Citrus Sinensis ID: 046833

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------22
Protein Sequence
MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNYGGMS
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHccccHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHcccEEEEEcccccccccccccEEccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHcccHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHccccccHHHHHHccEEEEccccccccccccEEEEEcccccccEEEEcccccccccHHHHHHHHHccccccHHHHHcccccccccccccccccccccccccccEEEcccccccccccccccc
Coil and Loop (DISEMBL)
mpassfsstqlshDFIGkfhsrklllqhpynqqpitaapppypakgclhfNVVMFFSILISAVVCSLGFHFLIRCVFLRCSrlldsesnansstplgkssgiqqeslrdfpvvnystelklsgsdtecviclsefapgeslrvlpkcnhgfhvhcidkwlrshsscpkcrhclietceesvgfsqtsssehsvvvpetvdsirplepegiicnyggms
Flexible Loop (DISEMBL)
MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDsesnansstplgkssgiqqeslrDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGFsqtsssehsvvvpetvdsirplepegiicnyggms
Low Complexity Region (SEG)
MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNYGGMS
Disordered region (IsUnstruct)
*************DFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLL************************DFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGF************************EGIICNY****
Disordered Region (DISOPRED)
*******STQLSHDFIGKFHSRKLL**************************VVMFFSILISAVVCSLGFHFLIRCVFL****************************LRDFPVVNYSTE*******TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHC**********************************************
Disordered Region (DISEMBL)
***********SHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDS****************QQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEE*****************ETVDSIRPLEPEGIICNYGGMS
Disordered Region (DISPRO)
*****FSSTQLSHDFIGKFHSRKLLLQHPY***************GCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCS******************SGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET******************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNYGGMS
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	218	2.2.26 [Sep-21-2011]
P0C034	251	RING-H2 finger protein AT	yes	no	0.926	0.804	0.483	1e-48
Q94BY6	226	RING-H2 finger protein AT	no	no	0.944	0.911	0.469	2e-48
Q6NML0	225	E3 ubiquitin-protein liga	no	no	0.967	0.937	0.461	4e-48
Q6NQG7	219	RING-H2 finger protein AT	no	no	0.912	0.908	0.497	1e-46
Q9LS99	220	RING-H2 finger protein AT	no	no	0.944	0.936	0.455	3e-46
Q9FLC6	176	RING-H2 finger protein AT	no	no	0.564	0.698	0.472	3e-28
Q9SG96	181	RING-H2 finger protein AT	no	no	0.678	0.817	0.408	6e-27
Q8LC69	185	RING-H2 finger protein AT	no	no	0.651	0.767	0.380	8e-25
O22755	185	RING-H2 finger protein AT	no	no	0.596	0.702	0.390	2e-23
Q9LM69	197	RING-H2 finger protein AT	no	no	0.637	0.705	0.381	5e-23

>sp|P0C034|ATL10_ARATH RING-H2 finger protein ATL10 OS=Arabidopsis thaliana GN=ATL10 PE=2 SV=1

 Score =  192 bits (489), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 103/213 (48%), Positives = 141/213 (66%), Gaps = 11/213 (5%)

Query: 7   SSTQLSHDFIGKFHSRKLLLQHPYN---QQPITAAPPPYPA-KGCLHFNVVMFFSILISA 62
           S+      F+G F SRKLLL +P++   Q+    AP P    +  L  NV+M  SILI  
Sbjct: 9   SAQAFQEQFLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILICG 68

Query: 63  VVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNYSTELKL 121
           ++C LG H++IRC   R +R + SE   + S+  G S+ GI++++LR FPVV+YS E+ L
Sbjct: 69  IICCLGLHYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNL 128

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESV 181
            G D ECVICLS+F  GE LR+LPKCNHGFHV CIDKWL+ H +CPKCR+CL+ETC++ +
Sbjct: 129 PGLDEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKIL 188

Query: 182 G-FSQTSS--SEHSVVVPETVDSIRPLEPEGII 211
           G FSQ  S  +E + +V   + +I PLEP  I+
Sbjct: 189 GDFSQADSVTAEPTEIV---IVTIVPLEPTEIV 218

Arabidopsis thaliana (taxid: 3702)

>sp|Q94BY6|ATL75_ARATH RING-H2 finger protein ATL75 OS=Arabidopsis thaliana GN=ATL75 PE=2 SV=1

 Score =  192 bits (488), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 99/211 (46%), Positives = 132/211 (62%), Gaps = 5/211 (2%)

Query: 4   SSFSSTQLSHDFIGKFHSRKLLLQHPYN---QQPITAAPPPYPA-KGCLHFNVVMFFSIL 59
           +S S        +G F SRKLLL +P++   Q+    AP P    +  L  NV+M  S+L
Sbjct: 7   ASSSVQAFQEQSLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVLMLLSVL 66

Query: 60  ISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNYSTE 118
           I  ++C LG H++IRC F R S  + SE  A  STP G S+ GI +++LR FPVV+YS E
Sbjct: 67  ICGIICCLGLHYIIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPE 126

Query: 119 LKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE 178
           + L G   ECVICLS+F  GE +R+LPKC+HGFHV CIDKWL+ H +CPKCRHCL+ETC+
Sbjct: 127 MNLPGLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQ 186

Query: 179 ESVGFSQTSSSEHSVVVPETVDSIRPLEPEG 209
           + +G    +    +      +  I PLEPEG
Sbjct: 187 KILGDFSQADQVAATPTASVIVRIAPLEPEG 217

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NML0|ATL76_ARATH E3 ubiquitin-protein ligase ATL76 OS=Arabidopsis thaliana GN=ATL76 PE=1 SV=1

 Score =  191 bits (484), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 101/219 (46%), Positives = 138/219 (63%), Gaps = 8/219 (3%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPI---TAAPPPYPA-KGCLHFNVVMFF 56
           +PAS+ S   L   F+G F +RKLLL  P++   +     AP P    +  L  NV+M  
Sbjct: 6   LPASAQS---LQEQFLGSFVTRKLLLHDPFDHNSLRVFAVAPSPLITHENNLKGNVLMLL 62

Query: 57  SILISAVVCSLGFHFLIRCVFLRCSRLLDSES-NANSSTPLGKSSGIQQESLRDFPVVNY 115
           S+LI  ++C LG H++IRC F R SR + SE  ++ S+     + GI++++LR FPVV+Y
Sbjct: 63  SVLICGIICCLGLHYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSY 122

Query: 116 STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE 175
           S E+ L G   ECVICLS+F  GE LR+LPKCNHGFHV CIDKWL+ H +CPKCRHCL+E
Sbjct: 123 SREMNLPGIGEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVE 182

Query: 176 TCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNY 214
           TC++ +G    + S  S      +  I PLEPEG +  +
Sbjct: 183 TCQKILGDFSQADSMASTPTESVIVRIDPLEPEGRVNTF 221

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|Q6NQG7|ATL78_ARATH RING-H2 finger protein ATL78 OS=Arabidopsis thaliana GN=ATL78 PE=2 SV=1

 Score =  186 bits (472), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 102/205 (49%), Positives = 136/205 (66%), Gaps = 6/205 (2%)

Query: 9   TQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLG 68
           T++  + +G  +SRKLL  H ++Q P T AP PY        NVVM  S+L+ A+VCSLG
Sbjct: 15  TEIFQEILGSSYSRKLLF-HTHDQSP-TPAPSPYVGDNNFDANVVMVLSVLLCALVCSLG 72

Query: 69  FHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSGSDTEC 128
            + +IRC  LRCS L+ SE+  ++      ++G+++++L+ F  V+YSTEL L G DTEC
Sbjct: 73  LNSIIRCA-LRCSNLVPSEAGGDNYPVRLTNTGVKRKALKSFQTVSYSTELNLPGLDTEC 131

Query: 129 VICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGFSQTSS 188
            ICLSEF   E +++LP C+HGFHV CIDKWL SHSSCP CRHCLI+TCE+    SQTSS
Sbjct: 132 AICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSSHSSCPTCRHCLIQTCEKIADCSQTSS 191

Query: 189 SEHSVVVPE--TVDSIRPLEPEGII 211
             +S   P+   +  I PLEPE  I
Sbjct: 192 L-NSTQPPQDSIILQIAPLEPERWI 215

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LS99|ATL77_ARATH RING-H2 finger protein ATL77 OS=Arabidopsis thaliana GN=ATL77 PE=2 SV=1

 Score =  184 bits (468), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 97/213 (45%), Positives = 130/213 (61%), Gaps = 7/213 (3%)

Query: 5   SFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVV 64
           S SS      FI  F SRKLL Q P+      A     P K  L  NV+M  SIL+  ++
Sbjct: 8   SSSSQVFQEHFIDSFVSRKLLQQIPFAH---NAQQAHVPDKNNLSGNVLMLLSILLCGII 64

Query: 65  CSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKS--SGIQQESLRDFPVVNYSTELKLS 122
           CSLG H++IRC F+R    + S+  +  STP   S   GI++++L+  PVVNYS E+ L 
Sbjct: 65  CSLGLHYIIRCAFIRSRSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYSPEINLP 124

Query: 123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVG 182
           G   ECVICLS+F  GE LRVLPKCNHGFH+ CIDKWL  H +CPKCRHCL++TC++ + 
Sbjct: 125 GVGEECVICLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCRHCLVDTCQKVLS 184

Query: 183 FSQTSSSEHSVVVPETVD-SIRPLEPEGIICNY 214
               ++ + +    E++D  I PLEPE  +  +
Sbjct: 185 -DCDAADQVAATATESIDIRISPLEPEARVATF 216

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLC6|ATL73_ARATH RING-H2 finger protein ATL73 OS=Arabidopsis thaliana GN=ATL73 PE=2 SV=1

 Score =  125 bits (313), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 61/129 (47%), Positives = 90/129 (69%), Gaps = 6/129 (4%)

Query: 48  LHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLD-SESNANSSTPLGKSSGIQQES 106
           +  ++V+  + L+ A++C+LG + ++RCV LRC+R    +E   +++  + K  GI++ +
Sbjct: 37  MDTHMVIILAALLCALICALGINSVLRCV-LRCTRRFTPNEDPVDTNANVAK--GIKKRA 93

Query: 107 LRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSC 166
           L+  PV +YS ELK+    TEC+ICL +F  GE++RVLPKCNHGFHV CID WL SHSSC
Sbjct: 94  LKVIPVDSYSPELKMKA--TECLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSC 151

Query: 167 PKCRHCLIE 175
           P CR  L+E
Sbjct: 152 PTCRQSLLE 160

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SG96|ATL72_ARATH RING-H2 finger protein ATL72 OS=Arabidopsis thaliana GN=ATL72 PE=2 SV=1

 Score =  120 bits (302), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 65/159 (40%), Positives = 94/159 (59%), Gaps = 11/159 (6%)

Query: 25  LLQHPYNQQPITAAPPPYPAKGCLHF--NVVMFFSILISAVVCSLGFHFLIRCVFLRCSR 82
           LL  P    P  A P P       +F  N+V+  + L+ A++C+L  +  +RCV LR +R
Sbjct: 4   LLLEPQANAPANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV-LRITR 62

Query: 83  LLDSE------SNANSSTP-LGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEF 135
              S+      SNAN++   L  ++G+++++L+  PV  Y + + +    TEC+ICL +F
Sbjct: 63  RFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGI-IDMKATECLICLGDF 121

Query: 136 APGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
             GE +RVLPKCNHGFHV CID WL S SSCP CR  L+
Sbjct: 122 EDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLL 160

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LC69|ATL8_ARATH RING-H2 finger protein ATL8 OS=Arabidopsis thaliana GN=ATL8 PE=2 SV=2

 Score =  113 bits (283), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 59/155 (38%), Positives = 89/155 (57%), Gaps = 13/155 (8%)

Query: 25  LLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLL 84
           LLQ   +  P  A+PP        + ++V+  ++L+ A+ C +G   + RC +LR    +
Sbjct: 8   LLQEANSTSPAEASPP-------FNSDLVLILAVLLCALTCIIGLIAVSRCAWLR---RI 57

Query: 85  DSESNANSSTP---LGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESL 141
            S + ++ + P      + G++++ LR  P + YS +   +    EC ICL+EFA G+ L
Sbjct: 58  ASRNRSDQTHPPPVAAANKGLKKKVLRSLPKLTYSPDSPPAEKLVECAICLTEFAAGDEL 117

Query: 142 RVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET 176
           RVLP+C HGFHV CID WL SHSSCP CR  L+ T
Sbjct: 118 RVLPQCGHGFHVSCIDTWLGSHSSCPSCRQILVVT 152

Arabidopsis thaliana (taxid: 3702)

>sp|O22755|ATL44_ARATH RING-H2 finger protein ATL44 OS=Arabidopsis thaliana GN=ATL44 PE=2 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/146 (39%), Positives = 85/146 (58%), Gaps = 16/146 (10%)

Query: 36  TAAPPPYPAKGCL--HFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSS 93
           TAAPPP P++  +    ++V+  S L+ A++C  G   ++RC +LR        +  +S 
Sbjct: 10  TAAPPPQPSEEMIAAESDMVVILSALLCALICVAGLAAVVRCAWLR-----RFTAGGDSP 64

Query: 94  TPLGKSSGIQQESLRDFPVVNYSTELKLSGS------DTECVICLSEFAPGESLRVLPKC 147
           +P   + G+++++L+  P   ++     SG+       TEC ICL++FA GE +RVLP C
Sbjct: 65  SP---NKGLKKKALQSLPRSTFTAAESTSGAAAEEGDSTECAICLTDFADGEEIRVLPLC 121

Query: 148 NHGFHVHCIDKWLRSHSSCPKCRHCL 173
            H FHV CIDKWL S SSCP CR  L
Sbjct: 122 GHSFHVECIDKWLVSRSSCPSCRRIL 147

Arabidopsis thaliana (taxid: 3702)

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

 Score =  107 bits (268), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 55/144 (38%), Positives = 85/144 (59%), Gaps = 5/144 (3%)

Query: 36  TAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLR----CSRLLDSESNAN 91
           T +P    +   L+ ++V+  + L+ A++C LG   + RCV+LR     +R +      +
Sbjct: 14  TPSPAIDNSTAALNSDLVVILAALLCALICVLGLIAVSRCVWLRRLAAGNRTVSGSQTQS 73

Query: 92  SSTPLGKSS-GIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHG 150
              P+  ++ G++++ L+  P + +S E   S    EC ICL+EF+ G+ LRVLP+C HG
Sbjct: 74  PQPPVAAANKGLKKKVLQSLPKLTFSPESPESEKFAECAICLAEFSAGDELRVLPQCGHG 133

Query: 151 FHVHCIDKWLRSHSSCPKCRHCLI 174
           FHV CID WL SHSSCP CR  L+
Sbjct: 134 FHVACIDTWLGSHSSCPSCRQILV 157

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

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	218
224116596	225	predicted protein [Populus trichocarpa]	0.963	0.933	0.554	6e-60
224055977	225	predicted protein [Populus trichocarpa]	0.981	0.951	0.533	1e-57
255562369	223	RING-H2 finger protein ATL1L, putative [	0.954	0.932	0.526	2e-56
225431583	224	PREDICTED: RING-H2 finger protein ATL78	0.981	0.955	0.521	1e-55
356512813	231	PREDICTED: RING-H2 finger protein ATL78-	0.958	0.904	0.495	1e-49
351725245	232	uncharacterized protein LOC100527126 [Gl	0.931	0.875	0.491	2e-49
297847202	225	zinc finger family protein [Arabidopsis	0.954	0.924	0.474	4e-49
9293902	222	unnamed protein product [Arabidopsis tha	0.899	0.882	0.511	5e-49
357464535	240	Ring-H2 zinc finger protein [Medicago tr	0.977	0.887	0.462	8e-48
388508514	228	unknown [Medicago truncatula]	0.995	0.951	0.458	1e-47

>gi|224116596|ref|XP_002331879.1| predicted protein [Populus trichocarpa] gi|222874628|gb|EEF11759.1| predicted protein [Populus trichocarpa]

 Score =  236 bits (601), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 123/222 (55%), Positives = 157/222 (70%), Gaps = 12/222 (5%)

Query: 3   ASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPP-------YPAKGC---LHFNV 52
           ++S S+TQL  DF+G F+SR+LLL +P  Q   TA PP         P+ G       NV
Sbjct: 2   SASTSTTQLFQDFLGDFYSRRLLLHNPLYQSTNTATPPAPGNSAPSEPSTGTGSSFDANV 61

Query: 53  VMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPV 112
           VM  S+L+ A++CSLG + +IRC  LRCS +  SES AN ST    ++G+ + +L+ FPV
Sbjct: 62  VMVLSVLLCALICSLGLNSIIRCA-LRCSNIAASESAANPSTQ-SANTGVNRRALKSFPV 119

Query: 113 VNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHC 172
           VNYS++L L G DTECVICLSEF PGE +R+LPKC+HGFHV CIDKWL SHSSCP CRHC
Sbjct: 120 VNYSSDLNLPGLDTECVICLSEFTPGERVRLLPKCHHGFHVKCIDKWLSSHSSCPTCRHC 179

Query: 173 LIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNY 214
           LIETC++ +G SQ S+S  S+ V ET+ SI PLEPEG+I +Y
Sbjct: 180 LIETCQKIIGCSQASTSGTSLPVQETIVSILPLEPEGLIRDY 221

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055977|ref|XP_002298709.1| predicted protein [Populus trichocarpa] gi|222845967|gb|EEE83514.1| predicted protein [Populus trichocarpa]

 Score =  228 bits (582), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 121/227 (53%), Positives = 152/227 (66%), Gaps = 13/227 (5%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPP----------YPAKGCLHF 50
           M  S+ ++ QL   F+G F+SR+LLL  P  Q   TA PP                    
Sbjct: 1   MSTSTSTTHQLFQGFLGDFYSRRLLLHTPLYQSSNTATPPAPGNTASSETYTSTDNSFDA 60

Query: 51  NVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDF 110
           NVVM  SIL+ A++CSLG + +IRC  LRCS L+ SES AN ST    ++G+++++L+ F
Sbjct: 61  NVVMVLSILLCALICSLGLNSIIRCA-LRCSNLVASESAANPSTQ-AANTGVKRKALKTF 118

Query: 111 PVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           P+V YST+L L G DT+CVICLSEF PGE +R+LPKCNHGFHV CIDKWL SHSSCP CR
Sbjct: 119 PIVKYSTDLNLPGLDTQCVICLSEFTPGEHVRLLPKCNHGFHVKCIDKWLSSHSSCPTCR 178

Query: 171 HCLIETCEESVGFSQTSSS-EHSVVVPETVDSIRPLEPEGIICNYGG 216
           HCLIETC++  G SQ S+S   S+ V E + SI PLEPEG+I NY G
Sbjct: 179 HCLIETCKKIAGCSQASTSGPTSLPVQEAIVSILPLEPEGLISNYRG 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562369|ref|XP_002522191.1| RING-H2 finger protein ATL1L, putative [Ricinus communis] gi|223538562|gb|EEF40166.1| RING-H2 finger protein ATL1L, putative [Ricinus communis]

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 121/230 (52%), Positives = 153/230 (66%), Gaps = 22/230 (9%)

Query: 3   ASSFSSTQLSHDFIGKFHSRKLLLQHP--------------YNQQPITAAPPPYPAKGCL 48
            +S S+ QL  DF G F+SR+LLL  P              Y+Q+    A  PY      
Sbjct: 2   TTSTSTAQLFQDFQGDFYSRRLLLHTPLYHSPTAAAPPAPGYSQE----ASEPYTGNNSF 57

Query: 49  HFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLR 108
             NVVM  S+L+ A++CSLG + +IRC  LRCS L+ S S  NSS  L  ++G+++++L+
Sbjct: 58  DANVVMVLSVLLCALICSLGLNSIIRCA-LRCSSLVASRSADNSSAGLA-NTGVKRKALK 115

Query: 109 DFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPK 168
            FP VNYST+L L G DTEC ICLSEF PGE +R+LPKCNHGFHV CIDKWL SHSSCP 
Sbjct: 116 TFPTVNYSTDLNLPGLDTECAICLSEFTPGERVRLLPKCNHGFHVRCIDKWLSSHSSCPT 175

Query: 169 CRHCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNYGGMS 218
           CRHCLIETC++ VG SQTSSS+    V E++ +I PLEPE +I +Y G S
Sbjct: 176 CRHCLIETCQKIVGCSQTSSSDPP--VQESIVNIAPLEPEALIRSYRGTS 223

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431583|ref|XP_002282494.1| PREDICTED: RING-H2 finger protein ATL78 [Vitis vinifera] gi|147833208|emb|CAN75293.1| hypothetical protein VITISV_042413 [Vitis vinifera]

 Score =  221 bits (564), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 119/228 (52%), Positives = 153/228 (67%), Gaps = 14/228 (6%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPP----------PYPAKGCLHF 50
           M AS+  S QL  D +G F+SR+LLL  P ++ P TA+PP          PY        
Sbjct: 1   MYASTSPSVQLFQDLVGDFYSRRLLLHSPLHESPATASPPATGNSHDSSEPYTGSNSFDT 60

Query: 51  NVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDF 110
           NVVM  S+L+ A++CSLG + +IRC  LRCS L+ S  N+  ST L  ++G+++++L+ F
Sbjct: 61  NVVMVLSVLLCALICSLGLNSIIRCA-LRCSSLVASPGNS-PSTRLA-NTGVKKKALKTF 117

Query: 111 PVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           P +NYS  L L G DTECVICLS+F PGE +R+LPKCNHGFHV CIDKWL SHSSCP CR
Sbjct: 118 PTLNYSAGLNLPGLDTECVICLSDFTPGERIRILPKCNHGFHVRCIDKWLNSHSSCPTCR 177

Query: 171 HCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNYGGMS 218
           HCLIETC++ +G SQ SSSE    + E++  I PLEPEG   NY  +S
Sbjct: 178 HCLIETCQKIIGCSQASSSETPPPLQESMI-IVPLEPEGFSRNYREVS 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512813|ref|XP_003525110.1| PREDICTED: RING-H2 finger protein ATL78-like [Glycine max]

 Score =  201 bits (512), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 115/232 (49%), Positives = 151/232 (65%), Gaps = 23/232 (9%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPP----------YPAKGCLHF 50
           M ASS  ++QL HD +   +SRKLLLQ P   Q + +A  P          Y        
Sbjct: 1   MYASSSFTSQLVHDLLVDTNSRKLLLQDPLLHQSMNSANSPDSMSYNTTDSYFTGRDFDA 60

Query: 51  NVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLG--------KSSGI 102
           NVVM  S+L+ AV+CSLG + +I+CV LRCS ++ + ++ +SS+            + GI
Sbjct: 61  NVVMILSVLLCAVICSLGLNSIIKCV-LRCSNIVINNNDPSSSSSSASYNPSPRLANRGI 119

Query: 103 QQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS 162
           ++++L+ FP V+YSTE+KL G DTECVICLSEFA G+ +R+LPKCNHGFHV CIDKWL S
Sbjct: 120 KKKALKTFPTVSYSTEMKLPGLDTECVICLSEFANGDKVRILPKCNHGFHVCCIDKWLSS 179

Query: 163 HSSCPKCRHCLIETCEESVGFSQTSSSEHSVVVPETVDSIRPLEPEGIICNY 214
           HSSCPKCR CLIETC++ VG    S  +    VPET+  I+PLEPEG+  NY
Sbjct: 180 HSSCPKCRQCLIETCKKIVG----SQIQPVAPVPETIIRIQPLEPEGLERNY 227

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725245|ref|NP_001235294.1| uncharacterized protein LOC100527126 [Glycine max] gi|255631612|gb|ACU16173.1| unknown [Glycine max]

 Score =  201 bits (510), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 111/226 (49%), Positives = 149/226 (65%), Gaps = 23/226 (10%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPP----------YPAKGCLHF 50
           M AS+  ++Q+ HD +   +SRKLLLQ P   Q + +A  P          Y        
Sbjct: 1   MYASTSFTSQMVHDLLMDTNSRKLLLQDPLLHQSMNSANSPDAMSYNTTDSYFKGRDFDA 60

Query: 51  NVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSST-------PLGKSSGIQ 103
           NVVM  S+L+ AV+CSLG + +I+CV LRCS ++ + ++ +SS+       P   ++GI+
Sbjct: 61  NVVMILSVLLCAVICSLGLNSIIKCV-LRCSNIVINNNDPSSSSVSYNNPSPRLANTGIK 119

Query: 104 QESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH 163
           +++L+ FP V+YSTE+KL G DTECVICLSEFA G+ +R+LPKCNHGFHV CIDKWL SH
Sbjct: 120 KKALKTFPTVSYSTEMKLPGLDTECVICLSEFANGDKVRILPKCNHGFHVRCIDKWLSSH 179

Query: 164 SSCPKCRHCLIETCEESVGFSQTSSSEHSVVVPE-TVDSIRPLEPE 208
           SSCPKCR CLIETC++ VG    S  +    VPE T+  I+PLEPE
Sbjct: 180 SSCPKCRQCLIETCKKIVG----SQIQPVPPVPESTIIKIQPLEPE 221

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847202|ref|XP_002891482.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297337324|gb|EFH67741.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  200 bits (508), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 101/213 (47%), Positives = 135/213 (63%), Gaps = 5/213 (2%)

Query: 7   SSTQLSHDFIGKFHSRKLLLQHPYNQ---QPITAAPPPYPA-KGCLHFNVVMFFSILISA 62
           S+      F+G F SRKLLL  P++    + +  AP P    +  L  NV+M  S+LI  
Sbjct: 9   SAQYFQEGFLGDFVSRKLLLHDPFDHNSLRVLAVAPSPLITHENNLRGNVLMLLSVLICG 68

Query: 63  VVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNYSTELKL 121
           ++C LG H++IRC F R SR + SE  ++  TP G S  GI++++LR FPVV+YS E+ L
Sbjct: 69  IICCLGLHYIIRCAFRRSSRFMISEPISSLPTPRGSSDKGIKKKALRMFPVVSYSREMNL 128

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESV 181
            G   ECVICLS+F  GE LR+LPKCNHGFHV CIDKWLR H +CPKCRHCL+ETC++ +
Sbjct: 129 PGLGEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLRQHLTCPKCRHCLVETCQKIL 188

Query: 182 GFSQTSSSEHSVVVPETVDSIRPLEPEGIICNY 214
           G    + S  +      +  I PLEPEG +  +
Sbjct: 189 GDFSQADSMAATPTESVIVRIAPLEPEGRVNTF 221

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9293902|dbj|BAB01805.1| unnamed protein product [Arabidopsis thaliana]

 Score =  199 bits (507), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 109/213 (51%), Positives = 140/213 (65%), Gaps = 17/213 (7%)

Query: 9   TQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPP----------YPAKGCLHFNVVMFFSI 58
           T+L  D  G F+SR+LLL   Y  QP TAA PP          Y +      NVVM  S+
Sbjct: 13  TELFQDIRGDFYSRRLLLHTAY--QPPTAASPPFADAHEASHSYQSHMSFDANVVMVLSV 70

Query: 59  LISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTE 118
           L+ A+VCSLG H +IRC  LR S LL SE++   S  L  ++G++Q++L+ F  V+Y+ E
Sbjct: 71  LLCALVCSLGLHSIIRCA-LRYSNLLSSEASDEFSVRLA-NTGVKQKALKSFQTVSYTAE 128

Query: 119 LKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE 178
           LKL G DTEC ICLSEFA GE +++LPKC+HGFHV CIDKWL SHSSCP CRHCLI+TC+
Sbjct: 129 LKLPGLDTECAICLSEFASGERVKLLPKCHHGFHVRCIDKWLSSHSSCPTCRHCLIQTCK 188

Query: 179 ESVGFSQTSSSEHSVVVPETVDSIRPLEPEGII 211
           +  G+S+T SS +    P+    I PL PE +I
Sbjct: 189 KIAGYSETESSPNQ---PQQNVHISPLGPESLI 218

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357464535|ref|XP_003602549.1| Ring-H2 zinc finger protein [Medicago truncatula] gi|355491597|gb|AES72800.1| Ring-H2 zinc finger protein [Medicago truncatula]

 Score =  196 bits (497), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 104/225 (46%), Positives = 143/225 (63%), Gaps = 12/225 (5%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQP-------ITAAPPPYPAKGCLHFNVV 53
           M A++   + L H+ +  FHSR+LLL    +  P        +     Y   G    NVV
Sbjct: 1   MYATTSFVSPLLHELVENFHSRRLLLHSSNSANPPISTSIHDSTKESSYAGDGNFDANVV 60

Query: 54  MFFSILISAVVCSLGFHFLIRCVFLRCSRL--LDSESNANSSTPLGKSSGIQQESLRDFP 111
           M  S+L+ A++CSL  + +IRC  L+CS L  +  + +AN+      ++GI++++L+ F 
Sbjct: 61  MVLSVLLCALICSLCLNSIIRCA-LKCSNLVVMSGDRSANNIPVRAANTGIKKKALKKFT 119

Query: 112 VVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
            V+YS ELKL   D+ECVICLSEF  G+ +R+LPKCNHGFHV CIDKWL SHSSCPKCR 
Sbjct: 120 TVSYSDELKLPSLDSECVICLSEFTNGDKVRLLPKCNHGFHVRCIDKWLSSHSSCPKCRQ 179

Query: 172 CLIETCEESVGFSQTSSSEHSVV--VPETVDSIRPLEPEGIICNY 214
           CLIETC + VG   +SS    ++  VPET+ +I PLEPEG++ NY
Sbjct: 180 CLIETCNKIVGSQGSSSQPQPMLFPVPETIVTIAPLEPEGLVRNY 224

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508514|gb|AFK42323.1| unknown [Medicago truncatula]

 Score =  195 bits (496), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 105/229 (45%), Positives = 145/229 (63%), Gaps = 12/229 (5%)

Query: 1   MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQP-------ITAAPPPYPAKGCLHFNVV 53
           M A++   + L H+ +  FHSR+LLL    +  P        +     Y   G    NVV
Sbjct: 1   MYATTSFVSPLLHELVENFHSRRLLLHSSNSANPPISTSIHDSTKESSYAGDGNFDANVV 60

Query: 54  MFFSILISAVVCSLGFHFLIRCVFLRCSRL--LDSESNANSSTPLGKSSGIQQESLRDFP 111
           M  S+L+ A++CSL  + +IRC  L+CS L  +  + +AN+      ++GI++++L+ F 
Sbjct: 61  MVLSVLLCALICSLCLNSIIRCA-LKCSNLVVMRGDRSANNIPVRAANTGIKKKALKKFT 119

Query: 112 VVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
            V+YS ELKL   D+ECVICLSEF  G+ +R+LPKCNHGFHV CIDKWL SHSSCPKCR 
Sbjct: 120 TVSYSDELKLLSLDSECVICLSEFTNGDKVRLLPKCNHGFHVRCIDKWLSSHSSCPKCRQ 179

Query: 172 CLIETCEESVGFSQTSSSEHSVV--VPETVDSIRPLEPEGIICNYGGMS 218
           CLIETC + VG   +SS    ++  VPET+ +I PLEPEG++ NY  +S
Sbjct: 180 CLIETCNKIVGSQGSSSQPQPMLFPVPETIVTIAPLEPEGLVRNYREVS 228

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	218
TAIR|locus:2028406	225	AT1G49210 [Arabidopsis thalian	0.940	0.911	0.497	1.1e-50
TAIR|locus:2028506	251	AT1G49220 [Arabidopsis thalian	0.926	0.804	0.490	2.9e-50
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.926	0.893	0.490	8.5e-49
TAIR|locus:2028436	219	AT1G49230 [Arabidopsis thalian	0.922	0.917	0.492	8.5e-49
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.954	0.945	0.456	3.8e-46
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.550	0.681	0.484	5.6e-29
TAIR|locus:2103162	181	DAFL1 "DAF-Like gene 1" [Arabi	0.683	0.823	0.416	3.5e-27
TAIR|locus:2181032	159	DAFL2 "DAF-Like gene 2" [Arabi	0.545	0.748	0.468	5.7e-27
TAIR|locus:2011686	185	ATL8 [Arabidopsis thaliana (ta	0.715	0.843	0.386	7.3e-27
TAIR|locus:2825708	197	AT1G20823 [Arabidopsis thalian	0.706	0.781	0.375	2.2e-25

TAIR|locus:2028406 AT1G49210 [Arabidopsis thaliana (taxid:3702)]

 Score = 527 (190.6 bits), Expect = 1.1e-50, P = 1.1e-50
 Identities = 107/215 (49%), Positives = 140/215 (65%)

Query:     1 MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPI---TAAPPPYPA-KGCLHFNVVMFF 56
             +PAS+ S   L   F+G F +RKLLL  P++   +     AP P    +  L  NV+M  
Sbjct:     6 LPASAQS---LQEQFLGSFVTRKLLLHDPFDHNSLRVFAVAPSPLITHENNLKGNVLMLL 62

Query:    57 SILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNY 115
             S+LI  ++C LG H++IRC F R SR + SE  ++ STP   S+ GI++++LR FPVV+Y
Sbjct:    63 SVLICGIICCLGLHYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSY 122

Query:   116 STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE 175
             S E+ L G   ECVICLS+F  GE LR+LPKCNHGFHV CIDKWL+ H +CPKCRHCL+E
Sbjct:   123 SREMNLPGIGEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVE 182

Query:   176 TCEESVG-FSQTSSSEHSVVVPETVDSIRPLEPEG 209
             TC++ +G FSQ  S   S      +  I PLEPEG
Sbjct:   183 TCQKILGDFSQADSMA-STPTESVIVRIDPLEPEG 216

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2028506 AT1G49220 [Arabidopsis thaliana (taxid:3702)]

 Score = 503 (182.1 bits), Expect = 2.9e-50, Sum P(2) = 2.9e-50
 Identities = 105/214 (49%), Positives = 142/214 (66%)

Query:     7 SSTQ-LSHDFIGKFHSRKLLLQHPYN---QQPITAAPPPYPA-KGCLHFNVVMFFSILIS 61
             SS Q     F+G F SRKLLL +P++   Q+    AP P    +  L  NV+M  SILI 
Sbjct:     8 SSAQAFQEQFLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILIC 67

Query:    62 AVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNYSTELK 120
              ++C LG H++IRC   R +R + SE   + S+  G S+ GI++++LR FPVV+YS E+ 
Sbjct:    68 GIICCLGLHYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMN 127

Query:   121 LSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEES 180
             L G D ECVICLS+F  GE LR+LPKCNHGFHV CIDKWL+ H +CPKCR+CL+ETC++ 
Sbjct:   128 LPGLDEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKI 187

Query:   181 VG-FSQTSS--SEHSVVVPETVDSIRPLEPEGII 211
             +G FSQ  S  +E + +V   + +I PLEP  I+
Sbjct:   188 LGDFSQADSVTAEPTEIV---IVTIVPLEPTEIV 218

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

TAIR|locus:2028411 AT1G49200 [Arabidopsis thaliana (taxid:3702)]

 Score = 509 (184.2 bits), Expect = 8.5e-49, P = 8.5e-49
 Identities = 103/210 (49%), Positives = 134/210 (63%)

Query:     7 SSTQ-LSHDFIGKFHSRKLLLQHPYN---QQPITAAPPPYPA-KGCLHFNVVMFFSILIS 61
             SS Q      +G F SRKLLL +P++   Q+    AP P    +  L  NV+M  S+LI 
Sbjct:     9 SSVQAFQEQSLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVLMLLSVLIC 68

Query:    62 AVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSS-GIQQESLRDFPVVNYSTELK 120
              ++C LG H++IRC F R S  + SE  A  STP G S+ GI +++LR FPVV+YS E+ 
Sbjct:    69 GIICCLGLHYIIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPEMN 128

Query:   121 LSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEES 180
             L G   ECVICLS+F  GE +R+LPKC+HGFHV CIDKWL+ H +CPKCRHCL+ETC++ 
Sbjct:   129 LPGLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQKI 188

Query:   181 VG-FSQTSSSEHSVVVPETVDSIRPLEPEG 209
             +G FSQ      +      +  I PLEPEG
Sbjct:   189 LGDFSQADQVA-ATPTASVIVRIAPLEPEG 217

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

TAIR|locus:2028436 AT1G49230 [Arabidopsis thaliana (taxid:3702)]

 Score = 509 (184.2 bits), Expect = 8.5e-49, P = 8.5e-49
 Identities = 102/207 (49%), Positives = 137/207 (66%)

Query:     4 SSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAV 63
             S+   T++  + +G  +SRKLL  H ++Q P T AP PY        NVVM  S+L+ A+
Sbjct:    10 STIKPTEIFQEILGSSYSRKLLF-HTHDQSP-TPAPSPYVGDNNFDANVVMVLSVLLCAL 67

Query:    64 VCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSG 123
             VCSLG + +IRC  LRCS L+ SE+  ++      ++G+++++L+ F  V+YSTEL L G
Sbjct:    68 VCSLGLNSIIRCA-LRCSNLVPSEAGGDNYPVRLTNTGVKRKALKSFQTVSYSTELNLPG 126

Query:   124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCEESVGF 183
              DTEC ICLSEF   E +++LP C+HGFHV CIDKWL SHSSCP CRHCLI+TCE+    
Sbjct:   127 LDTECAICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSSHSSCPTCRHCLIQTCEKIADC 186

Query:   184 SQTSSSEHSVVVPET--VDSIRPLEPE 208
             SQTSS  +S   P+   +  I PLEPE
Sbjct:   187 SQTSSL-NSTQPPQDSIILQIAPLEPE 212

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

TAIR|locus:2830088 AT3G18773 [Arabidopsis thaliana (taxid:3702)]

 Score = 484 (175.4 bits), Expect = 3.8e-46, P = 3.8e-46
 Identities = 99/217 (45%), Positives = 134/217 (61%)

Query:     1 MPASSFSSTQLSHDFIGKFHSRKLLLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILI 60
             +P+SS    Q  H FI  F SRKLL Q P+      A     P K  L  NV+M  SIL+
Sbjct:     6 LPSSSSQVFQ-EH-FIDSFVSRKLLQQIPFAHN---AQQAHVPDKNNLSGNVLMLLSILL 60

Query:    61 SAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKS--SGIQQESLRDFPVVNYSTE 118
               ++CSLG H++IRC F+R    + S+  +  STP   S   GI++++L+  PVVNYS E
Sbjct:    61 CGIICSLGLHYIIRCAFIRSRSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYSPE 120

Query:   119 LKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE 178
             + L G   ECVICLS+F  GE LRVLPKCNHGFH+ CIDKWL  H +CPKCRHCL++TC+
Sbjct:   121 INLPGVGEECVICLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCRHCLVDTCQ 180

Query:   179 ESVGFSQTSSSEHSVVVPETVD-SIRPLEPEGIICNY 214
             + +     ++ + +    E++D  I PLEPE  +  +
Sbjct:   181 KVLSDCD-AADQVAATATESIDIRISPLEPEARVATF 216

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

TAIR|locus:2153554 DAF "DEFECTIVE IN ANTHER DEHISCENCE1- ( DAD1-) Activating Factor" [Arabidopsis thaliana (taxid:3702)]

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 61/126 (48%), Positives = 89/126 (70%)

Query:    51 NVVMFFSILISAVVCSLGFHFLIRCVFLRCSR-LLDSESNANSSTPLGKSSGIQQESLRD 109
             ++V+  + L+ A++C+LG + ++RCV LRC+R    +E   +++  + K  GI++ +L+ 
Sbjct:    40 HMVIILAALLCALICALGINSVLRCV-LRCTRRFTPNEDPVDTNANVAK--GIKKRALKV 96

Query:   110 FPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC 169
              PV +YS ELK+    TEC+ICL +F  GE++RVLPKCNHGFHV CID WL SHSSCP C
Sbjct:    97 IPVDSYSPELKMKA--TECLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTC 154

Query:   170 RHCLIE 175
             R  L+E
Sbjct:   155 RQSLLE 160

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

TAIR|locus:2103162 DAFL1 "DAF-Like gene 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 67/161 (41%), Positives = 99/161 (61%)

Query:    23 KLLLQHPYNQQPITAAPPPYPAKGCLHF--NVVMFFSILISAVVCSLGFHFLIRCVFLRC 80
             +LLL+ P    P  A P P       +F  N+V+  + L+ A++C+L  +  +RCV LR 
Sbjct:     3 RLLLE-PQANAPANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV-LRI 60

Query:    81 SRLLDSE---SNA-NSSTPLGK---SSGIQQESLRDFPVVNYSTELKLSGSDTECVICLS 133
             +R   S+   SNA N++  LG+   ++G+++++L+  PV  Y + + +    TEC+ICL 
Sbjct:    61 TRRFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGI-IDMKATECLICLG 119

Query:   134 EFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
             +F  GE +RVLPKCNHGFHV CID WL S SSCP CR  L+
Sbjct:   120 DFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLL 160

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2181032 DAFL2 "DAF-Like gene 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 59/126 (46%), Positives = 83/126 (65%)

Query:    51 NVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLLDSESNANSSTPLGKSSGIQQESLRDF 110
             N+V+  + L+ A++ +LG + ++RC  +RC   L S + A +   +   +G+++  L+ F
Sbjct:    33 NMVIILAALLCALILALGLNSILRCA-MRCGFGLSSSAAAGT---VADRAGLKKRELKKF 88

Query:   111 PVVNY-STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC 169
             PV  Y S E+K++   TEC ICL EFA GE +RVLP CNH FH+ CID WL SHSSCP C
Sbjct:    89 PVAEYGSGEVKIAA--TECAICLGEFADGERVRVLPPCNHSFHMSCIDTWLVSHSSCPNC 146

Query:   170 RHCLIE 175
             RH LIE
Sbjct:   147 RHSLIE 152

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

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

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 65/168 (38%), Positives = 97/168 (57%)

Query:    25 LLQHPYNQQPITAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRCSRLL 84
             LLQ   +  P  A+PP        + ++V+  ++L+ A+ C +G   + RC +LR  R+ 
Sbjct:     8 LLQEANSTSPAEASPP-------FNSDLVLILAVLLCALTCIIGLIAVSRCAWLR--RIA 58

Query:    85 D-SESNANSSTPLGKSS-GIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLR 142
               + S+     P+  ++ G++++ LR  P + YS +   +    EC ICL+EFA G+ LR
Sbjct:    59 SRNRSDQTHPPPVAAANKGLKKKVLRSLPKLTYSPDSPPAEKLVECAICLTEFAAGDELR 118

Query:   143 VLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET-CEESVGFSQTSSS 189
             VLP+C HGFHV CID WL SHSSCP CR  L+ T C +  G   +SSS
Sbjct:   119 VLPQCGHGFHVSCIDTWLGSHSSCPSCRQILVVTRCHKCGGLPGSSSS 166

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

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

GO:0010014 "meristem initiation" evidence=RCA

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

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

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 60/160 (37%), Positives = 92/160 (57%)

Query:    36 TAAPPPYPAKGCLHFNVVMFFSILISAVVCSLGFHFLIRCVFLRC----SRLLDSESNAN 91
             T +P    +   L+ ++V+  + L+ A++C LG   + RCV+LR     +R +      +
Sbjct:    14 TPSPAIDNSTAALNSDLVVILAALLCALICVLGLIAVSRCVWLRRLAAGNRTVSGSQTQS 73

Query:    92 SSTPLGKSS-GIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHG 150
                P+  ++ G++++ L+  P + +S E   S    EC ICL+EF+ G+ LRVLP+C HG
Sbjct:    74 PQPPVAAANKGLKKKVLQSLPKLTFSPESPESEKFAECAICLAEFSAGDELRVLPQCGHG 133

Query:   151 FHVHCIDKWLRSHSSCPKCRHCLIET-CEESVGFSQTSSS 189
             FHV CID WL SHSSCP CR  L+   C +  G   +SSS
Sbjct:   134 FHVACIDTWLGSHSSCPSCRQILVVARCHKCGGLPGSSSS 173

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

GO:0009507 "chloroplast" evidence=ISM

GO:0010200 "response to chitin" evidence=IEP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0C034	ATL10_ARATH	No assigned EC number	0.4835	0.9266	0.8047	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	218
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-14
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-11
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	7e-11
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	1e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	5e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	4e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	1e-05
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-05
smart00184	40	smart00184, RING, Ring finger	7e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	0.001
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.002

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

 Score = 63.2 bits (154), Expect = 6e-14
 Identities = 28/45 (62%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
           EC ICL EF PGE + VLP C H FH  C+DKWLRS ++CP CR 
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 62.3 bits (151), Expect = 1e-11
 Identities = 26/45 (57%), Positives = 31/45 (68%), Gaps = 2/45 (4%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCR 170
           EC IC+S F   + LRVLP C+H FHV C+DKWL  +S  CP CR
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 55.9 bits (135), Expect = 7e-11
 Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 9/60 (15%)

Query: 120 KLSGSDTECVICLSEFA--------PGESLRV-LPKCNHGFHVHCIDKWLRSHSSCPKCR 170
                D  C IC + F         PG+   V   +C H FH+HCI +WL++ ++CP CR
Sbjct: 14  SWDIEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 23/48 (47%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCL 173
           EC ICL EF       VL  C H F   CIDKWL+S  ++CP CR  +
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>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 = 47.9 bits (114), Expect = 1e-07
 Identities = 19/44 (43%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 128 CVICLSEFAPG-ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           C  C     PG E   V   CNH FH HCI +WL +   CP  R
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 48.6 bits (116), Expect = 5e-07
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 4/63 (6%)

Query: 112 VVNYSTELKLSGSDTECVICLSEFAPGES----LRVLPKCNHGFHVHCIDKWLRSHSSCP 167
           V++   +L     D EC IC+ +    E       +L  CNH F + CID W +  ++CP
Sbjct: 161 VLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCP 220

Query: 168 KCR 170
            CR
Sbjct: 221 VCR 223

Length = 238

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

 Score = 46.5 bits (110), Expect = 4e-06
 Identities = 28/94 (29%), Positives = 38/94 (40%), Gaps = 9/94 (9%)

Query: 117 TELKLSGSDTECVICLSE-FAPG-----ESLRVLPK---CNHGFHVHCIDKWLRSHSSCP 167
           TE +L+ SD  C IC+ E F P        L + PK   C H  H+HC+  WL    +CP
Sbjct: 279 TEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP 338

Query: 168 KCRHCLIETCEESVGFSQTSSSEHSVVVPETVDS 201
            CR  +I         S    +          D+
Sbjct: 339 ICRRPVIFDQSSPTPASPNVRNTQIATQVPNPDN 372

Length = 491

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

 Score = 42.1 bits (99), Expect = 1e-05
 Identities = 25/59 (42%), Positives = 29/59 (49%), Gaps = 12/59 (20%)

Query: 124 SDTECVICLSEF--------APGESLR-VLPKCNHGFHVHCIDKWLRSHSS---CPKCR 170
           SD  C IC   F         PG+    V  KC H FH+HCI KWL + +S   CP CR
Sbjct: 20  SDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
            + EC ICL          VL  C H F   CI ++L+  S CP CR 
Sbjct: 1   EELECPICLDLLR---DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 38.6 bits (90), Expect = 7e-05
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKC 169
           C ICL E+   +   +LP C H F   CI KWL S + +CP C
Sbjct: 1   CPICLEEYL--KDPVILP-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|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 42.3 bits (99), Expect = 1e-04
 Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 6/58 (10%)

Query: 118  ELKLSGSDTECVICLSEFAPGESL---RVLPKCNHGFHVHCIDKWLRS--HSSCPKCR 170
            + K SG + EC IC S     +     +    C + FH  C+ KW  S   S+CP CR
Sbjct: 1463 DEKFSGHE-ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 127 ECVICLSEFAPGESLRVL----PKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETC 177
           EC IC +    G  +  +    PKC   FH+ C+ +WLR+     +  +    TC
Sbjct: 4   ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTC 58

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

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

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 21/89 (23%), Positives = 30/89 (33%), Gaps = 6/89 (6%)

Query: 121 LSGSDT--ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE 178
           L G D+   C IC        S+     C H F   CI + L +   CP CR    E+  
Sbjct: 19  LKGLDSMLRCRICDCRI----SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL 74

Query: 179 ESVGFSQTSSSEHSVVVPETVDSIRPLEP 207
                S+  +  H+         +  L  
Sbjct: 75  RGSSGSREINESHARNRDLLRKVLESLCR 103

Length = 391

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	218
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.86
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.63
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.45
PHA02929	238	N1R/p28-like protein; Provisional	99.45
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.4
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.33
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.16
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.12
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.11
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.09
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.04
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.04
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.93
PHA02926	242	zinc finger-like protein; Provisional	98.93
PF14634	44	zf-RING_5: zinc-RING finger domain	98.92
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.88
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.83
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.81
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.72
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.68
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.66
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.66
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.64
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.57
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.5
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.47
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.45
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.43
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.42
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.29
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.24
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.13
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.04
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.01
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.98
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.9
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.87
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.86
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.54
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.51
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.5
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.46
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.33
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.26
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.2
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.15
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.09
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.06
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.92
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.9
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.85
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.75
PHA02862	156	5L protein; Provisional	96.64
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.45
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.4
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.35
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.31
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.25
PHA03096	284	p28-like protein; Provisional	95.98
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.94
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.69
KOG2660	331	consensus Locus-specific chromosome binding protei	95.67
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.58
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.45
COG5152	259	Uncharacterized conserved protein, contains RING a	95.38
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.31
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.28
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.21
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.02
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.92
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.71
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.63
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.53
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.3
KOG4739	233	consensus Uncharacterized protein involved in syna	94.2
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.04
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	93.47
PF04641	260	Rtf2: Rtf2 RING-finger	93.36
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.08
PF15050	133	SCIMP: SCIMP protein	93.02
KOG1940	276	consensus Zn-finger protein [General function pred	92.08
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	91.88
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.87
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.77
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.3
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.03
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.81
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.69
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.03
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	89.56
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.4
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	88.26
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	87.71
KOG0825	1134	consensus PHD Zn-finger protein [General function	85.34
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	84.58
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	84.27
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	84.09
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	84.07
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.16
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	82.77
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	82.36
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	82.19
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	81.53
KOG3053	293	consensus Uncharacterized conserved protein [Funct	81.4
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	81.37
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	80.97
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	80.1
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	80.05

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

Probab=99.86  E-value=1.7e-21  Score=171.63  Aligned_cols=79  Identities=32%  Similarity=0.814  Sum_probs=68.9

Q ss_pred             CCCCCCHHHHhcCCcccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC-CCcccccccccc
Q 046833           98 KSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCRHCLIET  176 (218)
Q Consensus        98 ~~~g~~~~~l~~lp~~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~~  176 (218)
                      ...++.++.++++|...|......... ..|+||||+|++||++|+|| |+|.||..|||.||..+. .||+||+++...
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            456788999999999999987765444 79999999999999999999 999999999999997775 499999988766


Q ss_pred             cc
Q 046833          177 CE  178 (218)
Q Consensus       177 ~~  178 (218)
                      ..
T Consensus       281 ~~  282 (348)
T KOG4628|consen  281 SG  282 (348)
T ss_pred             CC
Confidence            44

>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=99.63  E-value=8.3e-17  Score=102.11  Aligned_cols=44  Identities=55%  Similarity=1.241  Sum_probs=40.5

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  170 (218)
                      ++|+||+++|.+++.+..++ |||.||.+||..|++.+.+||+||
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            47999999999999999998 999999999999999999999998

...

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

Probab=99.45  E-value=3.8e-14  Score=121.79  Aligned_cols=52  Identities=48%  Similarity=1.112  Sum_probs=47.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-cCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  175 (218)
                      +.+.+|+|||++|-++|++++|| |+|.||..|+++|+. -+..||+||..+++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            44589999999999999999999 999999999999997 45679999999876

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.45  E-value=8.5e-14  Score=117.96  Aligned_cols=75  Identities=32%  Similarity=0.662  Sum_probs=57.1

Q ss_pred             CCCCHHHHhcCCccccccccc-CCCCCCcCcccCCCCCCCC----ceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          100 SGIQQESLRDFPVVNYSTELK-LSGSDTECVICLSEFAPGE----SLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       100 ~g~~~~~l~~lp~~~~~~~~~-~~~~~~~CaICL~ef~~~~----~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ++..++.+..+|.+....... ....+.+|+||++++.+++    .+.+++.|+|.||..||..|++.+.+||+||..+.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            445677788889887554322 2234689999999987643    13455559999999999999999999999999765

>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=99.40  E-value=1.8e-13  Score=96.05  Aligned_cols=47  Identities=38%  Similarity=0.944  Sum_probs=36.3

Q ss_pred             CCCCcCcccCCCCCCC----------CceeecCCCCcccChhHHHHHHhcCCCCcccc
Q 046833          123 GSDTECVICLSEFAPG----------ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~----------~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  170 (218)
                      ..++.|+||+++|.+.          -.+...+ |||.||..||..||+.+.+||+||
T Consensus        17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   17 IADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CcCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            3356699999999322          2344444 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=99.33  E-value=2.1e-12  Score=113.85  Aligned_cols=56  Identities=39%  Similarity=0.965  Sum_probs=45.9

Q ss_pred             CCCCCcCcccCCC-CCCC---------CceeecCCCCcccChhHHHHHHhcCCCCcccccccccccc
Q 046833          122 SGSDTECVICLSE-FAPG---------ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE  178 (218)
Q Consensus       122 ~~~~~~CaICL~e-f~~~---------~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  178 (218)
                      ...+..|+||+++ |+.+         .+...|| |||+||-+|+..|+.++++||+||.++.-...
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd~~  349 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQS  349 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence            3557789999999 5544         2456788 99999999999999999999999999654433

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

Probab=99.16  E-value=3.6e-11  Score=103.06  Aligned_cols=51  Identities=27%  Similarity=0.706  Sum_probs=44.1

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ......|.+||+..++   ..-+| |||+||+.||..|...+..||+||....+.
T Consensus       236 ~~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            3456789999998755   56788 999999999999999999999999987765

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.12  E-value=1.1e-10  Score=95.58  Aligned_cols=50  Identities=36%  Similarity=0.774  Sum_probs=40.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----------------CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----------------HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----------------~~tCP~CR~~l~~~  176 (218)
                      .++.+|+||++.+.+   ..+++ |||.||+.||..|+..                +..||+||..+...
T Consensus        16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            456889999999855   45676 9999999999999842                34799999988664

>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=99.11  E-value=6.7e-11  Score=73.63  Aligned_cols=44  Identities=55%  Similarity=1.210  Sum_probs=37.0

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCccccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCL  173 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l  173 (218)
                      +|+||++.+  .+.+...+ |||.||..|++.|+.. +..||+||..+
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  34555665 9999999999999987 77899999764

>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=99.09  E-value=7.5e-11  Score=76.62  Aligned_cols=46  Identities=35%  Similarity=0.843  Sum_probs=39.4

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      +..|.||++...+   +..+| |||. |+..|+..|++.+..||+||+.+.
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            4689999998654   77888 9999 999999999999999999999874

...

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

Probab=99.04  E-value=1.5e-10  Score=82.74  Aligned_cols=52  Identities=42%  Similarity=0.885  Sum_probs=39.9

Q ss_pred             CCCcCcccCCCCCC--------CCc-eeecCCCCcccChhHHHHHHhc---CCCCccccccccc
Q 046833          124 SDTECVICLSEFAP--------GES-LRVLPKCNHGFHVHCIDKWLRS---HSSCPKCRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~--------~~~-vr~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~~  175 (218)
                      .++.|.||...|+.        |+. ..++.+|+|.||-.||.+|+..   +.+||+||+...-
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            36789999999952        232 3345569999999999999964   4689999997653

>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=99.04  E-value=1.4e-10  Score=71.49  Aligned_cols=39  Identities=44%  Similarity=1.086  Sum_probs=32.7

Q ss_pred             CcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~C  169 (218)
                      |+||++++.+  .+..++ |||.|+.+||..|++.+.+||+|
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            8999998866  446776 99999999999999888899998

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

Probab=99.01  E-value=5.2e-10  Score=93.36  Aligned_cols=52  Identities=29%  Similarity=0.687  Sum_probs=40.7

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC---CCCccccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH---SSCPKCRHCLIETC  177 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~---~tCP~CR~~l~~~~  177 (218)
                      ++...+|.|||+.-+  |.| ++. |||.|||-||.+||..+   +.||+||..+..+.
T Consensus        44 ~~~~FdCNICLd~ak--dPV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAK--DPV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccC--CCE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            466789999999843  344 554 99999999999999643   45899999877663

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

Probab=98.93  E-value=1.8e-09  Score=102.03  Aligned_cols=54  Identities=39%  Similarity=0.943  Sum_probs=46.6

Q ss_pred             CCCCcCcccCCCCCCCCc--eeecCCCCcccChhHHHHHHhcCCCCccccccccccc
Q 046833          123 GSDTECVICLSEFAPGES--LRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETC  177 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~--vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  177 (218)
                      ..+..|+||++++..+++  ...+| |+|+||..|+..|++++.+||.||..+....
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            346789999999988766  67888 9999999999999999999999999555443

>PHA02926 zinc finger-like protein; Provisional

Probab=98.93  E-value=6.6e-10  Score=92.37  Aligned_cols=52  Identities=33%  Similarity=0.785  Sum_probs=39.5

Q ss_pred             CCCCcCcccCCCCCCC-----CceeecCCCCcccChhHHHHHHhcC------CCCcccccccc
Q 046833          123 GSDTECVICLSEFAPG-----ESLRVLPKCNHGFHVHCIDKWLRSH------SSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~-----~~vr~lp~C~H~FH~~CI~~Wl~~~------~tCP~CR~~l~  174 (218)
                      ..+.+|+||||..-+.     ..--+|+.|+|.||..||..|.+.+      .+||+||..+.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4468999999987432     1234676799999999999998653      35999998654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.92  E-value=1e-09  Score=69.43  Aligned_cols=44  Identities=30%  Similarity=0.771  Sum_probs=38.7

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH  171 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  171 (218)
                      +|.||+++|.+....++++ |||+|+..|+..+......||+||+
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            5999999996667788887 9999999999999866778999984

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

Probab=98.88  E-value=9.4e-10  Score=77.08  Aligned_cols=50  Identities=38%  Similarity=0.864  Sum_probs=38.8

Q ss_pred             CcCcccCCCC-----------CCCCc-eeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          126 TECVICLSEF-----------APGES-LRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       126 ~~CaICL~ef-----------~~~~~-vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      +.|+||...|           ..+++ ......|+|.||..||.+||..+..||++|+..+-
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            5677777666           23333 34455699999999999999999999999997653

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

Probab=98.86  E-value=1.5e-09  Score=87.23  Aligned_cols=62  Identities=26%  Similarity=0.559  Sum_probs=47.2

Q ss_pred             ccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          113 VNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       113 ~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ..+......+..-..|+|||+.+.+...  +-.+|||+||+.||..-++....||+||..|.++
T Consensus       119 ~~k~v~~~~~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  119 RDKDVDPLRKEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccccccccccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            3333333334556889999999876433  4346999999999999999999999999877654

>smart00184 RING Ring finger

Probab=98.83  E-value=3.3e-09  Score=63.63  Aligned_cols=38  Identities=50%  Similarity=1.222  Sum_probs=32.6

Q ss_pred             CcccCCCCCCCCceeecCCCCcccChhHHHHHHh-cCCCCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~C  169 (218)
                      |+||++..   .....++ |+|.||..|++.|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999983   4577887 999999999999997 66679987

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)

>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=98.81  E-value=2.2e-09  Score=66.52  Aligned_cols=39  Identities=44%  Similarity=1.130  Sum_probs=32.8

Q ss_pred             CcccCCCCCCCCceeecCCCCcccChhHHHHHHh--cCCCCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR--SHSSCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~tCP~C  169 (218)
                      |+||++.+.+.  +++++ |||.|+..||..|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998653  35776 999999999999998  55679998

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

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

Probab=98.72  E-value=8.5e-09  Score=64.64  Aligned_cols=38  Identities=39%  Similarity=0.983  Sum_probs=28.9

Q ss_pred             CcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~C  169 (218)
                      |+||++-|.+   ...++ |||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999966   67787 99999999999999543    369987

>smart00504 Ubox Modified RING finger domain

Probab=98.68  E-value=2.5e-08  Score=67.22  Aligned_cols=45  Identities=29%  Similarity=0.489  Sum_probs=39.2

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ..|+||++.+.+   ..+++ |||+|...||..|++.+.+||+|+..+.
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            469999999876   34677 9999999999999988899999998774

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

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

Probab=98.66  E-value=2.2e-08  Score=91.39  Aligned_cols=50  Identities=32%  Similarity=0.814  Sum_probs=39.4

Q ss_pred             CCcCcccCCCCCCCC--------------ceeecCCCCcccChhHHHHHHh-cCCCCccccccccc
Q 046833          125 DTECVICLSEFAPGE--------------SLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~--------------~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  175 (218)
                      ..+|+||+.+++-..              ...++| |+|+||..|+..|.. .+-.||+||..|++
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            467999999983211              122567 999999999999998 55599999999875

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

Probab=98.66  E-value=1.7e-08  Score=86.00  Aligned_cols=49  Identities=33%  Similarity=0.788  Sum_probs=41.0

Q ss_pred             CCCcCcccCCCCCCCC-------ceeecCCCCcccChhHHHHHH--hcCCCCccccccc
Q 046833          124 SDTECVICLSEFAPGE-------SLRVLPKCNHGFHVHCIDKWL--RSHSSCPKCRHCL  173 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~-------~vr~lp~C~H~FH~~CI~~Wl--~~~~tCP~CR~~l  173 (218)
                      ++..|+||-..+....       +.-.|. |+|+||..||.-|-  .++++||.|+..+
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHh
Confidence            4678999999986654       667787 99999999999996  5778999997654

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

Probab=98.64  E-value=4.5e-09  Score=73.05  Aligned_cols=51  Identities=41%  Similarity=0.889  Sum_probs=38.2

Q ss_pred             CCCcCcccCCCCCC--------CC-ceeecCCCCcccChhHHHHHHhc---CCCCcccccccc
Q 046833          124 SDTECVICLSEFAP--------GE-SLRVLPKCNHGFHVHCIDKWLRS---HSSCPKCRHCLI  174 (218)
Q Consensus       124 ~~~~CaICL~ef~~--------~~-~vr~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~  174 (218)
                      .++.|-||.-.|+.        || ...++..|.|.||..||.+|+..   +..||+||+...
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34589999988843        22 23355569999999999999953   456999998754

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.57  E-value=4.3e-08  Score=88.89  Aligned_cols=49  Identities=31%  Similarity=0.631  Sum_probs=41.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      .....|+||++.|.+   ..+++ |||.||..||..|+..+..||+||..+..
T Consensus        24 e~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        24 DTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             ccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            445789999999855   34677 99999999999999888899999997764

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

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

Probab=98.50  E-value=1.1e-07  Score=61.49  Aligned_cols=42  Identities=29%  Similarity=0.781  Sum_probs=32.5

Q ss_pred             cCcccCCCCCCCCceeecCCCC-----cccChhHHHHHHhc--CCCCcccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCN-----HGFHVHCIDKWLRS--HSSCPKCR  170 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~--~~tCP~CR  170 (218)
                      .|.||+++. +++...+.| |.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~~~-~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEG-DEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCC-CCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999943 444555788 85     99999999999954  44899995

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

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

Probab=98.47  E-value=4.9e-08  Score=71.71  Aligned_cols=49  Identities=33%  Similarity=0.783  Sum_probs=38.2

Q ss_pred             CCCcCcccCCCC-------------CCCCceeecCCCCcccChhHHHHHHhcCCCCcccccc
Q 046833          124 SDTECVICLSEF-------------APGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHC  172 (218)
Q Consensus       124 ~~~~CaICL~ef-------------~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~  172 (218)
                      .-+.|+||...+             ..++.......|+|.||-.||.+||+.+..||+|-+.
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            456799987655             2234445555799999999999999999999999664

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

Probab=98.45  E-value=8.5e-08  Score=81.58  Aligned_cols=50  Identities=30%  Similarity=0.710  Sum_probs=41.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHH-HHhcCCC-Ccccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDK-WLRSHSS-CPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~-Wl~~~~t-CP~CR~~l~~~  176 (218)
                      ..+..|+||+++...   ...++ |||+|++.||.. |-+++.. ||+||+...++
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            346889999998654   56777 999999999999 9876665 99999987765

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

Probab=98.43  E-value=6.9e-08  Score=87.36  Aligned_cols=51  Identities=35%  Similarity=0.867  Sum_probs=42.0

Q ss_pred             CCCCcCcccCCCCCCCC-ceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGE-SLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .+-+.|+||||.++..- .++... |+|.||..|+..|  ...+||+||....+.
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~p~  224 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQSPS  224 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcCcc
Confidence            35678999999997765 345555 9999999999999  667899999988754

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

Probab=98.42  E-value=1.8e-07  Score=58.90  Aligned_cols=38  Identities=39%  Similarity=0.871  Sum_probs=22.4

Q ss_pred             CcccCCCCCCCC-ceeecCCCCcccChhHHHHHHhcC----CCCc
Q 046833          128 CVICLSEFAPGE-SLRVLPKCNHGFHVHCIDKWLRSH----SSCP  167 (218)
Q Consensus       128 CaICL~ef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP  167 (218)
                      |+||.+ |.+.+ ...+|+ |||+|..+||+.|++..    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 75544 457898 99999999999999743    3576

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

Probab=98.29  E-value=1.8e-07  Score=65.09  Aligned_cols=50  Identities=32%  Similarity=0.727  Sum_probs=23.8

Q ss_pred             CCcCcccCCCCCCCCc--eeecC--CCCcccChhHHHHHHhc---C--------CCCcccccccc
Q 046833          125 DTECVICLSEFAPGES--LRVLP--KCNHGFHVHCIDKWLRS---H--------SSCPKCRHCLI  174 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~--vr~lp--~C~H~FH~~CI~~Wl~~---~--------~tCP~CR~~l~  174 (218)
                      +.+|.||.+.+.+++.  ..+.+  +|++.||..|+.+||..   .        .+||.|+..|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            3689999998763332  23443  69999999999999952   1        13999998775

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

Probab=98.27  E-value=4.6e-07  Score=83.35  Aligned_cols=50  Identities=30%  Similarity=0.535  Sum_probs=38.7

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-----CCCCcccccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-----HSSCPKCRHCLIETCE  178 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----~~tCP~CR~~l~~~~~  178 (218)
                      +..|+|||++...   -..+ .|||+||..||-.++..     ...||+||..+..+.-
T Consensus       186 ~~~CPICL~~~~~---p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCc---cccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            6789999998543   2233 39999999999999843     3579999998877533

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

Probab=98.24  E-value=2e-07  Score=90.66  Aligned_cols=51  Identities=33%  Similarity=0.802  Sum_probs=38.6

Q ss_pred             CCCcCcccCCCCCCCC---ceeecCCCCcccChhHHHHHHhc--CCCCcccccccc
Q 046833          124 SDTECVICLSEFAPGE---SLRVLPKCNHGFHVHCIDKWLRS--HSSCPKCRHCLI  174 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~---~vr~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~  174 (218)
                      +..|||||...+..-|   .-..++.|.|.||..|+.+|++.  +.+||+||..++
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            5689999998875212   11234569999999999999965  457999998764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.13  E-value=2.2e-06  Score=75.16  Aligned_cols=51  Identities=29%  Similarity=0.584  Sum_probs=37.6

Q ss_pred             CCcCcccCCCCCCCC--ceeecCCCCcccChhHHHHHH-hcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGE--SLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~--~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR~~l~~~  176 (218)
                      +..|+||+.+--...  ++-+.+ |||.||..||+..+ .....||.|+..+-..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            467999999633222  333335 99999999999966 4456899999887755

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).

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

Probab=98.04  E-value=1.6e-06  Score=73.46  Aligned_cols=44  Identities=36%  Similarity=0.837  Sum_probs=38.8

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  170 (218)
                      .+...|+||++.|.+.   .++| |+|.|+..||..|+.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            4567899999999875   7888 999999999999988556799999

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

Probab=98.01  E-value=4.2e-06  Score=74.16  Aligned_cols=52  Identities=40%  Similarity=0.697  Sum_probs=43.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIETCE  178 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  178 (218)
                      ++..+|.|||++-.+   +.+|| |.|. .|..|.+.---++..||+||+.+.+.-+
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~  340 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE  340 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence            457899999999755   78999 9996 7888998876678899999999877644

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

Probab=98.01  E-value=4.6e-06  Score=58.30  Aligned_cols=48  Identities=25%  Similarity=0.440  Sum_probs=37.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ...|+|+.+-+.+   ..++| +||.|-..||..|++. +.+||+|+..+...
T Consensus         4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            3579999999866   66788 9999999999999988 88999999887754

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 ....

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

Probab=97.98  E-value=3e-06  Score=73.17  Aligned_cols=49  Identities=31%  Similarity=0.573  Sum_probs=40.3

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .-..|-||-+-|..   ...++ |||.||.-||...|..+..||+||.+..+.
T Consensus        24 s~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~es   72 (391)
T COG5432          24 SMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCES   72 (391)
T ss_pred             hHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHhh
Confidence            34679999887744   33455 999999999999999999999999976554

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

Probab=97.95  E-value=3.8e-06  Score=75.03  Aligned_cols=48  Identities=33%  Similarity=0.852  Sum_probs=34.8

Q ss_pred             CcCcccCCCCCCC-CceeecCCCCcccChhHHHHHHhc---CCCCcccccccc
Q 046833          126 TECVICLSEFAPG-ESLRVLPKCNHGFHVHCIDKWLRS---HSSCPKCRHCLI  174 (218)
Q Consensus       126 ~~CaICL~ef~~~-~~vr~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~  174 (218)
                      .+|.|| +++.+. ..+.-...|||+||..|+..|+..   ..+||.||-.+.
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            589999 555443 344444459999999999999953   357999994433

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

Probab=97.90  E-value=3.3e-06  Score=74.29  Aligned_cols=48  Identities=33%  Similarity=0.731  Sum_probs=41.9

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      -..|-||.+=|..   ..++| |+|.||.-||..+|..+..||.|+..+.|.
T Consensus        23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence            4579999998855   45677 999999999999999999999999987765

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

Probab=97.87  E-value=3.3e-06  Score=73.18  Aligned_cols=53  Identities=32%  Similarity=0.778  Sum_probs=45.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-----------------------cCCCCcccccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-----------------------SHSSCPKCRHCLIETCE  178 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-----------------------~~~tCP~CR~~l~~~~~  178 (218)
                      ...|+|||--|.+++...+++ |.|.||..|+..+|.                       .+..||+||..|..+..
T Consensus       115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~  190 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN  190 (368)
T ss_pred             CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence            468999999999999999998 999999999998873                       12249999999887654

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

Probab=97.86  E-value=9.3e-06  Score=73.02  Aligned_cols=48  Identities=38%  Similarity=0.875  Sum_probs=38.1

Q ss_pred             CCCcCcccCCCCC-CCCceeecCCCCcccChhHHHHHHhc--CCCCccccc
Q 046833          124 SDTECVICLSEFA-PGESLRVLPKCNHGFHVHCIDKWLRS--HSSCPKCRH  171 (218)
Q Consensus       124 ~~~~CaICL~ef~-~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~  171 (218)
                      ....|+|||+++. .+++..+.+.|||.|-.+||..||.+  ...||.|..
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~   53 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG   53 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence            3568999999996 55665566679999999999999942  336999965

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

Probab=97.82  E-value=1.2e-05  Score=67.28  Aligned_cols=56  Identities=25%  Similarity=0.642  Sum_probs=47.1

Q ss_pred             CCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc--------CCCCcccccccccccc
Q 046833          121 LSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS--------HSSCPKCRHCLIETCE  178 (218)
Q Consensus       121 ~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~tCP~CR~~l~~~~~  178 (218)
                      .++....|..|-..+..+|.+|..  |-|+||++|+++|-.+        ...||.|...+++.-+
T Consensus        46 DsDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N  109 (299)
T KOG3970|consen   46 DSDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN  109 (299)
T ss_pred             hcCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence            345667899999999999999987  9999999999999742        3469999999887643

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

Probab=97.63  E-value=2.8e-05  Score=69.50  Aligned_cols=51  Identities=39%  Similarity=0.906  Sum_probs=39.3

Q ss_pred             CCCCcCcccCCCCCCCC----ceeecCCCCcccChhHHHHHH--hc-----CCCCccccccc
Q 046833          123 GSDTECVICLSEFAPGE----SLRVLPKCNHGFHVHCIDKWL--RS-----HSSCPKCRHCL  173 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~----~vr~lp~C~H~FH~~CI~~Wl--~~-----~~tCP~CR~~l  173 (218)
                      ..+.+|.||++...+..    ...++|.|.|.|+..||..|-  .+     .+.||.||...
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            44789999999875533    123567899999999999997  33     46799999853

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

Probab=97.54  E-value=1.1e-05  Score=77.47  Aligned_cols=51  Identities=24%  Similarity=0.437  Sum_probs=42.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ....|++||..+.++...-.-+ |+|.||..||+.|-+.-.+||+||..+..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            4457888888887766555555 99999999999999999999999986554

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

Probab=97.51  E-value=7.4e-06  Score=72.44  Aligned_cols=50  Identities=36%  Similarity=0.693  Sum_probs=41.8

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-cCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  176 (218)
                      .+..|+|||+-++.   .+.++.|.|-||.+||..-++ .+.+||.||..+...
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            46789999998755   556678999999999999995 567899999988765

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

Probab=97.50  E-value=2.6e-05  Score=52.85  Aligned_cols=46  Identities=28%  Similarity=0.585  Sum_probs=22.5

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      -.|++|.+-+.+   ...+..|.|+|+..||..-+..  .||+|+.+--..
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~q   53 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQ   53 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-S
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHH
Confidence            469999988744   3344469999999999886543  499998865444

>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=97.46  E-value=4e-05  Score=59.44  Aligned_cols=35  Identities=20%  Similarity=0.565  Sum_probs=30.7

Q ss_pred             CCcCcccCCCCCCCCceeecCCCC------cccChhHHHHHH
Q 046833          125 DTECVICLSEFAPGESLRVLPKCN------HGFHVHCIDKWL  160 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~------H~FH~~CI~~Wl  160 (218)
                      ..||+||++.+.+++.++.++ ||      |.||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            579999999999877787777 75      999999999994

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.

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

Probab=97.33  E-value=0.00011  Score=66.16  Aligned_cols=49  Identities=29%  Similarity=0.718  Sum_probs=40.2

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc--CCCCcccccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS--HSSCPKCRHCLIETCE  178 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~~~~~  178 (218)
                      .-|-||-+.   +..|++-| |||..|..|+..|-..  ..+||.||..+...+.
T Consensus       370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            569999876   34588888 9999999999999733  5689999998876654

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

Probab=97.26  E-value=9.2e-05  Score=71.28  Aligned_cols=46  Identities=26%  Similarity=0.721  Sum_probs=36.5

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-hcCCCCccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRHCLIE  175 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR~~l~~  175 (218)
                      -.|++|-..+.+   + ++++|+|+||..||..-+ .++..||.|-..+-.
T Consensus       644 LkCs~Cn~R~Kd---~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNTRWKD---A-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccCchhh---H-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            579999877644   3 334699999999999999 577889999877654

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

Probab=97.20  E-value=9.3e-05  Score=48.46  Aligned_cols=47  Identities=28%  Similarity=0.584  Sum_probs=30.8

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHH-hcCCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWL-RSHSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl-~~~~tCP~CR~~l~~  175 (218)
                      ++||.||++.--  +.+..+  |||. .+-+|-.+-+ ..+..||+||+++.+
T Consensus         7 ~dECTICye~pv--dsVlYt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    7 SDECTICYEHPV--DSVLYT--CGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             ccceeeeccCcc--hHHHHH--cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            479999998732  333333  9997 2334443333 367799999997653

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

Probab=97.15  E-value=0.00013  Score=58.27  Aligned_cols=31  Identities=35%  Similarity=0.838  Sum_probs=28.0

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccCh
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHV  153 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~  153 (218)
                      .+...||.||||+++.+++|..|| |-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            345679999999999999999999 9999997

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

Probab=97.09  E-value=0.00029  Score=46.98  Aligned_cols=42  Identities=26%  Similarity=0.612  Sum_probs=27.1

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc--CCCCcc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS--HSSCPK  168 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~tCP~  168 (218)
                      ....|+|.+..|++  .++-. +|||+|-++.|..|++.  ...||+
T Consensus        10 ~~~~CPiT~~~~~~--PV~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED--PVKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS--EEEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC--CcCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            35689999999864  45555 59999999999999943  446998

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

Probab=97.06  E-value=0.00029  Score=61.38  Aligned_cols=48  Identities=29%  Similarity=0.569  Sum_probs=38.1

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ..+|+||+..-   .....++ |+|.|+-.||.-=.+. ..+|++||..+.+.
T Consensus         7 ~~eC~IC~nt~---n~Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTG---NCPVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccC---CcCcccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            46899999874   3345666 9999999999987754 45799999988765

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

Probab=97.01  E-value=0.00034  Score=63.84  Aligned_cols=50  Identities=38%  Similarity=0.883  Sum_probs=42.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ..+.+|.||..-+.+   ...+| |||.|+..||++-+.....||.||..+.+.
T Consensus        82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVEL  131 (398)
T ss_pred             cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCcccccccccc
Confidence            456899999888755   66778 999999999999888777899999999864

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

Probab=96.92  E-value=0.00067  Score=62.00  Aligned_cols=52  Identities=29%  Similarity=0.620  Sum_probs=42.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETC  177 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  177 (218)
                      +.+..|++|...+.+.-..  +. |||.|+..|+..|+..+..||.|+..+....
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhh
Confidence            4567899999998663222  34 9999999999999999999999988776553

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

Probab=96.90  E-value=0.0003  Score=63.29  Aligned_cols=45  Identities=38%  Similarity=0.932  Sum_probs=37.5

Q ss_pred             CCcCcccCCCCCC-CCceeecCCCCcccChhHHHHHHhcC--CCCcccc
Q 046833          125 DTECVICLSEFAP-GESLRVLPKCNHGFHVHCIDKWLRSH--SSCPKCR  170 (218)
Q Consensus       125 ~~~CaICL~ef~~-~~~vr~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR  170 (218)
                      +--|-.|-+.+.. ++.+.-|| |.|+||..|+.+.|.++  .+||.||
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr  412 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR  412 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence            4579999998864 35677898 99999999999999654  4799999

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

Probab=96.85  E-value=0.00076  Score=68.93  Aligned_cols=66  Identities=26%  Similarity=0.600  Sum_probs=48.7

Q ss_pred             cCCcccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----------CCCccccccccc
Q 046833          109 DFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----------SSCPKCRHCLIE  175 (218)
Q Consensus       109 ~lp~~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----------~tCP~CR~~l~~  175 (218)
                      -+|.+....+....+.++.|.||..|--.....+.|. |+|+||-+|...-|.+.          -+||+|+..+..
T Consensus      3470 CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            3555555444445677899999998876666778886 99999999998765432          259999987653

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

Probab=96.75  E-value=0.00075  Score=43.16  Aligned_cols=40  Identities=33%  Similarity=0.894  Sum_probs=26.8

Q ss_pred             CcccCCCCCCCCceeecCCCC-----cccChhHHHHHHh--cCCCCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCN-----HGFHVHCIDKWLR--SHSSCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~-----H~FH~~CI~~Wl~--~~~tCP~C  169 (218)
                      |-||+++-.+++ .-+.| |+     -..|..|+..|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679999877655 33455 53     4789999999995  45679887

>PHA02862 5L protein; Provisional

Probab=96.64  E-value=0.0015  Score=51.26  Aligned_cols=48  Identities=19%  Similarity=0.470  Sum_probs=34.7

Q ss_pred             CCcCcccCCCCCCCCceeecC-CC---CcccChhHHHHHHh--cCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLP-KC---NHGFHVHCIDKWLR--SHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp-~C---~H~FH~~CI~~Wl~--~~~tCP~CR~~l~~~  176 (218)
                      ++.|-||+++-++  .+  -| .|   ...-|.+|+.+|++  ++..|+.|+....-+
T Consensus         2 ~diCWIC~~~~~e--~~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDE--RN--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCC--Cc--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            3679999998533  33  44 13   36889999999995  345799999976543

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.45  E-value=0.0027  Score=50.61  Aligned_cols=50  Identities=24%  Similarity=0.552  Sum_probs=35.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecC-CCCc---ccChhHHHHHHhc--CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLP-KCNH---GFHVHCIDKWLRS--HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp-~C~H---~FH~~CI~~Wl~~--~~tCP~CR~~l~~~  176 (218)
                      ..+.+|-||.++-.  +..  .| +|..   .-|.+|+..|+..  ..+|+.|+....-.
T Consensus         6 ~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            45679999998843  222  34 2444   6699999999954  45799998876533

>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=96.40  E-value=0.0016  Score=48.06  Aligned_cols=32  Identities=31%  Similarity=0.770  Sum_probs=27.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHH
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCID  157 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~  157 (218)
                      .+..|++|-..+.. ....+.| |||+||..|++
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            35679999999977 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 [].

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

Probab=96.35  E-value=0.0017  Score=63.36  Aligned_cols=53  Identities=34%  Similarity=0.756  Sum_probs=40.4

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC-------CCCcccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH-------SSCPKCRHCLI  174 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-------~tCP~CR~~l~  174 (218)
                      .....+|.||++.+...+.+=-...|-|+||-.||..|.++.       -.||.|.....
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            345689999999997766654444589999999999998542       14999985443

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

Probab=96.31  E-value=0.0026  Score=56.77  Aligned_cols=45  Identities=29%  Similarity=0.613  Sum_probs=34.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ...+.|.||+++..+   ...+| |||+=+  |...- +...+||+||+.+.
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            446789999999766   77888 999944  77665 33445999998764

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

Probab=96.25  E-value=0.014  Score=51.60  Aligned_cols=46  Identities=17%  Similarity=0.353  Sum_probs=36.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  171 (218)
                      .....|+||+...++ +.+-.+  -|-+||-.||..++.++..||+=-.
T Consensus       298 ~~~~~CpvClk~r~N-ptvl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQN-PTVLEV--SGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             CccccChhHHhccCC-CceEEe--cceEEeHHHHHHHHHhcCCCCccCC
Confidence            445689999998766 333232  6999999999999999999998544

>PHA03096 p28-like protein; Provisional

Probab=95.98  E-value=0.0035  Score=54.89  Aligned_cols=36  Identities=28%  Similarity=0.703  Sum_probs=29.3

Q ss_pred             CcCcccCCCCCCCC----ceeecCCCCcccChhHHHHHHh
Q 046833          126 TECVICLSEFAPGE----SLRVLPKCNHGFHVHCIDKWLR  161 (218)
Q Consensus       126 ~~CaICL~ef~~~~----~vr~lp~C~H~FH~~CI~~Wl~  161 (218)
                      .+|.||++......    .--.|+.|.|.|+..||..|-.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~  218 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT  218 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence            68999999986532    2346888999999999999974

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

Probab=95.94  E-value=0.0029  Score=59.11  Aligned_cols=48  Identities=25%  Similarity=0.627  Sum_probs=37.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-----cCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-----SHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~tCP~CR~~l~  174 (218)
                      .+..+|-+|-++-++   ..+.. |.|.||+.||.+++.     .+-+||+|...|.
T Consensus       534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            456789999987433   55665 999999999999973     3568999977654

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

Probab=95.69  E-value=0.0052  Score=55.77  Aligned_cols=37  Identities=30%  Similarity=0.744  Sum_probs=32.9

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR  161 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~  161 (218)
                      .-..|.||.++....+.+..+| |+|+|++.|+..++.
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence            3578999999987778889999 999999999999984

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

Probab=95.67  E-value=0.0028  Score=55.90  Aligned_cols=51  Identities=25%  Similarity=0.628  Sum_probs=41.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .....|.+|-.=|-+...|.   .|-|.||+.||...|....+||.|...+-..
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            34578999988876644432   4999999999999999999999998866544

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

Probab=95.58  E-value=0.0095  Score=52.11  Aligned_cols=44  Identities=30%  Similarity=0.703  Sum_probs=34.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-hcCCCCccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRH  171 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR~  171 (218)
                      ...|+.|-.-+.+  .+ .+|.|+|.|+.+||..-| .....||.|.+
T Consensus       274 ~LkCplc~~Llrn--p~-kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLLRN--PM-KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhhhC--cc-cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            3679999877644  23 347799999999999887 56788999954

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.45  E-value=0.013  Score=49.89  Aligned_cols=53  Identities=17%  Similarity=0.261  Sum_probs=47.8

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....|+||.+.+.+...+.+|..|||+|..+|+.+.+.....||+|-.++.+.
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            35789999999999888888888999999999999999999999998887766

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

Probab=95.38  E-value=0.0078  Score=49.73  Aligned_cols=44  Identities=23%  Similarity=0.527  Sum_probs=37.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~  172 (218)
                      ...|.||-.+|+.   .+++. |||.||..|...=++....|-+|-..
T Consensus       196 PF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence            4589999999965   44565 99999999999988999999999653

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

Probab=95.31  E-value=0.025  Score=48.86  Aligned_cols=52  Identities=27%  Similarity=0.443  Sum_probs=37.7

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh--cCCCCcccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR--SHSSCPKCRHCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~tCP~CR~~l~~~  176 (218)
                      ...+.+|++|-+.=.  ...... +|+|+||=-||..=+.  ...+||.|-....+-
T Consensus       236 ~t~~~~C~~Cg~~Pt--iP~~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPT--IPHVIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             ccCCceeeccCCCCC--CCeeec-cccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            456789999977632  223344 4999999999998764  346899997766544

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

Probab=95.28  E-value=0.016  Score=37.20  Aligned_cols=45  Identities=22%  Similarity=0.569  Sum_probs=20.1

Q ss_pred             CcccCCCCCCCC-ceeecCCCCcccChhHHHHHHh-cCCCCccccccc
Q 046833          128 CVICLSEFAPGE-SLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCL  173 (218)
Q Consensus       128 CaICL~ef~~~~-~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l  173 (218)
                      |++|.+++...+ ...-.+ ||+..+..|...-+. ....||-||...
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999994433 333343 777777777666554 466899999863

>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=95.21  E-value=0.0089  Score=37.44  Aligned_cols=41  Identities=32%  Similarity=0.793  Sum_probs=23.1

Q ss_pred             CcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC--CCccc
Q 046833          128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS--SCPKC  169 (218)
Q Consensus       128 CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--tCP~C  169 (218)
                      |.+|-+-...|...... .|+=.+|..|++.+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777766665544433 4999999999999996655  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.02  E-value=0.0011  Score=59.71  Aligned_cols=52  Identities=23%  Similarity=0.547  Sum_probs=45.1

Q ss_pred             CCCcCcccCCCCCCC-CceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPG-ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~-~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....|+||.+.+... +++..+- |||++|..||.+||.....||.||+.|...
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            356799999999876 7788886 999999999999998888999999987643

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

Probab=94.92  E-value=0.038  Score=49.36  Aligned_cols=63  Identities=24%  Similarity=0.466  Sum_probs=44.1

Q ss_pred             HHhcCCcccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHH--HhcCCCCcccccc
Q 046833          106 SLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKW--LRSHSSCPKCRHC  172 (218)
Q Consensus       106 ~l~~lp~~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~W--l~~~~tCP~CR~~  172 (218)
                      .+..-|...-+......++...|.||-+.+.   ...++| |+|..+..|-..-  |-..+.||+||..
T Consensus        42 nlsaEPnlttsSaddtDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          42 NLSAEPNLTTSSADDTDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccCCccccccccccccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence            3334455444444444556677999988763   367888 9999999997664  4567889999973

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.71  E-value=0.046  Score=35.91  Aligned_cols=35  Identities=29%  Similarity=0.800  Sum_probs=30.8

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHH
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDK  158 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~  158 (218)
                      ....|.+|-+.|.+++.+.+.|.|+=.+|..|-+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            34679999999999999999999999999999543

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

Probab=94.63  E-value=0.042  Score=49.20  Aligned_cols=49  Identities=27%  Similarity=0.554  Sum_probs=41.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      .++..|+||...-   ..-...| |+|.=|..||.+.+.+.+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            5678899998752   2344677 99999999999999999999999998775

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

Probab=94.53  E-value=0.022  Score=46.36  Aligned_cols=30  Identities=33%  Similarity=0.953  Sum_probs=23.7

Q ss_pred             CCCcccChhHHHHHHhc----C-------CCCccccccccc
Q 046833          146 KCNHGFHVHCIDKWLRS----H-------SSCPKCRHCLIE  175 (218)
Q Consensus       146 ~C~H~FH~~CI~~Wl~~----~-------~tCP~CR~~l~~  175 (218)
                      .||.-||.-|+..||+.    .       ..||.|..++.-
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999953    1       149999877653

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

Probab=94.30  E-value=0.023  Score=55.85  Aligned_cols=40  Identities=28%  Similarity=0.844  Sum_probs=30.6

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH  171 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  171 (218)
                      ..|..|-..++-  ..... .|||.||.+|+.   .+...||.|+.
T Consensus       841 skCs~C~~~Ldl--P~VhF-~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  841 SKCSACEGTLDL--PFVHF-LCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeecccCCcccc--ceeee-ecccHHHHHhhc---cCcccCCccch
Confidence            579999877643  22333 399999999998   46678999988

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

Probab=94.20  E-value=0.017  Score=48.93  Aligned_cols=43  Identities=26%  Similarity=0.728  Sum_probs=32.1

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCL  173 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l  173 (218)
                      -|-.|.- +..++...++. |+|+||..|...-  ....||.||.++
T Consensus         5 hCn~C~~-~~~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFR-FPSQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSI   47 (233)
T ss_pred             Eeccccc-cCCCCceeeee-chhhhhhhhcccC--Ccccccccccee
Confidence            4776654 34478888887 9999999997763  222899999974

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

Probab=94.04  E-value=0.037  Score=48.34  Aligned_cols=47  Identities=34%  Similarity=0.760  Sum_probs=38.0

Q ss_pred             CcCcccCCCCCCCCc---eeecCCCCcccChhHHHHHHhcC-CCCccccccc
Q 046833          126 TECVICLSEFAPGES---LRVLPKCNHGFHVHCIDKWLRSH-SSCPKCRHCL  173 (218)
Q Consensus       126 ~~CaICL~ef~~~~~---vr~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l  173 (218)
                      .+|-||-++|..++.   .|+|. |||.|+..|+..-+... ..||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            589999999987643   46664 99999999999877544 4699999984

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

Probab=93.47  E-value=0.038  Score=48.26  Aligned_cols=46  Identities=28%  Similarity=0.435  Sum_probs=37.7

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ...|-||...|..   .+++ +|+|.|+..|-..-++....|.+|-+..-
T Consensus       241 Pf~c~icr~~f~~---pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Ccccccccccccc---chhh-cCCceeehhhhccccccCCcceecccccc
Confidence            4569999999966   3355 49999999999998888899999976543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.36  E-value=0.097  Score=45.21  Aligned_cols=52  Identities=19%  Similarity=0.400  Sum_probs=41.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      .....|+|...+|........+..|||+|-..+|..- .....||+|-.++.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTE  162 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcccc
Confidence            5567899999999766666666559999999999996 335679999877653

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

Probab=93.08  E-value=0.042  Score=54.24  Aligned_cols=36  Identities=25%  Similarity=0.609  Sum_probs=29.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL  160 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl  160 (218)
                      +.++.|.+|--.+... .-.+.| |||.||++||.+-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            3467899998888664 455777 99999999998875

>PF15050 SCIMP: SCIMP protein

Probab=93.02  E-value=0.22  Score=37.97  Aligned_cols=31  Identities=19%  Similarity=0.330  Sum_probs=21.9

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 046833           49 HFNVVMFFSILISAVVCSLGFHFLIRCVFLR   79 (218)
Q Consensus        49 ~f~viiil~ill~~li~~l~l~~i~rc~~~r   79 (218)
                      +|.+|+.++|+++.+++.+++++++|+.+++
T Consensus         7 nFWiiLAVaII~vS~~lglIlyCvcR~~lRq   37 (133)
T PF15050_consen    7 NFWIILAVAIILVSVVLGLILYCVCRWQLRQ   37 (133)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            5667777777777777777777778877433

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

Probab=92.08  E-value=0.07  Score=46.47  Aligned_cols=50  Identities=24%  Similarity=0.537  Sum_probs=40.5

Q ss_pred             CCcCcccCCCCCCCCc-eeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGES-LRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~-vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ...|+||.+.+-.... +..++ |||.-|..|+.+....+.+||+|.. +.+.
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~  208 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDM  208 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHH
Confidence            4459999998876654 56676 9999999999999988899999988 4433

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

Probab=91.88  E-value=0.031  Score=48.77  Aligned_cols=43  Identities=26%  Similarity=0.653  Sum_probs=29.3

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ..-|+||++.-.   ....|+ |||..  .|...= +.-..||+||+.+.
T Consensus       300 ~~LC~ICmDaP~---DCvfLe-CGHmV--tCt~CG-krm~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPR---DCVFLE-CGHMV--TCTKCG-KRMNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCc---ceEEee-cCcEE--eehhhc-cccccCchHHHHHH
Confidence            567999998743   377898 99973  343221 12237999998765

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

Probab=91.87  E-value=0.061  Score=52.50  Aligned_cols=47  Identities=34%  Similarity=0.753  Sum_probs=37.0

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc--CCCCccccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS--HSSCPKCRHCLIETC  177 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~~~~  177 (218)
                      ..|.||++    .+.....+ |+|.|+..|+..-+..  ...||.||..+.+..
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            78999999    34455665 9999999999988743  235999999887663

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

Probab=91.77  E-value=0.16  Score=45.84  Aligned_cols=28  Identities=32%  Similarity=0.959  Sum_probs=20.5

Q ss_pred             CCcccChhHHHHHHhc-------------CCCCcccccccc
Q 046833          147 CNHGFHVHCIDKWLRS-------------HSSCPKCRHCLI  174 (218)
Q Consensus       147 C~H~FH~~CI~~Wl~~-------------~~tCP~CR~~l~  174 (218)
                      |.-.+|.+|+.+|+.+             +-.||.||+.+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            4455678999999842             235999999754

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

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.30  E-value=0.17  Score=45.27  Aligned_cols=54  Identities=17%  Similarity=0.484  Sum_probs=36.1

Q ss_pred             CCCCCcCcccCCCCCCCCc-eeecCCCCcccChhHHHHHH-hcCCCCcccccccccc
Q 046833          122 SGSDTECVICLSEFAPGES-LRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRHCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~-vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR~~l~~~  176 (218)
                      +++++.|+.|+++++-.|+ ..-.| ||-..|.-|-..-- .-+..||-||+..-++
T Consensus        11 edeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            3556679999999976654 34455 88766666644322 2345799999976544

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.03  E-value=0.095  Score=34.51  Aligned_cols=44  Identities=30%  Similarity=0.530  Sum_probs=31.2

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ..|..|...   +.+-.++| |+|+....|.+-+  +-.-||.|-..+..
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence            345555543   33455788 9999999998875  56679999776643

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

Probab=90.81  E-value=0.12  Score=50.51  Aligned_cols=23  Identities=35%  Similarity=0.973  Sum_probs=21.1

Q ss_pred             CCCcccChhHHHHHHhcCCCCcc
Q 046833          146 KCNHGFHVHCIDKWLRSHSSCPK  168 (218)
Q Consensus       146 ~C~H~FH~~CI~~Wl~~~~tCP~  168 (218)
                      .|+|+-|..|..+|+.....||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            39999999999999999999984

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

Probab=90.69  E-value=0.16  Score=44.35  Aligned_cols=51  Identities=27%  Similarity=0.716  Sum_probs=37.5

Q ss_pred             CCcCcccCCCCCCCCc-eeecCCCC-----cccChhHHHHHHh--cCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGES-LRVLPKCN-----HGFHVHCIDKWLR--SHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~-vr~lp~C~-----H~FH~~CI~~Wl~--~~~tCP~CR~~l~~~  176 (218)
                      +..|-||..+...... .-..| |.     +..|..|++.|+.  ....|.+|.......
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 33455 53     7779999999996  566799998865544

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

Probab=90.03  E-value=0.071  Score=51.10  Aligned_cols=43  Identities=30%  Similarity=0.604  Sum_probs=32.4

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH  171 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  171 (218)
                      ..|.||+.+|-...-.-+...|||..+..|+..-  -+.+|| |++
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence            4699999998765544344459999999999884  567888 655

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

Probab=89.56  E-value=0.19  Score=47.89  Aligned_cols=49  Identities=35%  Similarity=0.832  Sum_probs=40.8

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE  178 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  178 (218)
                      ....+.|.||+.+.    ..+..+ |.   |..|+.+|+..+..||.|+..+.....
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            45568899999987    456666 88   999999999999999999998877644

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

Probab=89.40  E-value=0.086  Score=54.07  Aligned_cols=45  Identities=29%  Similarity=0.698  Sum_probs=37.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~  172 (218)
                      ...|.||++.+...-.+ .  .|||.++..|+..|+..+..||.|+..
T Consensus      1153 ~~~c~ic~dil~~~~~I-~--~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGI-A--GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcCCe-e--eechhHhhhHHHHHHHHhccCcchhhh
Confidence            45899999988653322 3  299999999999999999999999843

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=88.26  E-value=0.41  Score=39.83  Aligned_cols=42  Identities=38%  Similarity=0.821  Sum_probs=31.4

Q ss_pred             CCCcCcccCCC-----CCCCCceeecCCCCcccChhHHHHHHhcCCCCccccc
Q 046833          124 SDTECVICLSE-----FAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH  171 (218)
Q Consensus       124 ~~~~CaICL~e-----f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  171 (218)
                      .+..|-+|-++     |+. +.+...++|+-+||..|..     +..||.|.+
T Consensus       151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R  197 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR  197 (202)
T ss_pred             CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence            46789999753     333 4667788899999999966     267999943

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

Probab=87.71  E-value=0.22  Score=43.99  Aligned_cols=44  Identities=27%  Similarity=0.574  Sum_probs=29.6

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      .-|--|=-.+  ...-|+.| |+|+||-+|-..  ...+.||.|-..+.
T Consensus        91 HfCd~Cd~PI--~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFPI--AIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCcc--eeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            3476664332  33447888 999999999654  34568999865443

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

Probab=85.34  E-value=0.55  Score=46.26  Aligned_cols=55  Identities=13%  Similarity=0.271  Sum_probs=39.0

Q ss_pred             CCcCcccCCCCCC---CCceeecCCCCcccChhHHHHHHh------cCCCCccccccccccccc
Q 046833          125 DTECVICLSEFAP---GESLRVLPKCNHGFHVHCIDKWLR------SHSSCPKCRHCLIETCEE  179 (218)
Q Consensus       125 ~~~CaICL~ef~~---~~~vr~lp~C~H~FH~~CI~~Wl~------~~~tCP~CR~~l~~~~~~  179 (218)
                      ...|.||.-++.+   +-.+-.+..|+|.|+..||..|..      .+-.|+.|.++|..+...
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~  159 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC  159 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh
Confidence            4567777777765   223333345999999999999984      344689999998876553

>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=84.58  E-value=0.43  Score=40.78  Aligned_cols=46  Identities=28%  Similarity=0.775  Sum_probs=35.7

Q ss_pred             CCcCcccCCCC--CCCCceeecCCCCcccChhHHHHHHhc-CCCCc--ccc
Q 046833          125 DTECVICLSEF--APGESLRVLPKCNHGFHVHCIDKWLRS-HSSCP--KCR  170 (218)
Q Consensus       125 ~~~CaICL~ef--~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP--~CR  170 (218)
                      +..|+||-.+-  .++.++-+-|.|-|-.|..|+|.-+.. ...||  -|-
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~   60 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG   60 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence            56899999885  344456667779999999999999954 55799  663

>TIGR00622 ssl1 transcription factor ssl1

Probab=84.27  E-value=1.7  Score=32.84  Aligned_cols=46  Identities=26%  Similarity=0.431  Sum_probs=35.0

Q ss_pred             CCcCcccCCCCCCC----------CceeecCCCCcccChhHHHHHHhcCCCCcccc
Q 046833          125 DTECVICLSEFAPG----------ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       125 ~~~CaICL~ef~~~----------~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  170 (218)
                      ...|--|+..|.+.          ...-..++|++.|+.+|=.-+-..-.+||-|-
T Consensus        55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~  110 (112)
T TIGR00622        55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI  110 (112)
T ss_pred             CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence            35699999998643          11234678999999999777766667899995

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

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

Probab=84.09  E-value=0.91  Score=41.32  Aligned_cols=44  Identities=18%  Similarity=0.406  Sum_probs=37.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC---CCccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS---SCPKC  169 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---tCP~C  169 (218)
                      ...|+|=-+.-.++.....|. |||+..++=+++-.++..   .||.|
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            357999888888877788887 999999999999876554   69999

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

Probab=84.07  E-value=0.79  Score=35.65  Aligned_cols=53  Identities=21%  Similarity=0.380  Sum_probs=35.6

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH---hcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL---RSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl---~~~~tCP~CR~~l~~~  176 (218)
                      .-.+|.||-|--.+..-+.--..||-..+-.|-..-+   ..+..||+|+.++-..
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            4589999988765533222222489888887655444   4577899999987644

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

Probab=83.16  E-value=0.26  Score=47.80  Aligned_cols=48  Identities=31%  Similarity=0.678  Sum_probs=36.8

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc---CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS---HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~~~  176 (218)
                      ..+|.||+..+...   ..+ +|.|.|...|+..-|..   ...||+|+..+...
T Consensus        21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR   71 (684)
T ss_pred             hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence            46899999998664   234 59999999999887643   45799999766544

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

Probab=82.77  E-value=1.1  Score=44.48  Aligned_cols=53  Identities=25%  Similarity=0.561  Sum_probs=38.9

Q ss_pred             CCCCcCcccCCCCCCCCceeecC-CCC---cccChhHHHHHHh--cCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLP-KCN---HGFHVHCIDKWLR--SHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp-~C~---H~FH~~CI~~Wl~--~~~tCP~CR~~l~~~  176 (218)
                      ++...|-||..|=..++.+- -| ||.   ...|.+|+.+|+.  ....|-+|+..+.-+
T Consensus        10 ~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk   68 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK   68 (1175)
T ss_pred             ccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence            44578999999877766553 34 243   5689999999994  455699999877654

>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=82.36  E-value=0.74  Score=29.89  Aligned_cols=42  Identities=33%  Similarity=0.859  Sum_probs=22.2

Q ss_pred             CcccCCCCCCC------CceeecCCCCcccChhHHHHHH-hcCCCCcccc
Q 046833          128 CVICLSEFAPG------ESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCR  170 (218)
Q Consensus       128 CaICL~ef~~~------~~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR  170 (218)
                      |.-|+..|...      ...-..|+|++.|+.+| |..+ ..-.+||-|-
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            55677777654      24556788999999999 4433 3334799883

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=82.19  E-value=1.3  Score=38.82  Aligned_cols=47  Identities=26%  Similarity=0.634  Sum_probs=33.3

Q ss_pred             cCcccCCCCC--CCCceeecCCCCcccChhHHHHHHh-cCCCCcccccccc
Q 046833          127 ECVICLSEFA--PGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLI  174 (218)
Q Consensus       127 ~CaICL~ef~--~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~  174 (218)
                      .|++|-.+.-  ++-.+.+-+ |+|-.|..|+|.-+. ....||.|-..|-
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            5888877642  222333345 999999999999984 5568999966443

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=81.53  E-value=1.6  Score=25.24  Aligned_cols=38  Identities=26%  Similarity=0.475  Sum_probs=25.9

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      .|+.|-+.+.+++.....  =+..||.+|        ..|..|...|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcCc
Confidence            378888888776333332  578999877        56777776653

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.40  E-value=0.73  Score=39.72  Aligned_cols=51  Identities=27%  Similarity=0.701  Sum_probs=34.2

Q ss_pred             CCCCcCcccCCCCCCCCce-eecCCC-----CcccChhHHHHHHhcC--------CCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESL-RVLPKC-----NHGFHVHCIDKWLRSH--------SSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~v-r~lp~C-----~H~FH~~CI~~Wl~~~--------~tCP~CR~~l~  174 (218)
                      +.+..|=||+.-=+++..- =+-| |     .|=.|..|+..|+..+        -+||-|+....
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            4456799999875443221 1334 4     4889999999999322        25999987543

>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=81.37  E-value=2  Score=34.44  Aligned_cols=36  Identities=25%  Similarity=0.582  Sum_probs=22.2

Q ss_pred             CCcCcccCCCCCCCC---------ceeecCCCCc-ccChhHHHHHHh
Q 046833          125 DTECVICLSEFAPGE---------SLRVLPKCNH-GFHVHCIDKWLR  161 (218)
Q Consensus       125 ~~~CaICL~ef~~~~---------~vr~lp~C~H-~FH~~CI~~Wl~  161 (218)
                      +..|+|||+-=.+.-         ..|--- |+- .=|..|+|++-+
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHHH
Confidence            568999998754421         122222 543 347899999853

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.

>smart00249 PHD PHD zinc finger

Probab=80.97  E-value=1.4  Score=26.44  Aligned_cols=31  Identities=23%  Similarity=0.525  Sum_probs=22.7

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHH
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDK  158 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~  158 (218)
                      .|.+|.... +++.+.....|+..||..|+..
T Consensus         1 ~C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPD-DGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcC-CCCCEEECCCCCchhhhhhCCC
Confidence            378888776 4455555567999999999754

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

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

Probab=80.10  E-value=0.76  Score=42.04  Aligned_cols=38  Identities=32%  Similarity=0.715  Sum_probs=28.2

Q ss_pred             CCCcCcccCCCCCCC-CceeecCCCCcccChhHHHHHHhc
Q 046833          124 SDTECVICLSEFAPG-ESLRVLPKCNHGFHVHCIDKWLRS  162 (218)
Q Consensus       124 ~~~~CaICL~ef~~~-~~vr~lp~C~H~FH~~CI~~Wl~~  162 (218)
                      ...+|.||..+.... +...+. +|+|.|+.+|+...+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence            356899999554444 445544 59999999999999853

>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=80.05  E-value=3.2  Score=31.90  Aligned_cols=23  Identities=13%  Similarity=0.268  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 046833           51 NVVMFFSILISAVVCSLGFHFLI   73 (218)
Q Consensus        51 ~viiil~ill~~li~~l~l~~i~   73 (218)
                      ...||++++..++.+++++.+++
T Consensus        66 i~~Ii~gv~aGvIg~Illi~y~i   88 (122)
T PF01102_consen   66 IIGIIFGVMAGVIGIILLISYCI   88 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eeehhHHHHHHHHHHHHHHHHHH
Confidence            44455555555555444433333

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	218
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		5e-12
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		4e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-04

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 26/44 (59%), Positives = 31/44 (70%)
Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           EC +CL+E   GE  R LP+C HGFH  C+D WL SHS+CP CR
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 33/45 (73%), Gaps = 1/45 (2%)
Query: 126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           T CV+C+ +F   + LRVLP CNH FH  C+DKWL+++ +CP CR
Sbjct: 24  TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/52 (53%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
           GS  EC +C  ++A GES+R LP CNH FH  CI  WL  H SCP CR  L 
Sbjct: 13  GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           +C ICLS    GE +R LP C H FH  C+D+WL ++  CP CR
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 104 QESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH 163
           +ES+   P +  + +    G +  C IC SE+  G+    LP C+H FH  C+  WL+  
Sbjct: 19  KESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKS 77
Query: 164 SSCPKCR 170
            +CP CR
Sbjct: 78  GTCPVCR 84

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC 169
           C +CL +F P + L + P C H FH  C+ KWL     CP C
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	218
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-28
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-27
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-26
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	6e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-23
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-18
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-16
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-12
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	5e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	7e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	5e-08
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	7e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-04

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

 Score =   99 bits (250), Expect = 3e-28
 Identities = 26/53 (49%), Positives = 33/53 (62%)

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
                EC +CL+E   GE  R LP+C HGFH  C+D WL SHS+CP CR  ++
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 99.0 bits (247), Expect = 2e-27
 Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 7/93 (7%)

Query: 81  SRLLDSESNANSSTPLGKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGES 140
                  S+  ++ P  K      ES+   P +  + +    G +  C IC SE+  G+ 
Sbjct: 2   GHHHHHHSHMVANPPASK------ESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDV 55

Query: 141 LRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCL 173
              LP C+H FH  C+  WL+   +CP CR   
Sbjct: 56  ATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 96.2 bits (240), Expect = 1e-26
 Identities = 26/68 (38%), Positives = 37/68 (54%), Gaps = 2/68 (2%)

Query: 104 QESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH 163
             S    P   ++         T CV+C+ +F   + LRVLP CNH FH  C+DKWL+++
Sbjct: 3   SGSSGQLPSYRFNPN-NHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKAN 60

Query: 164 SSCPKCRH 171
            +CP CR 
Sbjct: 61  RTCPICRA 68

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

 Score = 87.8 bits (218), Expect = 3e-23
 Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 1/50 (2%)

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
             ++ +C ICLS    GE +R LP C H FH  C+D+WL ++  CP CR 
Sbjct: 11  EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRV 59

>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 = 87.1 bits (216), Expect = 6e-23
 Identities = 28/54 (51%), Positives = 33/54 (61%), Gaps = 1/54 (1%)

Query: 120 KLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCL 173
           +  GS  EC +C  ++A GES+R LP CNH FH  CI  WL  H SCP CR  L
Sbjct: 10  EHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 86.7 bits (215), Expect = 7e-23
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 116 STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE 175
           S ++K       C +CL +F P + L + P C H FH  C+ KWL     CP C   +++
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQ 64

Query: 176 TCEES 180
             + S
Sbjct: 65  LAQLS 69

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

 Score = 74.9 bits (184), Expect = 4e-18
 Identities = 14/46 (30%), Positives = 25/46 (54%)

Query: 125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
              C+ C +E    + + V  +CNH FH  C+  W++ ++ CP C+
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 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 = 72.7 bits (179), Expect = 1e-17
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           S   + C ICL +      +  +  C H  H  C ++ L+    CP C 
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 69.0 bits (169), Expect = 5e-16
 Identities = 24/65 (36%), Positives = 30/65 (46%), Gaps = 5/65 (7%)

Query: 116 STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE 175
           S  +K    + EC IC+   A      +LP C H F   CIDKW   H +CP CR  +  
Sbjct: 6   SGRVKQLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTG 60

Query: 176 TCEES 180
             E S
Sbjct: 61  ANESS 65

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

 Score = 59.3 bits (144), Expect = 2e-12
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 121 LSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
           ++     C ICL +         LP C H F   CI +W+R + +CP C+ 
Sbjct: 1   MATVAERCPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKV 48

>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 = 59.5 bits (143), Expect = 5e-12
 Identities = 13/41 (31%), Positives = 17/41 (41%)

Query: 130 ICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
              +     E       CNH FH HCI +WL++   CP   
Sbjct: 56  ANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 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 = 57.6 bits (138), Expect = 4e-11
 Identities = 13/41 (31%), Positives = 17/41 (41%)

Query: 130 ICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
              +     E       CNH FH HCI +WL++   CP   
Sbjct: 67  ANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 55.2 bits (133), Expect = 6e-11
 Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 123 GSDTECVICLSEF---APGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
           G+   C IC+  +        L V  +C H F   C+   L++ ++CP CR 
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 52

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

 Score = 54.1 bits (130), Expect = 2e-10
 Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 4/61 (6%)

Query: 114 NYSTELKLSGSDTECVICLSEFA---PGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
           +  T L+ SG+   C IC+  ++       L V  +C H F   C+   L++ ++CP CR
Sbjct: 5   SSGTGLRPSGT-VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

Query: 171 H 171
            
Sbjct: 64  K 64

>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 = 51.8 bits (124), Expect = 2e-09
 Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 4/59 (6%)

Query: 116 STELKLSGSDTECVICLSEFAPGESLRVLP---KCNHGFHVHCIDKWLRSHSSCPKCRH 171
           +T L+ SG+   C IC+  ++       L    +C H F   C+   L++ ++CP CR 
Sbjct: 2   TTGLRPSGT-VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59

>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 = 50.7 bits (121), Expect = 4e-09
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--SSCPKCR 170
            C IC S    G+S      C    H+ C+ K+ +S+    CP C 
Sbjct: 17  ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 54.1 bits (129), Expect = 7e-09
 Identities = 12/71 (16%), Positives = 24/71 (33%), Gaps = 15/71 (21%)

Query: 116 STELKLSGSDTECVICLSEFAPGESLRVL----PKCNHGFHVHCIDKWLRS--------- 162
               +    +  C IC +    G  + ++     KC    H  C+++W ++         
Sbjct: 299 PKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLE 358

Query: 163 --HSSCPKCRH 171
                CP C+ 
Sbjct: 359 VSFGQCPFCKA 369

>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 = 50.2 bits (119), Expect = 1e-08
 Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 20/80 (25%)

Query: 112 VVNYSTELKLSGSDTECVICLSEFAPG--------------ESLRVLPKCNHGFHVHCID 157
           +  Y+ ELK++  + +C+IC+ + A                  +  L KC+H FH+ C+ 
Sbjct: 13  IRKYTEELKVA-PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71

Query: 158 KWLRSHS-----SCPKCRHC 172
               + +      CP C+  
Sbjct: 72  AMYCNGNKDGSLQCPSCKTI 91

>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 = 48.3 bits (115), Expect = 5e-08
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRHCL 173
            C IC+ +       R+ P C+      CI +WL    + CP CR  L
Sbjct: 24  RCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 49.0 bits (116), Expect = 2e-07
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSS--CPKCRH 171
            C IC S    G+       C    H+ C+ K+ +S++   CP C  
Sbjct: 182 ICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCND 225

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

 Score = 47.0 bits (111), Expect = 4e-07
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 4/76 (5%)

Query: 98  KSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCID 157
           + +  ++E ++       S    +  ++ +C+IC   F       V   C H F  +CI+
Sbjct: 37  EQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEA----VTLNCAHSFCSYCIN 92

Query: 158 KWLRSHSSCPKCRHCL 173
           +W++    CP CR  +
Sbjct: 93  EWMKRKIECPICRKDI 108

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

 Score = 45.2 bits (107), Expect = 4e-07
 Identities = 13/44 (29%), Positives = 16/44 (36%), Gaps = 4/44 (9%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
            C IC   F       V+ KC H F   C  +  R+   C  C 
Sbjct: 17  RCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 44.7 bits (106), Expect = 6e-07
 Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 3/53 (5%)

Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET 176
               C IC            + +C H F   CI +     + CPKC   + +T
Sbjct: 14  PYILCSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT 63

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

 Score = 42.5 bits (100), Expect = 4e-06
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 4/52 (7%)

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCL 173
           S +  EC ICL          V   C H F   C+         C  CR  +
Sbjct: 12  SLTVPECAICLQTC----VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

>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 = 45.5 bits (107), Expect = 4e-06
 Identities = 13/58 (22%), Positives = 18/58 (31%), Gaps = 5/58 (8%)

Query: 114 NYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCR 170
            Y    ++  +   C IC            +  C H     C+  W  S    CP CR
Sbjct: 321 QYELYCEMGSTFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCR 374

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

 Score = 42.5 bits (100), Expect = 7e-06
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET 176
            CV+C   F        + +C H F   CI ++L +   CP C   + +T
Sbjct: 17  MCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT 63

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

 Score = 41.7 bits (97), Expect = 3e-05
 Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 121 LSGSDTECVICLSEFAPGESLRVLP---KCNHGFHVHCIDKWLRSHSSCPKCRHCL 173
           +      C IC+  ++       L    +C H F   C+   L++ ++CP CR  +
Sbjct: 3   MGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 37.8 bits (87), Expect = 5e-04
 Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 125 DTECVICLSEF---APGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET 176
              C IC+  +        L V  +C H F   C+   L++ ++CP CR  +   
Sbjct: 72  TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 126

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

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)

Query: 128 CVICLSEF-APGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
           C IC   F        ++P+C+H +   CI K+L   + CP C  
Sbjct: 25  CGICFEYFNIA----MIIPQCSHNYCSLCIRKFLSYKTQCPTCCV 65

>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 = 37.6 bits (87), Expect = 6e-04
 Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 7/70 (10%)

Query: 105 ESLRDFPVVNYSTELKLSGSDTE--CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS 162
            SL+D P      +L LS  +    C+ C           +   C H     C+D+  R+
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELV----FRPITTVCQHNVCKDCLDRSFRA 85

Query: 163 HS-SCPKCRH 171
              SCP CR+
Sbjct: 86  QVFSCPACRY 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	218
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.78
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.69
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.66
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.62
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.61
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.61
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.6
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.54
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.52
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.5
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.49
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.49
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.48
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.47
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.45
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.43
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.41
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.39
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.39
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.38
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.34
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.33
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.31
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.3
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.28
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.25
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.24
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.23
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.23
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.23
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.23
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.23
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.2
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.2
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.2
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.19
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.16
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.13
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.13
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.13
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.11
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.03
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.03
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.03
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.01
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.0
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.96
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.96
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.95
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.93
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.91
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.89
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.87
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.85
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.84
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.84
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.72
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.71
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.7
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.7
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.66
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.66
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.53
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.49
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.39
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.37
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.23
3nw0_A	238	Non-structural maintenance of chromosomes element	98.0
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.93
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.59
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.37
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.23
1we9_A	64	PHD finger family protein; structural genomics, PH	93.23
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	93.07
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	92.44
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	92.33
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	92.14
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	91.71
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	91.11
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	90.73
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.71
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.04
2knc_A	54	Integrin alpha-IIB; transmembrane signaling, prote	88.44
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	88.13
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	88.05
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	87.6
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	87.45
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	87.41
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	87.03
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	86.83
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	86.58
2yt5_A	66	Metal-response element-binding transcription facto	86.23
2l8s_A	54	Integrin alpha-1; transmembrane region, detergent	86.15
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	85.93
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	84.97
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.76
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	83.89
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	82.97
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	81.57
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	81.41
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	80.91
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	80.6
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	80.42

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

Probab=99.78  E-value=2.2e-19  Score=130.04  Aligned_cols=78  Identities=29%  Similarity=0.670  Sum_probs=70.6

Q ss_pred             CCCCCCCHHHHhcCCcccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833           97 GKSSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus        97 ~~~~g~~~~~l~~lp~~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ....+..++.++++|.+.+.........+.+|+||+++|..++.++.+| |||.||..||+.|++.+.+||+||..+..
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            3678899999999999999877665667789999999999999999998 99999999999999999999999998765

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

Probab=99.69  E-value=5.6e-18  Score=117.94  Aligned_cols=69  Identities=38%  Similarity=0.885  Sum_probs=58.4

Q ss_pred             HHhcCCcccccccccCCCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          106 SLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       106 ~l~~lp~~~~~~~~~~~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .++.+|..++..... ..++.+|+||+++|..++.++.+| |+|.||..||+.|++.+.+||+||+.+.+.
T Consensus         5 ~i~~lp~~~~~~~~~-~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNH-QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCSSCCCEEBCSSSC-SSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hHhhCCcEEecCccc-cCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            356678887765433 345678999999999999999998 999999999999999999999999988764

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

Probab=99.66  E-value=5.8e-17  Score=105.90  Aligned_cols=52  Identities=50%  Similarity=1.213  Sum_probs=47.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      +++.+|+||+++|.+++.++.++.|||.||..||..|++.+.+||+||..+.
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            3467899999999999988888779999999999999999999999999874

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

Probab=99.62  E-value=3.7e-16  Score=108.20  Aligned_cols=53  Identities=34%  Similarity=0.930  Sum_probs=48.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ..+.+|+||+++|.+++.+++++ |+|.||..||..|++.+.+||+||..+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            44678999999999989999998 999999999999999999999999988765

>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=99.61  E-value=4.6e-16  Score=106.28  Aligned_cols=54  Identities=41%  Similarity=0.940  Sum_probs=48.7

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .....+|+||++.|..++.++.++ |||.||..||..|++.+.+||+||..+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345678999999999888899998 999999999999999999999999988754

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

Probab=99.61  E-value=3.1e-16  Score=111.04  Aligned_cols=53  Identities=26%  Similarity=0.743  Sum_probs=44.5

Q ss_pred             CCCcCcccCCCCCC-----------CCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAP-----------GESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~-----------~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ++..|+||+++|.+           ++.++.++.|+|.||..||++||+.+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45679999998854           455667767999999999999999999999999987654

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

Probab=99.60  E-value=1e-15  Score=107.02  Aligned_cols=53  Identities=53%  Similarity=1.091  Sum_probs=48.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....+|+||+++|.+++.++.++ |+|.||..||..|++.+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            44678999999999988889998 999999999999999999999999998765

>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=99.54  E-value=6.1e-15  Score=96.06  Aligned_cols=51  Identities=29%  Similarity=0.685  Sum_probs=43.7

Q ss_pred             CCCCcCcccCCCCCCCC-ceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGE-SLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ..+.+|+||+++|.+++ .++.++ |+|.||..||..|++.+.+||+||..+.
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            34678999999996644 567777 9999999999999998899999998764

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

Probab=99.52  E-value=8.2e-15  Score=103.68  Aligned_cols=55  Identities=29%  Similarity=0.661  Sum_probs=45.6

Q ss_pred             cCCCCCCcCcccCCCCCCCCceeecCCCC-----cccChhHHHHHHhcC--CCCcccccccccc
Q 046833          120 KLSGSDTECVICLSEFAPGESLRVLPKCN-----HGFHVHCIDKWLRSH--SSCPKCRHCLIET  176 (218)
Q Consensus       120 ~~~~~~~~CaICL~ef~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~~--~tCP~CR~~l~~~  176 (218)
                      ....++.+|.|||++|++++.+ ++| |+     |.||..||++||..+  .+||+||..+.-.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            3345567899999999887776 588 96     999999999999655  5899999988754

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

Probab=99.50  E-value=1.1e-14  Score=98.78  Aligned_cols=52  Identities=23%  Similarity=0.646  Sum_probs=44.1

Q ss_pred             CCCCcCcccCCCCCCC----CceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPG----ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~----~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ....+|+||++.|.+.    ..+..++ |||.||..||+.|++.+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4567899999999653    3456787 99999999999999999999999998753

>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=99.49  E-value=1.5e-14  Score=108.07  Aligned_cols=51  Identities=27%  Similarity=0.732  Sum_probs=42.0

Q ss_pred             CCcCcccCCCCCCCC---------------ceeecCCCCcccChhHHHHHH-----hcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGE---------------SLRVLPKCNHGFHVHCIDKWL-----RSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~---------------~vr~lp~C~H~FH~~CI~~Wl-----~~~~tCP~CR~~l~~~  176 (218)
                      +.+|+|||++|.+..               .++.++ |+|+||..||+.|+     ..+.+||+||..+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            468999999996643               344676 99999999999999     4567899999988755

>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=99.49  E-value=2.1e-14  Score=106.79  Aligned_cols=51  Identities=29%  Similarity=0.621  Sum_probs=43.0

Q ss_pred             CCCCcCcccCCCCCCC---------------CceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPG---------------ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~---------------~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ..+..|+||+++|.+.               ..++.++ |+|.||..||+.||+.+.+||+||+.+.
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            3567899999999754               1356676 9999999999999999999999999853

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

Probab=99.48  E-value=8.9e-15  Score=100.07  Aligned_cols=53  Identities=25%  Similarity=0.704  Sum_probs=45.2

Q ss_pred             CCCCcCcccCCCCCC----CCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAP----GESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .++.+|+||++++.+    ++.+..++ |||.||..||+.|++.+.+||+||..+...
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            456789999999865    35557777 999999999999999999999999988754

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

Probab=99.47  E-value=7.2e-14  Score=94.87  Aligned_cols=51  Identities=31%  Similarity=0.775  Sum_probs=43.9

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      +.+.+|+||++.+.+  .+..++ |||.||..||..|++.+.+||+||..+...
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHhh
Confidence            346789999999854  357787 999999999999999999999999988754

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

Probab=99.45  E-value=1.8e-14  Score=96.33  Aligned_cols=52  Identities=25%  Similarity=0.700  Sum_probs=44.3

Q ss_pred             CCCcCcccCCCCCC----CCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAP----GESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ++.+|+||++.+.+    ++.+..++ |||.||..||..|++.+.+||+||..+...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            35789999999965    24557777 999999999999999999999999988754

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

Probab=99.43  E-value=4.6e-14  Score=96.45  Aligned_cols=49  Identities=41%  Similarity=0.959  Sum_probs=43.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....+|+||++.+.+    ..++ |||.||..||..|+..+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            446789999999866    6777 999999999999999999999999988754

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

Probab=99.41  E-value=8.2e-14  Score=95.70  Aligned_cols=50  Identities=30%  Similarity=0.549  Sum_probs=43.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....+|+||++.+.+   ...++ |||.||..||..|+..+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            446789999999855   46677 999999999999999999999999988754

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

Probab=99.39  E-value=2.7e-13  Score=93.33  Aligned_cols=51  Identities=25%  Similarity=0.539  Sum_probs=42.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .....|+||++.+.+  .+.+++ |||.||..||..|++.+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           13 TPYILCSICKGYLID--ATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             CGGGSCTTTSSCCSS--CEECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             CCCCCCCCCChHHHC--cCEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            345789999999865  343346 999999999999999899999999988654

>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=99.39  E-value=4.1e-14  Score=106.94  Aligned_cols=52  Identities=31%  Similarity=0.676  Sum_probs=1.5

Q ss_pred             CCCCcCcccCCCCCC-------------CCc-eeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAP-------------GES-LRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~-------------~~~-vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      ..++.|+||+++|.+             ++. .++++.|+|.||..||+.||+.+.+||+||..+.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCC---------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            446789999999975             222 2232349999999999999999999999999853

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

Probab=99.38  E-value=3.9e-13  Score=95.43  Aligned_cols=53  Identities=30%  Similarity=0.630  Sum_probs=45.0

Q ss_pred             CCCCcCcccCCCCCCCCc-eeecCCCCcccChhHHHHHHhcC---CCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGES-LRVLPKCNHGFHVHCIDKWLRSH---SSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~-vr~lp~C~H~FH~~CI~~Wl~~~---~tCP~CR~~l~~~  176 (218)
                      .+..+|+||++.|.+++. .+.++ |||.||..||..|++.+   .+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             cCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            446789999999988765 67787 99999999999999875   7899999987543

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

Probab=99.34  E-value=8.9e-13  Score=92.66  Aligned_cols=48  Identities=25%  Similarity=0.453  Sum_probs=41.9

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      .....|+||++.|.+   ..+++ |||.||..||..|+....+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            446789999999955   45677 9999999999999999999999999875

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

Probab=99.33  E-value=1.3e-12  Score=90.51  Aligned_cols=51  Identities=24%  Similarity=0.595  Sum_probs=41.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC--CCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--SSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~~~  176 (218)
                      .....|+||++.|.+   ...++.|||.||..||..|++.+  .+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           13 PDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             CGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            345789999999965   44576699999999999999765  6899999975544

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

Probab=99.31  E-value=1.7e-12  Score=89.11  Aligned_cols=50  Identities=24%  Similarity=0.617  Sum_probs=41.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh---cCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR---SHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~---~~~tCP~CR~~l~~~  176 (218)
                      ....+|+||++.+.+   ...++ |||.||..||..|++   .+.+||+||..+...
T Consensus        18 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           18 QEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             ccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            446789999999864   55677 999999999999996   456899999987654

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

Probab=99.30  E-value=1.6e-12  Score=90.42  Aligned_cols=51  Identities=27%  Similarity=0.671  Sum_probs=42.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC--CCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--SSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~~~  176 (218)
                      +...+|+||.+.|..++...   .|+|.||..||++||+.+  .+||+||......
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            44678999999998765443   599999999999999877  7899999876533

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

Probab=99.29  E-value=2e-12  Score=87.38  Aligned_cols=50  Identities=20%  Similarity=0.564  Sum_probs=41.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-hcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~CR~~l~~~  176 (218)
                      .+...|+||++.+.+.   ..++ |||.||..||..|+ ..+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSP---KQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESSC---CCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcCe---eECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            4467899999998653   3366 99999999999999 5667899999987654

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

Probab=99.28  E-value=1.2e-12  Score=101.23  Aligned_cols=48  Identities=31%  Similarity=0.856  Sum_probs=42.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      +..|+||++.|.+   ...+| |||.||..||..|+..+.+||+||..+...
T Consensus        53 ~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            3579999999965   56788 999999999999999999999999988654

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

Probab=99.25  E-value=1.5e-12  Score=98.72  Aligned_cols=55  Identities=22%  Similarity=0.582  Sum_probs=46.2

Q ss_pred             CCCCcCcccCCCCCCC----CceeecCCCCcccChhHHHHHHhcCCCCcccccccccccc
Q 046833          123 GSDTECVICLSEFAPG----ESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE  178 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~----~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  178 (218)
                      .+..+|+||++.|.+.    +.++.++ |||.||..||+.|++.+.+||+||..+.....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            3457899999999653    4557787 99999999999999999999999999876543

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

Probab=99.24  E-value=8.6e-12  Score=87.57  Aligned_cols=50  Identities=30%  Similarity=0.547  Sum_probs=41.9

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc------CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS------HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~------~~tCP~CR~~l~~~  176 (218)
                      ....+|+||++.|.+   ...++ |||.||..||..|+..      ...||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           17 KEEVTCPICLELLKE---PVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CTTTSCTTTCSCCSS---CEECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             ccCCCCcCCChhhCc---ceeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            346789999999865   34677 9999999999999977      67899999987643

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

Probab=99.23  E-value=9.4e-12  Score=83.14  Aligned_cols=43  Identities=28%  Similarity=0.689  Sum_probs=36.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh---cCCCCccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR---SHSSCPKC  169 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~---~~~tCP~C  169 (218)
                      .++..|+||++.|.+   ..+++ |||.||..||..|++   .+.+||+|
T Consensus        18 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            456789999999875   45677 999999999999997   45689998

>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=99.23  E-value=4.4e-12  Score=92.84  Aligned_cols=48  Identities=29%  Similarity=0.731  Sum_probs=40.9

Q ss_pred             CCcCcccCCCCCCCCceee-cCCCCcccChhHHHHHHhcC-CCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRV-LPKCNHGFHVHCIDKWLRSH-SSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~-lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~~  176 (218)
                      ...|+||++.|.+   .+. ++ |||.||..||..|+..+ .+||+||..+...
T Consensus        22 ~~~C~IC~~~~~~---p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           22 VFRCFICMEKLRD---ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCccCCccccC---ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            4689999999964   445 76 99999999999999877 6999999998643

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

Probab=99.23  E-value=8.1e-12  Score=86.91  Aligned_cols=50  Identities=24%  Similarity=0.537  Sum_probs=42.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      .....|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||..+...
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            346789999999965   45677 9999999999999986 78899999987643

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

Probab=99.23  E-value=8.5e-12  Score=87.58  Aligned_cols=50  Identities=30%  Similarity=0.635  Sum_probs=42.1

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc------CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS------HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~------~~tCP~CR~~l~~~  176 (218)
                      ....+|+||++.+.+   ...++ |||.||..||..|+..      ...||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           17 KEEVTCPICLELLTQ---PLSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCCTTTCSCCSS---CBCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             cCCCCCCCCCcccCC---ceeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            346789999999865   44577 9999999999999976      77899999988753

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

Probab=99.23  E-value=3e-12  Score=97.12  Aligned_cols=53  Identities=25%  Similarity=0.704  Sum_probs=44.8

Q ss_pred             CCCCcCcccCCCCCC----CCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAP----GESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      +...+|+||++.|.+    +.....++ |||.||..||+.|++.+.+||+||..+...
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            456789999999865    23446676 999999999999999999999999998765

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

Probab=99.20  E-value=2.4e-12  Score=89.55  Aligned_cols=50  Identities=28%  Similarity=0.533  Sum_probs=41.8

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-------CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-------HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-------~~tCP~CR~~l~~~  176 (218)
                      .+..+|+||++.|.+   ...++ |||.||..||..|+..       ..+||+||..+...
T Consensus        10 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           10 QEEVTCPICLELLTE---PLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCEETTTTEECSS---CCCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             ccCCCCcCCCcccCC---eeECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            446789999999865   34577 9999999999999976       66899999988753

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

Probab=99.20  E-value=9.1e-12  Score=83.82  Aligned_cols=51  Identities=24%  Similarity=0.537  Sum_probs=40.5

Q ss_pred             CCcCcccCC-CCCCCCce-eecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLS-EFAPGESL-RVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~-ef~~~~~v-r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      +..|+||++ .+.+.... ..++ |||.||..||+.|+.. +.+||+||..+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            468999999 67665443 4566 9999999999999754 46799999988654

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

Probab=99.20  E-value=1e-11  Score=90.46  Aligned_cols=47  Identities=30%  Similarity=0.723  Sum_probs=40.8

Q ss_pred             CCcCcccCCCCCCCCceeec-CCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVL-PKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~l-p~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ...|+||++.|.+   ...+ + |||.||..||..|+..+.+||+||..+..
T Consensus        22 ~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNI---AMIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCC---cCEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            4689999999965   4444 6 99999999999999988999999998775

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

Probab=99.19  E-value=1.2e-11  Score=80.95  Aligned_cols=43  Identities=28%  Similarity=0.862  Sum_probs=35.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH---hcCCCCccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL---RSHSSCPKC  169 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl---~~~~tCP~C  169 (218)
                      .....|+||++.+.+.   ..++ |||.||..||..|+   ..+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4467899999999763   4577 99999999999995   456789998

>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=99.16  E-value=1.2e-11  Score=91.41  Aligned_cols=50  Identities=28%  Similarity=0.664  Sum_probs=42.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....|+||++.|.+  .+..++ |||.||..||..|+..+.+||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            35789999999864  344447 999999999999999999999999988753

>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=99.13  E-value=3e-11  Score=95.88  Aligned_cols=48  Identities=35%  Similarity=0.764  Sum_probs=40.4

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  175 (218)
                      ...|+||++.|.+  .+..++ |||.||..||..|+.. +.+||+||..+..
T Consensus        54 ~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            4589999999975  344446 9999999999999986 7789999999854

>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=99.13  E-value=2.9e-11  Score=91.54  Aligned_cols=47  Identities=28%  Similarity=0.593  Sum_probs=40.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC-CCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  175 (218)
                      ...|+||++.|.+   ...++ |||.||..||..|+..+. +||+||..+..
T Consensus        52 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4689999999975   55677 999999999999997544 89999998865

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

Probab=99.13  E-value=3.5e-11  Score=86.28  Aligned_cols=49  Identities=24%  Similarity=0.617  Sum_probs=40.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC--CCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--SSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~  174 (218)
                      .....|+||++.|.+   ...++.|||.||..||..|+..+  .+||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            446789999999865   45676699999999999999643  58999999874

>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=99.11  E-value=4.3e-11  Score=88.61  Aligned_cols=48  Identities=29%  Similarity=0.607  Sum_probs=39.9

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC---CCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS---SCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---tCP~CR~~l~~~  176 (218)
                      ...|+||++.+.+   ...++ |||.||..||..|+..+.   +||+||..+...
T Consensus        21 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcC---eEECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            4689999999865   34577 999999999999997654   899999987754

>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=99.05  E-value=9.3e-11  Score=79.05  Aligned_cols=48  Identities=23%  Similarity=0.438  Sum_probs=40.2

Q ss_pred             CCCcCcccCCCCCCCCceeec--CCCCcc-cChhHHHHHHhcCCCCccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVL--PKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~l--p~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ++.+|.||++++.+   ...+  | |||. |+..|+..|.+.+..||+||..+..
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            35689999998755   3444  8 9999 7999999999988999999998753

>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=99.05  E-value=1.1e-10  Score=91.71  Aligned_cols=48  Identities=27%  Similarity=0.580  Sum_probs=40.9

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC-CCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~~  176 (218)
                      ...|+||++.|.+   ...++ |||.||..||..|+.... +||+||..+...
T Consensus        78 ~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            4689999999865   45577 999999999999997654 899999988765

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

Probab=99.03  E-value=2e-10  Score=80.58  Aligned_cols=53  Identities=19%  Similarity=0.461  Sum_probs=41.3

Q ss_pred             CCCCcCcccCCCCCCCCc-eeecCCCCcccChhHHHHHHh-cCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGES-LRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~-vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  176 (218)
                      .++.+|+||++.+...+. +..++ |||.||..|+..|+. ....||.||..+...
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            456789999999865432 22244 999999999999984 456899999988765

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

Probab=99.03  E-value=9e-11  Score=88.22  Aligned_cols=50  Identities=36%  Similarity=0.654  Sum_probs=41.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC-CCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~~  176 (218)
                      .....|+||++.+.+   ...++ |||.||..||..|+..+. +||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           16 ESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCcCChhhcC---eEECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            345689999999865   45677 999999999999997655 999999988754

>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=99.03  E-value=1.4e-10  Score=86.74  Aligned_cols=48  Identities=33%  Similarity=0.565  Sum_probs=40.9

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ...|+||++.+.+   ...++ |||.||..||..|+.. +.+||+||..+...
T Consensus        23 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            4689999999865   45577 9999999999999976 77999999988754

>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=99.01  E-value=5e-11  Score=89.02  Aligned_cols=47  Identities=28%  Similarity=0.678  Sum_probs=40.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  175 (218)
                      +..|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||..+..
T Consensus        15 ~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4689999999865   55677 9999999999999965 6789999998864

>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=99.00  E-value=3e-10  Score=101.55  Aligned_cols=49  Identities=27%  Similarity=0.658  Sum_probs=42.6

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-cCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  176 (218)
                      ...+|+||++.+.+   ...+| |||.||..||..|+. .+.+||+||..+...
T Consensus       331 ~~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          331 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            34789999999854   67788 999999999999998 788999999988765

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

Probab=98.96  E-value=2.4e-10  Score=76.72  Aligned_cols=50  Identities=20%  Similarity=0.391  Sum_probs=39.7

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ...+|.||++...+. .+..+| |||. |+..|+..|.+.+..||+||..+..
T Consensus         6 ~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            356899999986441 122338 9998 9999999999888899999998754

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

Probab=98.96  E-value=2.4e-10  Score=100.17  Aligned_cols=57  Identities=23%  Similarity=0.606  Sum_probs=43.6

Q ss_pred             CCCCCcCcccCCCCCCCCcee----ecCCCCcccChhHHHHHHhcC-----------CCCcccccccccccc
Q 046833          122 SGSDTECVICLSEFAPGESLR----VLPKCNHGFHVHCIDKWLRSH-----------SSCPKCRHCLIETCE  178 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr----~lp~C~H~FH~~CI~~Wl~~~-----------~tCP~CR~~l~~~~~  178 (218)
                      .+...+|+||++.+.++..+-    ..++|+|.||..||.+||+..           .+||+||.++.-..+
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf~  376 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSFA  376 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGGG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccHH
Confidence            356789999999998744332    223699999999999999642           359999998876544

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

Probab=98.95  E-value=2.2e-10  Score=75.06  Aligned_cols=47  Identities=23%  Similarity=0.438  Sum_probs=39.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .+...|+||++.|.+   .+.++ |||.||..||..|   ...||+||..+...
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCC---eEEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            456789999999976   46788 9999999999884   67899999987654

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

Probab=98.93  E-value=6.8e-10  Score=78.91  Aligned_cols=49  Identities=16%  Similarity=0.101  Sum_probs=43.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ....|+||++-|.+   ..+++ |||.|+..||..|+..+.+||+||..+...
T Consensus        13 ~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           13 DEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             hheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            46789999999976   66788 999999999999999889999999987643

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

Probab=98.91  E-value=4.1e-10  Score=87.50  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=40.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC-CCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS-SCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  175 (218)
                      .....|+||++.+.+   ...++ |||.||..||..|+.... +||+||..+..
T Consensus        29 ~~~~~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcC---cEECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            446789999999866   35576 999999999999997664 89999997643

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

Probab=98.89  E-value=9.4e-10  Score=80.65  Aligned_cols=48  Identities=17%  Similarity=0.087  Sum_probs=42.6

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ....|+||++-|.+   ..+++ |||.|+..||..|+..+.+||+||..+..
T Consensus        28 ~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            45789999999976   66788 99999999999999988999999998764

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

Probab=98.87  E-value=1.4e-09  Score=79.43  Aligned_cols=49  Identities=20%  Similarity=0.101  Sum_probs=42.6

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCC-cccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCN-HGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~-H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .+..|+||++-|.+   ..+++ || |.|+..||..|+..+.+||+||..|...
T Consensus        21 ~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           21 DEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            45789999999976   56787 99 9999999999998889999999987643

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

Probab=98.85  E-value=5.6e-10  Score=83.71  Aligned_cols=45  Identities=22%  Similarity=0.495  Sum_probs=38.4

Q ss_pred             CCcCcccCCCCCCCCceeec-CCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVL-PKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~l-p~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ...|+||++.|.+   ...+ + |||.||..||..|+.  ..||+||..+..
T Consensus        22 ~~~C~IC~~~~~~---pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           22 LLRCSRCTNILRE---PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             TTSCSSSCSCCSS---CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCCCChHhhC---ccEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            5789999999965   4455 6 999999999999987  789999998743

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

Probab=98.84  E-value=9.5e-10  Score=76.03  Aligned_cols=44  Identities=23%  Similarity=0.619  Sum_probs=38.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      +..|+||++.+.+   ...+| |||. |+..|+..|    ..||+||..+...
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            4689999998755   66788 9999 999999999    8899999987654

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

Probab=98.84  E-value=1.7e-09  Score=72.01  Aligned_cols=48  Identities=25%  Similarity=0.629  Sum_probs=37.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCC--c---ccChhHHHHHHhc--CCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCN--H---GFHVHCIDKWLRS--HSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~--H---~FH~~CI~~Wl~~--~~tCP~CR~~l~  174 (218)
                      ++...|.||+++.  ++.+ ++| |.  |   .||..|+++|+..  +.+||+||..+.
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4567899999983  3334 577 65  4   9999999999953  678999998764

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

Probab=98.72  E-value=1.3e-08  Score=69.37  Aligned_cols=46  Identities=28%  Similarity=0.759  Sum_probs=38.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .+...|.||++...+   +..+| |||. |+..|+..    ...||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            446789999998654   77898 9999 99999984    57899999988765

>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=98.71  E-value=9.9e-09  Score=74.11  Aligned_cols=47  Identities=26%  Similarity=0.506  Sum_probs=38.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC------CCCcc--cccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH------SSCPK--CRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~------~tCP~--CR~~  172 (218)
                      .....|+||++.|.+   ..+++.|||.|+..||..|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            345789999999965   44564599999999999999653      48999  9865

>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=98.70  E-value=5.5e-09  Score=82.98  Aligned_cols=50  Identities=36%  Similarity=0.650  Sum_probs=41.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC-CCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH-SSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~~  176 (218)
                      .+...|+||++.|.+   ...++ |||.|+..||..|+... .+||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           16 ESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCChhhcC---cEECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            345789999999865   45677 99999999999999654 4999999988764

>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=98.70  E-value=5.5e-09  Score=75.24  Aligned_cols=52  Identities=25%  Similarity=0.654  Sum_probs=41.8

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc--------CCCCcc--cccc--cccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS--------HSSCPK--CRHC--LIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~tCP~--CR~~--l~~~  176 (218)
                      +..+|+||++++...+.+++.+ |||.|+..|+..|+..        ...||.  |+..  +.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~   67 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN   67 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHH
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHH
Confidence            4568999999998766666666 9999999999999853        237999  9988  5543

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

Probab=98.66  E-value=1e-08  Score=70.89  Aligned_cols=44  Identities=23%  Similarity=0.624  Sum_probs=36.2

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ..+|+||++.+.+   ...+| |||. |+..|+..    ...||+||..+...
T Consensus        25 ~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            4579999999755   66788 9999 99999964    47899999987653

>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=98.66  E-value=1.4e-08  Score=85.89  Aligned_cols=49  Identities=14%  Similarity=0.102  Sum_probs=41.3

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ....|+||++-|.+   ..+++ |||.|+..||..|+.. +.+||+||..+...
T Consensus       207 ~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          207 DYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             STTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             cccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            46789999999966   66788 9999999999999975 45699999988643

>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=98.53  E-value=2.3e-08  Score=69.97  Aligned_cols=44  Identities=27%  Similarity=0.618  Sum_probs=37.6

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ...|.||++.+.+   +..+| |||. |+..|+..|    ..||+||..+...
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            4589999998755   77888 9999 999999987    4999999988765

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

Probab=98.49  E-value=7.2e-08  Score=77.69  Aligned_cols=50  Identities=14%  Similarity=0.081  Sum_probs=41.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      .....|+||++-|.+   ..+++ |||.|...||..|+.. +.+||+||..+...
T Consensus       104 p~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            345789999999976   56777 9999999999999976 35799999987643

>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=98.39  E-value=1.6e-07  Score=62.51  Aligned_cols=49  Identities=14%  Similarity=0.158  Sum_probs=40.7

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ...|+||++.+.+   ..+++.+||+|...||.+|++.+.+||+++..|...
T Consensus         3 ~~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            3 HMLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             -CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             eEEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            3579999999975   345523999999999999998888999999988655

>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=98.37  E-value=8.7e-08  Score=84.66  Aligned_cols=45  Identities=24%  Similarity=0.682  Sum_probs=38.6

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcc-cChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHG-FHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ++..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+...
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            45789999999865   67788 9999 999999998    7899999987644

>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=98.23  E-value=4.9e-07  Score=76.70  Aligned_cols=49  Identities=24%  Similarity=0.552  Sum_probs=39.2

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC--CCCcc--ccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--SSCPK--CRHCLIE  175 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~tCP~--CR~~l~~  175 (218)
                      ....|+||++.|.+  .|+... |||.|++.||..|+..+  .+||+  ||..+..
T Consensus       180 ~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            45679999999954  455455 99999999999999754  46999  9997654

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

Probab=98.00  E-value=6.6e-06  Score=69.02  Aligned_cols=49  Identities=27%  Similarity=0.673  Sum_probs=39.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC--CCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS--SCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--tCP~CR~~l~  174 (218)
                      +...+|+||.+-+..|.   ..+.|+|.||..|+..|++.+.  +||.|+....
T Consensus       178 ~~i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          178 DAVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TTCCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            34688999999988753   3445999999999999997654  8999998643

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

Probab=97.93  E-value=5.5e-06  Score=60.05  Aligned_cols=49  Identities=22%  Similarity=0.436  Sum_probs=39.5

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-cCCCCcccccccccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRHCLIETCE  178 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~~~  178 (218)
                      -|.+|--.+  ....|+.| |+|+|+-+|+..|.+ ..++||.|+..+..-+.
T Consensus         3 fC~~C~~Pi--~iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPI--KVYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBC--SEEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCe--EEEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            477776554  44678999 999999999999984 56789999998876554

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

Probab=96.59  E-value=0.002  Score=43.24  Aligned_cols=49  Identities=20%  Similarity=0.434  Sum_probs=36.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC----CCccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS----SCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----tCP~CR~~l~~  175 (218)
                      .....|.||.+    +..+.....|...||..|++..|....    .||.|+....+
T Consensus        10 ~~~~~C~vC~~----~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p   62 (66)
T 2lri_C           10 APGARCGVCGD----GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTP   62 (66)
T ss_dssp             CTTCCCTTTSC----CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCC
T ss_pred             CCCCCcCCCCC----CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCcc
Confidence            44578999974    344666777999999999998885433    69999765443

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

Probab=94.23  E-value=0.03  Score=39.78  Aligned_cols=34  Identities=15%  Similarity=0.386  Sum_probs=25.5

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHH
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKW  159 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~W  159 (218)
                      +..|.||++++.......-+. |+|.|+..|+..|
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            467999998754433333366 9999999999983

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=93.23  E-value=0.024  Score=37.23  Aligned_cols=49  Identities=27%  Similarity=0.554  Sum_probs=37.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-----cCCCCccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-----SHSSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~tCP~CR~  171 (218)
                      ++...|+||...+.++..++....|..=||..|+..-..     ....||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            456779999999876666777777999999999875432     3456999975

>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=93.07  E-value=0.1  Score=36.43  Aligned_cols=35  Identities=20%  Similarity=0.503  Sum_probs=24.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHH
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKW  159 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~W  159 (218)
                      ..+..|.||- .+..++...- ..|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~-~~t~~~l~pC-RvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLFPC-RVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCSSC-SSSSSCCCHHHHHHH
T ss_pred             CCCcccCccc-cccccceecc-ccccccccHhhcccc
Confidence            4577899994 4444443322 239999999999996

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=92.44  E-value=0.082  Score=34.45  Aligned_cols=45  Identities=22%  Similarity=0.668  Sum_probs=33.2

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~  171 (218)
                      ..+..|.||...    ..+.....|...||..|++.=+..    .-.||.|+.
T Consensus         9 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            456789999863    456666679999999999985532    225999964

>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=92.33  E-value=0.068  Score=42.40  Aligned_cols=47  Identities=26%  Similarity=0.497  Sum_probs=35.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCcccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRHCLI  174 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~l~  174 (218)
                      ++..|.||...    ..+.....|.-.||..|++.-+...    -.||.|+..-.
T Consensus         3 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            46789999843    3466777799999999998776432    35999987543

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=92.14  E-value=0.02  Score=37.27  Aligned_cols=50  Identities=22%  Similarity=0.634  Sum_probs=35.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCcccccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRHCLIET  176 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~l~~~  176 (218)
                      .++..|.||...    ..+.....|...||..|++.=+...    -.||.|+.....+
T Consensus         3 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~~   56 (60)
T 2puy_A            3 IHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK   56 (60)
T ss_dssp             CCCSSCTTTCCC----SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHT
T ss_pred             CCCCCCcCCCCC----CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhch
Confidence            346789999863    3456666799999999998655332    2599997765544

>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=91.71  E-value=0.041  Score=44.56  Aligned_cols=47  Identities=28%  Similarity=0.483  Sum_probs=35.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRHCL  173 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~l  173 (218)
                      .++..|.+|...    ..+.....|...||..|++..+...    -.||.|+..-
T Consensus         5 ~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            5 PNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            456789999743    3477777899999999998876433    3599998643

>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=91.11  E-value=0.099  Score=41.79  Aligned_cols=50  Identities=18%  Similarity=0.382  Sum_probs=38.1

Q ss_pred             CcCcccCCCCCCCCc---eeecCCCCcccChhHHHHH------Hh-----cCCCCccccccccc
Q 046833          126 TECVICLSEFAPGES---LRVLPKCNHGFHVHCIDKW------LR-----SHSSCPKCRHCLIE  175 (218)
Q Consensus       126 ~~CaICL~ef~~~~~---vr~lp~C~H~FH~~CI~~W------l~-----~~~tCP~CR~~l~~  175 (218)
                      ..|+||...|.+++.   ++....|..=||..|+.-=      +.     ....||.|+..-.+
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            469999999988763   7777789999999998531      11     16789999886443

>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=90.73  E-value=0.07  Score=34.81  Aligned_cols=46  Identities=24%  Similarity=0.569  Sum_probs=32.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCcccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~  172 (218)
                      .++..|.||...    ..+.....|...||..|++.=+...    -.||.|+..
T Consensus         7 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            456779999752    3455566699999999998654322    259999764

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=89.71  E-value=0.083  Score=35.69  Aligned_cols=50  Identities=20%  Similarity=0.363  Sum_probs=36.3

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh----cCCCCcccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR----SHSSCPKCRHCLI  174 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~----~~~tCP~CR~~l~  174 (218)
                      +...|.||.... +++.++....|.--||..|+..-..    ..-.||.|+..+.
T Consensus        17 ~~~~C~~C~~~~-~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPD-DGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCC-SSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCC-CCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            345699998765 3556677777999999999986553    2346999977543

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.04  E-value=0.065  Score=34.25  Aligned_cols=45  Identities=27%  Similarity=0.752  Sum_probs=31.8

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~  171 (218)
                      .++..|.||...    ..+.....|...||..|++.=+...    -.||.|+.
T Consensus         7 ~~~~~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            456789999864    3455666799999999998654322    24888853

>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}

Probab=88.44  E-value=1.6  Score=27.69  Aligned_cols=32  Identities=9%  Similarity=0.120  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Q 046833           51 NVVMFFSILISAVVCSLGFHFLIRCVFLRCSR   82 (218)
Q Consensus        51 ~viiil~ill~~li~~l~l~~i~rc~~~r~~~   82 (218)
                      .++++++++..++++++.++.+++|-+.++.+
T Consensus        12 ~wiIi~svl~GLllL~li~~~LwK~GFFkR~~   43 (54)
T 2knc_A           12 IWWVLVGVLGGLLLLTILVLAMWKVGFFKRNR   43 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHcCcccCCC
Confidence            56667777777777778888888887655433

>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=88.13  E-value=0.53  Score=32.04  Aligned_cols=51  Identities=18%  Similarity=0.375  Sum_probs=36.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-----cCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-----SHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~tCP~CR~~l~  174 (218)
                      .....| ||...+.++..++....|..=||..|+.---.     ....||.|+...-
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~   65 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccccC
Confidence            345567 99998865566667777999999999964321     3457999987543

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=88.05  E-value=0.38  Score=31.71  Aligned_cols=36  Identities=22%  Similarity=0.436  Sum_probs=28.8

Q ss_pred             CCCCcCcccCCCCCCCCceeecC-CCCcccChhHHHH
Q 046833          123 GSDTECVICLSEFAPGESLRVLP-KCNHGFHVHCIDK  158 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp-~C~H~FH~~CI~~  158 (218)
                      +....|.+|...+.+++..+... .|.--||..|+.-
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvgl   42 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTGM   42 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTC
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccCC
Confidence            44567999999998888888887 7999999999854

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=87.60  E-value=0.22  Score=34.93  Aligned_cols=50  Identities=20%  Similarity=0.423  Sum_probs=35.2

Q ss_pred             CCCCcCcccCCCC-CCCCceeecCCCCcccChhHHHHHHh--cCCCCcccccc
Q 046833          123 GSDTECVICLSEF-APGESLRVLPKCNHGFHVHCIDKWLR--SHSSCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef-~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~tCP~CR~~  172 (218)
                      .++..|.||...- .+++.+.....|.-.||..|+..-+.  ..-.||.|+..
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~   75 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   75 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCc
Confidence            4567899998753 34456777778999999999986431  12258888654

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=87.45  E-value=0.2  Score=36.58  Aligned_cols=45  Identities=27%  Similarity=0.617  Sum_probs=32.1

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRH  171 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~  171 (218)
                      .|.||...-.+++.+.....|...||..|++.=|..-    -.||.||.
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            6888886533445666777799999999998655332    25998874

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=87.41  E-value=0.13  Score=33.98  Aligned_cols=45  Identities=27%  Similarity=0.667  Sum_probs=32.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~  171 (218)
                      .++..|.||...    ..+.....|.-.||..|++.=+..    .-.||.|+.
T Consensus         6 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            6 KNEDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             SCCCSBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            456789999863    346666679999999999865432    225999965

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=87.03  E-value=0.39  Score=29.70  Aligned_cols=44  Identities=27%  Similarity=0.703  Sum_probs=30.5

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC----CCCccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH----SSCPKCRH  171 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~  171 (218)
                      .|.||...-. ++.+.....|...||..|++.=+...    -.||.|+.
T Consensus         2 ~C~vC~~~~~-~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCC-CCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            5889986543 34566666799999999997544322    24888864

>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=86.83  E-value=0.079  Score=37.53  Aligned_cols=62  Identities=24%  Similarity=0.465  Sum_probs=40.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCcccccccccccccccCCCC
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCRHCLIETCEESVGFSQ  185 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~~l~~~~~~~~~~~~  185 (218)
                      .+...|.||...-. .+.+.....|...||..|++.=|..    .-.||.|+..-.....+..|.++
T Consensus        14 ~~~~~C~vC~~~~~-~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~~~~~~~~~~Gf~~   79 (92)
T 2e6r_A           14 IDSYICQVCSRGDE-DDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAECKQPPEAFGFEQ   79 (92)
T ss_dssp             CCCCCCSSSCCSGG-GGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHHHHSCCSSCCSCCC
T ss_pred             cCCCCCccCCCcCC-CCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCccccCCccccChhh
Confidence            34567999987642 3456677779999999999854432    22599997754444444445544

>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=86.58  E-value=0.28  Score=35.55  Aligned_cols=47  Identities=23%  Similarity=0.536  Sum_probs=32.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCcccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCR  170 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR  170 (218)
                      .++..|.||.+.-+. +.+.....|+..||..|++..+..    .-.||.|+
T Consensus         5 ~~~~~C~~C~~~g~~-~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            5 SSGANCAVCDSPGDL-LDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCSCBTTTCCCCCT-TTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCcCCCCCCCC-cCCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            457889999876322 234455669999999999987632    22477665

>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=86.23  E-value=0.41  Score=31.24  Aligned_cols=50  Identities=26%  Similarity=0.678  Sum_probs=35.6

Q ss_pred             CCCCcCcccCCCCC-CCCceeecCCCCcccChhHHHHHHh-------cCCCCcccccc
Q 046833          123 GSDTECVICLSEFA-PGESLRVLPKCNHGFHVHCIDKWLR-------SHSSCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~-~~~~vr~lp~C~H~FH~~CI~~Wl~-------~~~tCP~CR~~  172 (218)
                      .++..|.||..... ++..+.....|.-.||..|+..=+.       ..-.||.|+..
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~   61 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFA   61 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCc
Confidence            45678999997643 3456777778999999999886432       12358888653

>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}

Probab=86.15  E-value=1.7  Score=27.56  Aligned_cols=32  Identities=16%  Similarity=0.121  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Q 046833           51 NVVMFFSILISAVVCSLGFHFLIRCVFLRCSR   82 (218)
Q Consensus        51 ~viiil~ill~~li~~l~l~~i~rc~~~r~~~   82 (218)
                      .++++++++..++++++.++.+++|-+.++.+
T Consensus         9 ~WiIi~svl~GLLLL~Lii~~LwK~GFFKR~~   40 (54)
T 2l8s_A            9 LWVILLSAFAGLLLLMLLILALWKIGFFKRPL   40 (54)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHTTSCC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHcCcccCCC
Confidence            55667777777777778888888887655433

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=85.93  E-value=0.4  Score=33.71  Aligned_cols=46  Identities=30%  Similarity=0.618  Sum_probs=33.7

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC----CCcccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS----SCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----tCP~CR~~  172 (218)
                      .++..|.||...   + .+.....|.-.||..|+++=+..-.    .||.|+..
T Consensus        23 ~n~~~C~vC~~~---g-~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           23 DSATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCcCcCcCCC---C-CEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            456789999864   3 4656667999999999977553322    59999764

>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=84.97  E-value=0.4  Score=29.97  Aligned_cols=44  Identities=16%  Similarity=0.292  Sum_probs=32.8

Q ss_pred             cCcccCCCCCCCCceeecC-CCCcccChhHHHHHH----hcCCCCcccc
Q 046833          127 ECVICLSEFAPGESLRVLP-KCNHGFHVHCIDKWL----RSHSSCPKCR  170 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp-~C~H~FH~~CI~~Wl----~~~~tCP~CR  170 (218)
                      .|-+|...+.+++..+... .|..=||..|+.--.    ..+..||.|+
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            4779999987777777776 699999999976432    2556799885

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.76  E-value=1.9  Score=31.18  Aligned_cols=47  Identities=21%  Similarity=0.425  Sum_probs=31.8

Q ss_pred             CCcCcccCCCC-----CCCCceeecCCCCcccChhHHHHH------H-hcCCCCccccc
Q 046833          125 DTECVICLSEF-----APGESLRVLPKCNHGFHVHCIDKW------L-RSHSSCPKCRH  171 (218)
Q Consensus       125 ~~~CaICL~ef-----~~~~~vr~lp~C~H~FH~~CI~~W------l-~~~~tCP~CR~  171 (218)
                      ...|.+|+..=     ..++++..-..|+..||..|++.+      + ...-.||.|+.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~   63 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKT   63 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTCC
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCCc
Confidence            46799999763     233456666679999999999632      2 22335777753

>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=83.89  E-value=0.22  Score=38.90  Aligned_cols=49  Identities=18%  Similarity=0.474  Sum_probs=35.5

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-----hcCCCCcccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-----RSHSSCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-----~~~~tCP~CR~~  172 (218)
                      ++...| ||.....++..+.....|..-||..|+..--     ...-.||.|+..
T Consensus         6 ~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~   59 (174)
T 2ri7_A            6 DTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST   59 (174)
T ss_dssp             -CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHH
T ss_pred             CCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcch
Confidence            345679 9998876566677777899999999996322     134579999763

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=82.97  E-value=0.31  Score=38.89  Aligned_cols=44  Identities=30%  Similarity=0.619  Sum_probs=31.6

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCcccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~~  172 (218)
                      +..|.+|...   | .+.....|...||..|++.=+..    .-.||.|+..
T Consensus         2 ~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~   49 (189)
T 2ro1_A            2 ATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   49 (189)
T ss_dssp             CCCBTTTCCC---S-SCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCS
T ss_pred             CCcCccCCCC---C-ceeECCCCCchhccccCCCCcccCCCCCCCCcCccCC
Confidence            4679999854   3 35556679999999999764432    2259999875

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.57  E-value=0.4  Score=32.74  Aligned_cols=45  Identities=22%  Similarity=0.604  Sum_probs=31.2

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-----CCCCccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-----HSSCPKCRH  171 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----~~tCP~CR~  171 (218)
                      -.|.||...- +++.+.....|...||..|++.=|..     .=.||.|+.
T Consensus        27 c~C~vC~~~~-~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   76 (77)
T 2e6s_A           27 CSCRVCGGKH-EPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT   76 (77)
T ss_dssp             SSCSSSCCCC-CSTTEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCC
T ss_pred             CCCcCcCCcC-CCCCEEEcCCCCccccccccCCCccCCCCCCCcCCcCccC
Confidence            3788998643 34556677779999999999854422     225888864

>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=81.41  E-value=0.34  Score=33.86  Aligned_cols=50  Identities=20%  Similarity=0.503  Sum_probs=36.2

Q ss_pred             CCcCcccCCCCCC-CCceeecCCCCcccChhHHHHHHhc--------CCCCcccccccc
Q 046833          125 DTECVICLSEFAP-GESLRVLPKCNHGFHVHCIDKWLRS--------HSSCPKCRHCLI  174 (218)
Q Consensus       125 ~~~CaICL~ef~~-~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~tCP~CR~~l~  174 (218)
                      +..|.||...-.. ++.+.....|...||..|++.=|..        .-.|+.|+....
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~   74 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhh
Confidence            5679999976432 3567777789999999999876531        225999976543

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=80.91  E-value=2  Score=28.72  Aligned_cols=49  Identities=20%  Similarity=0.431  Sum_probs=34.4

Q ss_pred             CCCCcCcccCCCC-CCCCceeecCCCCcccChhHHHHHHh--cCCCCccccc
Q 046833          123 GSDTECVICLSEF-APGESLRVLPKCNHGFHVHCIDKWLR--SHSSCPKCRH  171 (218)
Q Consensus       123 ~~~~~CaICL~ef-~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~tCP~CR~  171 (218)
                      .++..|.||...- .+++.+.....|.-.||..|+..=..  ..-.||.|+.
T Consensus        14 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            4567899998753 34556777778999999999875321  1225888854

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=80.60  E-value=2.1  Score=32.66  Aligned_cols=47  Identities=26%  Similarity=0.493  Sum_probs=34.3

Q ss_pred             CCCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHh-----------cCCCCcccccc
Q 046833          122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-----------SHSSCPKCRHC  172 (218)
Q Consensus       122 ~~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~-----------~~~tCP~CR~~  172 (218)
                      ...+..|.||-+-    -.+.....|-..||..||+.=+.           ..-.||+|+..
T Consensus        60 Dg~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           60 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             TSCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            3567889999863    34556667999999999997652           12269999753

>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=80.42  E-value=0.76  Score=33.49  Aligned_cols=45  Identities=24%  Similarity=0.515  Sum_probs=30.4

Q ss_pred             CcCcccCCCC------CCCCceeecCCCCcccChhHHHHHH------h-cCCCCcccc
Q 046833          126 TECVICLSEF------APGESLRVLPKCNHGFHVHCIDKWL------R-SHSSCPKCR  170 (218)
Q Consensus       126 ~~CaICL~ef------~~~~~vr~lp~C~H~FH~~CI~~Wl------~-~~~tCP~CR  170 (218)
                      ..|.||++.-      .+++.+.....|+..||..|++.+.      . ..-.||.|+
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            4699999754      1234566666799999999998653      1 233577664

---

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	218
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-09
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	5e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	4e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	9e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	4e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 73.4 bits (180), Expect = 3e-18
 Identities = 26/50 (52%), Positives = 33/50 (66%)

Query: 125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
             EC +CL+E   GE  R LP+C HGFH  C+D WL SHS+CP CR  ++
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>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 = 54.6 bits (131), Expect = 5e-11
 Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 121 LSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
           ++     C ICL +     +  +   C H F   CI +W+R + +CP C+ 
Sbjct: 1   MATVAERCPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV 48

>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 = 51.3 bits (122), Expect = 1e-09
 Identities = 16/71 (22%), Positives = 20/71 (28%), Gaps = 14/71 (19%)

Query: 114 NYSTELKLSGSDTECVICLSEFAPGE--------------SLRVLPKCNHGFHVHCIDKW 159
           N             C IC +                           CNH FH HCI +W
Sbjct: 10  NAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRW 69

Query: 160 LRSHSSCPKCR 170
           L++   CP   
Sbjct: 70  LKTRQVCPLDN 80

>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 = 48.2 bits (114), Expect = 7e-09
 Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 1/46 (2%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLR-SHSSCPKCRH 171
           EC +C+      +       C +     C  +     +  CP CR 
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

>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 = 47.1 bits (111), Expect = 2e-08
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 2/51 (3%)

Query: 125 DTECVICLSEFAPGESLRVLP-KCNHGFHVHCIDKWLR-SHSSCPKCRHCL 173
           D  C  C +      SL+++   C H     C+D        +CP+C   L
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 46.9 bits (111), Expect = 4e-08
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 5/60 (8%)

Query: 115 YSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSS-CPKCRHCL 173
           Y    ++  +   C IC       + +++ P C H     C+  W  S    CP CR  +
Sbjct: 13  YELYCEMGSTFQLCKICAEND---KDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 42.3 bits (98), Expect = 4e-06
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-----HSSCPKCR 170
              +  S+      +  L KC+H FH+ C+     +        CP C+
Sbjct: 41  YSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>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 = 40.6 bits (94), Expect = 5e-06
 Identities = 10/48 (20%), Positives = 13/48 (27%), Gaps = 3/48 (6%)

Query: 128 CVICLSEFAPGESLRVLPK-CNHGFHVHCIDKWLRSH--SSCPKCRHC 172
           C IC  E                  H  C+  WL     ++C  C   
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 40.2 bits (94), Expect = 6e-06
 Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 7/45 (15%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
            C  C +E    +  ++LP C H     C++        CP C+ 
Sbjct: 8   RCQQCQAEA---KCPKLLP-CLHTLCSGCLEAS---GMQCPICQA 45

>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 = 38.9 bits (90), Expect = 4e-05
 Identities = 10/66 (15%), Positives = 21/66 (31%), Gaps = 3/66 (4%)

Query: 122 SGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH--CLIETCEE 179
           S   + C +CL E+   +   +   C   F   C+ +++             C    C +
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPK 60

Query: 180 SVGFSQ 185
                +
Sbjct: 61  QGHLQE 66

>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 = 38.1 bits (88), Expect = 9e-05
 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 7/50 (14%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS---SCPKCRHCL 173
           EC ICL          V  KC+H F   C+ K L        CP C++ +
Sbjct: 23  ECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.0 bits (83), Expect = 4e-04
 Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 5/47 (10%)

Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSS-CPKCRHCL 173
           C IC    A      V   C H F   CI + L+   S CP CR+  
Sbjct: 26  CQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 36.3 bits (83), Expect = 4e-04
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 5/47 (10%)

Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCL 173
            C  C +          L  C H F  +C+   +   + CP C    
Sbjct: 24  RCSRCTNIL---REPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	218
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.78
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.61
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.54
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.52
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.47
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.47
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.45
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.34
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.27
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.23
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.19
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.97
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.93
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.9
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.73
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.66
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.03
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.79
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	93.4
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	93.0
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	91.27
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	91.1
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	90.24
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	87.37
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	83.85
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	83.25
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	82.93
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	82.63
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	82.44

>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=99.78  E-value=5.5e-20  Score=119.83  Aligned_cols=52  Identities=50%  Similarity=1.213  Sum_probs=47.6

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  174 (218)
                      +++.+|+|||++|.+++.++.++.|+|.||..||+.|++.+.+||+||++|+
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            3456899999999999999888779999999999999999999999999875

>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=99.61  E-value=3.4e-16  Score=105.76  Aligned_cols=50  Identities=32%  Similarity=0.798  Sum_probs=43.3

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      ..++|+||++.|.+  .++.++ |||.||..||..|++.+.+||+||..+...
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~   53 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHhh
Confidence            45789999999954  466787 999999999999999999999999987644

>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=99.54  E-value=6.2e-16  Score=99.12  Aligned_cols=48  Identities=21%  Similarity=0.477  Sum_probs=40.4

Q ss_pred             cCcccCCCCCCCCce-eecCCCCcccChhHHHHHHhcC-CCCccccccccc
Q 046833          127 ECVICLSEFAPGESL-RVLPKCNHGFHVHCIDKWLRSH-SSCPKCRHCLIE  175 (218)
Q Consensus       127 ~CaICL~ef~~~~~v-r~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~  175 (218)
                      +|+|||++|..++.. +.++ |||.||..||+.|++.+ .+||+||+++.+
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            799999999876654 4556 99999999999999754 469999998765

>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=99.52  E-value=3.7e-15  Score=105.51  Aligned_cols=52  Identities=29%  Similarity=0.584  Sum_probs=42.9

Q ss_pred             CCCCcCcccCCCCCCCC---------------ceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          123 GSDTECVICLSEFAPGE---------------SLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~---------------~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ..+++|+||++++.+..               .+..++ |||+||..||+.||+.+.+||+||+...-
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            34567999999986532               356676 99999999999999999999999998653

>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=99.47  E-value=2.1e-14  Score=105.96  Aligned_cols=51  Identities=27%  Similarity=0.683  Sum_probs=40.3

Q ss_pred             CCcCcccCCCCCC---------------CCceeecCCCCcccChhHHHHHHhc-----CCCCcccccccccc
Q 046833          125 DTECVICLSEFAP---------------GESLRVLPKCNHGFHVHCIDKWLRS-----HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~---------------~~~vr~lp~C~H~FH~~CI~~Wl~~-----~~tCP~CR~~l~~~  176 (218)
                      +.+|+||++++.+               ...+++++ |+|+||..||+.||+.     +.+||+||+.+.++
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            5679999998853               23356676 9999999999999964     34799999987554

>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=99.47  E-value=1.7e-14  Score=96.47  Aligned_cols=51  Identities=25%  Similarity=0.511  Sum_probs=40.2

Q ss_pred             CCcCcccCCCCCCC--CceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPG--ESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~--~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      +.+|+||++++..+  ..+.+++ |||.||..||..|+.. +.+||+||..+...
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            57899999986432  3345666 9999999999999954 56799999987544

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=3.6e-14  Score=98.40  Aligned_cols=48  Identities=29%  Similarity=0.675  Sum_probs=41.3

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ...|+||++++.+   .+++| |||.||..||..||.. +.+||+||..|...
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            4579999998855   78888 9999999999999975 56899999998754

>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=99.34  E-value=1.9e-13  Score=88.60  Aligned_cols=47  Identities=15%  Similarity=0.166  Sum_probs=40.7

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .|+||++.+++   -.++++|||+||.+||.+||+.+.+||+||..+...
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            59999999864   445556999999999999999999999999987765

>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=99.27  E-value=4.1e-13  Score=87.00  Aligned_cols=47  Identities=23%  Similarity=0.496  Sum_probs=39.4

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIETCE  178 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  178 (218)
                      ..+|+||++.|.+   .+++| |||.||..||+.|   +.+||+||+.+....+
T Consensus         6 ~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            4589999999965   56788 9999999999876   6689999999876543

>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=99.23  E-value=3e-12  Score=89.88  Aligned_cols=47  Identities=34%  Similarity=0.573  Sum_probs=40.2

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ..|+||++.+.+   ..+++ |||.|+..||..|++. +.+||.||.++.+.
T Consensus        24 l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          24 ISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             TBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            579999999865   67787 9999999999999964 46899999987654

>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=99.19  E-value=3.7e-12  Score=83.37  Aligned_cols=52  Identities=19%  Similarity=0.386  Sum_probs=37.4

Q ss_pred             CCCCcCcccCCCCCCCCcee-ecCCCCcccChhHHHHHHh--cCCCCcccccccc
Q 046833          123 GSDTECVICLSEFAPGESLR-VLPKCNHGFHVHCIDKWLR--SHSSCPKCRHCLI  174 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr-~lp~C~H~FH~~CI~~Wl~--~~~tCP~CR~~l~  174 (218)
                      ++...|.||++++.+..... ....|+|.||..||..|+.  .+.+||+||+.+.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45678999999886532111 1112469999999999994  4568999998753

>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=99.17  E-value=6.7e-12  Score=90.72  Aligned_cols=47  Identities=32%  Similarity=0.636  Sum_probs=38.9

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC---CCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH---SSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~---~tCP~CR~~l~~  175 (218)
                      ..+|+||++.|.+   ...++ |||.||..||..|+..+   ..||+||..+..
T Consensus        21 ~l~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CcCCCccCchhCC---eEEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            3579999999965   44577 99999999999999655   379999998754

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=5.7e-11  Score=84.77  Aligned_cols=46  Identities=20%  Similarity=0.467  Sum_probs=36.8

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCccccccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIE  175 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  175 (218)
                      ...|+||++.|.+  .+...+ |||.||..||..|+.  ..||.||..+..
T Consensus        22 ~l~C~IC~~~~~~--pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          22 LLRCSRCTNILRE--PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TTSCSSSCSCCSS--CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             cCCCccCCchhhc--CceeCC-CCCchhHHHHHHHHh--ccccccCCcCch
Confidence            4589999999965  344445 999999999999984  459999987643

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.93  E-value=3.9e-10  Score=77.57  Aligned_cols=49  Identities=14%  Similarity=0.102  Sum_probs=40.9

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ++..|+||++-|.+   ..+++ |||.|+..||..|+.. +.+||.||..+...
T Consensus         6 ~~l~CpIc~~l~~d---Pv~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           6 DYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             STTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             ccccCcCcCchhhh---hcccC-CcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            45689999999966   45787 9999999999999964 56799999987643

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.90  E-value=8.1e-10  Score=75.49  Aligned_cols=49  Identities=24%  Similarity=0.558  Sum_probs=41.0

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc-CCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS-HSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  176 (218)
                      ++..|+||++-|.+   ..+++ |||.|+..||..|+.. +.+||.|+..+...
T Consensus         7 ~~l~CpIc~~~m~d---PV~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhC---ceEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            46789999999966   45777 9999999999999976 45799999887543

>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=98.73  E-value=3.9e-09  Score=75.33  Aligned_cols=50  Identities=20%  Similarity=0.095  Sum_probs=42.7

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLIET  176 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  176 (218)
                      .+..|+||++-|.+   ..+++.|||.|.+.||..||+.+.+||+||..|...
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            35789999999976   667885567999999999999999999999987653

>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=98.66  E-value=4.4e-09  Score=74.07  Aligned_cols=47  Identities=21%  Similarity=0.611  Sum_probs=37.3

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcC--------CCCcccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH--------SSCPKCR  170 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--------~tCP~CR  170 (218)
                      ....+|+||++++..++.++.++ |+|.||.+|+..|++.+        .+||.|+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            34578999999998766677666 99999999999999421        2599864

>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=95.03  E-value=0.003  Score=40.09  Aligned_cols=50  Identities=26%  Similarity=0.512  Sum_probs=38.0

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-----hcCCCCcccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-----RSHSSCPKCRHC  172 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-----~~~~tCP~CR~~  172 (218)
                      .....|.||.....+++.++....|+.-||..|+..=.     ..+..||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            34568999999887777777788899999999996421     134579999753

>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=93.79  E-value=0.016  Score=34.77  Aligned_cols=44  Identities=27%  Similarity=0.731  Sum_probs=32.8

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC----CCccccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS----SCPKCRH  171 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----tCP~CR~  171 (218)
                      .|.||-..-. ++.+.....|+..||..|++.-+....    .||.||.
T Consensus         2 ~C~vC~~~~~-~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCC-CCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5889976543 445667778999999999998764322    5999975

>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=93.40  E-value=0.016  Score=37.30  Aligned_cols=46  Identities=28%  Similarity=0.548  Sum_probs=32.4

Q ss_pred             CCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCC----CCccccccc
Q 046833          124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHS----SCPKCRHCL  173 (218)
Q Consensus       124 ~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----tCP~CR~~l  173 (218)
                      ....|.||-..    ..+.....|...||..|+...+....    .||.|+..-
T Consensus         6 ~c~~C~~C~~~----~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCCc----CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            34567777532    34667778999999999998874332    599996543

>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=93.00  E-value=0.011  Score=36.98  Aligned_cols=47  Identities=23%  Similarity=0.567  Sum_probs=33.9

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHHHhc----CCCCccccccc
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRS----HSSCPKCRHCL  173 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~~l  173 (218)
                      ..+..|.||.+.    ..+.....|.-.||..|++..+..    .-.||.|+..-
T Consensus         7 ~~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            445679999742    446666679999999999876643    23699997653

>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=91.27  E-value=0.12  Score=34.23  Aligned_cols=35  Identities=20%  Similarity=0.508  Sum_probs=26.4

Q ss_pred             CCCCcCcccCCCCCCCCceeecCCCCcccChhHHHHH
Q 046833          123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKW  159 (218)
Q Consensus       123 ~~~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~W  159 (218)
                      .++..|.|| +.|..++.. -...|+-+||..|+.+-
T Consensus        13 ~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            457789999 777665543 23348999999999986

>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=91.10  E-value=0.27  Score=31.90  Aligned_cols=48  Identities=19%  Similarity=0.445  Sum_probs=34.9

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHH--HHH-h--cCCCCcccccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCID--KWL-R--SHSSCPKCRHCLI  174 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~--~Wl-~--~~~tCP~CR~~l~  174 (218)
                      .-| ||...+..++.++....|+--||..|+.  ..- .  .+..||.|+...-
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            345 9998877666677788899999999985  222 1  2357999986543

>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=90.24  E-value=0.025  Score=37.78  Aligned_cols=48  Identities=21%  Similarity=0.524  Sum_probs=33.9

Q ss_pred             CCcCcccCCCCC-CCCceeecCCCCcccChhHHHHHH-----hc---CCCCcccccc
Q 046833          125 DTECVICLSEFA-PGESLRVLPKCNHGFHVHCIDKWL-----RS---HSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~-~~~~vr~lp~C~H~FH~~CI~~Wl-----~~---~~tCP~CR~~  172 (218)
                      ...|.||..... ++..+.....|+..||..|+...+     ..   .-.||.|+..
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~   72 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ   72 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCch
Confidence            456999987543 334567777899999999987543     11   3469999654

>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=87.37  E-value=0.15  Score=31.50  Aligned_cols=43  Identities=30%  Similarity=0.650  Sum_probs=32.0

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHHHHH-hcCCCCccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL-RSHSSCPKC  169 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl-~~~~tCP~C  169 (218)
                      ...|.-|..++.+ ..+...++|++.|+.+|= -++ ..-.+||-|
T Consensus        15 ~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD-~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKD-QHVYVCAVCQNVFCVDCD-VFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTT-SEEECCTTTTCCBCHHHH-HTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCC-CceEECcCCCCccccccc-hhhhhhhcCCCCC
Confidence            4679999988864 345668889999999993 333 344579988

>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=83.85  E-value=0.073  Score=32.05  Aligned_cols=44  Identities=20%  Similarity=0.474  Sum_probs=30.7

Q ss_pred             cCcccCCCCCCCCceeecCCCCcccChhHHHHHHhcCCCCcccc
Q 046833          127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       127 ~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  170 (218)
                      .|.+|-..|..-..-.....||.+|+..|....-+....|..|.
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            58999999976555556667999999999766544455677664

>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=83.25  E-value=0.1  Score=33.31  Aligned_cols=46  Identities=24%  Similarity=0.425  Sum_probs=33.6

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHHHHHH----hcCCCCcccccc
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWL----RSHSSCPKCRHC  172 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~~Wl----~~~~tCP~CR~~  172 (218)
                      ..| ||.....+++.+.....|+.-||..|+..=.    .....||.|+..
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~   66 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCc
Confidence            358 7988777777777888899999999976422    123468888653

>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=82.93  E-value=0.25  Score=26.45  Aligned_cols=29  Identities=17%  Similarity=0.442  Sum_probs=24.6

Q ss_pred             CcCcccCCCCCCCCceeecCCCCcccChhHH
Q 046833          126 TECVICLSEFAPGESLRVLPKCNHGFHVHCI  156 (218)
Q Consensus       126 ~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI  156 (218)
                      ..|+-|...+...|.|+.-  =+++||-.|+
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            4699999999998888776  5899999984

>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=82.63  E-value=0.27  Score=31.42  Aligned_cols=44  Identities=34%  Similarity=0.675  Sum_probs=25.5

Q ss_pred             CCcCcccCCCCCCCCceee-cCCCC-cccChhHHHHHHhc----CCCCcccccc
Q 046833          125 DTECVICLSEFAPGESLRV-LPKCN-HGFHVHCIDKWLRS----HSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~-lp~C~-H~FH~~CI~~Wl~~----~~tCP~CR~~  172 (218)
                      ..-| ||.... +++.+.. -..|. .-||..|+.  |..    .-.||.|+..
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            3457 998753 3333332 12344 469999985  322    2359999753

>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=82.44  E-value=0.91  Score=28.65  Aligned_cols=46  Identities=24%  Similarity=0.592  Sum_probs=31.7

Q ss_pred             CCcCcccCCCCCCCCceeecCCCCcccChhHHH------HHH---hcCCCCcccccc
Q 046833          125 DTECVICLSEFAPGESLRVLPKCNHGFHVHCID------KWL---RSHSSCPKCRHC  172 (218)
Q Consensus       125 ~~~CaICL~ef~~~~~vr~lp~C~H~FH~~CI~------~Wl---~~~~tCP~CR~~  172 (218)
                      ...| ||-.... ++.++...+|.--||..|+.      ...   .....||.|+..
T Consensus        16 ~~~C-iC~~~~~-~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          16 ALYC-ICRQPHN-NRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCCS-TTCCCCC-SSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             cCEE-ECCCccC-CCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            3458 8976654 34577777899999999982      111   234689999654