  E-value=0.094  Score=45.85  Aligned_cols=54  Identities=24%  Similarity=0.518  Sum_probs=33.6

Q ss_pred             CCCCCccccccccccCCccee--------------ecCCC-----CCccchhhHHHHhhC-------------CCCCccc
Q 029203          121 NNINTTCSICLCEYKDLEMLR--------------MMPEC-----RHYFHLCCVDAWLKL-------------NGSCPVC  168 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr--------------~l~~C-----~H~FH~~CI~~Wl~~-------------~~tCPlC  168 (197)
                      .++.+.|--||.+-.+ -++.              ..+.|     .-.+|.+|+-+|+..             +.+||.|
T Consensus       268 ~~e~e~CigC~~~~~~-vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC  346 (358)
T PF10272_consen  268 GQELEPCIGCMQAQPN-VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC  346 (358)
T ss_pred             ccccCCccccccCCCC-cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence            4567889999885321 1111              11123     445678999999832             3479999


Q ss_pred             CCCCCCC
Q 029203          169 RNSPLPT  175 (197)
Q Consensus       169 R~~l~~~  175 (197)
                      |+...-.
T Consensus       347 Ra~FCil  353 (358)
T PF10272_consen  347 RAKFCIL  353 (358)
T ss_pred             cccceee
Confidence            9987543

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

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

Probab=92.04  E-value=0.075  Score=47.02  Aligned_cols=40  Identities=25%  Similarity=0.624  Sum_probs=29.9

Q ss_pred             CCCCccccccccccCC-cceeecCCCCCccchhhHHHHhhCC
Q 029203          122 NINTTCSICLCEYKDL-EMLRMMPECRHYFHLCCVDAWLKLN  162 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~-~~vr~l~~C~H~FH~~CI~~Wl~~~  162 (197)
                      ....+|.||+.++... ++..+.. |+|.|+.+|..+.+..+
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhhh
Confidence            3478999999554444 5555554 99999999999988643

>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ]

Probab=92.02  E-value=0.21  Score=38.14  Aligned_cols=30  Identities=20%  Similarity=0.501  Sum_probs=22.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhheeccccC
Q 029203           18 GYSIAIALGFLVLLSTVLLASYICCRRNNS   47 (197)
Q Consensus        18 ~~~I~i~i~~~vli~~i~l~~~~~~~~~~~   47 (197)
                      ...+.|+++++|++.++++.+|+|-+|++.
T Consensus        29 thm~tILiaIvVliiiiivli~lcssRKkK   58 (189)
T PF05568_consen   29 THMYTILIAIVVLIIIIIVLIYLCSSRKKK   58 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            345667777888888888888888877764

>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []

Probab=91.99  E-value=0.27  Score=28.76  Aligned_cols=28  Identities=18%  Similarity=0.639  Sum_probs=12.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhheeccccC
Q 029203           18 GYSIAIALGFLVLLSTVLLASYICCRRNNS   47 (197)
Q Consensus        18 ~~~I~i~i~~~vli~~i~l~~~~~~~~~~~   47 (197)
                      +++.++++|+.++  ++.++.|.|.+++.+
T Consensus         7 aIIv~V~vg~~ii--ii~~~~YaCcykk~~   34 (38)
T PF02439_consen    7 AIIVAVVVGMAII--IICMFYYACCYKKHR   34 (38)
T ss_pred             hHHHHHHHHHHHH--HHHHHHHHHHHcccc
Confidence            3344444444332  233445556666553

This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.

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

Probab=91.99  E-value=0.094  Score=44.84  Aligned_cols=45  Identities=22%  Similarity=0.525  Sum_probs=35.1

Q ss_pred             CCCCCccccccccccCCcceeecCCC--CCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPEC--RHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C--~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ..+-.+|+||.+.+...    ... |  ||+-|..|-.   +....||.||.++-
T Consensus        45 ~~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCccccccc
Confidence            44568999999998887    333 6  7999999965   34668999998774

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

Probab=91.93  E-value=0.12  Score=43.79  Aligned_cols=51  Identities=27%  Similarity=0.749  Sum_probs=37.4

Q ss_pred             CCccccccccccCCcc-eeecCCCC-----CccchhhHHHHhhC--CCCCcccCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEM-LRMMPECR-----HYFHLCCVDAWLKL--NGSCPVCRNSPLPT  175 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~-vr~l~~C~-----H~FH~~CI~~Wl~~--~~tCPlCR~~l~~~  175 (197)
                      +..|=||.++...... .-..| |.     +..|..|++.|+..  ..+|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            5789999998765432 23444 53     77899999999974  45799998866544

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

Probab=91.89  E-value=0.094  Score=49.58  Aligned_cols=23  Identities=30%  Similarity=0.872  Sum_probs=21.2

Q ss_pred             CCCCccchhhHHHHhhCCCCCcc
Q 029203          145 ECRHYFHLCCVDAWLKLNGSCPV  167 (197)
Q Consensus       145 ~C~H~FH~~CI~~Wl~~~~tCPl  167 (197)
                      .|+|+-|.+|...|+...-.||-
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            49999999999999999999984

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

Probab=91.87  E-value=0.052  Score=50.36  Aligned_cols=45  Identities=27%  Similarity=0.512  Sum_probs=33.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS  171 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~  171 (197)
                      -..|.||+..|....-.-+...|||..|..|+..  ..+.+|| |+.+
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~--lyn~scp-~~~D   55 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQL--LYNASCP-TKRD   55 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHh--HhhccCC-CCcc
Confidence            4589999999876653333335999999999987  5577899 7654

>PF13908 Shisa: Wnt and FGF inhibitory regulator

Probab=91.17  E-value=0.19  Score=39.53  Aligned_cols=15  Identities=13%  Similarity=0.337  Sum_probs=6.8

Q ss_pred             chhHHHHHHHHHHHH
Q 029203           16 GLGYSIAIALGFLVL   30 (197)
Q Consensus        16 ~~~~~I~i~i~~~vl   30 (197)
                      .++++++|+++++++
T Consensus        77 ~~~iivgvi~~Vi~I   91 (179)
T PF13908_consen   77 ITGIIVGVICGVIAI   91 (179)
T ss_pred             eeeeeeehhhHHHHH
Confidence            444444444444443

>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]

Probab=90.99  E-value=0.031  Score=33.19  Aligned_cols=27  Identities=11%  Similarity=0.210  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhheeccc
Q 029203           19 YSIAIALGFLVLLSTVLLASYICCRRN   45 (197)
Q Consensus        19 ~~I~i~i~~~vli~~i~l~~~~~~~~~   45 (197)
                      +.+++++.+.++++++++++|+++||+
T Consensus        13 Ia~~VvVPV~vI~~vl~~~l~~~~rR~   39 (40)
T PF08693_consen   13 IAVGVVVPVGVIIIVLGAFLFFWYRRK   39 (40)
T ss_pred             EEEEEEechHHHHHHHHHHhheEEecc
Confidence            344455555565565556666555543

This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].

>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=90.80  E-value=0.23  Score=38.40  Aligned_cols=36  Identities=28%  Similarity=0.628  Sum_probs=21.2

Q ss_pred             CCccccccccccCCcceeecC---C-----CC-CccchhhHHHHh
Q 029203          124 NTTCSICLCEYKDLEMLRMMP---E-----CR-HYFHLCCVDAWL  159 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~---~-----C~-H~FH~~CI~~Wl  159 (197)
                      +..|+|||+-=-+..-+.-..   +     |+ -.=|..|++++-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence            568999999754442211000   1     32 234789999985

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.

>PHA02650 hypothetical protein; Provisional

Probab=90.73  E-value=0.67  Score=31.51  Aligned_cols=34  Identities=12%  Similarity=-0.057  Sum_probs=21.3

Q ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHhheecccc
Q 029203           13 TNIGLGYSIAIALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        13 ~~~~~~~~I~i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      +..++.|.++|.+.+++++.++++++|+...++.
T Consensus        43 ~~~~~~~~~~ii~i~~v~i~~l~~flYLK~~~r~   76 (81)
T PHA02650         43 SVSWFNGQNFIFLIFSLIIVALFSFFVFKGYTRN   76 (81)
T ss_pred             ccCCchHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3556777666666666666666677776554443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.42  E-value=0.24  Score=42.85  Aligned_cols=55  Identities=22%  Similarity=0.478  Sum_probs=37.8

Q ss_pred             CCCCCccccccccccCCcc-eeecCCCCCccchhhHHHHh-hCCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEM-LRMMPECRHYFHLCCVDAWL-KLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~-vr~l~~C~H~FH~~CI~~Wl-~~~~tCPlCR~~l~~~~  176 (197)
                      .+++..|+.|++++.-.|+ ..-.| ||...|.-|-..-- ..+..||-||.......
T Consensus        11 edeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            3445669999999987774 34455 89877777744322 23568999998765543

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

Probab=90.32  E-value=0.22  Score=43.77  Aligned_cols=47  Identities=19%  Similarity=0.307  Sum_probs=39.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC---CCccc
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG---SCPVC  168 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~---tCPlC  168 (197)
                      ....+.|+|=-++-.+...=..|. |||+..++-|++-.++..   .||+|
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ccceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            456789999998888777777888 999999999999776654   69999

>PHA02844 putative transmembrane protein; Provisional

Probab=90.23  E-value=0.71  Score=31.03  Aligned_cols=35  Identities=20%  Similarity=0.068  Sum_probs=20.7

Q ss_pred             CCcccccchhHHHHHHHHHHHHHHHHHHHHhheec
Q 029203            9 PNYLTNIGLGYSIAIALGFLVLLSTVLLASYICCR   43 (197)
Q Consensus         9 ~~~~~~~~~~~~I~i~i~~~vli~~i~l~~~~~~~   43 (197)
                      +...+..++.|.++|++.+++++.++++++|+..-
T Consensus        38 ~~~~~~~~~~~~~~ii~i~~v~~~~~~~flYLK~~   72 (75)
T PHA02844         38 VNKNNVCSSSTKIWILTIIFVVFATFLTFLYLKAV   72 (75)
T ss_pred             ccccccCChhHHHHHHHHHHHHHHHHHHHHHHhee
Confidence            34444666777666666555555666666666543

>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins

Probab=90.09  E-value=0.4  Score=34.34  Aligned_cols=19  Identities=26%  Similarity=0.417  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHH-hheecccc
Q 029203           28 LVLLSTVLLAS-YICCRRNN   46 (197)
Q Consensus        28 ~vli~~i~l~~-~~~~~~~~   46 (197)
                      ++.++++++++ ||.+.|.+
T Consensus        71 ~v~IlVily~IyYFVILRer   90 (101)
T PF06024_consen   71 FVCILVILYAIYYFVILRER   90 (101)
T ss_pred             HHHHHHHHhhheEEEEEecc
Confidence            33334444444 55555555

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.79  E-value=0.17  Score=42.83  Aligned_cols=30  Identities=23%  Similarity=0.582  Sum_probs=23.4

Q ss_pred             CCCccchhhHHHHhh-------------CCCCCcccCCCCCCC
Q 029203          146 CRHYFHLCCVDAWLK-------------LNGSCPVCRNSPLPT  175 (197)
Q Consensus       146 C~H~FH~~CI~~Wl~-------------~~~tCPlCR~~l~~~  175 (197)
                      |.-.+|.+|+.+|+.             .+.+||+||++..-.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            567788999999983             345899999987644

>PHA02819 hypothetical protein; Provisional

Probab=88.84  E-value=1  Score=29.94  Aligned_cols=35  Identities=11%  Similarity=0.013  Sum_probs=21.7

Q ss_pred             CCCCcccccchhHHHHHHHHHHHHHHHHHHHHhhe
Q 029203            7 PSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYIC   41 (197)
Q Consensus         7 ~s~~~~~~~~~~~~I~i~i~~~vli~~i~l~~~~~   41 (197)
                      +|+...+..++.|.++|.+.+++++.++++++|+.
T Consensus        34 ~s~~~~~~~~~~~~~~ii~l~~~~~~~~~~flYLK   68 (71)
T PHA02819         34 ENYNKKTKKSFLRYYLIIGLVTIVFVIIFIIFYLK   68 (71)
T ss_pred             CCCcccccCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444556677777777666666666666666653

>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=87.86  E-value=0.25  Score=30.40  Aligned_cols=28  Identities=32%  Similarity=0.845  Sum_probs=21.3

Q ss_pred             C-CCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          146 C-RHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       146 C-~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      | .|..+-.|+..-|.....||+|..+|.
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            7 499999999999999999999988763

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.

>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain

Probab=87.61  E-value=1.3  Score=31.61  Aligned_cols=26  Identities=15%  Similarity=0.171  Sum_probs=18.6

Q ss_pred             cccchhHHHHHHHHHHHHHHHHHHHH
Q 029203           13 TNIGLGYSIAIALGFLVLLSTVLLAS   38 (197)
Q Consensus        13 ~~~~~~~~I~i~i~~~vli~~i~l~~   38 (197)
                      .+..|.|.++++++.+++-++|.+++
T Consensus        13 ~g~sW~~LVGVv~~al~~SlLIalaa   38 (102)
T PF15176_consen   13 GGRSWPFLVGVVVTALVTSLLIALAA   38 (102)
T ss_pred             CCcccHhHHHHHHHHHHHHHHHHHHH
Confidence            37889999999888877555444443

>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein

Probab=87.46  E-value=0.17  Score=45.52  Aligned_cols=31  Identities=23%  Similarity=0.389  Sum_probs=0.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhheeccccC
Q 029203           17 LGYSIAIALGFLVLLSTVLLASYICCRRNNS   47 (197)
Q Consensus        17 ~~~~I~i~i~~~vli~~i~l~~~~~~~~~~~   47 (197)
                      +..++++++|++++++++++++++|.+++++
T Consensus       351 ~~~~l~vVlgvavlivVv~viv~vc~~~rrr  381 (439)
T PF02480_consen  351 GAALLGVVLGVAVLIVVVGVIVWVCLRCRRR  381 (439)
T ss_dssp             -------------------------------
T ss_pred             ccchHHHHHHHHHHHHHHHHHhheeeeehhc
Confidence            4445555555555555555555555555444

gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.

>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region

Probab=87.40  E-value=0.12  Score=39.75  Aligned_cols=36  Identities=25%  Similarity=0.424  Sum_probs=16.4

Q ss_pred             cccccchhHHHHHHHHH--HHHHHHHHHHHhheecccc
Q 029203           11 YLTNIGLGYSIAIALGF--LVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        11 ~~~~~~~~~~I~i~i~~--~vli~~i~l~~~~~~~~~~   46 (197)
                      +++...-.++|++++|+  .+++.+++++++||+|+++
T Consensus        42 GlS~knknIVIGvVVGVGg~ill~il~lvf~~c~r~kk   79 (154)
T PF04478_consen   42 GLSSKNKNIVIGVVVGVGGPILLGILALVFIFCIRRKK   79 (154)
T ss_pred             CCCcCCccEEEEEEecccHHHHHHHHHhheeEEEeccc
Confidence            34444444455555554  3333333444445554444

The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].

>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins

Probab=86.62  E-value=1.9  Score=35.38  Aligned_cols=13  Identities=31%  Similarity=0.616  Sum_probs=6.7

Q ss_pred             CCCCCCCCccccc
Q 029203            3 TPATPSPNYLTNI   15 (197)
Q Consensus         3 ~~~~~s~~~~~~~   15 (197)
                      +++..+++|.+.+
T Consensus       178 St~stspS~S~vi  190 (259)
T PF07010_consen  178 STSSTSPSYSSVI  190 (259)
T ss_pred             ccccCCccccchh
Confidence            3444456666533

Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.

>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=86.56  E-value=0.59  Score=29.30  Aligned_cols=42  Identities=26%  Similarity=0.645  Sum_probs=22.9

Q ss_pred             cccccccccCC------cceeecCCCCCccchhhHHHHhh-CCCCCcccC
Q 029203          127 CSICLCEYKDL------EMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCR  169 (197)
Q Consensus       127 CaICL~~~~~~------~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR  169 (197)
                      |.-|+..|..+      .....-|.|++.|+.+| |-++. .-.+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence            56677777765      24567778999999988 44442 334799884

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.

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

Probab=86.55  E-value=0.7  Score=39.10  Aligned_cols=55  Identities=25%  Similarity=0.573  Sum_probs=39.2

Q ss_pred             cccccccc-ccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCCCCCCC
Q 029203          126 TCSICLCE-YKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPTPLSTP  180 (197)
Q Consensus       126 ~CaICL~~-~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~~~~~  180 (197)
                      .|++|-.+ |-+.+.+.....|+|-.|..|.+.-+... ..||-|-..+....+.+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q   58 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQ   58 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchh
Confidence            58888654 34445333333499999999999988655 489999888777766544

>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls

Probab=85.94  E-value=0.5  Score=35.21  Aligned_cols=16  Identities=25%  Similarity=0.096  Sum_probs=8.1

Q ss_pred             HHHHHHHHhheecccc
Q 029203           31 LSTVLLASYICCRRNN   46 (197)
Q Consensus        31 i~~i~l~~~~~~~~~~   46 (197)
                      |+++++++.-.+|+++
T Consensus        14 l~~~~~~~~~rRR~r~   29 (130)
T PF12273_consen   14 LFLFLFYCHNRRRRRR   29 (130)
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            3344444445556665

Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].

>PHA03054 IMV membrane protein; Provisional

Probab=85.10  E-value=2.3  Score=28.33  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=16.5

Q ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHhh
Q 029203           14 NIGLGYSIAIALGFLVLLSTVLLASYI   40 (197)
Q Consensus        14 ~~~~~~~I~i~i~~~vli~~i~l~~~~   40 (197)
                      ..++.|.++|.+.+++++.++++++|+
T Consensus        43 ~~~~~~~~~ii~l~~v~~~~l~~flYL   69 (72)
T PHA03054         43 TGCWGWYWLIIIFFIVLILLLLIYLYL   69 (72)
T ss_pred             cCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence            556666666666555555556666664

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

Probab=84.42  E-value=0.28  Score=46.10  Aligned_cols=52  Identities=23%  Similarity=0.598  Sum_probs=39.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhC---CCCCcccCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL---NGSCPVCRNSPLPTPLST  179 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~---~~tCPlCR~~l~~~~~~~  179 (197)
                      ..+|.||+..+.+.   ..+ .|.|.|+..|+..-+..   ...||+|+..+.......
T Consensus        21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E   75 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE   75 (684)
T ss_pred             hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence            57999999999887   344 49999999998875543   347999998776555443

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

Probab=84.30  E-value=0.71  Score=42.65  Aligned_cols=49  Identities=31%  Similarity=0.782  Sum_probs=39.9

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ......|.||+.+.    ..+..+ |.   |..|+.+|+..+.+||+|+..+.....
T Consensus       476 ~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  476 REPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDF  524 (543)
T ss_pred             hcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccc
Confidence            34567999999997    446666 88   999999999999999999888765543

>PTZ00370 STEVOR; Provisional

Probab=84.20  E-value=0.79  Score=38.79  Aligned_cols=26  Identities=35%  Similarity=0.443  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhheecccc
Q 029203           21 IAIALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        21 I~i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      -+|++.++++++++++++|+|.+|||
T Consensus       257 ygiaalvllil~vvliilYiwlyrrR  282 (296)
T PTZ00370        257 YGIAALVLLILAVVLIILYIWLYRRR  282 (296)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            35666667777777788888877766

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=84.00  E-value=0.81  Score=36.83  Aligned_cols=41  Identities=29%  Similarity=0.778  Sum_probs=30.1

Q ss_pred             CCCcccccccc-----ccCCcceeecCCCCCccchhhHHHHhhCCCCCcccC
Q 029203          123 INTTCSICLCE-----YKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR  169 (197)
Q Consensus       123 ~~~~CaICL~~-----~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR  169 (197)
                      .++.|.+|-++     |+. +.+...+.|+-+||..|..     ...||-|-
T Consensus       151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~  196 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA  196 (202)
T ss_pred             CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence            46899999752     333 3455666799999999976     26799994

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

Probab=83.20  E-value=0.91  Score=43.13  Aligned_cols=41  Identities=17%  Similarity=0.361  Sum_probs=30.2

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcc
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPV  167 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPl  167 (197)
                      ..|.+|-..+. |..+ ..+.|+|.=|.+|+.+|+..+..||.
T Consensus       780 ~~CtVC~~vi~-G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIR-GVDV-WCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceee-eeEe-ecccccccccHHHHHHHHhcCCCCcc
Confidence            47888854432 2222 33459999999999999999888876

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

Probab=82.93  E-value=0.46  Score=44.07  Aligned_cols=43  Identities=23%  Similarity=0.596  Sum_probs=27.0

Q ss_pred             CCCCccccccc-----cccCCcceeecCCCCCccchhhHHHHhhCCCCCccc
Q 029203          122 NINTTCSICLC-----EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVC  168 (197)
Q Consensus       122 ~~~~~CaICL~-----~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlC  168 (197)
                      ...+.|.+|-.     .|+.....+-. .|+++||+.|...   ...-||-|
T Consensus       509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r---~s~~CPrC  556 (580)
T KOG1829|consen  509 GKGFICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRR---KSPCCPRC  556 (580)
T ss_pred             cCeeeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhc---cCCCCCch
Confidence            45788899922     23322233334 4999999999654   22239999

>TIGR00622 ssl1 transcription factor ssl1

Probab=82.90  E-value=2.1  Score=31.26  Aligned_cols=69  Identities=16%  Similarity=0.275  Sum_probs=43.5

Q ss_pred             HHHHhcCCCeeeccccccCCCCCCCCCCccccccccccCC----------cceeecCCCCCccchhhHHHHhhCCCCCcc
Q 029203           98 QAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDL----------EMLRMMPECRHYFHLCCVDAWLKLNGSCPV  167 (197)
Q Consensus        98 ~~~~~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~----------~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPl  167 (197)
                      +..-..+|...|.+...+    .......|.-|+..|.+.          .....-+.|++.|+.+|=.-+-+.-.+||-
T Consensus        33 RSyHHLfPl~~f~ev~~~----~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPG  108 (112)
T TIGR00622        33 RSYHHLFPLKAFQEIPLE----EYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPG  108 (112)
T ss_pred             HhhhccCCCccccccccc----ccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcC
Confidence            333344565555443211    112235699999998753          123445679999999996666666678999


Q ss_pred             cCC
Q 029203          168 CRN  170 (197)
Q Consensus       168 CR~  170 (197)
                      |..
T Consensus       109 C~~  111 (112)
T TIGR00622       109 CIH  111 (112)
T ss_pred             CCC
Confidence            953

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

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

Probab=82.84  E-value=1.3  Score=33.23  Aligned_cols=53  Identities=25%  Similarity=0.476  Sum_probs=36.1

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHH-Hh--hCCCCCcccCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDA-WL--KLNGSCPVCRNSPLPT  175 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~-Wl--~~~~tCPlCR~~l~~~  175 (197)
                      .--+|.||-|.-.+..=+.--..||-..+.-|-.. |=  ..+.+||.|+.+.-.+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            45799999987665532222225888888876544 54  4577999999987543

>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]

Probab=82.78  E-value=0.68  Score=38.77  Aligned_cols=51  Identities=29%  Similarity=0.644  Sum_probs=37.4

Q ss_pred             CCCCccccccccccCCcceeec---CCCCCccchhhHHHHhhC---------CCCCcccCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMM---PECRHYFHLCCVDAWLKL---------NGSCPVCRNSP  172 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l---~~C~H~FH~~CI~~Wl~~---------~~tCPlCR~~l  172 (197)
                      ....+|.+|.+++.+.+..+..   +.|+-++|..|+..-+..         ...||.|+..+
T Consensus       180 ~~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~  242 (276)
T KOG3005|consen  180 ALNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL  242 (276)
T ss_pred             ccchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence            3346999999999666655432   268889999999985522         34799998854

>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=81.94  E-value=0.63  Score=38.44  Aligned_cols=50  Identities=24%  Similarity=0.576  Sum_probs=37.4

Q ss_pred             CCCccccccccc-cCCc-ceeecCCCCCccchhhHHHHhhCCC-CCc--ccCCCC
Q 029203          123 INTTCSICLCEY-KDLE-MLRMMPECRHYFHLCCVDAWLKLNG-SCP--VCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~-~~~~-~vr~l~~C~H~FH~~CI~~Wl~~~~-tCP--lCR~~l  172 (197)
                      .+..|+||-.+- -+++ ++-+-|.|-|..|..|.++-+.... .||  -|-.-|
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            456899998763 3444 5555667999999999999997655 799  785533

>PHA02975 hypothetical protein; Provisional

Probab=81.51  E-value=3.9  Score=27.08  Aligned_cols=26  Identities=15%  Similarity=0.053  Sum_probs=13.9

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHhh
Q 029203           15 IGLGYSIAIALGFLVLLSTVLLASYI   40 (197)
Q Consensus        15 ~~~~~~I~i~i~~~vli~~i~l~~~~   40 (197)
                      .++.|.+.|.+.+++++.++++++|.
T Consensus        40 ~~~~~~~~ii~i~~v~~~~~~~flYL   65 (69)
T PHA02975         40 KSSLSIILIIFIIFITCIAVFTFLYL   65 (69)
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555445545555555554

>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins

Probab=81.38  E-value=2  Score=34.68  Aligned_cols=29  Identities=28%  Similarity=0.450  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhheeccccC
Q 029203           19 YSIAIALGFLVLLSTVLLASYICCRRNNS   47 (197)
Q Consensus        19 ~~I~i~i~~~vli~~i~l~~~~~~~~~~~   47 (197)
                      ++.++++|.++++++++++.|+|+.|+..
T Consensus       102 lI~lv~~g~~lLla~~~~~~Y~~~~Rrs~  130 (202)
T PF06365_consen  102 LIALVTSGSFLLLAILLGAGYCCHQRRSW  130 (202)
T ss_pred             EEehHHhhHHHHHHHHHHHHHHhhhhccC
Confidence            33344445455566677777887766553

The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].

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

Probab=81.25  E-value=0.84  Score=36.98  Aligned_cols=43  Identities=23%  Similarity=0.624  Sum_probs=35.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCccc
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVC  168 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlC  168 (197)
                      +-..|.+|..-...+.   ...+|+=.+|..|+...+.+...||.|
T Consensus       180 nlk~Cn~Ch~LvIqg~---rCg~c~i~~h~~c~qty~q~~~~cphc  222 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQGI---RCGSCNIQYHRGCIQTYLQRRDICPHC  222 (235)
T ss_pred             HHHHHhHhHHHhheee---ccCcccchhhhHHHHHHhcccCcCCch
Confidence            4579999998877662   233488999999999999999999999

>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]

Probab=81.07  E-value=1.8  Score=32.26  Aligned_cols=29  Identities=17%  Similarity=0.454  Sum_probs=18.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhheecccc
Q 029203           18 GYSIAIALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        18 ~~~I~i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      .+.|.+++||+.++++-+++.|+.-++..
T Consensus        44 ~lYIL~vmgfFgff~~gImlsyvRSKK~E   72 (129)
T PF02060_consen   44 YLYILVVMGFFGFFTVGIMLSYVRSKKRE   72 (129)
T ss_dssp             T-HHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             eehHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            45677778888877777777776555444

They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.

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

Probab=80.93  E-value=1.3  Score=42.49  Aligned_cols=50  Identities=10%  Similarity=0.055  Sum_probs=35.8

Q ss_pred             CCCccccccccccCCc---ceeecCCCCCccchhhHHHHhhC------CCCCcccCCCC
Q 029203          123 INTTCSICLCEYKDLE---MLRMMPECRHYFHLCCVDAWLKL------NGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~---~vr~l~~C~H~FH~~CI~~Wl~~------~~tCPlCR~~l  172 (197)
                      ....|.||.-++.+.+   .+-.+.+|+|-||..||..|+.+      +-.|++|..-|
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            4567778877777633   33333369999999999999943      34689997755

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

Probab=80.90  E-value=0.95  Score=36.67  Aligned_cols=38  Identities=29%  Similarity=0.750  Sum_probs=27.2

Q ss_pred             cccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCC
Q 029203          127 CSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       127 CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      |-.|-+   .+..|..+| |.|+ +|..|-..    -.+||+|+...
T Consensus       161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPK  199 (207)
T ss_pred             ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence            777755   466789999 9865 66678544    44799998754

>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A

Probab=80.51  E-value=2.5  Score=28.54  Aligned_cols=23  Identities=39%  Similarity=0.712  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHhheecccc
Q 029203           23 IALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        23 i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      +++|+++++.++ ++++++.+++.
T Consensus         6 ~~~g~~~ll~~v-~~~~~~~rr~~   28 (75)
T PF14575_consen    6 IIVGVLLLLVLV-IIVIVCFRRCK   28 (75)
T ss_dssp             HHHHHHHHHHHH-HHHHCCCTT--
T ss_pred             HHHHHHHHHHhh-eeEEEEEeeEc
Confidence            344444433333 33444444433

...

>PF13209 DUF4017: Protein of unknown function (DUF4017)

Probab=80.05  E-value=1.4  Score=27.85  Aligned_cols=35  Identities=17%  Similarity=0.358  Sum_probs=26.3

Q ss_pred             CCCCcccccchhHHHHHHHHHHHHHHHHHHHHhhe
Q 029203            7 PSPNYLTNIGLGYSIAIALGFLVLLSTVLLASYIC   41 (197)
Q Consensus         7 ~s~~~~~~~~~~~~I~i~i~~~vli~~i~l~~~~~   41 (197)
                      |+.++.++.||..+++-+-++-+++.+.++.+|+-
T Consensus        22 PaSegYN~vgWKlfvGQ~YAiPif~i~aiitFyin   56 (60)
T PF13209_consen   22 PASEGYNTVGWKLFVGQAYAIPIFIITAIITFYIN   56 (60)
T ss_pred             ecccCccccchhheecchhHhHHHHHHHHHhheec
Confidence            55667788999999998888877766666666643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	197
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-04

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 19/39 (48%), Positives = 29/39 (74%), Gaps = 1/39 (2%)
Query: 131 LCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
           +C+++  ++LR++P C H FH  CVD WLK N +CP+CR
Sbjct: 30  MCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/39 (48%), Positives = 24/39 (61%)
Query: 131 LCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
           L E +D E  R +P C H FH  CVD WL  + +CP+CR
Sbjct: 12  LAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>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 = 40.4 bits (93), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
           EY   ++   +P C HYFH  CV  WL+ +G+CPVCR
Sbjct: 49  EYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	197
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-28
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-27
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-22
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-20
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-18
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-12
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	5e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	7e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	5e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	9e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	3e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-04

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

 Score =  100 bits (252), Expect = 1e-28
 Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 7/79 (8%)

Query: 98  QAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDA 157
                  P ++F   +           T C +C+C+++  ++LR++P C H FH  CVD 
Sbjct: 3   SGSSGQLPSYRFNPNNHQSEQ------TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDK 55

Query: 158 WLKLNGSCPVCRNSPLPTP 176
           WLK N +CP+CR    P+ 
Sbjct: 56  WLKANRTCPICRADSGPSS 74

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

 Score = 98.2 bits (245), Expect = 3e-27
 Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 7/92 (7%)

Query: 86  NQDDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPE 145
           +           +  I++ P+   T++  +           C IC  EY   ++   +P 
Sbjct: 7   HHSHMVANPPASKESIDALPEILVTEDHGAVGQE-----MCCPICCSEYVKGDVATELP- 60

Query: 146 CRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL 177
           C HYFH  CV  WL+ +G+CPVCR    P PL
Sbjct: 61  CHHYFHKPCVSIWLQKSGTCPVCRCM-FPPPL 91

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

 Score = 84.6 bits (210), Expect = 2e-22
 Identities = 21/49 (42%), Positives = 30/49 (61%)

Query: 125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL 173
             C++CL E +D E  R +P C H FH  CVD WL  + +CP+CR + +
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 80.6 bits (199), Expect = 1e-20
 Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 115 SGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP 174
           SG     N++  C++CL ++K  + L + P C+H FH  C+  WL++   CP+C    L 
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQ 64

Query: 175 TPLSTP 180
               + 
Sbjct: 65  LAQLSG 70

>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 = 79.3 bits (196), Expect = 3e-20
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLST 179
              C+ICL   ++ E +R +P C H FH  CVD WL  N  CP+CR   +   L +
Sbjct: 14  EEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR-VDIEAQLPS 67

>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 = 74.4 bits (183), Expect = 3e-18
 Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 2/53 (3%)

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP 176
              C +C  +Y   E +R +P C H FH  C+  WL+ + SCPVCR S L   
Sbjct: 15  GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS-LTGQ 65

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

 Score = 72.6 bits (178), Expect = 2e-17
 Identities = 17/49 (34%), Positives = 25/49 (51%)

Query: 121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
             +   C  C  E K  + + +  EC H FH CC+  W+K N  CP+C+
Sbjct: 23  VQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>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 = 67.7 bits (166), Expect = 6e-16
 Identities = 13/48 (27%), Positives = 21/48 (43%)

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
           ++ C ICL +     ++  +  C H  H  C +  LK    CP+C   
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52

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

 Score = 59.3 bits (144), Expect = 2e-12
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
             C IC+    D     ++P C H F   C+D W   + +CP+CR  
Sbjct: 16  EECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQ 57

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

 Score = 57.8 bits (140), Expect = 5e-12
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 3/44 (6%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
            C ICL +  +  M      C H F   C+  W++ N +CP+C+
Sbjct: 7   RCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 56.5 bits (136), Expect = 2e-11
 Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 115 SGNNNSNNINTTCSICLCEYKDLEMLRMMP---ECRHYFHLCCVDAWLKLNGSCPVCR 169
           SG     +   +C IC+  Y ++     +    EC H F   C+   LK   +CP CR
Sbjct: 6   SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

>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 = 56.4 bits (135), Expect = 5e-11
 Identities = 13/52 (25%), Positives = 18/52 (34%)

Query: 118 NNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
           N+  ++   C          E       C H FH  C+  WLK    CP+  
Sbjct: 45  NHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 2e-10
 Identities = 13/52 (25%), Positives = 18/52 (34%)

Query: 118 NNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
           N+  ++   C          E       C H FH  C+  WLK    CP+  
Sbjct: 56  NHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 52.1 bits (125), Expect = 7e-10
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 3/53 (5%)

Query: 120 SNNINTTCSICLCEYKDLEMLRMMP---ECRHYFHLCCVDAWLKLNGSCPVCR 169
             +   +C IC+  Y ++     +    EC H F   C+   LK   +CP CR
Sbjct: 6   RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58

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

 Score = 50.5 bits (121), Expect = 3e-09
 Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 125 TTCSICLCEYKDLEMLRMMP---ECRHYFHLCCVDAWLKLNGSCPVCR 169
            +C IC+  Y ++     +    EC H F   C+   LK   +CP CR
Sbjct: 4   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51

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

 Score = 48.7 bits (116), Expect = 2e-08
 Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 112 ESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
              SG +    I   C IC   +++     ++ +CRHYF   C     +    C +C 
Sbjct: 3   SGSSGGSEEEEIPFRCFICRQAFQN----PVVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 49.0 bits (116), Expect = 5e-08
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 124 NTTCSICLCEYKDLEMLRMMP---ECRHYFHLCCVDAWLKLNGSCPVCRN 170
             +C IC+  Y ++     +    EC H F   C+   LK   +CP CR 
Sbjct: 7   TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56

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

 Score = 41.7 bits (97), Expect = 2e-05
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 121 NNINTTCSICLCEYKDLEMLRMMP---ECRHYFHLCCVDAWLKLNGSCPVCRNS 171
            +   +C IC+  Y ++     +    EC H F   C+   LK   +CP CR  
Sbjct: 69  GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 122

>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 = 45.3 bits (107), Expect = 6e-07
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNS 171
            C IC+ + +D    R+ P C       C+  WL      CP CR  
Sbjct: 24  RCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

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

 Score = 44.0 bits (104), Expect = 7e-07
 Identities = 17/58 (29%), Positives = 20/58 (34%), Gaps = 8/58 (13%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR-----NSPLPTPLS 178
            CSIC     D   +    EC H F   C+      +  CP C        PL  P S
Sbjct: 17  LCSICKGYLIDATTI---TECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSGPSS 71

>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 = 43.7 bits (102), Expect = 3e-06
 Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 19/65 (29%)

Query: 124 NTTCSICLCEYKDL--------------EMLRMMPECRHYFHLCCVDAWLK-----LNGS 164
              C IC+ +                   ++  + +C H FHL C+ A         +  
Sbjct: 25  EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 165 CPVCR 169
           CP C+
Sbjct: 85  CPSCK 89

>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 = 43.3 bits (102), Expect = 4e-06
 Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
            C +C   + D   +    EC H F   C+  +L+ +  CP+C 
Sbjct: 17  MCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICD 57

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

 Score = 45.2 bits (106), Expect = 5e-06
 Identities = 17/80 (21%), Positives = 29/80 (36%), Gaps = 16/80 (20%)

Query: 119 NSNNINTTCSICLCEYKDLEMLRMM----PECRHYFHLCCVDAWLK-----------LNG 163
             +N    C+IC     D   + ++     +C    H  C++ W K             G
Sbjct: 303 EEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFG 362

Query: 164 SCPVCRNSPLPTPLSTPLQE 183
            CP C+ + L T  +  L +
Sbjct: 363 QCPFCK-AKLSTSFAALLND 381

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

 Score = 42.1 bits (99), Expect = 7e-06
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
            C IC   +    ++   P+C H +   C+  +L     CP C  +
Sbjct: 24  RCGICFEYFNIAMII---PQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

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

 Score = 41.4 bits (97), Expect = 8e-06
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
            C+ICL        L     C+H F   CV     L   C +CR  
Sbjct: 17  ECAICLQTCVHPVSL----PCKHVFCYLCVKGASWLGKRCALCRQE 58

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

 Score = 43.0 bits (101), Expect = 9e-06
 Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 7/64 (10%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYF-HLCCVDAWLKLNGSCPVCRNSPLPTPLSTP---L 181
            C ICL   K+        EC H F   C + A    N  CP CR   +      P    
Sbjct: 56  MCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 112

Query: 182 QEVV 185
             ++
Sbjct: 113 DALI 116

>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 = 44.0 bits (103), Expect = 1e-05
 Identities = 18/90 (20%), Positives = 30/90 (33%), Gaps = 12/90 (13%)

Query: 102 NSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL 161
                 + T+E         +    C IC    KD+++      C H     C+ +W + 
Sbjct: 310 TPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEP----CGHLMCTSCLTSWQES 365

Query: 162 NG-SCPVCRNSPLPTPLSTPLQEVVPLSQY 190
            G  CP CR     T       E + +  +
Sbjct: 366 EGQGCPFCRCEIKGT-------EPIVVDPF 388

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

 Score = 42.0 bits (98), Expect = 2e-05
 Identities = 19/76 (25%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS----PLPTPLSTPL 181
            C IC   + +     +   C H F   C++ W+K    CP+CR           L   +
Sbjct: 66  QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCI 121

Query: 182 QEVVP-LSQYAADRRR 196
            ++V  LS    +RR 
Sbjct: 122 NKMVNNLSSEVKERRI 137

>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 Length = 94

 Score = 41.0 bits (96), Expect = 2e-05
 Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 9/51 (17%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK--------LNGSCPVC 168
            C +CL EY   +M   + +C+  F   C+  +++           SCP  
Sbjct: 7   GCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

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

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 3/47 (6%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG---SCPVCR 169
            C IC+  + + ++   +  C H     C++  L  +     CP C 
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

>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 = 39.9 bits (93), Expect = 3e-05
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGS--CPVCRNS-PLPTPLSTP 180
            C+IC   +  L   +    C    HL CV  + + N    CP C +  P   P S P
Sbjct: 17  ICNIC---HSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKSGP 71

>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 = 40.7 bits (95), Expect = 4e-05
 Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGS-CPVCRNSPLPTPLSTP 180
           +C IC     D     +   C+H F   C+   LK+ GS CP CR    PT L +P
Sbjct: 25  SCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

>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 = 39.5 bits (92), Expect = 1e-04
 Identities = 13/44 (29%), Positives = 16/44 (36%), Gaps = 5/44 (11%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
            CS C    ++   L     C H F   CV   +     CPVC 
Sbjct: 24  RCSRCTNILREPVCL---GGCEHIFCSNCVSDCIG--TGCPVCY 62

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

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 1/57 (1%)

Query: 114 VSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCR 169
           +S + ++      C +C+   +  ++      C +     C        NG CP CR
Sbjct: 1   MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

>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 = 39.6 bits (92), Expect = 1e-04
 Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 8/64 (12%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPTP---LSTPL 181
            C  C               C+H     C+D   +    SCP CR     +    ++ PL
Sbjct: 54  QCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPL 109

Query: 182 QEVV 185
           Q V+
Sbjct: 110 QTVL 113

>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 = 37.5 bits (87), Expect = 2e-04
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 119 NSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLC--CVDAWLKLNGSCPVCR 169
           +  N+   CS+C    +D  ++       H    C  C     K   SCP+C+
Sbjct: 2   DCQNLLKPCSLCEKRPRDGNII--HGRTGH-LVTCFHCARRLKKAGASCPICK 51

>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 = 39.2 bits (91), Expect = 2e-04
 Identities = 14/64 (21%), Positives = 21/64 (32%), Gaps = 8/64 (12%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPTPL---STPL 181
            C  C           +  EC H     C+    K    SCP CR+      +   +  L
Sbjct: 80  MCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEIL 135

Query: 182 QEVV 185
           Q ++
Sbjct: 136 QTLL 139

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

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 5/53 (9%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG--SCPVCRNSPLPTP 176
            C IC     D  ++   P C + +   C+   L  +   +CP C  + +   
Sbjct: 15  LCLICKDIMTDAVVI---PCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 37.2 bits (86), Expect = 3e-04
 Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 6/74 (8%)

Query: 113 SVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECR---HYFHLCCVDAWLKLNGS--CPV 167
             SG + + +    C IC CE  D   L     C    H+ H  C+  W+K + +  C +
Sbjct: 4   GSSGTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCEL 63

Query: 168 CRNS-PLPTPLSTP 180
           C+    + T LS P
Sbjct: 64  CKYEFIMETKLSGP 77

>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 = 36.3 bits (84), Expect = 5e-04
 Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG--SCPVCRNSPLPTP-LSTP 180
            C IC     D     ++P C + +   C+   L  +   +CP C  + +    LS P
Sbjct: 17  LCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGP 71

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

 Score = 35.8 bits (83), Expect = 5e-04
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 8/50 (16%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS-PLP 174
            C  C  E K  ++L     C H     C++        CP+C+   PL 
Sbjct: 8   RCQQCQAEAKCPKLL----PCLHTLCSGCLE---ASGMQCPICQAPWPLG 50

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	197
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.81
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.75
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.7
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.69
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.67
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.66
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.64
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.6
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.58
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.58
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.57
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.56
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.56
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.54
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.5
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.49
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.49
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.48
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.47
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.46
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.41
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.41
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.4
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.4
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.39
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.37
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.36
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.35
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.35
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.35
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.33
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.33
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.32
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.32
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.3
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.3
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.28
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.28
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.26
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.25
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.25
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.18
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.15
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.14
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.13
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.13
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.12
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.12
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.1
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.09
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.04
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.98
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.92
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.89
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.87
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.85
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.85
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.79
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.76
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.69
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.62
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.59
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.57
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.47
3nw0_A	238	Non-structural maintenance of chromosomes element	98.26
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.21
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.84
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	95.41
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.13
2k1k_A	38	Ephrin type-A receptor 1; EPHA1, receptor tyrosine	94.51
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	94.22
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	93.29
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.12
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	92.6
2k9y_A	41	Ephrin type-A receptor 2; receptor tyrosine kinase	92.49
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	92.41
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	92.06
1we9_A	64	PHD finger family protein; structural genomics, PH	91.67
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	91.24
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	91.24
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	90.93
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	90.9
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	90.85
2yt5_A	66	Metal-response element-binding transcription facto	89.54
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.29
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	89.2
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	88.87
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	88.82
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	88.72
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	88.12
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	88.06
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	87.68
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	87.02
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	86.27
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	86.06
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	85.83
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	84.26
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	83.99
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	83.85
1wem_A	76	Death associated transcription factor 1; structura	83.78
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	83.68
1iij_A	35	ERBB-2 receptor protein-tyrosine kinase; alpha-hel	83.21
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	83.11
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	83.03
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	82.92
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	82.75
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	81.21
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	81.18
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	81.13
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	80.86
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	80.85
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	80.71
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	80.43

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

Probab=99.81  E-value=3.9e-20  Score=129.84  Aligned_cols=81  Identities=31%  Similarity=0.656  Sum_probs=70.1

Q ss_pred             CCCCcCCCCCHHHHhcCCCeeeccccccCCCCCCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcc
Q 029203           88 DDDNLVVGLDQAVINSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPV  167 (197)
Q Consensus        88 ~~~~~~~~l~~~~~~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPl  167 (197)
                      .......+++++.++.+|.+.+.....     .......|+|||++|..++.++.++ |+|.||..||+.|+..+.+||+
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~-----~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~   82 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHG-----AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPV   82 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCS-----SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTT
T ss_pred             CCCcCCCCCCHHHHHhCCCeeeccccc-----ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcC
Confidence            444567899999999999988876532     3456789999999999999999999 9999999999999999999999


Q ss_pred             cCCCCCC
Q 029203          168 CRNSPLP  174 (197)
Q Consensus       168 CR~~l~~  174 (197)
                      ||..+.+
T Consensus        83 Cr~~~~~   89 (91)
T 2l0b_A           83 CRCMFPP   89 (91)
T ss_dssp             TCCBSSC
T ss_pred             cCccCCC
Confidence            9998754

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

Probab=99.75  E-value=3.2e-19  Score=120.51  Aligned_cols=68  Identities=37%  Similarity=1.008  Sum_probs=57.8

Q ss_pred             HhcCCCeeeccccccCCCCCCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          101 INSYPKFQFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       101 ~~~lp~~~~~~~~~~~~~~~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ++++|...+....      ...+..+|+||+++|..++.++.++ |+|.||..||.+|++.+.+||+||+.+.+.
T Consensus         6 i~~lp~~~~~~~~------~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNN------HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSS------CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCcc------ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            4567777775442      3455789999999999999999999 999999999999999999999999988664

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

Probab=99.70  E-value=1.3e-17  Score=105.80  Aligned_cols=52  Identities=40%  Similarity=0.941  Sum_probs=47.1

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ++..+|+||+++|.+++.+..++.|+|.||..||.+|++.+.+||+||+.+.
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            3467999999999999988888779999999999999999999999999874

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

Probab=99.69  E-value=5e-17  Score=110.32  Aligned_cols=60  Identities=35%  Similarity=0.742  Sum_probs=52.6

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTP  180 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~~  180 (197)
                      ......+|+||++.|..++.++.++ |+|.||..||.+|++.+.+||+||..+.......+
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCC
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCC
Confidence            3455789999999999999999998 99999999999999999999999999977655443

>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=99.67  E-value=8.6e-17  Score=106.64  Aligned_cols=54  Identities=39%  Similarity=0.892  Sum_probs=48.8

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      .......|+||++.|..++.++.++ |+|.||..||.+|+..+.+||+||..+..
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            3456789999999999988899999 99999999999999999999999998854

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

Probab=99.66  E-value=1.4e-16  Score=107.01  Aligned_cols=54  Identities=33%  Similarity=0.865  Sum_probs=48.9

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      .......|+||+++|.+++.+..++ |+|.||..||.+|++.+.+||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            3455789999999999999999998 99999999999999999999999998854

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

Probab=99.64  E-value=8.6e-17  Score=110.39  Aligned_cols=52  Identities=35%  Similarity=0.837  Sum_probs=42.7

Q ss_pred             CCCccccccccccC-----------CcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          123 INTTCSICLCEYKD-----------LEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~-----------~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ++..|+||+++|.+           ++.++.++.|+|.||.+||++||..+.+||+||+++..
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            45678888888854           45566665699999999999999999999999998754

>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=99.60  E-value=5.5e-16  Score=98.05  Aligned_cols=51  Identities=27%  Similarity=0.692  Sum_probs=44.1

Q ss_pred             CCCCccccccccccCCc-ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ....+|+||++.|.+++ .+..++ |+|.||..||.+|+..+.+||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            34679999999997654 567787 9999999999999999999999998763

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

Probab=99.58  E-value=9.5e-16  Score=101.87  Aligned_cols=57  Identities=25%  Similarity=0.579  Sum_probs=48.2

Q ss_pred             CCCCCCccccccccccCC----cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDL----EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~----~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ...+..+|+||++.|.+.    +.+..++ |||.||..||.+|++.+.+||+||..+....+
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            345678999999999764    4556777 99999999999999999999999999876554

>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=99.58  E-value=2.1e-15  Score=109.35  Aligned_cols=53  Identities=26%  Similarity=0.498  Sum_probs=43.1

Q ss_pred             CCccccccccccCCc---------------ceeecCCCCCccchhhHHHHh-----hCCCCCcccCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLE---------------MLRMMPECRHYFHLCCVDAWL-----KLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       124 ~~~CaICL~~~~~~~---------------~vr~l~~C~H~FH~~CI~~Wl-----~~~~tCPlCR~~l~~~~~  177 (197)
                      +.+|+|||++|.++.               .++.++ |+|.||..||..|+     ..+.+||+||..+-.+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g   97 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCC
Confidence            569999999997653               344677 99999999999999     456799999998865433

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

Probab=99.57  E-value=2.5e-15  Score=102.96  Aligned_cols=55  Identities=29%  Similarity=0.801  Sum_probs=46.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCC-----CccchhhHHHHhhCC--CCCcccCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECR-----HYFHLCCVDAWLKLN--GSCPVCRNSPLPTP  176 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~-----H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~~  176 (197)
                      ...++..|.|||++|++++.+ ++| |+     |.||.+||++||..+  .+||+||+.+....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            445678999999999988877 588 96     999999999999765  48999999986543

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

Probab=99.56  E-value=2.4e-15  Score=99.15  Aligned_cols=54  Identities=26%  Similarity=0.616  Sum_probs=45.7

Q ss_pred             CCCCCCccccccccccCC----cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDL----EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~----~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...+...|+||++.|.+.    ..+..++ |||.||..||..|+..+.+||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            345678999999999864    3456777 99999999999999999999999998754

>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=99.56  E-value=1.9e-15  Score=108.83  Aligned_cols=50  Identities=30%  Similarity=0.645  Sum_probs=43.2

Q ss_pred             CCCccccccccccCCc---------------ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          123 INTTCSICLCEYKDLE---------------MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~---------------~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      .+..|+||++.|....               .++.++ |+|.||..||++||..+.+||+||+.+.
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            4678999999998651               366777 9999999999999999999999999853

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

Probab=99.54  E-value=2.1e-15  Score=97.99  Aligned_cols=53  Identities=26%  Similarity=0.630  Sum_probs=45.1

Q ss_pred             CCCccccccccccCC----cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          123 INTTCSICLCEYKDL----EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       123 ~~~~CaICL~~~~~~----~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      +..+|+||++.|.+.    +.+..++ |||.||..||.+|++.+.+||+||..+....
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            357999999999864    4556777 9999999999999999999999999886543

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

Probab=99.50  E-value=5e-15  Score=98.76  Aligned_cols=54  Identities=28%  Similarity=0.535  Sum_probs=45.2

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ...+...|+||++.+.+.   ..++ |+|.||..||..|+..+.+||+||..+....+
T Consensus        11 ~~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   64 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPEDFL   64 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHH
T ss_pred             cCCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHhhc
Confidence            345578999999998765   4567 99999999999999999999999998865443

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

Probab=99.49  E-value=1.7e-14  Score=95.10  Aligned_cols=49  Identities=29%  Similarity=0.833  Sum_probs=42.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      .....|+||++.+.+.  +..++ |||.||..||..|+..+.+||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            3467999999998753  46788 9999999999999999999999999874

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

Probab=99.49  E-value=4e-14  Score=94.58  Aligned_cols=54  Identities=24%  Similarity=0.404  Sum_probs=45.1

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ..+...|+||++.|.+.  +..++ |||.||..||..|+..+.+||+||..+.....
T Consensus        12 ~~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             cCCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            44568999999998874  44457 99999999999999999999999998865544

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

Probab=99.48  E-value=1.2e-14  Score=96.50  Aligned_cols=50  Identities=30%  Similarity=0.741  Sum_probs=43.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.+.+    ..++ |+|.||..||..|+..+.+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            4557899999999877    5677 999999999999999999999999988643

>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=99.47  E-value=4.7e-15  Score=108.46  Aligned_cols=50  Identities=32%  Similarity=0.689  Sum_probs=1.0

Q ss_pred             CCCccccccccccCC-------------c--ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          123 INTTCSICLCEYKDL-------------E--MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       123 ~~~~CaICL~~~~~~-------------~--~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ....|+||+++|.+.             +  .+..++ |+|.||..||++||..+.+||+||++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            457999999999763             2  233356 9999999999999999999999999864

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

Probab=99.46  E-value=9e-14  Score=95.88  Aligned_cols=57  Identities=21%  Similarity=0.522  Sum_probs=47.5

Q ss_pred             CCCCCCccccccccccCCcc-eeecCCCCCccchhhHHHHhhCC---CCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEM-LRMMPECRHYFHLCCVDAWLKLN---GSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~-vr~l~~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l~~~~~  177 (197)
                      ...+..+|+||++.|.+.+. ...++ |||.||..||..|+..+   .+||+||..+....+
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRITSL   71 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSST
T ss_pred             hccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhH
Confidence            34567899999999998764 56777 99999999999999876   689999998865543

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

Probab=99.41  E-value=2.9e-13  Score=90.23  Aligned_cols=52  Identities=25%  Similarity=0.466  Sum_probs=42.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh---CCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK---LNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~---~~~tCPlCR~~l~~~~  176 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|++   .+.+||+||..+....
T Consensus        17 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            45578999999998864   4557 999999999999997   4558999999886543

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

Probab=99.41  E-value=1.6e-13  Score=93.58  Aligned_cols=50  Identities=24%  Similarity=0.592  Sum_probs=43.0

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      .......|+||++.|.+.   ..++ |||.||..||..|+....+||+||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            345577999999999764   3577 9999999999999999999999999884

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

Probab=99.41  E-value=2.6e-13  Score=88.97  Aligned_cols=51  Identities=22%  Similarity=0.421  Sum_probs=42.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh-CCCCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.+.+..   .++ |||.||..||..|+. .+.+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            455789999999998763   367 999999999999994 567899999988654

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

Probab=99.40  E-value=3e-13  Score=90.86  Aligned_cols=53  Identities=21%  Similarity=0.469  Sum_probs=42.8

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~  175 (197)
                      ...+...|+||++.|.+.  + .++.|||.||..||..|+..+  .+||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~p--~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           11 PIPDELLCLICKDIMTDA--V-VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             CSCGGGSCSSSCCCCTTC--E-ECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             cCCCCCCCcCCChHHhCC--e-EcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            345568999999999875  3 355599999999999999865  6899999976543

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

Probab=99.40  E-value=9.9e-14  Score=102.34  Aligned_cols=56  Identities=25%  Similarity=0.598  Sum_probs=47.1

Q ss_pred             CCCCCccccccccccCC----cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDL----EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~----~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ..+..+|+||++.|.+.    +.+..++ |||.||..||.+|++.+.+||+||..+.....
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            45578999999999764    4557777 99999999999999999999999998866544

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

Probab=99.39  E-value=5.8e-13  Score=89.63  Aligned_cols=51  Identities=24%  Similarity=0.473  Sum_probs=43.0

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcccCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPVCRNSPLP  174 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~~  174 (197)
                      .+...+|+||.+.|..++...  . |+|.||..||.+||+.+  .+||+||++...
T Consensus        12 ~~~i~~C~IC~~~i~~g~~C~--~-C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           12 PDAVKICNICHSLLIQGQSCE--T-CGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSSCBCSSSCCBCSSSEECS--S-SCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             cCCCCcCcchhhHcccCCccC--C-CCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            345689999999999876544  4 99999999999999887  799999987643

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

Probab=99.37  E-value=2e-13  Score=102.37  Aligned_cols=48  Identities=27%  Similarity=0.734  Sum_probs=41.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      +..|+||++.|.++   ..++ |||.||..||..|+..+.+||+||.++...
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            46899999999764   4677 999999999999999999999999988543

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

Probab=99.36  E-value=1.2e-12  Score=89.32  Aligned_cols=54  Identities=35%  Similarity=0.610  Sum_probs=44.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC------CCCCcccCCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL------NGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~------~~tCPlCR~~l~~~~~~  178 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|+..      ..+||+||..+....+.
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCC
T ss_pred             ccCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcC
Confidence            45578999999999765   4567 9999999999999977      77999999988765443

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

Probab=99.35  E-value=9.6e-13  Score=89.81  Aligned_cols=53  Identities=32%  Similarity=0.566  Sum_probs=44.3

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC------CCCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL------NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~------~~tCPlCR~~l~~~~~  177 (197)
                      ..+...|+||++.|.+.   ..++ |+|.||..||..|+..      ..+||+||..+....+
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CCTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             CccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            45578999999999876   3677 9999999999999987      6689999998865544

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

Probab=99.35  E-value=5.7e-13  Score=90.07  Aligned_cols=53  Identities=21%  Similarity=0.382  Sum_probs=44.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|+.. +.+||+||..+....+
T Consensus         5 ~~~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l   58 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             CcccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhhC
Confidence            45678999999999875   3457 9999999999999987 7799999998865443

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

Probab=99.35  E-value=2.9e-13  Score=91.56  Aligned_cols=54  Identities=30%  Similarity=0.474  Sum_probs=44.5

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-------CCCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-------NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-------~~tCPlCR~~l~~~~~  177 (197)
                      ...+...|+||++.|.+.   ..++ |||.||..||..|+..       ..+||+||..+....+
T Consensus         8 ~~~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l   68 (79)
T 2egp_A            8 NVQEEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHL   68 (79)
T ss_dssp             CCCCCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGG
T ss_pred             hcccCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhC
Confidence            345678999999999775   3467 9999999999999986       5689999998865443

>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=99.33  E-value=4.7e-13  Score=95.07  Aligned_cols=52  Identities=25%  Similarity=0.566  Sum_probs=43.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPTPL  177 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~~  177 (197)
                      +...|+||++.|.+.  +..++ |||.||..||..|+..+ .+||+||..+....+
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l   73 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA--RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL   73 (100)
T ss_dssp             HHTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCccCCccccCc--cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHh
Confidence            357999999999753  44377 99999999999999887 699999999855433

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

Probab=99.33  E-value=1.1e-12  Score=85.69  Aligned_cols=53  Identities=23%  Similarity=0.564  Sum_probs=42.5

Q ss_pred             CCccccccc-cccCCcce-eecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          124 NTTCSICLC-EYKDLEML-RMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       124 ~~~CaICL~-~~~~~~~v-r~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      +..|+||++ .|.+.... ..++ |||.||..||.+|+.. ..+||+||..+....+
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            568999999 77776543 3466 9999999999999765 4589999998866544

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

Probab=99.32  E-value=2.3e-12  Score=83.54  Aligned_cols=45  Identities=27%  Similarity=0.527  Sum_probs=37.6

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh---CCCCCccc
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK---LNGSCPVC  168 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~---~~~tCPlC  168 (197)
                      ...+...|+||++.|.+.   ..++ |||.||..||..|++   .+.+||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            345578999999999865   4557 999999999999997   45689998

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

Probab=99.32  E-value=7e-13  Score=93.73  Aligned_cols=50  Identities=20%  Similarity=0.544  Sum_probs=42.5

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ...|+||++.|.+.  +..++ |||.||..||..|+..+.+||+||..+....
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            57999999999864  44446 9999999999999999999999999886543

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

Probab=99.30  E-value=5.4e-13  Score=98.33  Aligned_cols=55  Identities=25%  Similarity=0.609  Sum_probs=45.8

Q ss_pred             CCCCCccccccccccCC----cceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDL----EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~----~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ..+...|+||++.|.+.    .....++ |||.||..||++|++.+.+||+||..+..+.
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            34567899999999763    3446676 9999999999999999999999999886543

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

Probab=99.30  E-value=2.8e-12  Score=81.56  Aligned_cols=45  Identities=31%  Similarity=0.848  Sum_probs=37.3

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh---CCCCCccc
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK---LNGSCPVC  168 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~---~~~tCPlC  168 (197)
                      ...+...|+||++.|.+.   ..++ |||.||..||..|+.   .+.+||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            345578999999999876   4577 999999999999954   56689998

>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=99.28  E-value=1.9e-12  Score=99.65  Aligned_cols=79  Identities=24%  Similarity=0.375  Sum_probs=52.9

Q ss_pred             cCCCCCHHHHhcCCCeeecccccc-CCCCCCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccC
Q 029203           92 LVVGLDQAVINSYPKFQFTKESVS-GNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCR  169 (197)
Q Consensus        92 ~~~~l~~~~~~~lp~~~~~~~~~~-~~~~~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR  169 (197)
                      ...++....+.+.+.......... ...........|+||++.|.+  .+..++ |||.||..||..|+.. +.+||+||
T Consensus        21 ~~~~l~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr   97 (165)
T 2ckl_B           21 KTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCR   97 (165)
T ss_dssp             CCCCCCHHHHHCCCCCCCCSCCEEC----CCHHHHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTC
T ss_pred             ccccCCHHHHhcCchhhhccccccccchhhCCCCCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCC
Confidence            345566666666554333322110 000122345699999999986  355557 9999999999999987 77899999


Q ss_pred             CCCC
Q 029203          170 NSPL  173 (197)
Q Consensus       170 ~~l~  173 (197)
                      ..+.
T Consensus        98 ~~~~  101 (165)
T 2ckl_B           98 KKLV  101 (165)
T ss_dssp             CBCC
T ss_pred             CcCC
Confidence            9884

>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=99.28  E-value=1.6e-12  Score=93.28  Aligned_cols=50  Identities=24%  Similarity=0.567  Sum_probs=42.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      +...|+||++.|.+.  +..++ |||.||..||..|+..+.+||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA--TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhCc--CEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            467999999999763  54457 999999999999999999999999988653

>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=99.26  E-value=4.1e-12  Score=93.36  Aligned_cols=48  Identities=23%  Similarity=0.356  Sum_probs=40.9

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC-CCcccCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~  174 (197)
                      +...|+||++.|.+.   ..++ |||.||..||..|+..+. +||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            357899999999865   4467 999999999999998555 99999998865

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

Probab=99.25  E-value=6.8e-12  Score=87.31  Aligned_cols=51  Identities=22%  Similarity=0.459  Sum_probs=41.7

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcccCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPVCRNSPL  173 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~  173 (197)
                      ...+...|+||++.|.+.   ..++.|||.||..||..|+..+  .+||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            445678999999999865   3455599999999999999644  58999999873

>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=99.25  E-value=4.9e-12  Score=90.96  Aligned_cols=51  Identities=29%  Similarity=0.585  Sum_probs=42.4

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC---CCcccCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG---SCPVCRNSPLPTPLS  178 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~---tCPlCR~~l~~~~~~  178 (197)
                      ...|+||++.|.+.   ..++ |||.||..||..|+..+.   +||+||..+....+.
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~   74 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQ   74 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCB
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcC
Confidence            46899999999765   3467 999999999999998654   899999988765543

>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=99.18  E-value=1.6e-11  Score=93.46  Aligned_cols=49  Identities=22%  Similarity=0.358  Sum_probs=41.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC-CCcccCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPT  175 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  175 (197)
                      +...|+||++.|.+.   ..++ |||.||..||..|+.... +||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            357999999999765   3477 999999999999998765 899999998665

>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=99.15  E-value=1e-11  Score=90.53  Aligned_cols=51  Identities=27%  Similarity=0.574  Sum_probs=42.7

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC-CCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|+.... +||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            44567999999999875   4467 999999999999998765 999999988553

>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=99.14  E-value=1.6e-11  Score=89.04  Aligned_cols=50  Identities=34%  Similarity=0.701  Sum_probs=42.1

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      ...|+||++.|.+.   ..++ |||.||..||..|+.. +.+||+||..+....+
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            57899999998765   3467 9999999999999987 6799999998865444

>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=99.13  E-value=6.1e-11  Score=84.28  Aligned_cols=53  Identities=9%  Similarity=-0.037  Sum_probs=45.5

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ...+...|+||++-|.++   ..++ |||.|+..||..|+..+.+||+||..+....
T Consensus        25 ~~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             cCcHhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            345678999999999887   4567 9999999999999998899999999886543

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

Probab=99.13  E-value=4.4e-11  Score=82.49  Aligned_cols=52  Identities=10%  Similarity=-0.043  Sum_probs=44.9

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ...+...|+||++-|.+.   ..++ |||.|+..||..|+..+.+||+||..+...
T Consensus        10 ~~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             cCchheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            345679999999999887   4677 999999999999999889999999987543

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

Probab=99.12  E-value=8.9e-11  Score=79.72  Aligned_cols=57  Identities=19%  Similarity=0.394  Sum_probs=43.9

Q ss_pred             CCCCCCccccccccccCCcc-eeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEM-LRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~-vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      ...++.+|+|||+.+...+. +..++ |||.||..|+..|+.. ...||+||..+.....
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            34567899999999875443 33345 9999999999998853 5689999998876544

>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=99.12  E-value=1e-11  Score=90.01  Aligned_cols=48  Identities=23%  Similarity=0.537  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~  173 (197)
                      .++..|+||++.|.+.   ..++ |||.||..||..|+.. +.+||+||..+.
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            3457899999999865   4567 9999999999999976 668999999874

>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=99.10  E-value=2.5e-11  Score=79.33  Aligned_cols=49  Identities=29%  Similarity=0.427  Sum_probs=40.2

Q ss_pred             CCCCccccccccccCCccee-ecCCCCCc-cchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLR-MMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr-~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      .++.+|.||++.+.+.  +. .+| |||. |+.+|+..|.+.+.+||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~~~~--~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG--CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCE--EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCE--EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            3467999999986554  22 348 9999 899999999998899999999873

>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=99.09  E-value=1.2e-10  Score=82.37  Aligned_cols=52  Identities=12%  Similarity=-0.022  Sum_probs=44.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCC-CccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECR-HYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~-H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ..+.+.|+||++.|.+.   ..++ || |.|+..||..|+..+.+||+||..+....
T Consensus        19 ~p~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             CcHhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhh
Confidence            45578999999999887   4567 99 99999999999998899999999886543

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

Probab=99.09  E-value=4.6e-11  Score=75.86  Aligned_cols=48  Identities=25%  Similarity=0.510  Sum_probs=39.9

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.|.+.   +.++ |||.||..||..|   ..+||+||+.+...
T Consensus         3 e~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             cccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            34568899999999875   5678 9999999999884   66899999988543

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

Probab=99.07  E-value=6.7e-11  Score=102.33  Aligned_cols=49  Identities=29%  Similarity=0.719  Sum_probs=41.6

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhh-CCCCCcccCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-LNGSCPVCRNSPLP  174 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~  174 (197)
                      ....+|+||++.+.+   ...+| |||.||..||..|+. .+.+||+||..+..
T Consensus       330 ~~~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          330 STFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             TSSSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            335799999999865   35677 999999999999998 78899999998754

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

Probab=99.07  E-value=3.6e-11  Score=101.90  Aligned_cols=53  Identities=26%  Similarity=0.605  Sum_probs=41.1

Q ss_pred             CCCCCccccccccccCCcce----eecCCCCCccchhhHHHHhhCC-----------CCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEML----RMMPECRHYFHLCCVDAWLKLN-----------GSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~v----r~l~~C~H~FH~~CI~~Wl~~~-----------~tCPlCR~~l~  173 (197)
                      .+...+|+||++.+.++..+    ...+.|+|.||..||.+||+..           .+||+||+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            45678999999999884433    2333599999999999999642           47999999763

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

Probab=99.06  E-value=5.4e-11  Score=86.57  Aligned_cols=50  Identities=26%  Similarity=0.540  Sum_probs=41.4

Q ss_pred             CCccccccccccCCcceeec-CCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMM-PECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLST  179 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l-~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~  179 (197)
                      ...|+||++.|.+.   ..+ + |||.||..||..|+.  .+||+||..+....+..
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~   72 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCccccccc
Confidence            67999999999765   344 6 999999999999998  88999999885544433

>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=99.05  E-value=4.3e-11  Score=90.12  Aligned_cols=51  Identities=18%  Similarity=0.384  Sum_probs=42.5

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC-CCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|+.... +||+||.++...
T Consensus        28 l~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             CCcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            34578999999999876   3467 999999999999998665 899999987543

>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=99.04  E-value=5.1e-11  Score=77.55  Aligned_cols=50  Identities=24%  Similarity=0.483  Sum_probs=40.3

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l  172 (197)
                      .....+|.||++...+.. +..+| |||. |+..|+..|.+.+.+||+||+++
T Consensus         4 ~~~~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            4 QNLLKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GGGGSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             CCcCCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            344679999999865431 22348 9998 99999999998889999999987

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

Probab=98.98  E-value=4.4e-10  Score=72.46  Aligned_cols=49  Identities=24%  Similarity=0.529  Sum_probs=38.0

Q ss_pred             CCCCCccccccccccCCcceeecCCCC--C---ccchhhHHHHhhC--CCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECR--H---YFHLCCVDAWLKL--NGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~--H---~FH~~CI~~Wl~~--~~tCPlCR~~l~  173 (197)
                      .++...|.||+++.  ++.+ ++| |.  |   .||..|+++|+..  +.+||+|+..+.
T Consensus         3 ~~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            3 DEDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            34567999999983  3344 577 65  4   9999999999964  568999998763

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

Probab=98.92  E-value=2.6e-10  Score=76.40  Aligned_cols=42  Identities=26%  Similarity=0.662  Sum_probs=36.2

Q ss_pred             CCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ...|.||++.+.+.   ..+| |||. ||..|+..|    .+||+||..+.
T Consensus        24 ~~~C~iC~~~~~~~---~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEET-TCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             CCCCCCCCCCCCCE---EEcC-CCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            46899999987653   5678 9999 999999998    89999999874

>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=98.89  E-value=4.6e-10  Score=78.67  Aligned_cols=51  Identities=20%  Similarity=0.358  Sum_probs=40.3

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC------CCCcc--cCCC-CCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN------GSCPV--CRNS-PLP  174 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~------~tCPl--CR~~-l~~  174 (197)
                      ......|+||++.|.++  |.... |||.|+..||..|+..+      .+||+  |+.. +..
T Consensus         4 ~~~~~~CPI~~~~~~dP--V~~~~-cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKP--VKNKV-CGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             CSSCCBCTTTCSBCSSE--EEESS-SCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             CCcEeECcCcCchhcCC--EEcCC-CCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            45678999999999875  43324 99999999999999754      48999  9866 433

>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=98.87  E-value=8e-10  Score=90.80  Aligned_cols=53  Identities=11%  Similarity=0.023  Sum_probs=43.8

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPTP  176 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~  176 (197)
                      .......|+||++-|.++   .+++ |||.|+..||..|+..+ .+||+||.++....
T Consensus       204 ~~~~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCCcccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            455688999999999877   4577 99999999999999764 46999999885433

>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=98.85  E-value=7.2e-10  Score=85.51  Aligned_cols=51  Identities=27%  Similarity=0.574  Sum_probs=42.5

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC-CCcccCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG-SCPVCRNSPLPT  175 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  175 (197)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|+.... +||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            45578999999999876   3467 999999999999997654 999999987553

>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=98.85  E-value=1e-09  Score=76.66  Aligned_cols=49  Identities=29%  Similarity=0.684  Sum_probs=41.1

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC--------CCCCcc--cCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL--------NGSCPV--CRNS  171 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~--------~~tCPl--CR~~  171 (197)
                      .+..+|+||++++...+.+...+ |||.||.+|+..|+..        ..+||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            34678999999998877777777 9999999999999853        237999  9987

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

Probab=98.79  E-value=4.8e-09  Score=69.16  Aligned_cols=47  Identities=28%  Similarity=0.620  Sum_probs=38.3

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...+...|.||++...+   +..+| |||. |+..|+..    ..+||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            44557899999998554   56788 9999 99999984    5799999998743

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

Probab=98.76  E-value=3.4e-09  Score=71.00  Aligned_cols=43  Identities=26%  Similarity=0.621  Sum_probs=35.3

Q ss_pred             CCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...|.||++.+.+.   ..+| |||. ||..|+..    ...||+||..+..
T Consensus        25 ~~~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            45899999997654   5678 9999 99999964    4789999998743

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

Probab=98.69  E-value=5.4e-09  Score=81.54  Aligned_cols=52  Identities=12%  Similarity=0.014  Sum_probs=43.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~  175 (197)
                      .....+.|+||++-|.++   .+++ |||.|+..||..|+..+ .+||+|+..+...
T Consensus       102 ~ip~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          102 EIPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCcHhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            456789999999999876   3557 99999999999999764 4799999887543

>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=98.62  E-value=7.8e-09  Score=70.14  Aligned_cols=43  Identities=30%  Similarity=0.621  Sum_probs=35.7

Q ss_pred             CCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPLP  174 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  174 (197)
                      ...|.||++.+.+   ...+| |||. |+..|+..|    ..||+||..+..
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            4689999998655   46778 9999 999999887    399999998743

>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=98.59  E-value=1.4e-08  Score=65.61  Aligned_cols=51  Identities=14%  Similarity=0.185  Sum_probs=41.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      ...|+||++.+.+.  |...+ |||.|.+.||.+|+..+.+||+++..|....+
T Consensus         3 ~~~CpIs~~~m~dP--V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVPRRP--VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCCSSE--EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             eEEecCCCCCCCCC--EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            46899999999865  43336 99999999999999988899999998865433

>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=98.57  E-value=1e-08  Score=84.12  Aligned_cols=55  Identities=24%  Similarity=0.415  Sum_probs=43.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--CCCcc--cCCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--GSCPV--CRNSPLPTPLS  178 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--~tCPl--CR~~l~~~~~~  178 (197)
                      ......|+||++.|.++  |+.+. |||.|++.||..|+..+  .+||+  |+..+....+.
T Consensus       178 ~~~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~  236 (267)
T 3htk_C          178 GKIELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFV  236 (267)
T ss_dssp             SBCCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEE
T ss_pred             CceeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCC
Confidence            45678999999999765  55455 99999999999999765  47999  99977654443

>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=98.47  E-value=2.7e-08  Score=85.12  Aligned_cols=43  Identities=26%  Similarity=0.686  Sum_probs=36.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCc-cchhhHHHHhhCCCCCcccCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHY-FHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      +...|+||++.+.+.   ..+| |||. ||..|+..|    ..||+||..+.
T Consensus       294 ~~~~C~IC~~~~~~~---v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV---VFIP-CGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCCE---EEET-TCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCce---EEcC-CCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            457999999998653   5668 9999 999999988    78999999874

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

Probab=98.26  E-value=1.3e-06  Score=71.03  Aligned_cols=47  Identities=26%  Similarity=0.540  Sum_probs=39.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC--CCcccCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG--SCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~--tCPlCR~~l  172 (197)
                      ...+|+||.+-...+.   ..++|+|.||..|+..|++.+.  +||.|+...
T Consensus       179 ~i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W  227 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW  227 (238)
T ss_dssp             TCCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBC
T ss_pred             CCCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            4789999999998873   3345999999999999997755  899998864

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

Probab=98.21  E-value=7.7e-07  Score=62.34  Aligned_cols=45  Identities=31%  Similarity=0.583  Sum_probs=36.2

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPL  173 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~  173 (197)
                      -|.+|--.+..  ..|..| |+|+|+.+|+..|.++ .++||.|+.++.
T Consensus         3 fC~~C~~Pi~i--ygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSE--EEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEE--Eeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            47777666543  468888 9999999999999854 679999999873

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

Probab=96.84  E-value=0.0015  Score=42.33  Aligned_cols=53  Identities=19%  Similarity=0.361  Sum_probs=38.2

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC----CCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN----GSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~----~tCPlCR~~l~~~~~  177 (197)
                      ......|.||.+.   ++ +..--.|...||..|+++.|..-    ..||.|.....+.+.
T Consensus         9 ~~~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p~P~   65 (66)
T 2lri_C            9 LAPGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTPAPV   65 (66)
T ss_dssp             CCTTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCCCCC
T ss_pred             CCCCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCCccCCC
Confidence            3445789999743   44 44444599999999999988653    379999887665543

>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=95.41  E-value=0.057  Score=36.37  Aligned_cols=36  Identities=17%  Similarity=0.426  Sum_probs=25.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHH
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW  158 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W  158 (197)
                      ...+..|.|| +.|..++...-= -|+-+||..|+.+-
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 445555433222 38999999999996

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

Probab=95.13  E-value=0.015  Score=40.16  Aligned_cols=34  Identities=15%  Similarity=0.305  Sum_probs=25.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHH
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW  158 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W  158 (197)
                      +..|.||++.|.......-+. |+|.|+..|+..|
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            468999998754433333466 9999999999983

>2k1k_A Ephrin type-A receptor 1; EPHA1, receptor tyrosine kinase, dimeric transmembrane domain, ATP-binding, glycoprotein, nucleotide-binding; NMR {Homo sapiens} PDB: 2k1l_A

Probab=94.51  E-value=0.061  Score=30.79  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=13.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhheec
Q 029203           17 LGYSIAIALGFLVLLSTVLLASYICCR   43 (197)
Q Consensus        17 ~~~~I~i~i~~~vli~~i~l~~~~~~~   43 (197)
                      -+-+.+++++.++.+.++..+.+|++|
T Consensus        10 ~GaIAGiVvG~v~gv~li~~l~~~~~r   36 (38)
T 2k1k_A           10 GGEIVAVIFGLLLGAALLLGILVFRSR   36 (38)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCceeeeehHHHHHHHHHHHHHHHHee
Confidence            344566666666544444444444433

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=94.22  E-value=0.068  Score=31.58  Aligned_cols=31  Identities=23%  Similarity=0.224  Sum_probs=15.9

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHhheecccc
Q 029203           15 IGLGYSIAIALGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        15 ~~~~~~I~i~i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      ....++++.++|++ +++++.+.+.++.||++
T Consensus         9 ~~~~~Ia~~vVGvl-l~vi~~l~~~~~~RRR~   39 (44)
T 2jwa_A            9 SPLTSIISAVVGIL-LVVVLGVVFGILIKRRQ   39 (44)
T ss_dssp             CSHHHHHHHHHHHH-HHHHHHHHHHHHHHHHC
T ss_pred             CcccchHHHHHHHH-HHHHHHHHHHhheehhh
Confidence            44556777777744 33434444444444443

>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=93.29  E-value=0.033  Score=35.16  Aligned_cols=49  Identities=24%  Similarity=0.501  Sum_probs=34.2

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l~  173 (197)
                      ..+...|.||-+.   ++ +..--.|...||..|+.+-+..    ...||.|+...+
T Consensus         6 d~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            6 DHHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             CSSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             cCCCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            4557789999752   33 3344459999999999875543    236999977543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=93.12  E-value=0.066  Score=33.74  Aligned_cols=47  Identities=23%  Similarity=0.627  Sum_probs=33.5

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRN  170 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~  170 (197)
                      .......|.||...   ++ +..--.|...||..|+.+-+..    .-.||.|+.
T Consensus         7 ~~~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SSCCCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             cCCCCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            34557799999863   33 4444459999999999986543    337999965

>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=92.60  E-value=0.051  Score=38.33  Aligned_cols=49  Identities=22%  Similarity=0.530  Sum_probs=33.1

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCR  169 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR  169 (197)
                      ...++..|.||.+.-+..+.+.=- .|...||..|++..+..    ...||-|+
T Consensus         3 ~~~~~~~C~~C~~~g~~~~ll~C~-~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            3 SGSSGANCAVCDSPGDLLDQFFCT-TCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCCCSCBTTTCCCCCTTTSEECS-SSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCCCcCCCCCCCCcCCeECC-CCCCCcChHHhCCccccccccCccCCcCC
Confidence            455678999998764333334433 59999999999887642    23566664

>2k9y_A Ephrin type-A receptor 2; receptor tyrosine kinase, membrane protein, dimeric transmembrane domain, ephrin receptor, ATP-binding, glycoprotein; NMR {Homo sapiens}

Probab=92.49  E-value=0.25  Score=28.35  Aligned_cols=13  Identities=31%  Similarity=0.480  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHH
Q 029203           19 YSIAIALGFLVLL   31 (197)
Q Consensus        19 ~~I~i~i~~~vli   31 (197)
                      +.++++.|+++++
T Consensus        15 I~~~vv~Gv~ll~   27 (41)
T 2k9y_A           15 VIGGVAVGVVLLL   27 (41)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             EEeehhHHHHHHH
Confidence            4555555555533

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=92.06  E-value=0.23  Score=29.27  Aligned_cols=22  Identities=14%  Similarity=0.185  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 029203           19 YSIAIALGFLVLLSTVLLASYI   40 (197)
Q Consensus        19 ~~I~i~i~~~vli~~i~l~~~~   40 (197)
                      +..+++.|+++++.++++.++|
T Consensus        12 IA~gVVgGv~~v~ii~~~~~~~   33 (44)
T 2l2t_A           12 IAAGVIGGLFILVIVGLTFAVY   33 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEeehHHHHHHHHHHHHHHHH
Confidence            3444444455544444333333

>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=91.67  E-value=0.055  Score=34.26  Aligned_cols=50  Identities=26%  Similarity=0.476  Sum_probs=34.9

Q ss_pred             CCCCCccccccccccCCc-ceeecCCCCCccchhhHHHHhh-----CCCCCcccCCC
Q 029203          121 NNINTTCSICLCEYKDLE-MLRMMPECRHYFHLCCVDAWLK-----LNGSCPVCRNS  171 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~-~vr~l~~C~H~FH~~CI~~Wl~-----~~~tCPlCR~~  171 (197)
                      ..+...|.||...+.++. .|.-- .|..=||..|+.--..     ....||.|+..
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd-~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCD-LCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECS-SSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEcc-CCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            345678999999986544 44433 5999999999864321     34579999763

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=91.24  E-value=0.22  Score=31.86  Aligned_cols=22  Identities=23%  Similarity=0.230  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHhheecccc
Q 029203           25 LGFLVLLSTVLLASYICCRRNN   46 (197)
Q Consensus        25 i~~~vli~~i~l~~~~~~~~~~   46 (197)
                      .|++.++.++.+.+++|.++++
T Consensus        15 Gg~~~lll~~glcI~ccvkcrh   36 (70)
T 2klu_A           15 GGVAGLLLFIGLGIFFSVRSRH   36 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSC
T ss_pred             hHHHHHHHHHHHHHHHhhHHHH
Confidence            3334444444444454554443

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=91.24  E-value=0.059  Score=41.39  Aligned_cols=46  Identities=28%  Similarity=0.527  Sum_probs=33.7

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l  172 (197)
                      ++..|.||...   |+ +.....|...||..|+.+-+..    ...||.|+..-
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            45789999753   44 4444469999999999887754    24799998754

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=90.93  E-value=0.18  Score=29.78  Aligned_cols=15  Identities=20%  Similarity=0.326  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHHHH
Q 029203           20 SIAIALGFLVLLSTV   34 (197)
Q Consensus        20 ~I~i~i~~~vli~~i   34 (197)
                      ..+++.|+++++.++
T Consensus        14 A~gVVgGv~~~~ii~   28 (44)
T 2ks1_B           14 ATGMVGALLLLLVVA   28 (44)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             EeehhHHHHHHHHHH
Confidence            334444444444333

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=90.90  E-value=0.13  Score=30.99  Aligned_cols=44  Identities=30%  Similarity=0.722  Sum_probs=30.0

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRN  170 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~  170 (197)
                      .|.||...-..++.+ .--.|...||..|+++=+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll-~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLI-LCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCE-ECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEE-ECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488887764444344 44459999999999865543    236999965

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=90.85  E-value=0.07  Score=41.83  Aligned_cols=48  Identities=25%  Similarity=0.441  Sum_probs=35.1

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC----CCCcccCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN----GSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~----~tCPlCR~~l  172 (197)
                      ..+...|.+|-..    ..+.....|...||..|+.+.+...    ..||.|+..-
T Consensus         4 d~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            4 DPNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            3456789999743    3455555699999999998877543    4799998743

>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=89.54  E-value=0.088  Score=33.46  Aligned_cols=52  Identities=19%  Similarity=0.453  Sum_probs=36.1

Q ss_pred             CCCCCcccccccccc-CCcceeecCCCCCccchhhHHHHhh-------CCCCCcccCCCC
Q 029203          121 NNINTTCSICLCEYK-DLEMLRMMPECRHYFHLCCVDAWLK-------LNGSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~-~~~~vr~l~~C~H~FH~~CI~~Wl~-------~~~tCPlCR~~l  172 (197)
                      ..+...|.||..... ++..+..-..|.-.||..|+.+=+.       ....||.|....
T Consensus         3 ~~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~   62 (66)
T 2yt5_A            3 SGSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFAT   62 (66)
T ss_dssp             CCCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcc
Confidence            455789999998653 3344555556999999999986442       234799996543

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.29  E-value=0.08  Score=32.69  Aligned_cols=47  Identities=34%  Similarity=0.684  Sum_probs=32.7

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRN  170 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~  170 (197)
                      ...++..|.||-..   ++.+ .-..|...||..|+.+=|..    .-.||.|..
T Consensus         5 ~~~~~~~C~vC~~~---g~ll-~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            5 SSGHEDFCSVCRKS---GQLL-MCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CCSSCCSCSSSCCS---SCCE-ECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             cCCCCCCCccCCCC---CeEE-EcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            34557789999874   4434 44459999999999875543    235988854

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=89.20  E-value=0.18  Score=39.00  Aligned_cols=48  Identities=21%  Similarity=0.514  Sum_probs=34.4

Q ss_pred             CCccccccccccCCcc---eeecCCCCCccchhhHHH------Hhh-----CCCCCcccCCC
Q 029203          124 NTTCSICLCEYKDLEM---LRMMPECRHYFHLCCVDA------WLK-----LNGSCPVCRNS  171 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~---vr~l~~C~H~FH~~CI~~------Wl~-----~~~tCPlCR~~  171 (197)
                      +..|+||...|.+++.   ....-.|..=||..|+.-      =+.     ..-.||.|+..
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            4579999999998762   334445999999999832      111     15689999774

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=88.87  E-value=0.13  Score=36.36  Aligned_cols=45  Identities=31%  Similarity=0.589  Sum_probs=31.8

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRN  170 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~  170 (197)
                      .|.||...-.+.+.+..--.|...||..|+++-|..    .-.||.|+.
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            688998753343444444469999999999876643    237999975

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=88.82  E-value=0.64  Score=34.38  Aligned_cols=46  Identities=20%  Similarity=0.345  Sum_probs=33.5

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh-----------CCCCCcccCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-----------LNGSCPVCRN  170 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-----------~~~tCPlCR~  170 (197)
                      ...+..|.||-+.   | ++...-.|-..||..||++=+.           ....||+|+.
T Consensus        60 Dg~~d~C~vC~~G---G-~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAEG---G-NLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCCC---S-SEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCCC---C-cEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            4567899999764   4 4444445999999999997652           2347999974

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=88.72  E-value=0.16  Score=34.38  Aligned_cols=58  Identities=19%  Similarity=0.305  Sum_probs=38.3

Q ss_pred             CCCCCccccccccc-cCCcceeecCCCCCccchhhHHHHhh--CCCCCcccCCCCCCCCCC
Q 029203          121 NNINTTCSICLCEY-KDLEMLRMMPECRHYFHLCCVDAWLK--LNGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       121 ~~~~~~CaICL~~~-~~~~~vr~l~~C~H~FH~~CI~~Wl~--~~~tCPlCR~~l~~~~~~  178 (197)
                      ..+...|.||...- .+.+.+.....|.-.||..|+..-+.  ....||.|......+.++
T Consensus        22 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~~~~~   82 (88)
T 2l43_A           22 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRARPALE   82 (88)
T ss_dssp             CCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTSCC--
T ss_pred             CCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccchhhhh
Confidence            34568999998753 23345555556999999999986431  234699997766554443

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=88.12  E-value=0.73  Score=33.50  Aligned_cols=47  Identities=19%  Similarity=0.373  Sum_probs=33.0

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHh------h-----CCCCCcccCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL------K-----LNGSCPVCRNS  171 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl------~-----~~~tCPlCR~~  171 (197)
                      ...+..|.||-+-    .++..-..|-..||..||++=+      +     ....|++|+..
T Consensus        54 Dg~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~  111 (129)
T 3ql9_A           54 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE  111 (129)
T ss_dssp             TSCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCG
T ss_pred             CCCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCH
Confidence            4556789999753    4444444699999999999752      1     22479999654

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=88.06  E-value=0.25  Score=34.10  Aligned_cols=47  Identities=23%  Similarity=0.363  Sum_probs=32.3

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhh---CCCCCcccCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK---LNGSCPVCRN  170 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~---~~~tCPlCR~  170 (197)
                      .+...| ||-.....+..|.-- .|.--||..|+..=+.   ....||.|+.
T Consensus        26 ~d~vrC-iC~~~~~~~~mi~Cd-~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           26 TDVTRC-ICGFTHDDGYMICCD-KCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCBCCC-TTSCCSCSSCEEEBT-TTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCEEe-ECCCccCCCcEEEcC-CCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            344667 898776666555444 5999999999875332   2347999974

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=87.68  E-value=0.11  Score=33.83  Aligned_cols=51  Identities=22%  Similarity=0.331  Sum_probs=35.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l~  173 (197)
                      .+...|.||-.... ++.....-.|.--||..|+..-...    ...||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            44567999987754 4333344459999999999765532    347999977553

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=87.02  E-value=0.63  Score=31.56  Aligned_cols=48  Identities=29%  Similarity=0.535  Sum_probs=34.5

Q ss_pred             CCCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNS  171 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~  171 (197)
                      ...+...|.||...   ++ +.....|.-.||..|+++=|..    ...||.|+..
T Consensus        21 ~d~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           21 LDDSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             cCCCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            44567799999864   44 4444458999999999886644    2369999764

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=86.27  E-value=0.34  Score=31.44  Aligned_cols=51  Identities=18%  Similarity=0.329  Sum_probs=35.0

Q ss_pred             CCCCCCccccccccc-cCCcceeecCCCCCccchhhHHHHh--hCCCCCcccCC
Q 029203          120 SNNINTTCSICLCEY-KDLEMLRMMPECRHYFHLCCVDAWL--KLNGSCPVCRN  170 (197)
Q Consensus       120 ~~~~~~~CaICL~~~-~~~~~vr~l~~C~H~FH~~CI~~Wl--~~~~tCPlCR~  170 (197)
                      ...+...|.||...- .+++.+..--.|.-.||..|+..-.  +....||.|+.
T Consensus        12 ~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           12 LIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CCCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            345678999998763 3444555555799999999997533  12336988864

>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=86.06  E-value=1.3  Score=29.05  Aligned_cols=52  Identities=25%  Similarity=0.413  Sum_probs=34.1

Q ss_pred             CCCCCccccccccccC-CcceeecCCCCCccchhhHHHHh-----hCCCCCcccCCCCCC
Q 029203          121 NNINTTCSICLCEYKD-LEMLRMMPECRHYFHLCCVDAWL-----KLNGSCPVCRNSPLP  174 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~-~~~vr~l~~C~H~FH~~CI~~Wl-----~~~~tCPlCR~~l~~  174 (197)
                      ......| ||-..+.+ +..|.-- .|..=||..|+.---     .....||.|+...-+
T Consensus         9 ~~~~~~C-~C~~~~d~~~~MIqCd-~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~~   66 (79)
T 1wep_A            9 ALVPVYC-LCRQPYNVNHFMIECG-LCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCCCCCS-TTSCSCCSSSCEEEBT-TTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             cCCccEE-EcCCccCCCCceEEcC-CCCCcEEeeecCcccccccCCCeEECCCcccccCC
Confidence            3445667 99998863 3444444 599999999994211     134579999876533

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=85.83  E-value=0.23  Score=31.61  Aligned_cols=48  Identities=25%  Similarity=0.528  Sum_probs=33.5

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l  172 (197)
                      ..++..|.||...   ++ +..-..|...||..|+.+-|..    ...||.|...-
T Consensus         5 ~~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~   56 (66)
T 1xwh_A            5 QKNEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQAT   56 (66)
T ss_dssp             CSCCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTC
T ss_pred             CCCCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccCcc
Confidence            3457799999863   44 3344459999999999875543    23699996543

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=84.26  E-value=0.23  Score=34.79  Aligned_cols=51  Identities=22%  Similarity=0.440  Sum_probs=35.0

Q ss_pred             CCccccccccccCCcceeecC-CCCCccchhhHHHH------h----hCCCCCcccCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMP-ECRHYFHLCCVDAW------L----KLNGSCPVCRNSPLP  174 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~-~C~H~FH~~CI~~W------l----~~~~tCPlCR~~l~~  174 (197)
                      ...|.||...|.+.+.....- .|..=||..|+.-=      +    ..+..||.|+..--+
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~~   64 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKEG   64 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCCC
Confidence            457999999987655444443 58999999998421      1    034479999775533

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=83.99  E-value=1.9  Score=30.13  Aligned_cols=47  Identities=26%  Similarity=0.460  Sum_probs=29.7

Q ss_pred             CCCcccccccccc-----CCcceeecCCCCCccchhhHHH------Hh-hCCCCCcccC
Q 029203          123 INTTCSICLCEYK-----DLEMLRMMPECRHYFHLCCVDA------WL-KLNGSCPVCR  169 (197)
Q Consensus       123 ~~~~CaICL~~~~-----~~~~vr~l~~C~H~FH~~CI~~------Wl-~~~~tCPlCR  169 (197)
                      ....|.+|+..-.     .++++..-..|+..||..|+..      .+ ...-.||-|+
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            3568999987631     2334444446999999999953      22 2334577664

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=83.85  E-value=0.33  Score=37.48  Aligned_cols=45  Identities=31%  Similarity=0.642  Sum_probs=31.7

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l  172 (197)
                      ...|.+|...   ++.+ ..-.|...||..|+.+=+..    ...||.|+...
T Consensus         2 ~~~C~~C~~~---g~ll-~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~   50 (189)
T 2ro1_A            2 ATICRVCQKP---GDLV-MCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   50 (189)
T ss_dssp             CCCBTTTCCC---SSCC-CCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSC
T ss_pred             CCcCccCCCC---Ccee-ECCCCCchhccccCCCCcccCCCCCCCCcCccCCC
Confidence            4579999854   4433 34458999999999875543    23699998754

>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=83.78  E-value=0.6  Score=30.41  Aligned_cols=50  Identities=26%  Similarity=0.406  Sum_probs=34.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHH---------hhCCCCCcccCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW---------LKLNGSCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W---------l~~~~tCPlCR~~l~~  174 (197)
                      ....| ||-..+..+..|.-- .|..=||..|+.--         ...+..||.|+..-.|
T Consensus        15 ~~~~C-~C~~~~~~~~MI~Cd-~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~p   73 (76)
T 1wem_A           15 NALYC-ICRQPHNNRFMICCD-RCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGP   73 (76)
T ss_dssp             TCCCS-TTCCCCCSSCEEECS-SSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCS
T ss_pred             CCCEE-ECCCccCCCCEEEeC-CCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccCc
Confidence            35667 898887655555544 49999999998421         1246689999765443

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=83.68  E-value=0.29  Score=30.47  Aligned_cols=46  Identities=33%  Similarity=0.657  Sum_probs=32.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l  172 (197)
                      ++..|.||...   ++.+ .-..|...||..|+.+=+..    ...||.|....
T Consensus         4 ~~~~C~vC~~~---g~ll-~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            4 HEDFCSVCRKS---GQLL-MCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             CCSSCTTTCCC---SSCE-ECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCCCCcCCCCC---CcEE-EcCCCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            46789999864   4444 44459999999999975543    23699996644

>1iij_A ERBB-2 receptor protein-tyrosine kinase; alpha-helix-PI-bulge-alpha-helix, signaling protein; NMR {Synthetic} SCOP: j.35.1.1

Probab=83.21  E-value=0.53  Score=26.27  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhheeccc
Q 029203           20 SIAIALGFLVLLSTVLLASYICCRRN   45 (197)
Q Consensus        20 ~I~i~i~~~vli~~i~l~~~~~~~~~   45 (197)
                      +++.++| +++++++.+.+.+++||+
T Consensus        10 IaagVvg-lll~vii~l~~~~~iRRr   34 (35)
T 1iij_A           10 IIATVVG-VLLFLILVVVVGILIKRR   34 (35)
T ss_dssp             HHHHHHH-HHHHHHHTTTTTHHHHHC
T ss_pred             eHHHHHH-HHHHHHHHHHhheEEeec
Confidence            4444445 333333334444444443

>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=83.11  E-value=0.95  Score=28.75  Aligned_cols=36  Identities=25%  Similarity=0.561  Sum_probs=25.9

Q ss_pred             CCCCCccccccccccCCcceeecC-CCCCccchhhHH
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMP-ECRHYFHLCCVD  156 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~-~C~H~FH~~CI~  156 (197)
                      .+....|.+|...+.+++..+..- .|.--||..|+.
T Consensus         5 ~~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            5 SDPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ----CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            345678999999988776555554 599999999983

>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=83.03  E-value=0.72  Score=44.06  Aligned_cols=52  Identities=13%  Similarity=0.050  Sum_probs=43.6

Q ss_pred             CCCCCCccccccccccCCcceeecCCCC-CccchhhHHHHhhCCCCCcccCCCCCCC
Q 029203          120 SNNINTTCSICLCEYKDLEMLRMMPECR-HYFHLCCVDAWLKLNGSCPVCRNSPLPT  175 (197)
Q Consensus       120 ~~~~~~~CaICL~~~~~~~~vr~l~~C~-H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  175 (197)
                      ...+.+.|+|-++-+.++   .++| -| +.|-+.+|.+||..+.+||+=|.++...
T Consensus       887 ~iP~~F~cPIs~~lM~DP---Vilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDP---VILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCcHHhCCcchhhHHhCC---eEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            456789999999998876   4567 76 6899999999999999999998887543

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.92  E-value=0.34  Score=33.04  Aligned_cols=49  Identities=22%  Similarity=0.394  Sum_probs=33.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNS  171 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~  171 (197)
                      .+...|.||...-..+ .+...-.|...||..|+.+=|..    .-.||.|...
T Consensus        14 ~~~~~C~vC~~~~~~~-~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           14 IDSYICQVCSRGDEDD-KLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCSSSCCSGGGG-GCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             cCCCCCccCCCcCCCC-CEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            4456899998764433 34444459999999999864433    2369999764

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=82.75  E-value=0.21  Score=35.99  Aligned_cols=50  Identities=14%  Similarity=0.455  Sum_probs=32.2

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRN  170 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~  170 (197)
                      ......|..|-..|..-..--...+||.+|+..|..........|-.|-.
T Consensus        16 d~~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~~   65 (120)
T 1y02_A           16 TGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   65 (120)
T ss_dssp             ----CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             ccccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHHH
Confidence            44567999999999754433344479999999997766555667888844

>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=81.21  E-value=1.5  Score=26.30  Aligned_cols=44  Identities=23%  Similarity=0.366  Sum_probs=29.2

Q ss_pred             ccccccccccCCcceeecC-CCCCccchhhHHHH----hhCCCCCcccC
Q 029203          126 TCSICLCEYKDLEMLRMMP-ECRHYFHLCCVDAW----LKLNGSCPVCR  169 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~-~C~H~FH~~CI~~W----l~~~~tCPlCR  169 (197)
                      .|.+|...+.+++....-- .|..=||..|+.--    ...+..||.|+
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            5788988886554433333 48889999997421    13556899885

>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=81.18  E-value=0.69  Score=34.85  Aligned_cols=49  Identities=20%  Similarity=0.505  Sum_probs=32.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHh-----hCCCCCcccCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL-----KLNGSCPVCRN  170 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl-----~~~~tCPlCR~  170 (197)
                      ......| ||...+.++......-.|..-||..|+.---     .....||.|+.
T Consensus         5 ~~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            5 SDTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             --CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            3456788 9998876444333444599999999995211     23457999975

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=81.13  E-value=1.3  Score=29.37  Aligned_cols=37  Identities=22%  Similarity=0.353  Sum_probs=27.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHH
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW  158 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W  158 (197)
                      .+...|.+|...|..-..--....||++|+..|....
T Consensus        17 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   53 (82)
T 2yw8_A           17 DEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNE   53 (82)
T ss_dssp             CCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEE
T ss_pred             ccCCcccCcCCcccCccccccCCCCCCEEChHHhCCe
Confidence            4467899999999855433344469999999997653

>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=80.86  E-value=0.32  Score=32.87  Aligned_cols=50  Identities=20%  Similarity=0.394  Sum_probs=35.6

Q ss_pred             CCCccccccccccC-CcceeecCCCCCccchhhHHHHhh--------CCCCCcccCCCC
Q 029203          123 INTTCSICLCEYKD-LEMLRMMPECRHYFHLCCVDAWLK--------LNGSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~-~~~vr~l~~C~H~FH~~CI~~Wl~--------~~~tCPlCR~~l  172 (197)
                      ....|.||...-.. ++.+...-.|...||..|+.+=|.        ....||.|+...
T Consensus        15 ~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~   73 (88)
T 1wev_A           15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             CCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchh
Confidence            35689999876432 345555557999999999987654        234799997654

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=80.85  E-value=1.7  Score=29.22  Aligned_cols=53  Identities=13%  Similarity=0.284  Sum_probs=36.6

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhh-------CCCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-------LNGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~-------~~~tCPlCR~~l~  173 (197)
                      ..+...|.+|...|..-..--....||++|+..|....+.       ....|-.|-..+.
T Consensus         6 ~~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~~~lp~~g~~~~RVC~~C~~~l~   65 (88)
T 1wfk_A            6 SGMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTILT   65 (88)
T ss_dssp             CCCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHHHHHH
T ss_pred             CCcCCCCcCcCCcccCccccccCCCCCCEEChhHcCCceeccccCCCcCEECHHHHHHHH
Confidence            4556799999999986543334446999999999765431       1236888866553

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=80.71  E-value=1.3  Score=29.36  Aligned_cols=38  Identities=13%  Similarity=0.255  Sum_probs=28.1

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHH
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW  158 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W  158 (197)
                      ..+...|.+|-..|..-..--....||++|+..|....
T Consensus        18 d~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           18 DEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             TTTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             CCCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            34567999999999765433344469999999997654

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=80.43  E-value=0.67  Score=32.70  Aligned_cols=45  Identities=24%  Similarity=0.473  Sum_probs=28.6

Q ss_pred             Ccccccccccc------CCcceeecCCCCCccchhhHHHHh-------hCCCCCcccC
Q 029203          125 TTCSICLCEYK------DLEMLRMMPECRHYFHLCCVDAWL-------KLNGSCPVCR  169 (197)
Q Consensus       125 ~~CaICL~~~~------~~~~vr~l~~C~H~FH~~CI~~Wl-------~~~~tCPlCR  169 (197)
                      ..|.||+..-.      +++++..-..|+..||..|+..+.       ...-.||.|+
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   59 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECK   59 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCCHHHHHHHHHTTCCCGGGC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCChhhhhhccCCCccCccccC
Confidence            46999987542      123444444599999999997642       2234677663

---

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	197
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-16
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-09
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	5e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	6e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	7e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>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 = 67.6 bits (165), Expect = 2e-16
 Identities = 21/48 (43%), Positives = 29/48 (60%)

Query: 124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNS 171
              C++CL E +D E  R +P C H FH  CVD WL  + +CP+CR +
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>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 = 55.3 bits (133), Expect = 2e-11
 Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 8/68 (11%)

Query: 123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTPLQ 182
           +   C ICL +  +  M      C H F   C+  W++ N +CP+C+      P+ + + 
Sbjct: 4   VAERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCK-----VPVESVVH 55

Query: 183 EVVPLSQY 190
            +   S++
Sbjct: 56  TIESDSEF 63

>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 = 50.9 bits (121), Expect = 1e-09
 Identities = 15/58 (25%), Positives = 20/58 (34%), Gaps = 14/58 (24%)

Query: 126 TCSICLCEYKDLEMLRMMPE--------------CRHYFHLCCVDAWLKLNGSCPVCR 169
            C+IC     DL +     +              C H FH  C+  WLK    CP+  
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>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 = 49.2 bits (117), Expect = 4e-09
 Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 5/63 (7%)

Query: 108 QFTKESVSGNNNSNNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGS-CP 166
           + T+E         +    C IC    KD+++      C H     C+ +W +  G  CP
Sbjct: 7   KVTQEQYELYCEMGSTFQLCKICAENDKDVKIEP----CGHLMCTSCLTSWQESEGQGCP 62

Query: 167 VCR 169
            CR
Sbjct: 63  FCR 65

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.9 bits (108), Expect = 4e-08
 Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 1/46 (2%)

Query: 127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNS 171
           C +C+   +  ++      C +     C        NG CP CR  
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>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 = 46.0 bits (108), Expect = 5e-08
 Identities = 10/47 (21%), Positives = 16/47 (34%), Gaps = 3/47 (6%)

Query: 126 TCSICLCEYKDLEMLRMMPE-CRHYFHLCCVDAWLKLNG--SCPVCR 169
            C IC  E  +               H  C+  WL ++   +C +C 
Sbjct: 8   VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>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 = 45.9 bits (108), Expect = 6e-08
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 2/46 (4%)

Query: 126 TCSICLCEYKDLEMLRMMP-ECRHYFHLCCVDAWLKLN-GSCPVCR 169
            C  C         L++M   C H     CVD       G+CP C 
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 45.3 bits (107), Expect = 7e-08
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 8/55 (14%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLSTP 180
            C  C  E K  ++L     C H     C++A       CP+C+ +P P    TP
Sbjct: 8   RCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQ-APWPLGADTP 54

>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 = 41.8 bits (98), Expect = 3e-06
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGS-CPVCRNSPLPTPLSTPLQ 182
           +C IC     D     +   C+H F   C+   LK+ GS CP CR    PT L +P++
Sbjct: 25  SCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVK 78

>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 = 41.2 bits (95), Expect = 1e-05
 Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 5/48 (10%)

Query: 127 CSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK-----LNGSCPVCR 169
             +   +     ++  + +C H FHL C+ A         +  CP C+
Sbjct: 42  SDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 2e-05
 Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 9/53 (16%)

Query: 125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLK--------LNGSCPVCR 169
           + C +CL EY   +M  +   C+  F   C+  +++           SCP   
Sbjct: 6   SGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 39.3 bits (91), Expect = 3e-05
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 7/55 (12%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG---SCPVCRNSPLPTPL 177
            C ICL   K+    +    C H F   C+   L        CP+C+N      L
Sbjct: 23  ECPICLELIKEPVSTK----CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

>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 = 34.4 bits (78), Expect = 0.002
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 5/52 (9%)

Query: 126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL 177
            CS C    ++   L     C H F   CV     +   CPVC        L
Sbjct: 24  RCSRCTNILREPVCL---GGCEHIFCSNCVSDC--IGTGCPVCYTPAWIQDL 70

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	197
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.82
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.63
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.6
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.59
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.58
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.53
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.5
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.43
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.35
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.34
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.34
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.27
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.2
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.08
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.07
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.95
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.78
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.35
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.82
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	93.89
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	93.17
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	91.56
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	89.54
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	89.36
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	88.68
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	86.64
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	86.19
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	86.01
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	85.26
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	85.15
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	83.98

>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=99.82  E-value=3.8e-21  Score=121.36  Aligned_cols=52  Identities=40%  Similarity=0.941  Sum_probs=47.6

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      +++.+|+|||++|.+++.++.++.|+|.||..||.+|++.+.+||+||++|+
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            3457899999999999999888779999999999999999999999999885

>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=99.63  E-value=6.5e-17  Score=105.93  Aligned_cols=48  Identities=29%  Similarity=0.845  Sum_probs=42.4

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      .+++|+||++.|.+  .++.++ |||.||..||.+|++.+.+||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            46789999999975  456788 9999999999999999999999999874

>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=99.60  E-value=3.6e-16  Score=112.10  Aligned_cols=54  Identities=26%  Similarity=0.448  Sum_probs=42.3

Q ss_pred             CCCccccccccccCC---------------cceeecCCCCCccchhhHHHHhhC-----CCCCcccCCCCCCCCC
Q 029203          123 INTTCSICLCEYKDL---------------EMLRMMPECRHYFHLCCVDAWLKL-----NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       123 ~~~~CaICL~~~~~~---------------~~vr~l~~C~H~FH~~CI~~Wl~~-----~~tCPlCR~~l~~~~~  177 (197)
                      .+..|+||+++|...               ..++.++ |+|.||..||+.||+.     +.+||+||+.+..+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~   97 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcC
Confidence            356899999998542               2456677 9999999999999964     3489999998855543

>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=99.59  E-value=2.7e-16  Score=97.64  Aligned_cols=48  Identities=19%  Similarity=0.382  Sum_probs=40.6

Q ss_pred             ccccccccccCCcce-eecCCCCCccchhhHHHHhhCC-CCCcccCCCCCC
Q 029203          126 TCSICLCEYKDLEML-RMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLP  174 (197)
Q Consensus       126 ~CaICL~~~~~~~~v-r~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~  174 (197)
                      +|+|||++|..++.+ ..++ |||.||.+||++|++.+ .+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            799999999887754 4556 99999999999999864 479999998743

>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=99.58  E-value=5.4e-16  Score=106.45  Aligned_cols=50  Identities=30%  Similarity=0.645  Sum_probs=42.1

Q ss_pred             CCCccccccccccCCc---------------ceeecCCCCCccchhhHHHHhhCCCCCcccCCCCC
Q 029203          123 INTTCSICLCEYKDLE---------------MLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPL  173 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~---------------~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  173 (197)
                      ...+|+||++++.+..               .+..++ |+|.||.+||.+||+.+.+||+||++..
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            3567999999886543               356677 9999999999999999999999999764

>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=99.53  E-value=3.1e-15  Score=96.94  Aligned_cols=54  Identities=22%  Similarity=0.424  Sum_probs=41.9

Q ss_pred             CCCccccccccccCC-c-ceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCCC
Q 029203          123 INTTCSICLCEYKDL-E-MLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTPL  177 (197)
Q Consensus       123 ~~~~CaICL~~~~~~-~-~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  177 (197)
                      ++..|+||++++..+ + .+..++ |||.||.+||..|+.. +.+||+||+.+....+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            367999999986543 3 345566 9999999999999965 5589999998855443

>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=99.50  E-value=8.4e-15  Score=98.42  Aligned_cols=48  Identities=29%  Similarity=0.733  Sum_probs=40.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~  174 (197)
                      ....|+||++.+.+   .+.++ |||.||.+||..||.. +.+||+||..|..
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            34579999998765   46788 9999999999999975 5689999999854

>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=99.43  E-value=1.3e-14  Score=91.25  Aligned_cols=49  Identities=16%  Similarity=0.268  Sum_probs=41.1

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPL  177 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  177 (197)
                      .|+||++.+++.  |. ++.|||.||.+||.+||+.+.+||+||.++..+.+
T Consensus         2 ~C~Ic~~~~~~P--v~-~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRP--VL-SPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSE--EE-ETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhc--Cc-cCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            699999998765  43 43499999999999999999999999998865433

>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=99.35  E-value=1.1e-13  Score=86.72  Aligned_cols=47  Identities=26%  Similarity=0.538  Sum_probs=39.1

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTP  176 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  176 (197)
                      ...+|+||++.|.+.   +.+| |||.||..||..|   +.+||+||+++....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            346999999999875   5778 9999999999865   668999999986543

>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=99.34  E-value=2.2e-13  Score=92.66  Aligned_cols=53  Identities=34%  Similarity=0.703  Sum_probs=43.4

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPTPLSTP  180 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~~~~~  180 (197)
                      ...|+||++.|.+.   ..++ |||.||..||.+|++.+ .+||+||.++.+..+..|
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P   76 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP   76 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCC
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCH
Confidence            46899999998765   5677 99999999999999754 589999998866655443

>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=99.34  E-value=4e-13  Score=94.30  Aligned_cols=52  Identities=29%  Similarity=0.573  Sum_probs=42.9

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCC---CCcccCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNG---SCPVCRNSPLPTPLST  179 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~---tCPlCR~~l~~~~~~~  179 (197)
                      ...|+||++.|.+.   ..++ |||.||..||..|+..+.   +||+||..+....+..
T Consensus        21 ~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~   75 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE   75 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBC
T ss_pred             CcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCc
Confidence            46899999999875   3567 999999999999997653   7999999987666543

>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=99.27  E-value=1.5e-12  Score=82.63  Aligned_cols=52  Identities=21%  Similarity=0.396  Sum_probs=38.3

Q ss_pred             CCCCCccccccccccCCccee-ecCCCCCccchhhHHHHhh--CCCCCcccCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLR-MMPECRHYFHLCCVDAWLK--LNGSCPVCRNSP  172 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr-~l~~C~H~FH~~CI~~Wl~--~~~tCPlCR~~l  172 (197)
                      .++...|.||++++.+..... ...+|+|.||..||..|+.  .+.+||+||+..
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            455778999999987553211 1113569999999999994  456899999876

>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=99.20  E-value=2.8e-12  Score=88.94  Aligned_cols=51  Identities=25%  Similarity=0.523  Sum_probs=41.2

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLST  179 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~  179 (197)
                      ...|+||++.|.++  +...+ |||.||..||..|+.  .+||.||..+....+..
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~   72 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             cCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhCcc
Confidence            56899999999765  44456 999999999999985  46999999886655543

>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=99.08  E-value=3.6e-11  Score=79.88  Aligned_cols=53  Identities=21%  Similarity=0.401  Sum_probs=44.3

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC-CCCcccCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN-GSCPVCRNSPLPTPL  177 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~~  177 (197)
                      ..++..|+||++.|.+.  | .++ |||.|++.||..|+..+ .+||.|+..+....+
T Consensus         5 iP~~l~CpIc~~~m~dP--V-~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l   58 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             CCccCCCcCcCchhhCc--e-Ecc-CCCcchHHHHHHHHHHCCCCCCcccccCCcccc
Confidence            45678999999999876  3 567 99999999999999765 579999998866544

>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=5e-11  Score=79.58  Aligned_cols=52  Identities=12%  Similarity=0.041  Sum_probs=42.9

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC-CCCCcccCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL-NGSCPVCRNSPLPTP  176 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  176 (197)
                      ..++..|+||++-|.+.  | .++ |||.|+..||..|+.. +.+||+||..+....
T Consensus         4 iP~~l~CpIc~~l~~dP--v-~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           4 IPDYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CCSTTBCTTTCSBCSSE--E-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCccccCcCcCchhhhh--c-ccC-CcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            34678999999999886  3 577 9999999999999965 558999999875443

>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=98.95  E-value=5e-10  Score=77.54  Aligned_cols=55  Identities=13%  Similarity=0.025  Sum_probs=45.4

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccCCCCCCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCRNSPLPTPLS  178 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~  178 (197)
                      ..+.+.|+||++-|.+.   .+++.|+|.|.+.||..||..+.+||+|+.++....+-
T Consensus        19 ~P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~   73 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSE
T ss_pred             CcHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchhhc
Confidence            34579999999999887   46663556899999999999999999999988665543

>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=98.78  E-value=1.3e-09  Score=74.58  Aligned_cols=47  Identities=28%  Similarity=0.593  Sum_probs=38.2

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC--------CCCcccCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN--------GSCPVCRN  170 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~--------~tCPlCR~  170 (197)
                      ...+|+||++++...+.+..++ |+|.||.+|+..|++.+        .+||.|+-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3579999999998877777776 99999999999999521        26998643

>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=95.35  E-value=0.003  Score=38.82  Aligned_cols=53  Identities=26%  Similarity=0.496  Sum_probs=38.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHHH---Hhh--CCCCCcccCCCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDA---WLK--LNGSCPVCRNSPLP  174 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~---Wl~--~~~tCPlCR~~l~~  174 (197)
                      .....|.||...+.+++....-..|+.-||..|+..   ...  .+..||.|+..-.|
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~p   61 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGP   61 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCS
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCCC
Confidence            446799999998877765555556999999999963   211  24579999765433

>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=94.82  E-value=0.007  Score=35.30  Aligned_cols=44  Identities=32%  Similarity=0.672  Sum_probs=31.3

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRN  170 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~  170 (197)
                      .|.||-..-..+ .+..-..|...||..|+++-+..    .-.||.||.
T Consensus         2 ~C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588887654444 34444569999999999987743    236999975

>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=93.89  E-value=0.011  Score=35.84  Aligned_cols=49  Identities=24%  Similarity=0.507  Sum_probs=33.8

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHHhhC----CCCCcccCCCCC
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKL----NGSCPVCRNSPL  173 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l~  173 (197)
                      ......|.||.+   .++ +..--.|.-.||..|+...+..    ...||.|+...+
T Consensus         6 d~~~~~C~~C~~---~g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           6 DHHMEFCRVCKD---GGE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             CSSCSSCTTTCC---CSS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             cCCcCCCcCCCC---CCe-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            344567999974   343 4444469999999999876643    337999976543

>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=93.17  E-value=0.034  Score=34.51  Aligned_cols=46  Identities=33%  Similarity=0.573  Sum_probs=32.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCccchhhHHHHhhCC----CCCcccCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLN----GSCPVCRNSP  172 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~----~tCPlCR~~l  172 (197)
                      ....|.||..   .++ +..--.|...||..|+.+.+...    ..||.|+...
T Consensus         6 ~c~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            4557777754   344 44444599999999999887543    3699997644

>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=91.56  E-value=0.071  Score=34.08  Aligned_cols=36  Identities=17%  Similarity=0.419  Sum_probs=27.1

Q ss_pred             CCCCCccccccccccCCcceeecCCCCCccchhhHHHH
Q 029203          121 NNINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAW  158 (197)
Q Consensus       121 ~~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~W  158 (197)
                      ..++..|.|| +.|...+.. ...-|+-+||..|+.+-
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 777766543 22238999999999986

>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=89.54  E-value=0.034  Score=35.90  Aligned_cols=49  Identities=20%  Similarity=0.391  Sum_probs=33.3

Q ss_pred             CCcccccccccc-CCcceeecCCCCCccchhhHHHHhh--------CCCCCcccCCCC
Q 029203          124 NTTCSICLCEYK-DLEMLRMMPECRHYFHLCCVDAWLK--------LNGSCPVCRNSP  172 (197)
Q Consensus       124 ~~~CaICL~~~~-~~~~vr~l~~C~H~FH~~CI~~Wl~--------~~~tCPlCR~~l  172 (197)
                      ...|.||..... +...+..--.|...||..|+.+.+.        ....||.|....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            457999986543 3334555556999999999875441        134799996543

>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=89.36  E-value=0.55  Score=29.27  Aligned_cols=49  Identities=22%  Similarity=0.369  Sum_probs=32.8

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHH--HHh-h--CCCCCcccCCCCCC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVD--AWL-K--LNGSCPVCRNSPLP  174 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~--~Wl-~--~~~tCPlCR~~l~~  174 (197)
                      .+-||-..+..++....-..|.--||..|+.  ..- .  .+..||.|+...-+
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp   66 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCC
Confidence            4449998876655444455699999999984  221 2  23589999875433

>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=88.68  E-value=0.21  Score=31.30  Aligned_cols=51  Identities=25%  Similarity=0.526  Sum_probs=33.4

Q ss_pred             CCCccccccccccCCcceeec-CCCCCccchhhHHH----Hhh-----CCCCCcccCCCCCC
Q 029203          123 INTTCSICLCEYKDLEMLRMM-PECRHYFHLCCVDA----WLK-----LNGSCPVCRNSPLP  174 (197)
Q Consensus       123 ~~~~CaICL~~~~~~~~vr~l-~~C~H~FH~~CI~~----Wl~-----~~~tCPlCR~~l~~  174 (197)
                      +...| ||-.....+..+..- ..|..=||..|+.-    .-.     .+..||.|+..--|
T Consensus        15 ~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~p   75 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGP   75 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSC
T ss_pred             CccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCCC
Confidence            34567 999887766555443 14999999999831    111     13579999765544

>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=86.64  E-value=0.39  Score=29.58  Aligned_cols=44  Identities=34%  Similarity=0.701  Sum_probs=26.6

Q ss_pred             CCccccccccccCCcceeec-CCCCC-ccchhhHHHHhhC----CCCCcccCCC
Q 029203          124 NTTCSICLCEYKDLEMLRMM-PECRH-YFHLCCVDAWLKL----NGSCPVCRNS  171 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l-~~C~H-~FH~~CI~~Wl~~----~~tCPlCR~~  171 (197)
                      ..-| ||.... +++.+... .+|.+ -||..|+.  |..    ...||.|+..
T Consensus        16 ~~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          16 PTYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            3456 998753 33444332 23544 59999984  433    2379999764

>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=86.19  E-value=0.07  Score=33.01  Aligned_cols=48  Identities=19%  Similarity=0.261  Sum_probs=33.3

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhHHHHh----hCCCCCcccCCCCC
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL----KLNGSCPVCRNSPL  173 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl----~~~~tCPlCR~~l~  173 (197)
                      ..| ||.....+++.+..-..|..-||..|+..=.    .....||.|+..-.
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~~   68 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSG   68 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHCS
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcCC
Confidence            457 8887777776555555699999999975421    23447999976543

>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=86.01  E-value=0.052  Score=31.62  Aligned_cols=44  Identities=16%  Similarity=0.479  Sum_probs=29.8

Q ss_pred             ccccccccccCCcceeecCCCCCccchhhHHHHhhCCCCCcccC
Q 029203          126 TCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR  169 (197)
Q Consensus       126 ~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl~~~~tCPlCR  169 (197)
                      .|.+|-..|..-..-..-..||++|+..|....-.....|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHh
Confidence            58889888876554444557999999999766545555677774

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.26  E-value=0.18  Score=26.04  Aligned_cols=29  Identities=24%  Similarity=0.441  Sum_probs=24.9

Q ss_pred             CccccccccccCCcceeecCCCCCccchhhH
Q 029203          125 TTCSICLCEYKDLEMLRMMPECRHYFHLCCV  155 (197)
Q Consensus       125 ~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI  155 (197)
                      ..|+-|...+...|.|+.-  =+++||..|.
T Consensus         3 g~Ca~C~~~I~~~e~VmRA--~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRA--QGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEE--TTEEECGGGC
T ss_pred             cccccccCcCChhHhheec--ccceeeeccC
Confidence            3699999999999999886  4899999983

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.15  E-value=0.68  Score=28.33  Aligned_cols=49  Identities=24%  Similarity=0.430  Sum_probs=31.8

Q ss_pred             CCCCccccccccccCCcceeecCCCCCccchhhHH------HH---hhCCCCCcccCCCC
Q 029203          122 NINTTCSICLCEYKDLEMLRMMPECRHYFHLCCVD------AW---LKLNGSCPVCRNSP  172 (197)
Q Consensus       122 ~~~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~------~W---l~~~~tCPlCR~~l  172 (197)
                      .+...| ||-.....+..| .-..|.--||..|+.      ..   ......||.|+..-
T Consensus        14 ~~~~~C-iC~~~~~~~~mi-~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          14 PNALYC-ICRQPHNNRFMI-CCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TTCCCS-TTCCCCCSSCEE-ECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCcCEE-ECCCccCCCeEE-EECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            344568 898776554444 444599999999982      11   12356899996543

>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=83.98  E-value=0.38  Score=28.56  Aligned_cols=43  Identities=30%  Similarity=0.634  Sum_probs=31.3

Q ss_pred             CCccccccccccCCcceeecCCCCCccchhhHHHHh-hCCCCCccc
Q 029203          124 NTTCSICLCEYKDLEMLRMMPECRHYFHLCCVDAWL-KLNGSCPVC  168 (197)
Q Consensus       124 ~~~CaICL~~~~~~~~vr~l~~C~H~FH~~CI~~Wl-~~~~tCPlC  168 (197)
                      ...|.-|...+.+. .+..-+.|++.|+.+| |-++ +.-.+||-|
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dC-D~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHH-HHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCcccccc-chhhhhhhcCCCCC
Confidence            56899999888644 4566778999999998 3333 333479987