Citrus Sinensis ID: 027813

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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
MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNYGGLC
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHcccHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHcccEEEEEcccccccccccccccccccccccEEccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHcccccHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHccccccHHHHHHccEEEEccccccccccccEEEEEcccccccEEEEcccccccccHHHHHHHHHccccccHHHHHccccccccccccccccccccccccccccEcccccccccEccccccc
Coil and Loop (DISEMBL)
mptssllstkhlpdflgkfqSRKLliqnphnqepitaapptypaksclhSNVVAVLSFLICSLICSLGFHFLLKCVFIRCsrlldsesnanslttsgkssgikkkalrnfpvvnystelklpgldteCVIClsnflpgervrmlpicnhgfhvRCIDKWlrshsscpkcrrcLIETCenivgstqasssrhsvpetlttvsirplephgiirnygglc
Flexible Loop (DISEMBL)
mptssllstkhlPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDsesnanslttsgkssgikkkalrnfPVVNYStelklpgldtECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGstqasssrhsvpetlttvsirplephgiirnygglc
Low Complexity Region (SEG)
MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVlsflicslicslGFHFLLKCVFIRCSRLLDSESNANslttsgkssgikkkALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNYGGLC
Disordered region (IsUnstruct)
**************FLGKF****LLI**************TYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLL*********************ALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVG*******************I*****HGIIRN*****
Disordered Region (DISOPRED)
*******STKHLPDFLGKFQSRK****************************VVAVLSFLICSLICSLGFHFLLKCVFIRC*************************ALRNFPVVNYSTEL***GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL*********************************************
Disordered Region (DISEMBL)
MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSES**************KKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVG*************TLTTVSIRPLEPHGIIRNYGGLC
Disordered Region (DISPRO)
*PTSSLLSTKHLPDFLGKFQSRKLLIQNPHN****************LHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCS******************SGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET******************************P*GIIRNY*GLC
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNYGGLC
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	0.908	0.788	0.527	9e-54
Q94BY6	226	RING-H2 finger protein AT	no	no	0.889	0.858	0.527	2e-51
Q6NML0	225	E3 ubiquitin-protein liga	no	no	0.922	0.893	0.5	3e-51
Q6NQG7	219	RING-H2 finger protein AT	no	no	0.931	0.926	0.502	1e-50
Q9LS99	220	RING-H2 finger protein AT	no	no	0.894	0.886	0.455	2e-46
Q9FLC6	176	RING-H2 finger protein AT	no	no	0.568	0.704	0.5	5e-30
Q9SG96	181	RING-H2 finger protein AT	no	no	0.678	0.817	0.421	3e-26
O22755	185	RING-H2 finger protein AT	no	no	0.577	0.681	0.406	5e-25
Q8LC69	185	RING-H2 finger protein AT	no	no	0.665	0.783	0.368	3e-24
Q9LM69	197	RING-H2 finger protein AT	no	no	0.642	0.710	0.389	2e-23

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

 Score =  209 bits (533), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 107/203 (52%), Positives = 139/203 (68%), Gaps = 5/203 (2%)

Query: 14  DFLGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVLSFLICSLICSLGF 69
            FLG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +LS LIC +IC LG 
Sbjct: 16  QFLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILICGIICCLGL 75

Query: 70  HFLLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTEC 128
           H++++C   R +R + SE   +  +T G S+ GIKKKALR FPVV+YS E+ LPGLD EC
Sbjct: 76  HYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNLPGLDEEC 135

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
           VICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + 
Sbjct: 136 VICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKILGDFSQAD 195

Query: 189 SRHSVPETLTTVSIRPLEPHGII 211
           S  + P  +  V+I PLEP  I+
Sbjct: 196 SVTAEPTEIVIVTIVPLEPTEIV 218

Arabidopsis thaliana (taxid: 3702)

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

 Score =  201 bits (512), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 105/199 (52%), Positives = 131/199 (65%), Gaps = 5/199 (2%)

Query: 16  LGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVLSFLICSLICSLGFHF 71
           LG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +LS LIC +IC LG H+
Sbjct: 19  LGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVLMLLSVLICGIICCLGLHY 78

Query: 72  LLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTECVI 130
           +++C F R S  + SE  A   T  G S+ GI KKALR FPVV+YS E+ LPGL  ECVI
Sbjct: 79  IIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPEMNLPGLGEECVI 138

Query: 131 CLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSR 190
           CLS+F+ GE++RMLP C+HGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    +   
Sbjct: 139 CLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQKILGDFSQADQV 198

Query: 191 HSVPETLTTVSIRPLEPHG 209
            + P     V I PLEP G
Sbjct: 199 AATPTASVIVRIAPLEPEG 217

Arabidopsis thaliana (taxid: 3702)

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

 Score =  201 bits (511), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 103/206 (50%), Positives = 137/206 (66%), Gaps = 5/206 (2%)

Query: 14  DFLGKFQSRKLLIQNP--HNQEPITAAPPT--YPAKSCLHSNVVAVLSFLICSLICSLGF 69
            FLG F +RKLL+ +P  HN   + A  P+     ++ L  NV+ +LS LIC +IC LG 
Sbjct: 16  QFLGSFVTRKLLLHDPFDHNSLRVFAVAPSPLITHENNLKGNVLMLLSVLICGIICCLGL 75

Query: 70  HFLLKCVFIRCSRLLDSES-NANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTEC 128
           H++++C F R SR + SE  ++ S   S  + GIKKKALR FPVV+YS E+ LPG+  EC
Sbjct: 76  HYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSYSREMNLPGIGEEC 135

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
           VICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + 
Sbjct: 136 VICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVETCQKILGDFSQAD 195

Query: 189 SRHSVPETLTTVSIRPLEPHGIIRNY 214
           S  S P     V I PLEP G +  +
Sbjct: 196 SMASTPTESVIVRIDPLEPEGRVNTF 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 =  199 bits (505), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 104/207 (50%), Positives = 138/207 (66%), Gaps = 4/207 (1%)

Query: 9   TKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLG 68
           T+   + LG   SRKLL    H+Q P T AP  Y   +   +NVV VLS L+C+L+CSLG
Sbjct: 15  TEIFQEILGSSYSRKLLFHT-HDQSP-TPAPSPYVGDNNFDANVVMVLSVLLCALVCSLG 72

Query: 69  FHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTEC 128
            + +++C  +RCS L+ SE+  ++      ++G+K+KAL++F  V+YSTEL LPGLDTEC
Sbjct: 73  LNSIIRCA-LRCSNLVPSEAGGDNYPVRLTNTGVKRKALKSFQTVSYSTELNLPGLDTEC 131

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
            ICLS F+  ERV++LP C+HGFHVRCIDKWL SHSSCP CR CLI+TCE I   +Q SS
Sbjct: 132 AICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSSHSSCPTCRHCLIQTCEKIADCSQTSS 191

Query: 189 SRHSV-PETLTTVSIRPLEPHGIIRNY 214
              +  P+    + I PLEP   IR +
Sbjct: 192 LNSTQPPQDSIILQIAPLEPERWIRWF 218

Arabidopsis thaliana (taxid: 3702)

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

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 93/204 (45%), Positives = 128/204 (62%), Gaps = 9/204 (4%)

Query: 15  FLGKFQSRKLLIQNP--HNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFL 72
           F+  F SRKLL Q P  HN     A     P K+ L  NV+ +LS L+C +ICSLG H++
Sbjct: 18  FIDSFVSRKLLQQIPFAHN-----AQQAHVPDKNNLSGNVLMLLSILLCGIICSLGLHYI 72

Query: 73  LKCVFIRCSRLLDSE--SNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVI 130
           ++C FIR    + S+  S  ++   S  + GIKKKAL+  PVVNYS E+ LPG+  ECVI
Sbjct: 73  IRCAFIRSRSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYSPEINLPGVGEECVI 132

Query: 131 CLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSR 190
           CLS+F+ GE++R+LP CNHGFH+RCIDKWL  H +CPKCR CL++TC+ ++    A+   
Sbjct: 133 CLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCRHCLVDTCQKVLSDCDAADQV 192

Query: 191 HSVPETLTTVSIRPLEPHGIIRNY 214
            +       + I PLEP   +  +
Sbjct: 193 AATATESIDIRISPLEPEARVATF 216

Arabidopsis thaliana (taxid: 3702)

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

 Score =  130 bits (328), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 64/128 (50%), Positives = 92/128 (71%), Gaps = 4/128 (3%)

Query: 48  LHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKAL 107
           + +++V +L+ L+C+LIC+LG + +L+CV +RC+R      +    T +  + GIKK+AL
Sbjct: 37  MDTHMVIILAALLCALICALGINSVLRCV-LRCTRRFTPNEDPVD-TNANVAKGIKKRAL 94

Query: 108 RNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCP 167
           +  PV +YS ELK+    TEC+ICL +F+ GE VR+LP CNHGFHV+CID WL SHSSCP
Sbjct: 95  KVIPVDSYSPELKMKA--TECLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCP 152

Query: 168 KCRRCLIE 175
            CR+ L+E
Sbjct: 153 TCRQSLLE 160

Arabidopsis thaliana (taxid: 3702)

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

 Score =  118 bits (296), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 67/159 (42%), Positives = 96/159 (60%), Gaps = 11/159 (6%)

Query: 25  LIQNPHNQEPITAAPPTYPA--KSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSR 82
           L+  P    P  A P        +   +N+V +L+ L+C+LIC+L  +  L+CV +R +R
Sbjct: 4   LLLEPQANAPANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV-LRITR 62

Query: 83  LLDSE------SNANS-LTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNF 135
              S+      SNAN+ L     ++G+KK+AL+  PV  Y + + +    TEC+ICL +F
Sbjct: 63  RFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGI-IDMKATECLICLGDF 121

Query: 136 LPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
             GE+VR+LP CNHGFHVRCID WL S SSCP CR+ L+
Sbjct: 122 EDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLL 160

Arabidopsis thaliana (taxid: 3702)

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

 Score =  114 bits (285), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 61/150 (40%), Positives = 84/150 (56%), Gaps = 24/150 (16%)

Query: 36  TAAPPTYPAKSCL--HSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSL 93
           TAAPP  P++  +   S++V +LS L+C+LIC  G   +++C ++R              
Sbjct: 10  TAAPPPQPSEEMIAAESDMVVILSALLCALICVAGLAAVVRCAWLR------------RF 57

Query: 94  TTSGKS----SGIKKKALRNFPVVNYSTELKLPGL------DTECVICLSNFLPGERVRM 143
           T  G S     G+KKKAL++ P   ++      G        TEC ICL++F  GE +R+
Sbjct: 58  TAGGDSPSPNKGLKKKALQSLPRSTFTAAESTSGAAAEEGDSTECAICLTDFADGEEIRV 117

Query: 144 LPICNHGFHVRCIDKWLRSHSSCPKCRRCL 173
           LP+C H FHV CIDKWL S SSCP CRR L
Sbjct: 118 LPLCGHSFHVECIDKWLVSRSSCPSCRRIL 147

Arabidopsis thaliana (taxid: 3702)

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

 Score =  111 bits (278), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 86/152 (56%), Gaps = 7/152 (4%)

Query: 25  LIQNPHNQEPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLL 84
           L+Q  ++  P  A+PP        +S++V +L+ L+C+L C +G   + +C ++R     
Sbjct: 8   LLQEANSTSPAEASPP-------FNSDLVLILAVLLCALTCIIGLIAVSRCAWLRRIASR 60

Query: 85  DSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRML 144
           +     +    +  + G+KKK LR+ P + YS +        EC ICL+ F  G+ +R+L
Sbjct: 61  NRSDQTHPPPVAAANKGLKKKVLRSLPKLTYSPDSPPAEKLVECAICLTEFAAGDELRVL 120

Query: 145 PICNHGFHVRCIDKWLRSHSSCPKCRRCLIET 176
           P C HGFHV CID WL SHSSCP CR+ L+ T
Sbjct: 121 PQCGHGFHVSCIDTWLGSHSSCPSCRQILVVT 152

Arabidopsis thaliana (taxid: 3702)

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

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 58/149 (38%), Positives = 88/149 (59%), Gaps = 9/149 (6%)

Query: 33  EPITAAPPTYPAKSCLHSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLL-------D 85
           E  T +P    + + L+S++V +L+ L+C+LIC LG   + +CV++R  RL         
Sbjct: 11  ESNTPSPAIDNSTAALNSDLVVILAALLCALICVLGLIAVSRCVWLR--RLAAGNRTVSG 68

Query: 86  SESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLP 145
           S++ +     +  + G+KKK L++ P + +S E        EC ICL+ F  G+ +R+LP
Sbjct: 69  SQTQSPQPPVAAANKGLKKKVLQSLPKLTFSPESPESEKFAECAICLAEFSAGDELRVLP 128

Query: 146 ICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
            C HGFHV CID WL SHSSCP CR+ L+
Sbjct: 129 QCGHGFHVACIDTWLGSHSSCPSCRQILV 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	0.558	2e-61
224055977	225	predicted protein [Populus trichocarpa]	0.981	0.951	0.541	2e-58
225431583	224	PREDICTED: RING-H2 finger protein ATL78	0.963	0.937	0.526	7e-57
255562369	223	RING-H2 finger protein ATL1L, putative [	0.944	0.923	0.526	5e-56
15222071	251	RING-H2 finger protein ATL10 [Arabidopsi	0.908	0.788	0.527	5e-52
297847202	225	zinc finger family protein [Arabidopsis	0.917	0.888	0.517	8e-52
7770353	426	F27J15.2 [Arabidopsis thaliana]	0.908	0.464	0.527	1e-51
357464535	240	Ring-H2 zinc finger protein [Medicago tr	0.912	0.829	0.502	5e-50
15222068	226	RING-H2 finger protein ATL75 [Arabidopsi	0.889	0.858	0.527	1e-49
7770352	319	F27J15.3 [Arabidopsis thaliana]	0.922	0.630	0.5	1e-49

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

 Score =  241 bits (614), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 124/222 (55%), Positives = 160/222 (72%), Gaps = 12/222 (5%)

Query: 3   TSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPP----TYPAK------SCLHSNV 52
           ++S  +T+   DFLG F SR+LL+ NP  Q   TA PP    + P++      S   +NV
Sbjct: 2   SASTSTTQLFQDFLGDFYSRRLLLHNPLYQSTNTATPPAPGNSAPSEPSTGTGSSFDANV 61

Query: 53  VAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNFPV 112
           V VLS L+C+LICSLG + +++C  +RCS +  SES AN  T S  + G+ ++AL++FPV
Sbjct: 62  VMVLSVLLCALICSLGLNSIIRCA-LRCSNIAASESAANPSTQSANT-GVNRRALKSFPV 119

Query: 113 VNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRC 172
           VNYS++L LPGLDTECVICLS F PGERVR+LP C+HGFHV+CIDKWL SHSSCP CR C
Sbjct: 120 VNYSSDLNLPGLDTECVICLSEFTPGERVRLLPKCHHGFHVKCIDKWLSSHSSCPTCRHC 179

Query: 173 LIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNY 214
           LIETC+ I+G +QAS+S  S+P   T VSI PLEP G+IR+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 =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 123/227 (54%), Positives = 155/227 (68%), Gaps = 13/227 (5%)

Query: 1   MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPP---------TYPA-KSCLHS 50
           M TS+  + +    FLG F SR+LL+  P  Q   TA PP         TY +  +   +
Sbjct: 1   MSTSTSTTHQLFQGFLGDFYSRRLLLHTPLYQSSNTATPPAPGNTASSETYTSTDNSFDA 60

Query: 51  NVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNF 110
           NVV VLS L+C+LICSLG + +++C  +RCS L+ SES AN  +T   ++G+K+KAL+ F
Sbjct: 61  NVVMVLSILLCALICSLGLNSIIRCA-LRCSNLVASESAANP-STQAANTGVKRKALKTF 118

Query: 111 PVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           P+V YST+L LPGLDT+CVICLS F PGE VR+LP CNHGFHV+CIDKWL SHSSCP CR
Sbjct: 119 PIVKYSTDLNLPGLDTQCVICLSEFTPGEHVRLLPKCNHGFHVKCIDKWLSSHSSCPTCR 178

Query: 171 RCLIETCENIVGSTQASSSR-HSVPETLTTVSIRPLEPHGIIRNYGG 216
            CLIETC+ I G +QAS+S   S+P     VSI PLEP G+I NY G
Sbjct: 179 HCLIETCKKIAGCSQASTSGPTSLPVQEAIVSILPLEPEGLISNYRG 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  226 bits (575), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 118/224 (52%), Positives = 152/224 (67%), Gaps = 14/224 (6%)

Query: 1   MPTSSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPT----------YPAKSCLHS 50
           M  S+  S +   D +G F SR+LL+ +P ++ P TA+PP           Y   +   +
Sbjct: 1   MYASTSPSVQLFQDLVGDFYSRRLLLHSPLHESPATASPPATGNSHDSSEPYTGSNSFDT 60

Query: 51  NVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALRNF 110
           NVV VLS L+C+LICSLG + +++C  +RCS L+ S    NS +T   ++G+KKKAL+ F
Sbjct: 61  NVVMVLSVLLCALICSLGLNSIIRCA-LRCSSLVASP--GNSPSTRLANTGVKKKALKTF 117

Query: 111 PVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           P +NYS  L LPGLDTECVICLS+F PGER+R+LP CNHGFHVRCIDKWL SHSSCP CR
Sbjct: 118 PTLNYSAGLNLPGLDTECVICLSDFTPGERIRILPKCNHGFHVRCIDKWLNSHSSCPTCR 177

Query: 171 RCLIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNY 214
            CLIETC+ I+G +QASSS  + P    ++ I PLEP G  RNY
Sbjct: 178 HCLIETCQKIIGCSQASSSE-TPPPLQESMIIVPLEPEGFSRNY 220

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  223 bits (567), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 120/228 (52%), Positives = 153/228 (67%), Gaps = 22/228 (9%)

Query: 3   TSSLLSTKHLPDFLGKFQSRKLLIQNP--------------HNQEPITAAPPTYPAKSCL 48
           T+S  + +   DF G F SR+LL+  P              ++QE   A+ P Y   +  
Sbjct: 2   TTSTSTAQLFQDFQGDFYSRRLLLHTPLYHSPTAAAPPAPGYSQE---ASEP-YTGNNSF 57

Query: 49  HSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRLLDSESNANSLTTSGKSSGIKKKALR 108
            +NVV VLS L+C+LICSLG + +++C  +RCS L+ S S  NS +    ++G+K+KAL+
Sbjct: 58  DANVVMVLSVLLCALICSLGLNSIIRCA-LRCSSLVASRSADNS-SAGLANTGVKRKALK 115

Query: 109 NFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPK 168
            FP VNYST+L LPGLDTEC ICLS F PGERVR+LP CNHGFHVRCIDKWL SHSSCP 
Sbjct: 116 TFPTVNYSTDLNLPGLDTECAICLSEFTPGERVRLLPKCNHGFHVRCIDKWLSSHSSCPT 175

Query: 169 CRRCLIETCENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNYGG 216
           CR CLIETC+ IVG +Q SSS   V E++  V+I PLEP  +IR+Y G
Sbjct: 176 CRHCLIETCQKIVGCSQTSSSDPPVQESI--VNIAPLEPEALIRSYRG 221

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222071|ref|NP_175348.1| RING-H2 finger protein ATL10 [Arabidopsis thaliana] gi|68565092|sp|P0C034.1|ATL10_ARATH RecName: Full=RING-H2 finger protein ATL10 gi|67633444|gb|AAY78646.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|332194285|gb|AEE32406.1| RING-H2 finger protein ATL10 [Arabidopsis thaliana]

 Score =  209 bits (533), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 107/203 (52%), Positives = 139/203 (68%), Gaps = 5/203 (2%)

Query: 14  DFLGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVLSFLICSLICSLGF 69
            FLG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +LS LIC +IC LG 
Sbjct: 16  QFLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILICGIICCLGL 75

Query: 70  HFLLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTEC 128
           H++++C   R +R + SE   +  +T G S+ GIKKKALR FPVV+YS E+ LPGLD EC
Sbjct: 76  HYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNLPGLDEEC 135

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
           VICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + 
Sbjct: 136 VICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKILGDFSQAD 195

Query: 189 SRHSVPETLTTVSIRPLEPHGII 211
           S  + P  +  V+I PLEP  I+
Sbjct: 196 SVTAEPTEIVIVTIVPLEPTEIV 218

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  209 bits (531), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 106/205 (51%), Positives = 137/205 (66%), Gaps = 5/205 (2%)

Query: 15  FLGKFQSRKLLIQNP--HNQEPITAAPPT--YPAKSCLHSNVVAVLSFLICSLICSLGFH 70
           FLG F SRKLL+ +P  HN   + A  P+     ++ L  NV+ +LS LIC +IC LG H
Sbjct: 17  FLGDFVSRKLLLHDPFDHNSLRVLAVAPSPLITHENNLRGNVLMLLSVLICGIICCLGLH 76

Query: 71  FLLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTECV 129
           ++++C F R SR + SE  ++  T  G S  GIKKKALR FPVV+YS E+ LPGL  ECV
Sbjct: 77  YIIRCAFRRSSRFMISEPISSLPTPRGSSDKGIKKKALRMFPVVSYSREMNLPGLGEECV 136

Query: 130 ICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSS 189
           ICLS+F+ GE++R+LP CNHGFHVRCIDKWLR H +CPKCR CL+ETC+ I+G    + S
Sbjct: 137 ICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLRQHLTCPKCRHCLVETCQKILGDFSQADS 196

Query: 190 RHSVPETLTTVSIRPLEPHGIIRNY 214
             + P     V I PLEP G +  +
Sbjct: 197 MAATPTESVIVRIAPLEPEGRVNTF 221

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7770353|gb|AAF69723.1|AC016041_28 F27J15.2 [Arabidopsis thaliana]

 Score =  208 bits (530), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 107/203 (52%), Positives = 139/203 (68%), Gaps = 5/203 (2%)

Query: 14  DFLGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVLSFLICSLICSLGF 69
            FLG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +LS LIC +IC LG 
Sbjct: 16  QFLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILICGIICCLGL 75

Query: 70  HFLLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTEC 128
           H++++C   R +R + SE   +  +T G S+ GIKKKALR FPVV+YS E+ LPGLD EC
Sbjct: 76  HYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNLPGLDEEC 135

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
           VICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + 
Sbjct: 136 VICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKILGDFSQAD 195

Query: 189 SRHSVPETLTTVSIRPLEPHGII 211
           S  + P  +  V+I PLEP  I+
Sbjct: 196 SVTAEPTEIVIVTIVPLEPTEIV 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 =  203 bits (516), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 109/217 (50%), Positives = 146/217 (67%), Gaps = 18/217 (8%)

Query: 12  LPDFLGKFQSRKLLIQNPHNQEP-------ITAAPPTYPAKSCLHSNVVAVLSFLICSLI 64
           L + +  F SR+LL+ + ++  P        +    +Y       +NVV VLS L+C+LI
Sbjct: 12  LHELVENFHSRRLLLHSSNSANPPISTSIHDSTKESSYAGDGNFDANVVMVLSVLLCALI 71

Query: 65  CSLGFHFLLKCVFIRCSRL--LDSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLP 122
           CSL  + +++C  ++CS L  +  + +AN++     ++GIKKKAL+ F  V+YS ELKLP
Sbjct: 72  CSLCLNSIIRCA-LKCSNLVVMSGDRSANNIPVRAANTGIKKKALKKFTTVSYSDELKLP 130

Query: 123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVG 182
            LD+ECVICLS F  G++VR+LP CNHGFHVRCIDKWL SHSSCPKCR+CLIETC  IVG
Sbjct: 131 SLDSECVICLSEFTNGDKVRLLPKCNHGFHVRCIDKWLSSHSSCPKCRQCLIETCNKIVG 190

Query: 183 STQASSSR-----HSVPETLTTVSIRPLEPHGIIRNY 214
           S Q SSS+       VPET+  V+I PLEP G++RNY
Sbjct: 191 S-QGSSSQPQPMLFPVPETI--VTIAPLEPEGLVRNY 224

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222068|ref|NP_175346.1| RING-H2 finger protein ATL75 [Arabidopsis thaliana] gi|68565250|sp|Q94BY6.1|ATL75_ARATH RecName: Full=RING-H2 finger protein ATL75 gi|14517432|gb|AAK62606.1| At1g49200/F27J15_35 [Arabidopsis thaliana] gi|20147327|gb|AAM10377.1| At1g49200/F27J15_35 [Arabidopsis thaliana] gi|332194283|gb|AEE32404.1| RING-H2 finger protein ATL75 [Arabidopsis thaliana]

 Score =  201 bits (512), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 105/199 (52%), Positives = 131/199 (65%), Gaps = 5/199 (2%)

Query: 16  LGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVLSFLICSLICSLGFHF 71
           LG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +LS LIC +IC LG H+
Sbjct: 19  LGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVLMLLSVLICGIICCLGLHY 78

Query: 72  LLKCVFIRCSRLLDSESNANSLTTSGKSS-GIKKKALRNFPVVNYSTELKLPGLDTECVI 130
           +++C F R S  + SE  A   T  G S+ GI KKALR FPVV+YS E+ LPGL  ECVI
Sbjct: 79  IIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPEMNLPGLGEECVI 138

Query: 131 CLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSR 190
           CLS+F+ GE++RMLP C+HGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    +   
Sbjct: 139 CLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQKILGDFSQADQV 198

Query: 191 HSVPETLTTVSIRPLEPHG 209
            + P     V I PLEP G
Sbjct: 199 AATPTASVIVRIAPLEPEG 217

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7770352|gb|AAF69722.1|AC016041_27 F27J15.3 [Arabidopsis thaliana]

 Score =  201 bits (512), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 103/206 (50%), Positives = 137/206 (66%), Gaps = 5/206 (2%)

Query: 14  DFLGKFQSRKLLIQNP--HNQEPITAAPPT--YPAKSCLHSNVVAVLSFLICSLICSLGF 69
            FLG F +RKLL+ +P  HN   + A  P+     ++ L  NV+ +LS LIC +IC LG 
Sbjct: 110 QFLGSFVTRKLLLHDPFDHNSLRVFAVAPSPLITHENNLKGNVLMLLSVLICGIICCLGL 169

Query: 70  HFLLKCVFIRCSRLLDSES-NANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTEC 128
           H++++C F R SR + SE  ++ S   S  + GIKKKALR FPVV+YS E+ LPG+  EC
Sbjct: 170 HYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSYSREMNLPGIGEEC 229

Query: 129 VICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASS 188
           VICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + 
Sbjct: 230 VICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVETCQKILGDFSQAD 289

Query: 189 SRHSVPETLTTVSIRPLEPHGIIRNY 214
           S  S P     V I PLEP G +  +
Sbjct: 290 SMASTPTESVIVRIDPLEPEGRVNTF 315

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	218
TAIR|locus:2028506	251	AT1G49220 [Arabidopsis thalian	0.903	0.784	0.450	8.6e-45
TAIR|locus:2028436	219	AT1G49230 [Arabidopsis thalian	0.944	0.940	0.447	1.9e-42
TAIR|locus:2028406	225	AT1G49210 [Arabidopsis thalian	0.917	0.888	0.439	4e-42
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.889	0.858	0.452	3.6e-41
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.949	0.940	0.380	4.4e-36
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.477	0.590	0.472	5.5e-22
TAIR|locus:2181032	159	DAFL2 "DAF-Like gene 2" [Arabi	0.577	0.792	0.407	8e-21
TAIR|locus:2011686	185	ATL8 [Arabidopsis thaliana (ta	0.756	0.891	0.308	4e-19
TAIR|locus:2103162	181	DAFL1 "DAF-Like gene 1" [Arabi	0.683	0.823	0.354	1.7e-18
TAIR|locus:2825708	197	AT1G20823 [Arabidopsis thalian	0.747	0.827	0.317	1.2e-17

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

 Score = 447 (162.4 bits), Expect = 8.6e-45, Sum P(2) = 8.6e-45
 Identities = 91/202 (45%), Positives = 120/202 (59%)

Query:    15 FLGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVXXXXXXXXXXXXGFH 70
             FLG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +            G H
Sbjct:    17 FLGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVMMLLSILICGIICCLGLH 76

Query:    71 FLLKCVFIRCSRLLDSESNANXXXXXXXXXXXXXX-ALRNFPVVNYSTELKLPGLDTECV 129
             ++++C   R +R + SE   +               ALR FPVV+YS E+ LPGLD ECV
Sbjct:    77 YIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNLPGLDEECV 136

Query:   130 ICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSS 189
             ICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + S
Sbjct:   137 ICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQKILGDFSQADS 196

Query:   190 RHSVPETLTTVSIRPLEPHGII 211
               + P  +  V+I PLEP  I+
Sbjct:   197 VTAEPTEIVIVTIVPLEPTEIV 218

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

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

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 94/210 (44%), Positives = 121/210 (57%)

Query:     4 SSLLSTKHLPDFLGKFQSRKLLIQNPHNQEPITAAPPTYPAKSCLHSNVVAVXXXXXXXX 63
             S++  T+   + LG   SRKLL    H+Q P T AP  Y   +   +NVV V        
Sbjct:    10 STIKPTEIFQEILGSSYSRKLLFHT-HDQSP-TPAPSPYVGDNNFDANVVMVLSVLLCAL 67

Query:    64 XXXXGFHFLLKCVFIRCSRLLDSESNANXXXXXXXXXXXXXXALRNFPVVNYSTELKLPG 123
                 G + +++C  +RCS L+ SE+  +              AL++F  V+YSTEL LPG
Sbjct:    68 VCSLGLNSIIRCA-LRCSNLVPSEAGGDNYPVRLTNTGVKRKALKSFQTVSYSTELNLPG 126

Query:   124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGS 183
             LDTEC ICLS F+  ERV++LP C+HGFHVRCIDKWL SHSSCP CR CLI+TCE I   
Sbjct:   127 LDTECAICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSSHSSCPTCRHCLIQTCEKIADC 186

Query:   184 TQASSSRHSVP-ETLTTVSIRPLEPHGIIR 212
             +Q SS   + P +    + I PLEP   IR
Sbjct:   187 SQTSSLNSTQPPQDSIILQIAPLEPERWIR 216

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

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

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 90/205 (43%), Positives = 121/205 (59%)

Query:    15 FLGKFQSRKLLIQNP--HNQEPITA-AP-PTYPAKSCLHSNVVAVXXXXXXXXXXXXGFH 70
             FLG F +RKLL+ +P  HN   + A AP P    ++ L  NV+ +            G H
Sbjct:    17 FLGSFVTRKLLLHDPFDHNSLRVFAVAPSPLITHENNLKGNVLMLLSVLICGIICCLGLH 76

Query:    71 FLLKCVFIRCSRLLDSESNANXXX-XXXXXXXXXXXALRNFPVVNYSTELKLPGLDTECV 129
             ++++C F R SR + SE  ++               ALR FPVV+YS E+ LPG+  ECV
Sbjct:    77 YIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSYSREMNLPGIGEECV 136

Query:   130 ICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSS 189
             ICLS+F+ GE++R+LP CNHGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    + S
Sbjct:   137 ICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVETCQKILGDFSQADS 196

Query:   190 RHSVPETLTTVSIRPLEPHGIIRNY 214
               S P     V I PLEP G +  +
Sbjct:   197 MASTPTESVIVRIDPLEPEGRVNTF 221

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

 Score = 437 (158.9 bits), Expect = 3.6e-41, P = 3.6e-41
 Identities = 90/199 (45%), Positives = 114/199 (57%)

Query:    16 LGKFQSRKLLIQNP--HN-QEPITAAP-PTYPAKSCLHSNVVAVXXXXXXXXXXXXGFHF 71
             LG F SRKLL+ NP  HN Q     AP P    ++ L  NV+ +            G H+
Sbjct:    19 LGGFVSRKLLLHNPFDHNTQRAFAVAPSPLITHENNLSGNVLMLLSVLICGIICCLGLHY 78

Query:    72 LLKCVFIRCSRLLDSESNANXXXX-XXXXXXXXXXALRNFPVVNYSTELKLPGLDTECVI 130
             +++C F R S  + SE  A                ALR FPVV+YS E+ LPGL  ECVI
Sbjct:    79 IIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPEMNLPGLGEECVI 138

Query:   131 CLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSR 190
             CLS+F+ GE++RMLP C+HGFHVRCIDKWL+ H +CPKCR CL+ETC+ I+G    +   
Sbjct:   139 CLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQKILGDFSQADQV 198

Query:   191 HSVPETLTTVSIRPLEPHG 209
              + P     V I PLEP G
Sbjct:   199 AATPTASVIVRIAPLEPEG 217

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

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

 Score = 389 (142.0 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 83/218 (38%), Positives = 116/218 (53%)

Query:     1 MPTSSLLSTKHLPDFLGKFQSRKLLIQNP--HNQEPITAAPPTYPAKSCLHSNVVAVXXX 58
             +P+SS  S      F+  F SRKLL Q P  HN     A     P K+ L  NV+ +   
Sbjct:     6 LPSSS--SQVFQEHFIDSFVSRKLLQQIPFAHN-----AQQAHVPDKNNLSGNVLMLLSI 58

Query:    59 XXXXXXXXXGFHFLLKCVFIRCSRLLDSE--SNANXXXXXXXXXXXXXXALRNFPVVNYS 116
                      G H++++C FIR    + S+  S  +              AL+  PVVNYS
Sbjct:    59 LLCGIICSLGLHYIIRCAFIRSRSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYS 118

Query:   117 TELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET 176
              E+ LPG+  ECVICLS+F+ GE++R+LP CNHGFH+RCIDKWL  H +CPKCR CL++T
Sbjct:   119 PEINLPGVGEECVICLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCRHCLVDT 178

Query:   177 CENIVGSTQASSSRHSVPETLTTVSIRPLEPHGIIRNY 214
             C+ ++    A+    +       + I PLEP   +  +
Sbjct:   179 CQKVLSDCDAADQVAATATESIDIRISPLEPEARVATF 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 = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 51/108 (47%), Positives = 67/108 (62%)

Query:    68 GFHFLLKCVFIRCSRLLDSESNANXXXXXXXXXXXXXXALRNFPVVNYSTELKLPGLDTE 127
             G + +L+CV +RC+R      +                AL+  PV +YS ELK+    TE
Sbjct:    57 GINSVLRCV-LRCTRRFTPNEDP-VDTNANVAKGIKKRALKVIPVDSYSPELKMKA--TE 112

Query:   128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE 175
             C+ICL +F+ GE VR+LP CNHGFHV+CID WL SHSSCP CR+ L+E
Sbjct:   113 CLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCRQSLLE 160

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

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

 Score = 245 (91.3 bits), Expect = 8.0e-21, P = 8.0e-21
 Identities = 55/135 (40%), Positives = 70/135 (51%)

Query:    50 SNVVAVXXXXXXXXXXXXGFHFLLKCVFIRCSRLLDSESNANXXXXXXXXXXXXXXALRN 109
             +N+V +            G + +L+C  +RC   L S + A                L+ 
Sbjct:    32 ANMVIILAALLCALILALGLNSILRCA-MRCGFGLSSSAAAGTVADRAGLKKRE---LKK 87

Query:   110 FPVVNY-STELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPK 168
             FPV  Y S E+K+    TEC ICL  F  GERVR+LP CNH FH+ CID WL SHSSCP 
Sbjct:    88 FPVAEYGSGEVKIAA--TECAICLGEFADGERVRVLPPCNHSFHMSCIDTWLVSHSSCPN 145

Query:   169 CRRCLIETCENIVGS 183
             CR  LIE   ++ GS
Sbjct:   146 CRHSLIEV--HVAGS 158

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

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

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 53/172 (30%), Positives = 78/172 (45%)

Query:    25 LIQNPHNQEPITAAPPTYPAKSCLHSNVVAVXXXXXXXXXXXXGFHFLLKCVFIRCSRLL 84
             L+Q  ++  P  A+PP        +S++V +            G   + +C ++R     
Sbjct:     8 LLQEANSTSPAEASPP-------FNSDLVLILAVLLCALTCIIGLIAVSRCAWLRRIASR 60

Query:    85 DSESNANXXXXXXXXXXXXXXALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRML 144
             +     +               LR+ P + YS +        EC ICL+ F  G+ +R+L
Sbjct:    61 NRSDQTHPPPVAAANKGLKKKVLRSLPKLTYSPDSPPAEKLVECAICLTEFAAGDELRVL 120

Query:   145 PICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQASSSRHSVPET 196
             P C HGFHV CID WL SHSSCP CR+ L+ T  +  G    SSS    P+T
Sbjct:   121 PQCGHGFHVSCIDTWLGSHSSCPSCRQILVVTRCHKCGGLPGSSSSGPEPDT 172

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

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 57/161 (35%), Positives = 79/161 (49%)

Query:    23 KLLIQNPHNQEPITAAPPTYPA--KSCLHSNVVAVXXXXXXXXXXXXGFHFLLKCVFIRC 80
             +LL++ P    P  A P        +   +N+V +              +  L+CV +R 
Sbjct:     3 RLLLE-PQANAPANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV-LRI 60

Query:    81 SRLLDSE------SNANXXXXXXXXXXXXXX-ALRNFPVVNYSTELKLPGLDTECVICLS 133
             +R   S+      SNAN               AL+  PV  Y + + +    TEC+ICL 
Sbjct:    61 TRRFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGI-IDMKATECLICLG 119

Query:   134 NFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
             +F  GE+VR+LP CNHGFHVRCID 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:2825708 AT1G20823 [Arabidopsis thaliana (taxid:3702)]

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 54/170 (31%), Positives = 81/170 (47%)

Query:    33 EPITAAPPTYPAKSCLHSNVVAVXXXXXXXXXXXXGFHFLLKCVFIRC----SRLLD-SE 87
             E  T +P    + + L+S++V +            G   + +CV++R     +R +  S+
Sbjct:    11 ESNTPSPAIDNSTAALNSDLVVILAALLCALICVLGLIAVSRCVWLRRLAAGNRTVSGSQ 70

Query:    88 SNANXXXXXXXXXXXXXXALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPIC 147
             + +                L++ P + +S E        EC ICL+ F  G+ +R+LP C
Sbjct:    71 TQSPQPPVAAANKGLKKKVLQSLPKLTFSPESPESEKFAECAICLAEFSAGDELRVLPQC 130

Query:   148 NHGFHVRCIDKWLRSHSSCPKCRRCLIET-CENIVGSTQASSSR-HSVPE 195
              HGFHV CID WL SHSSCP CR+ L+   C    G   +SSS   S PE
Sbjct:   131 GHGFHVACIDTWLGSHSSCPSCRQILVVARCHKCGGLPGSSSSGLESEPE 180

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	0.5270	0.9082	0.7888	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	1e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	5e-08
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	7e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-05
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	8e-05
smart00184	40	smart00184, RING, Ring finger	3e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	6e-04
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.003

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

 Score = 60.1 bits (146), Expect = 1e-12
 Identities = 27/45 (60%), Positives = 31/45 (68%), Gaps = 1/45 (2%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           EC ICL  F PGE V +LP 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 = 65.0 bits (158), Expect = 2e-12
 Identities = 26/45 (57%), Positives = 34/45 (75%), Gaps = 2/45 (4%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCR 170
           EC IC+SNF+  +R+R+LP C+H FHV C+DKWL  +S  CP CR
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

>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 = 49.4 bits (118), Expect = 9e-09
 Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCL 173
           EC ICL  F       +L  C H F   CIDKWL+S  ++CP CR  +
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 48.2 bits (115), Expect = 5e-08
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 9/55 (16%)

Query: 125 DTECVICLSNF--------LPG-ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           D  C IC ++F         PG +   +   C H FH+ CI +WL++ ++CP CR
Sbjct: 19  DDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 49.8 bits (119), Expect = 2e-07
 Identities = 26/72 (36%), Positives = 35/72 (48%), Gaps = 5/72 (6%)

Query: 104 KKALRNFP-VVNYSTELKLPGLDTECVICLSNFLPGERVRM----LPICNHGFHVRCIDK 158
           KK L+  P V++   +L     D EC IC+      E   M    L  CNH F + CID 
Sbjct: 152 KKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDI 211

Query: 159 WLRSHSSCPKCR 170
           W +  ++CP CR
Sbjct: 212 WKKEKNTCPVCR 223

Length = 238

>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 = 42.9 bits (101), Expect = 7e-06
 Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 128 CVICLSNFLPG-ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           C  C     PG E   +  +CNH FH  CI +WL +   CP  R+
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQ 78

Length = 88

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

 Score = 44.7 bits (105), Expect = 2e-05
 Identities = 21/52 (40%), Positives = 25/52 (48%), Gaps = 11/52 (21%)

Query: 127  ECVICLS------NFLPGERVRMLPICNHGFHVRCIDKWLRS--HSSCPKCR 170
            EC IC S        LP +R      C + FH RC+ KW  S   S+CP CR
Sbjct: 1471 ECAICYSVLDMVDRSLPSKRC---ATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

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

 Score = 38.6 bits (90), Expect = 8e-05
 Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           + EC ICL          +L  C H F   CI ++L+  S CP CR 
Sbjct: 2   ELECPICLDLL---RDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 37.1 bits (86), Expect = 3e-04
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKC 169
           C ICL  +L  +   +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|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 39.7 bits (92), Expect = 6e-04
 Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 6/52 (11%)

Query: 121 LPGLDT--ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           L GLD+   C IC         +     C H F   CI + L +   CP CR
Sbjct: 19  LKGLDSMLRCRICDCRI----SIPCETTCGHTFCSLCIRRHLGTQPFCPVCR 66

Length = 391

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

 Score = 37.7 bits (87), Expect = 0.003
 Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 6/52 (11%)

Query: 121 LPGLDT--ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           L  LDT   C IC   F     V +L  C+H F   CI + L +   CP CR
Sbjct: 20  LYPLDTSLRCHICKDFF----DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCR 67

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

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	99.85
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.66
PHA02929	238	N1R/p28-like protein; Provisional	99.46
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.46
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.44
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.39
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.15
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.14
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.1
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.1
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.1
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.09
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.07
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.98
PF14634	44	zf-RING_5: zinc-RING finger domain	98.97
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.96
PHA02926	242	zinc finger-like protein; Provisional	98.95
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.92
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.87
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.86
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.77
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.77
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.7
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.63
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.62
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.59
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.56
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.47
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.44
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.33
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.28
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.26
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.17
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.11
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.09
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.08
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.04
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.0
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.99
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.85
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.84
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.79
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.62
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.51
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.4
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.36
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.32
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.2
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.17
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.01
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.98
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.93
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.9
PHA02862	156	5L protein; Provisional	96.73
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.68
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.66
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.46
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.36
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.26
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.21
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.2
PHA03096	284	p28-like protein; Provisional	96.18
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.87
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.87
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.85
KOG2660	331	consensus Locus-specific chromosome binding protei	95.85
COG5152	259	Uncharacterized conserved protein, contains RING a	95.74
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.65
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.62
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.34
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.33
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.2
KOG4739	233	consensus Uncharacterized protein involved in syna	95.14
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.65
KOG1940	276	consensus Zn-finger protein [General function pred	94.65
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.38
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.3
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.0
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.76
PF04641	260	Rtf2: Rtf2 RING-finger	93.7
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.54
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.47
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	93.34
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.23
KOG3053	293	consensus Uncharacterized conserved protein [Funct	92.8
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.54
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.41
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.38
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.85
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.33
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.14
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.91
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	89.85
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	89.4
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	88.96
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	87.62
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.53
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.21
KOG0825	1134	consensus PHD Zn-finger protein [General function	85.1
KOG3899	381	consensus Uncharacterized conserved protein [Funct	84.88
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.75
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	84.06
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	83.59
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	83.29
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	82.91
KOG3799	169	consensus Rab3 effector RIM1 and related proteins,	81.93
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	81.6
KOG3002	299	consensus Zn finger protein [General function pred	80.27

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

Probab=99.85  E-value=2.8e-21  Score=168.02  Aligned_cols=78  Identities=33%  Similarity=0.828  Sum_probs=66.9

Q ss_pred             CCccHHHHhcCCceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC-CCCcccccccccccc
Q 027813          100 SGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH-SSCPKCRRCLIETCE  178 (218)
Q Consensus       100 ~~~~~~~i~~lp~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~~~~  178 (218)
                      .++.+..++++|...|......... ..|+||||+|+.||.+|+|| |+|.||..|||+||..+ ..||+|++++....+
T Consensus       205 ~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             hhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            4577888999999999886554444 79999999999999999999 99999999999999776 459999998876644


Q ss_pred             c
Q 027813          179 N  179 (218)
Q Consensus       179 ~  179 (218)
                      .
T Consensus       283 ~  283 (348)
T KOG4628|consen  283 S  283 (348)
T ss_pred             C
Confidence            4

>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=99.66  E-value=3.3e-17  Score=102.58  Aligned_cols=44  Identities=55%  Similarity=1.234  Sum_probs=40.6

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            47999999999999999999 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.46  E-value=4.6e-14  Score=118.06  Aligned_cols=76  Identities=34%  Similarity=0.642  Sum_probs=58.0

Q ss_pred             CCCccHHHHhcCCceeeccCCC-CCCCCcccccccccccCCC----ceEEcCCCCcccChHHHHHHHhcCCCCccccccc
Q 027813           99 SSGIKKKALRNFPVVNYSTELK-LPGLDTECVICLSNFLPGE----RVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL  173 (218)
Q Consensus        99 ~~~~~~~~i~~lp~~~~~~~~~-~~~~~~~CaICle~f~~~~----~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  173 (218)
                      .++..+..++.+|.+....+.. ....+.+|+||++.+...+    .+.+++.|+|.||.+||..|++.+.+||+||..+
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            3455778888999887654322 2344689999999987643    1334545999999999999999999999999977


Q ss_pred             c
Q 027813          174 I  174 (218)
Q Consensus       174 ~  174 (218)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            6

>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=99.46  E-value=5.8e-14  Score=97.27  Aligned_cols=46  Identities=37%  Similarity=0.923  Sum_probs=36.2

Q ss_pred             CCcccccccccccCC----------CceEEcCCCCcccChHHHHHHHhcCCCCcccc
Q 027813          124 LDTECVICLSNFLPG----------ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       124 ~~~~CaICle~f~~~----------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  170 (218)
                      .++.|+||+++|.+.          -.+...+ |||.||.+||.+||+.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            345799999999322          2344456 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 ....

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

Probab=99.44  E-value=5.1e-14  Score=119.20  Aligned_cols=52  Identities=48%  Similarity=1.149  Sum_probs=46.9

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-cCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~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            34479999999999999999999 999999999999998 46679999998865

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

Probab=99.39  E-value=6.5e-13  Score=115.29  Aligned_cols=66  Identities=33%  Similarity=0.841  Sum_probs=50.8

Q ss_pred             HHHhcCCceeeccCCCCCCCCccccccccc-ccCC---------CceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          105 KALRNFPVVNYSTELKLPGLDTECVICLSN-FLPG---------ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       105 ~~i~~lp~~~~~~~~~~~~~~~~CaICle~-f~~~---------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      ..-+.+|++...   +...+|..|.||+++ |..+         .+.+.|| |||+||-+|+..|++++++||+||.+++
T Consensus       270 dl~~~~~t~t~e---ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         270 DLNAMYPTATEE---QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             HHHhhcchhhhh---hhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            334445654433   335677899999999 5544         2457899 9999999999999999999999999944

>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=99.15  E-value=3.6e-11  Score=74.13  Aligned_cols=44  Identities=55%  Similarity=1.201  Sum_probs=37.3

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCL  173 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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  34566666 9999999999999987 77899998764

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

Probab=99.14  E-value=3.7e-11  Score=77.03  Aligned_cols=46  Identities=39%  Similarity=0.873  Sum_probs=39.5

Q ss_pred             CcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCcccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~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   77889 9999 999999999999999999999875

...

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

Probab=99.10  E-value=1.2e-10  Score=98.57  Aligned_cols=51  Identities=31%  Similarity=0.734  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            4556799999998654   55788 999999999999999999999999988765

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

Probab=99.10  E-value=7.9e-11  Score=71.60  Aligned_cols=39  Identities=41%  Similarity=1.037  Sum_probs=33.0

Q ss_pred             cccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccc
Q 027813          128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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  446777 99999999999999998899998

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.10  E-value=1.6e-10  Score=93.39  Aligned_cols=50  Identities=34%  Similarity=0.717  Sum_probs=40.2

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc----------------CCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS----------------HSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~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            345799999998854   44577 9999999999999852                34799999988654

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

Probab=99.09  E-value=7.3e-11  Score=83.06  Aligned_cols=52  Identities=38%  Similarity=0.813  Sum_probs=40.1

Q ss_pred             CCccccccccccc--------CCCc-eEEcCCCCcccChHHHHHHHhc---CCCCccccccccc
Q 027813          124 LDTECVICLSNFL--------PGER-VRMLPICNHGFHVRCIDKWLRS---HSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~--------~~~~-vr~lp~C~H~FH~~CI~~Wl~~---~~~CP~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            4679999999996        2333 2344459999999999999975   4679999997653

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

Probab=99.07  E-value=1.8e-10  Score=94.67  Aligned_cols=51  Identities=29%  Similarity=0.623  Sum_probs=40.3

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC---CCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH---SSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~l~~~  176 (218)
                      ++...+|.|||+.-++  .| ++. |||.||+-||.+||..+   +.||+|+..+...
T Consensus        44 ~~~~FdCNICLd~akd--PV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD--PV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCCceeeeeeccccCC--CE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            4667899999998433  44 445 99999999999999763   4599999877665

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

Probab=98.98  E-value=2.2e-10  Score=107.16  Aligned_cols=53  Identities=36%  Similarity=0.912  Sum_probs=46.6

Q ss_pred             CCCcccccccccccCCCc--eEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGER--VRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~--vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ..+..|+||+|++..++.  .+.++ |+|+||..|+..|++++++||.||..+...
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~  343 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY  343 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence            446899999999988765  67899 999999999999999999999999955544

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.97  E-value=4.4e-10  Score=70.15  Aligned_cols=44  Identities=32%  Similarity=0.824  Sum_probs=38.6

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR  171 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            5999999996666788888 9999999999999866778999985

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

Probab=98.96  E-value=3.5e-10  Score=77.84  Aligned_cols=51  Identities=33%  Similarity=0.846  Sum_probs=39.1

Q ss_pred             cccccccccc-----------cCCCce-EEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          126 TECVICLSNF-----------LPGERV-RMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       126 ~~CaICle~f-----------~~~~~v-r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      +.|+||...|           ..+++. ...-.|+|.||.+||.+||..+..||++|+..+-.
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            5777777766           234433 23333999999999999999999999999987644

>PHA02926 zinc finger-like protein; Provisional

Probab=98.95  E-value=4.3e-10  Score=92.05  Aligned_cols=52  Identities=33%  Similarity=0.782  Sum_probs=39.4

Q ss_pred             CCCcccccccccccCC----C-ceEEcCCCCcccChHHHHHHHhcC------CCCcccccccc
Q 027813          123 GLDTECVICLSNFLPG----E-RVRMLPICNHGFHVRCIDKWLRSH------SSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~----~-~vr~lp~C~H~FH~~CI~~Wl~~~------~~CP~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            4458999999986332    1 234566699999999999999753      35999998754

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

Probab=98.92  E-value=7.4e-10  Score=87.64  Aligned_cols=53  Identities=26%  Similarity=0.599  Sum_probs=43.6

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ...-..|+|||+.|.+...  +-.+|||+|+++||..-++....||+||+.+..+
T Consensus       128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             cccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            3445789999999977433  4344999999999999999999999999877654

>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=98.87  E-value=1.4e-09  Score=66.64  Aligned_cols=39  Identities=46%  Similarity=1.119  Sum_probs=33.2

Q ss_pred             cccccccccCCCceEEcCCCCcccChHHHHHHHh--cCCCCccc
Q 027813          128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR--SHSSCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~~CP~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            89999998663  35788 999999999999998  45679998

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

>smart00184 RING Ring finger

Probab=98.86  E-value=2e-09  Score=63.93  Aligned_cols=38  Identities=45%  Similarity=1.180  Sum_probs=32.4

Q ss_pred             cccccccccCCCceEEcCCCCcccChHHHHHHHh-cCCCCccc
Q 027813          128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~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            78999883   4477788 999999999999998 56679987

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)

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

Probab=98.77  E-value=5.6e-09  Score=64.46  Aligned_cols=38  Identities=39%  Similarity=0.968  Sum_probs=29.2

Q ss_pred             cccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccc
Q 027813          128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~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            8999999976   66788 99999999999999663    359987

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

Probab=98.77  E-value=1.1e-09  Score=74.73  Aligned_cols=52  Identities=37%  Similarity=0.797  Sum_probs=39.3

Q ss_pred             CCCcccccccccccC--------CCc-eEEcCCCCcccChHHHHHHHhc---CCCCcccccccc
Q 027813          123 GLDTECVICLSNFLP--------GER-VRMLPICNHGFHVRCIDKWLRS---HSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~--------~~~-vr~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~  174 (218)
                      ..++.|-||.-.|..        ||. ..++-.|.|.||.+||.+|+..   +..||+||+...
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            445689999998842        333 3345569999999999999965   445999999764

>smart00504 Ubox Modified RING finger domain

Probab=98.70  E-value=1.8e-08  Score=67.21  Aligned_cols=45  Identities=31%  Similarity=0.506  Sum_probs=39.1

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            469999999866   34677 9999999999999998889999998774

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

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

Probab=98.63  E-value=7.5e-09  Score=86.80  Aligned_cols=51  Identities=29%  Similarity=0.632  Sum_probs=42.0

Q ss_pred             CCCcccccccccccCCC-------ceEEcCCCCcccChHHHHHHH--hcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGE-------RVRMLPICNHGFHVRCIDKWL--RSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~-------~vr~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~l~  174 (218)
                      -++..|+||-..+....       +...|. |+|+||..||.-|-  .++++||.|+..+.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            45679999999886654       567788 99999999999995  56889999976554

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

Probab=98.62  E-value=1.4e-08  Score=73.37  Aligned_cols=52  Identities=29%  Similarity=0.782  Sum_probs=38.3

Q ss_pred             CCCccccccccccc------------CCCce-EEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFL------------PGERV-RMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~------------~~~~v-r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      -.-+.|+||...+-            ..++. ...--|+|.||.+||.+||+.+..||+|.++-+
T Consensus        44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            34578999987661            12222 233349999999999999999999999977543

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

Probab=98.62  E-value=4.3e-08  Score=88.27  Aligned_cols=50  Identities=32%  Similarity=0.796  Sum_probs=39.0

Q ss_pred             CcccccccccccCC---Cc-----------eEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          125 DTECVICLSNFLPG---ER-----------VRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~---~~-----------vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            46899999987421   11           23458 9999999999999985 5589999998864

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.59  E-value=2.9e-08  Score=88.93  Aligned_cols=49  Identities=31%  Similarity=0.602  Sum_probs=41.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            345799999999855   34677 99999999999999988889999987654

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=98.56  E-value=5.4e-08  Score=62.06  Aligned_cols=42  Identities=24%  Similarity=0.711  Sum_probs=32.8

Q ss_pred             ccccccccccCCCceEEcCCCC-----cccChHHHHHHHhc--CCCCcccc
Q 027813          127 ECVICLSNFLPGERVRMLPICN-----HGFHVRCIDKWLRS--HSSCPKCR  170 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR  170 (218)
                      .|.||++ +..++...+.| |.     |.+|..|+..|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 44444555788 85     99999999999955  44799995

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

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

Probab=98.47  E-value=1.1e-07  Score=58.85  Aligned_cols=38  Identities=37%  Similarity=0.814  Sum_probs=22.7

Q ss_pred             cccccccccCCC-ceEEcCCCCcccChHHHHHHHhcC----CCCc
Q 027813          128 CVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLRSH----SSCP  167 (218)
Q Consensus       128 CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP  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 86544 457799 99999999999999754    2476

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

Probab=98.44  E-value=9.6e-08  Score=80.12  Aligned_cols=51  Identities=27%  Similarity=0.626  Sum_probs=41.9

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHH-HHhcCCC-Cccccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDK-WLRSHSS-CPKCRRCLIETC  177 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~~  177 (218)
                      ..+..|+||++....   ...++ |||+|+..||.. |-+++.- ||+||+...++.
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            456799999998654   55678 999999999999 9877665 999999877653

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

Probab=98.33  E-value=1.1e-07  Score=65.14  Aligned_cols=51  Identities=31%  Similarity=0.704  Sum_probs=24.2

Q ss_pred             CcccccccccccCCC-ce-EEc--CCCCcccChHHHHHHHhc----C-------CCCccccccccc
Q 027813          125 DTECVICLSNFLPGE-RV-RML--PICNHGFHVRCIDKWLRS----H-------SSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~-~v-r~l--p~C~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~~  175 (218)
                      +.+|.||++.+..++ .. .+-  +.|++.||..|+..||+.    +       ..||.|+..+.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            368999999876333 22 222  359999999999999953    1       149999988753

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

Probab=98.28  E-value=1.5e-07  Score=90.37  Aligned_cols=52  Identities=37%  Similarity=0.791  Sum_probs=38.3

Q ss_pred             CCCcccccccccccCCCc---eEEcCCCCcccChHHHHHHHhc--CCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGER---VRMLPICNHGFHVRCIDKWLRS--HSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~---vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  174 (218)
                      .+.++||||......-|.   -...+.|+|.||..|+..|++.  +.+||+||.++.
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            355899999988763221   1122339999999999999976  567999998764

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

Probab=98.26  E-value=3.3e-07  Score=81.88  Aligned_cols=50  Identities=36%  Similarity=0.820  Sum_probs=39.9

Q ss_pred             CCCcccccccccccCCC-ceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      .+..+|+||||.+...- .++... |.|.||..|+..|  ...+||+||....+
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~p  223 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQSP  223 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcCc
Confidence            34579999999997654 334445 9999999999999  56789999987763

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

Probab=98.19  E-value=8.5e-07  Score=80.58  Aligned_cols=48  Identities=31%  Similarity=0.569  Sum_probs=37.6

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-----CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-----HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~~  176 (218)
                      +..|+|||++...   ...+. |||+||..||-+++..     ...||+||..+-..
T Consensus       186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            6799999998644   22334 9999999999998854     34699999988764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.17  E-value=1.4e-06  Score=75.38  Aligned_cols=51  Identities=24%  Similarity=0.527  Sum_probs=37.5

Q ss_pred             CcccccccccccCCCc--eEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGER--VRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~--vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            4589999996333333  33335 9999999999996644 55799999887755

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).

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

Probab=98.11  E-value=1.2e-06  Score=77.10  Aligned_cols=44  Identities=32%  Similarity=0.929  Sum_probs=33.4

Q ss_pred             cccccccccccCCC-ceEEcCCCCcccChHHHHHHHhc---CCCCcccc
Q 027813          126 TECVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLRS---HSSCPKCR  170 (218)
Q Consensus       126 ~~CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR  170 (218)
                      ..|.|| +++.+.+ .+--.-.|||+||..|+.+|+..   +.+||+|+
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            589999 5555443 44334449999999999999976   34699998

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

Probab=98.09  E-value=1.1e-06  Score=76.26  Aligned_cols=48  Identities=33%  Similarity=0.719  Sum_probs=42.7

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            3589999998866   55778 999999999999999999999999988876

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

Probab=98.08  E-value=3.7e-06  Score=58.06  Aligned_cols=48  Identities=25%  Similarity=0.429  Sum_probs=37.0

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            3589999999866   55788 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 ....

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

Probab=98.04  E-value=3.7e-06  Score=73.49  Aligned_cols=53  Identities=34%  Similarity=0.614  Sum_probs=42.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCccccccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIETCEN  179 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  179 (218)
                      ++..+|.|||.+-.+   ..+|| |.|. .|..|-+.-.-.+..||+||+.+.+.-+-
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i  341 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEI  341 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhee
Confidence            446899999999655   67899 9997 68889888766677899999998876433

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

Probab=98.00  E-value=2.7e-06  Score=72.35  Aligned_cols=50  Identities=28%  Similarity=0.497  Sum_probs=41.7

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETC  177 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  177 (218)
                      ....|-||-+-|..   ...++ |||.||.-||...|..+..||+||.+..+..
T Consensus        24 s~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esr   73 (391)
T COG5432          24 SMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESR   73 (391)
T ss_pred             hHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence            34689999887754   33456 9999999999999999999999999877663

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

Probab=97.99  E-value=2.3e-06  Score=72.30  Aligned_cols=44  Identities=36%  Similarity=0.821  Sum_probs=38.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            4557999999999885   7888 999999999999988556799999

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

Probab=97.99  E-value=4.6e-06  Score=73.91  Aligned_cols=49  Identities=35%  Similarity=0.794  Sum_probs=38.3

Q ss_pred             CCcccccccccccC-CCceEEcCCCCcccChHHHHHHHhc--CCCCcccccc
Q 027813          124 LDTECVICLSNFLP-GERVRMLPICNHGFHVRCIDKWLRS--HSSCPKCRRC  172 (218)
Q Consensus       124 ~~~~CaICle~f~~-~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~  172 (218)
                      ....|+|||++|.. +++..+.++|||.|..+||+.||-+  ...||.|...
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            34689999999964 4555555669999999999999953  3459999654

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

Probab=97.85  E-value=3.2e-06  Score=56.29  Aligned_cols=50  Identities=28%  Similarity=0.520  Sum_probs=23.8

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENI  180 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~  180 (218)
                      -.|++|.+-++.  .+.+.. |.|+|++.||..-+.  ..||+|+.+...++-++
T Consensus         8 LrCs~C~~~l~~--pv~l~~-CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~   57 (65)
T PF14835_consen    8 LRCSICFDILKE--PVCLGG-CEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQI   57 (65)
T ss_dssp             TS-SSS-S--SS---B---S-SS--B-TTTGGGGTT--TB-SSS--B-S-SS---
T ss_pred             cCCcHHHHHhcC--Cceecc-CccHHHHHHhHHhcC--CCCCCcCChHHHHHHHh
Confidence            479999988655  343444 999999999988554  34999999988775443

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

Probab=97.84  E-value=2.9e-06  Score=80.37  Aligned_cols=52  Identities=23%  Similarity=0.443  Sum_probs=43.7

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ....|++||..+.++...-..+ |+|.||.+||+.|-+.-.+||+||..+.+.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            3467999999887776655566 999999999999999999999999877644

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

Probab=97.82  E-value=6.6e-06  Score=67.70  Aligned_cols=58  Identities=21%  Similarity=0.633  Sum_probs=47.9

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc--------CCCCccccccccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--------HSSCPKCRRCLIETCENIV  181 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~~~~~~  181 (218)
                      .+....|..|-..+..+|.+|..  |.|+||++|+++|-..        ...||.|..++++.-..+.
T Consensus        47 sDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlvs  112 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVS  112 (299)
T ss_pred             cCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccc
Confidence            45567899999999999999876  9999999999999754        2359999999987654443

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

Probab=97.79  E-value=6.9e-06  Score=70.19  Aligned_cols=51  Identities=29%  Similarity=0.781  Sum_probs=43.1

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-----------------------CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-----------------------HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----------------------~~~CP~CR~~l~~~  176 (218)
                      ...|.|||--|..++...+++ |.|.||..|+.++|..                       +..||+||..+...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            358999999999999999999 9999999999988730                       12499999988765

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

Probab=97.77  E-value=1.2e-05  Score=70.95  Aligned_cols=51  Identities=39%  Similarity=0.851  Sum_probs=39.0

Q ss_pred             CCCcccccccccccCCC----ceEEcCCCCcccChHHHHHHH--hc-----CCCCccccccc
Q 027813          123 GLDTECVICLSNFLPGE----RVRMLPICNHGFHVRCIDKWL--RS-----HSSCPKCRRCL  173 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~----~vr~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~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            45689999999875533    134567799999999999997  33     35799999743

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

Probab=97.62  E-value=6.3e-06  Score=71.88  Aligned_cols=51  Identities=37%  Similarity=0.683  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIETC  177 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  177 (218)
                      .+..|+|||+-++.   -+..+.|.|-|+.+||..-++. +++||.||+.+....
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            45789999988765   3455669999999999999865 778999999988663

>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=97.51  E-value=3.7e-05  Score=58.73  Aligned_cols=36  Identities=22%  Similarity=0.504  Sum_probs=31.0

Q ss_pred             CCcccccccccccCCCceEEcCCCC------cccChHHHHHHH
Q 027813          124 LDTECVICLSNFLPGERVRMLPICN------HGFHVRCIDKWL  160 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~------H~FH~~CI~~Wl  160 (218)
                      ...+|+||++.+..++.+..++ ||      |+||.+|+.+|-
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            3469999999998877777777 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.

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

Probab=97.40  E-value=0.0001  Score=73.97  Aligned_cols=65  Identities=26%  Similarity=0.613  Sum_probs=49.9

Q ss_pred             cCCceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----------CCCcccccccc
Q 027813          109 NFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----------SSCPKCRRCLI  174 (218)
Q Consensus       109 ~lp~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~  174 (218)
                      -+|-...+++...++.++.|.||+.+--.....+.|. |+|+||-+|...-|.++          -+||+|+..+.
T Consensus      3470 CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            4565555444445678899999999877667778888 99999999998877653          26999988654

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

Probab=97.36  E-value=0.00013  Score=64.79  Aligned_cols=54  Identities=31%  Similarity=0.698  Sum_probs=43.3

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc--CCCCcccccccccccccccCC
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--HSSCPKCRRCLIETCENIVGS  183 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~~~~~  183 (218)
                      .-|-||-|.   +..|++-| |||..|..|+..|-..  .++||.||..+-....-+++.
T Consensus       370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid~  425 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIIDP  425 (563)
T ss_pred             HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccceeeec
Confidence            569999876   34588899 9999999999999744  578999999887665555544

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

Probab=97.32  E-value=7.3e-05  Score=58.64  Aligned_cols=42  Identities=33%  Similarity=0.757  Sum_probs=33.3

Q ss_pred             CceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChH
Q 027813          111 PVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVR  154 (218)
Q Consensus       111 p~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~  154 (218)
                      |...|++.. ..+...||.||||++..+|.+-.|| |-.+||+.
T Consensus       164 PrlsYNdDV-L~ddkGECvICLEdL~~GdtIARLP-CLCIYHK~  205 (205)
T KOG0801|consen  164 PRLSYNDDV-LKDDKGECVICLEDLEAGDTIARLP-CLCIYHKQ  205 (205)
T ss_pred             cccccccch-hcccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence            555665432 2345579999999999999999999 99999973

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

Probab=97.30  E-value=0.0001  Score=63.25  Aligned_cols=48  Identities=29%  Similarity=0.505  Sum_probs=38.4

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~  176 (218)
                      ..+|+||+..-.-   ...|+ |+|.|+--||.--.++ ..+|++||.++.+.
T Consensus         7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            4699999987433   34567 9999999999988766 45699999988765

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

Probab=97.30  E-value=6.7e-05  Score=48.21  Aligned_cols=47  Identities=30%  Similarity=0.658  Sum_probs=31.3

Q ss_pred             CcccccccccccCCCceEEcCCCCcc-cChHH-HHHHHhcCCCCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHG-FHVRC-IDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~-FH~~C-I~~Wl~~~~~CP~CR~~l~~  175 (218)
                      +++|.||+|.-.  |.|  |.-|||+ .+-+| +..|-..+..||+||+++.+
T Consensus         7 ~dECTICye~pv--dsV--lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    7 SDECTICYEHPV--DSV--LYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             ccceeeeccCcc--hHH--HHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            379999998733  233  3239998 34445 34444467889999998753

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

Probab=97.20  E-value=9.4e-05  Score=70.34  Aligned_cols=46  Identities=22%  Similarity=0.657  Sum_probs=35.9

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  175 (218)
                      -.|++|-..+++   +.+.. |+|+||..||..-+.. +..||.|...+-.
T Consensus       644 LkCs~Cn~R~Kd---~vI~k-C~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNTRWKD---AVITK-CGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccCchhh---HHHHh-cchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            579999977655   33344 9999999999999855 6679999877643

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

Probab=97.17  E-value=0.00013  Score=64.58  Aligned_cols=45  Identities=40%  Similarity=0.945  Sum_probs=37.5

Q ss_pred             CcccccccccccC-CCceEEcCCCCcccChHHHHHHHhcC--CCCcccc
Q 027813          125 DTECVICLSNFLP-GERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCR  170 (218)
Q Consensus       125 ~~~CaICle~f~~-~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CP~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            3579999988854 35677899 99999999999999775  4699998

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

Probab=97.01  E-value=0.00052  Score=43.20  Aligned_cols=40  Identities=33%  Similarity=0.879  Sum_probs=27.4

Q ss_pred             cccccccccCCCceEEcCCCC-----cccChHHHHHHHhc--CCCCccc
Q 027813          128 CVICLSNFLPGERVRMLPICN-----HGFHVRCIDKWLRS--HSSCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~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            779999877766 33466 74     47899999999964  5679887

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

Probab=96.98  E-value=0.00037  Score=62.83  Aligned_cols=49  Identities=35%  Similarity=0.880  Sum_probs=41.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      ..+.+|.||+.-+..   ...+| |||.|+..||++-+.....||.||..+.+
T Consensus        82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            456799999888765   55678 99999999999987877889999999985

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

Probab=96.93  E-value=0.00057  Score=44.85  Aligned_cols=42  Identities=26%  Similarity=0.592  Sum_probs=27.7

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc--CCCCcc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--HSSCPK  168 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~  168 (218)
                      ....|+|.+..|++  .++-.. |+|.|-++.|..|+++  ...||+
T Consensus        10 ~~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            44689999999865  566556 9999999999999944  345998

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

Probab=96.90  E-value=0.00063  Score=61.47  Aligned_cols=51  Identities=31%  Similarity=0.671  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      +.+..|++|...+.+.  +..+. |||.|+..|+..|+..+..||.|+..+...
T Consensus        19 ~~~l~C~~C~~vl~~p--~~~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDP--VQTTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             cccccCccccccccCC--CCCCC-CCCcccccccchhhccCcCCcccccccchh
Confidence            4567899999987663  22235 999999999999999999999998877655

>PHA02862 5L protein; Provisional

Probab=96.73  E-value=0.001  Score=51.28  Aligned_cols=45  Identities=22%  Similarity=0.533  Sum_probs=34.3

Q ss_pred             cccccccccccCCCceEEcCCCC-----cccChHHHHHHHhc--CCCCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICN-----HGFHVRCIDKWLRS--HSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR~~l~~  175 (218)
                      +.|-||+++-++  .  .-| |+     ..-|.+|+.+|+..  +.+|++|+.+..-
T Consensus         3 diCWIC~~~~~e--~--~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDE--R--NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCC--C--ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            689999998533  2  345 64     68899999999965  4569999987753

>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=96.68  E-value=0.00075  Score=49.29  Aligned_cols=32  Identities=28%  Similarity=0.635  Sum_probs=26.8

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHH
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCID  157 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~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            45689999999977 5566788 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 [].

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

Probab=96.66  E-value=0.0045  Score=53.84  Aligned_cols=48  Identities=21%  Similarity=0.321  Sum_probs=37.1

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRC  172 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  172 (218)
                      +.....|+||+..-++. .+-.+  -|-+||..||..++.++..||+=-.+
T Consensus       297 ~~~~~~CpvClk~r~Np-tvl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNP-TVLEV--SGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             CCccccChhHHhccCCC-ceEEe--cceEEeHHHHHHHHHhcCCCCccCCc
Confidence            45567999999887653 33222  69999999999999999999985433

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

Probab=96.46  E-value=0.0014  Score=63.19  Aligned_cols=50  Identities=36%  Similarity=0.770  Sum_probs=38.0

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC-------CCCcccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH-------SSCPKCRRC  172 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-------~~CP~CR~~  172 (218)
                      ....+|.||++.+...+.+=--..|.|+||..||..|-++.       -.||.|...
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            45579999999998776553333489999999999998542       149999743

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.36  E-value=0.0034  Score=49.33  Aligned_cols=49  Identities=24%  Similarity=0.564  Sum_probs=35.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCC--c---ccChHHHHHHHhc--CCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICN--H---GFHVRCIDKWLRS--HSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~--H---~FH~~CI~~Wl~~--~~~CP~CR~~l~~~  176 (218)
                      ..+..|-||.++..  +.  .-| |.  .   .-|.+|+..|+..  ..+|++|+....-.
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            45579999998853  22  245 64  3   6699999999965  45699998876544

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

Probab=96.26  E-value=0.0034  Score=55.23  Aligned_cols=46  Identities=26%  Similarity=0.557  Sum_probs=34.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      ...+.|.||+++...   ...+| |||+=+  |...- +...+||+||+.+..
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIRL  348 (355)
T ss_pred             CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHHH
Confidence            445789999999766   66889 999955  76664 334459999998753

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

Probab=96.21  E-value=0.0061  Score=51.86  Aligned_cols=52  Identities=23%  Similarity=0.325  Sum_probs=38.3

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc--CCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--HSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~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--IPHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             ccCCceeeccCCCCC--CCeeecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            456789999987632  2334556 9999999999987654  46899997766533

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

Probab=96.20  E-value=0.00025  Score=62.75  Aligned_cols=52  Identities=27%  Similarity=0.622  Sum_probs=45.3

Q ss_pred             CCcccccccccccCC-CceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPG-ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~-~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            446899999999887 7777777 999999999999999988899999987644

>PHA03096 p28-like protein; Provisional

Probab=96.18  E-value=0.0023  Score=55.28  Aligned_cols=37  Identities=30%  Similarity=0.619  Sum_probs=29.8

Q ss_pred             cccccccccccCCC----ceEEcCCCCcccChHHHHHHHhc
Q 027813          126 TECVICLSNFLPGE----RVRMLPICNHGFHVRCIDKWLRS  162 (218)
Q Consensus       126 ~~CaICle~f~~~~----~vr~lp~C~H~FH~~CI~~Wl~~  162 (218)
                      .+|.||++......    .-.+|+.|.|.|+..||..|...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            68999999876532    33568889999999999999844

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

Probab=95.87  E-value=0.011  Score=51.91  Aligned_cols=63  Identities=24%  Similarity=0.441  Sum_probs=44.4

Q ss_pred             HHhcCCceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChHHHHHH--HhcCCCCcccccc
Q 027813          106 ALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKW--LRSHSSCPKCRRC  172 (218)
Q Consensus       106 ~i~~lp~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~W--l~~~~~CP~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            3444555544444444556678999988753   356789 9999999997654  4567889999874

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

Probab=95.87  E-value=0.0042  Score=55.54  Aligned_cols=37  Identities=24%  Similarity=0.691  Sum_probs=32.4

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS  162 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~  162 (218)
                      ...|.||+++....+....+| |+|+|+..|+..++..
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~  220 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTI  220 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHH
Confidence            468999999987768888999 9999999999999843

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

Probab=95.85  E-value=0.0045  Score=57.09  Aligned_cols=48  Identities=25%  Similarity=0.560  Sum_probs=36.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-----cCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-----SHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~~CP~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            455799999987443   44556 999999999999874     2568999976554

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

Probab=95.85  E-value=0.002  Score=56.05  Aligned_cols=50  Identities=26%  Similarity=0.623  Sum_probs=39.9

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ...+|.+|-.=|-+...+  .. |-|-||+.||...|....+||.|...+-..
T Consensus        14 ~~itC~LC~GYliDATTI--~e-CLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTI--TE-CLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecchhH--HH-HHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            457899998777664432  33 999999999999999999999998766544

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

Probab=95.74  E-value=0.0036  Score=50.86  Aligned_cols=43  Identities=21%  Similarity=0.522  Sum_probs=36.5

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  172 (218)
                      ..|-||-++|..   ..+.. |||.|+..|...=++....|-+|-..
T Consensus       197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence            589999999976   44555 99999999999988888999999653

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.65  E-value=0.01  Score=49.89  Aligned_cols=54  Identities=15%  Similarity=0.206  Sum_probs=47.6

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETC  177 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  177 (218)
                      ....|+||.+.+.+.-.+-+|..|||+|..+|++..+.....||+|-.++-+.+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            346799999999888888888779999999999999999999999988887763

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

Probab=95.62  E-value=0.011  Score=37.28  Aligned_cols=45  Identities=20%  Similarity=0.474  Sum_probs=20.6

Q ss_pred             cccccccccCCC-ceEEcCCCCcccChHHHHHHHh-cCCCCccccccc
Q 027813          128 CVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRRCL  173 (218)
Q Consensus       128 CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~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            789999994443 333334 678877788777665 366799999864

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

Probab=95.34  E-value=0.021  Score=50.39  Aligned_cols=50  Identities=26%  Similarity=0.549  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      .++..|+||...-   ..-...| |+|.=+..||.+-+.+.+.|=.|+..+...
T Consensus       420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence            5678999998652   2244678 999999999999999999999999988753

>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=95.33  E-value=0.0079  Score=37.07  Aligned_cols=41  Identities=34%  Similarity=0.814  Sum_probs=22.9

Q ss_pred             cccccccccCCCceEEcCCCCcccChHHHHHHHhcCC--CCccc
Q 027813          128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS--SCPKC  169 (218)
Q Consensus       128 CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--~CP~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 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence            667776666654433223 888999999999997755  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.20  E-value=0.015  Score=50.07  Aligned_cols=43  Identities=33%  Similarity=0.715  Sum_probs=33.2

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHh-cCCCCccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRR  171 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~  171 (218)
                      ..|+.|-.-...  .+ .++.|+|.|+.+||..-|. ....||.|.+
T Consensus       275 LkCplc~~Llrn--p~-kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN--PM-KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC--cc-cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            689999876544  23 3477999999999998875 4678999944

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

Probab=95.14  E-value=0.0072  Score=50.56  Aligned_cols=43  Identities=21%  Similarity=0.597  Sum_probs=31.8

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL  173 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  173 (218)
                      .|..|.-. ..++...++. |+|+||..|...-.  ...||+|++++
T Consensus         5 hCn~C~~~-~~~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFRF-PSQDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSI   47 (233)
T ss_pred             Eecccccc-CCCCceeeee-chhhhhhhhcccCC--cccccccccee
Confidence            57777644 4477787777 99999999976532  22899999983

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

Probab=94.65  E-value=0.0066  Score=52.09  Aligned_cols=44  Identities=27%  Similarity=0.668  Sum_probs=30.2

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      +.-|+||++.-.+   ...|+ |||.  ..|..-= ++-..||+||+-++.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHm--VtCt~CG-krm~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHM--VTCTKCG-KRMNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcE--Eeehhhc-cccccCchHHHHHHH
Confidence            5679999987544   67899 9998  3443221 112379999987764

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

Probab=94.65  E-value=0.015  Score=49.92  Aligned_cols=48  Identities=25%  Similarity=0.619  Sum_probs=39.3

Q ss_pred             cccccccccccCCC-ceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          126 TECVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      ..|+||.+.+-... .+..++ |||.-|..|+......+.+||+|.. +.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d  207 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGD  207 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHH
Confidence            45999999876654 456778 9999999999999888899999988 443

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

Probab=94.38  E-value=0.019  Score=49.40  Aligned_cols=44  Identities=25%  Similarity=0.467  Sum_probs=36.7

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL  173 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  173 (218)
                      ..|-||-..|..   ..+.. |+|.|+..|-..=+++...|.+|-+..
T Consensus       242 f~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  242 FKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             cccccccccccc---chhhc-CCceeehhhhccccccCCcceeccccc
Confidence            469999999976   33455 999999999988888889999997654

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

Probab=94.30  E-value=0.023  Score=45.56  Aligned_cols=28  Identities=36%  Similarity=1.023  Sum_probs=23.0

Q ss_pred             CCcccChHHHHHHHhc----CC-------CCcccccccc
Q 027813          147 CNHGFHVRCIDKWLRS----HS-------SCPKCRRCLI  174 (218)
Q Consensus       147 C~H~FH~~CI~~Wl~~----~~-------~CP~CR~~l~  174 (218)
                      ||.-||.-|+..||+.    ++       .||.|..++.
T Consensus       190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            9999999999999964    11       4999987764

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

Probab=94.00  E-value=0.037  Score=47.89  Aligned_cols=47  Identities=32%  Similarity=0.698  Sum_probs=38.3

Q ss_pred             cccccccccccCCC---ceEEcCCCCcccChHHHHHHHhcC-CCCccccccc
Q 027813          126 TECVICLSNFLPGE---RVRMLPICNHGFHVRCIDKWLRSH-SSCPKCRRCL  173 (218)
Q Consensus       126 ~~CaICle~f~~~~---~vr~lp~C~H~FH~~CI~~Wl~~~-~~CP~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            58999999998764   347777 99999999998876553 4599999984

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

Probab=93.76  E-value=0.028  Score=54.58  Aligned_cols=41  Identities=27%  Similarity=0.733  Sum_probs=30.7

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  172 (218)
                      ..|..|-...+-. .|.. . |||.||.+|+.   .+...||-|+.+
T Consensus       841 skCs~C~~~LdlP-~VhF-~-CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLP-FVHF-L-CGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccc-eeee-e-cccHHHHHhhc---cCcccCCccchh
Confidence            5899998776541 2222 3 99999999998   456679999873

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.70  E-value=0.086  Score=45.04  Aligned_cols=53  Identities=17%  Similarity=0.352  Sum_probs=40.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      .....|+|...+|........+-.|||+|-..+|..- .....||+|-.++.+.
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            4557899999999665555555339999999999996 3356799998887744

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

Probab=93.54  E-value=0.072  Score=47.52  Aligned_cols=28  Identities=32%  Similarity=0.961  Sum_probs=21.1

Q ss_pred             CCcccChHHHHHHHhcC-------------CCCcccccccc
Q 027813          147 CNHGFHVRCIDKWLRSH-------------SSCPKCRRCLI  174 (218)
Q Consensus       147 C~H~FH~~CI~~Wl~~~-------------~~CP~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            44567899999999543             25999998754

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

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

Probab=93.47  E-value=0.035  Score=54.15  Aligned_cols=36  Identities=25%  Similarity=0.576  Sum_probs=28.9

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHH
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWL  160 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~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            4567999999888664 445678 99999999998765

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=93.34  E-value=0.12  Score=33.31  Aligned_cols=35  Identities=26%  Similarity=0.686  Sum_probs=30.2

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHH
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDK  158 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~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            34689999999998888888899999999999543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.23  E-value=0.062  Score=47.22  Aligned_cols=54  Identities=19%  Similarity=0.454  Sum_probs=36.3

Q ss_pred             CCCCcccccccccccCCCce-EEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERV-RMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~v-r~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            45566799999999877643 2345 7766666664443222 56799999977654

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.80  E-value=0.052  Score=45.91  Aligned_cols=52  Identities=27%  Similarity=0.708  Sum_probs=36.2

Q ss_pred             CCCCcccccccccccCCCce-EEcCCC-----CcccChHHHHHHHhcC--------CCCcccccccc
Q 027813          122 PGLDTECVICLSNFLPGERV-RMLPIC-----NHGFHVRCIDKWLRSH--------SSCPKCRRCLI  174 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~v-r~lp~C-----~H~FH~~CI~~Wl~~~--------~~CP~CR~~l~  174 (218)
                      .+.+..|=||+..=+++-.- =+-| |     .|-.|..|+..|+..+        .+||-|+.+..
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            45567999999875443221 1335 6     4999999999999432        25999988765

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.54  E-value=0.052  Score=35.11  Aligned_cols=44  Identities=27%  Similarity=0.536  Sum_probs=30.9

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            355555543   23345788 9999999998875  55569999877653

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

Probab=92.41  E-value=0.072  Score=51.29  Aligned_cols=22  Identities=36%  Similarity=1.016  Sum_probs=20.8

Q ss_pred             CCcccChHHHHHHHhcCCCCcc
Q 027813          147 CNHGFHVRCIDKWLRSHSSCPK  168 (218)
Q Consensus       147 C~H~FH~~CI~~Wl~~~~~CP~  168 (218)
                      |+|+-|..|...|+.....||.
T Consensus      1048 C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1048 CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             ccccccHHHHHHHHhcCCcCCC
Confidence            9999999999999999999984

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

Probab=92.38  E-value=0.052  Score=52.40  Aligned_cols=46  Identities=33%  Similarity=0.748  Sum_probs=36.5

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc--CCCCcccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--HSSCPKCRRCLIET  176 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~  176 (218)
                      ..|.||++    .+...+.+ |+|.|+.+|+..-+..  ...||+||..+.+.
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            69999999    34455666 9999999999888754  33599999988766

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=91.85  E-value=0.19  Score=39.55  Aligned_cols=34  Identities=29%  Similarity=0.663  Sum_probs=21.2

Q ss_pred             CcccccccccccCCCceEEcC------C-----CC-cccChHHHHHHHh
Q 027813          125 DTECVICLSNFLPGERVRMLP------I-----CN-HGFHVRCIDKWLR  161 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp------~-----C~-H~FH~~CI~~Wl~  161 (218)
                      +..|+||||--.+.  | +|-      .     |+ -.=|..|+|++-+
T Consensus         2 d~~CpICme~PHNA--V-LLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPHNA--V-LLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCCce--E-EEEeccccCCccccccCCccchhHHHHHHHH
Confidence            46899999764432  2 221      0     43 3448899999853

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.

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

Probab=91.33  E-value=0.064  Score=54.33  Aligned_cols=45  Identities=31%  Similarity=0.670  Sum_probs=36.7

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR  171 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  171 (218)
                      ....|.||++.....-.+  .. |||.++..|+..|+..+..||.|..
T Consensus      1152 ~~~~c~ic~dil~~~~~I--~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI--AG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cccchHHHHHHHHhcCCe--ee-echhHhhhHHHHHHHHhccCcchhh
Confidence            345899999998743222  23 9999999999999999999999973

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

Probab=90.14  E-value=0.19  Score=43.46  Aligned_cols=51  Identities=24%  Similarity=0.653  Sum_probs=37.2

Q ss_pred             CcccccccccccCCCc-eEEcCCCC-----cccChHHHHHHHh--cCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGER-VRMLPICN-----HGFHVRCIDKWLR--SHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~-vr~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~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            4789999998755332 33456 63     7789999999996  556799997755544

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

Probab=89.91  E-value=0.12  Score=44.86  Aligned_cols=44  Identities=30%  Similarity=0.568  Sum_probs=28.8

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      ..|--|=-.  ..-.=|+.| |+|+||.+|-..  ...+.||.|-..+.
T Consensus        91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            356666333  333447889 999999999543  23557999955443

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

Probab=89.85  E-value=0.087  Score=49.88  Aligned_cols=44  Identities=27%  Similarity=0.535  Sum_probs=33.2

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  172 (218)
                      ..|.||+..|......-+..+|||..+.+|+..-  .+.+|| |..+
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~D   55 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKRD   55 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCcc
Confidence            4799999998776555455559999999998873  466788 6543

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

Probab=89.40  E-value=0.17  Score=31.74  Aligned_cols=43  Identities=23%  Similarity=0.576  Sum_probs=24.7

Q ss_pred             ccccccccccCCCceEEcCCCC-cccChHHHHHHHhcCCCCccccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICN-HGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      -|--|+-+.+.   +  .. |+ |..+..|+..-+.....||+|..+|..
T Consensus         4 nCKsCWf~~k~---L--i~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCWFANKG---L--IK-CSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS-S--SS---E--EE--SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhhhcCCC---e--ee-ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            35556644322   2  23 75 999999999999999999999988764

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

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

Probab=88.96  E-value=1.1  Score=26.66  Aligned_cols=29  Identities=10%  Similarity=0.374  Sum_probs=13.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027813           51 NVVAVLSFLICSLICSLGFHFLLKCVFIRC   80 (218)
Q Consensus        51 ~viiil~ill~~li~~l~l~~i~r~~~~R~   80 (218)
                      .+.++.++++.+.++++. ++++.|+++|.
T Consensus         5 ~IaIIv~V~vg~~iiii~-~~~YaCcykk~   33 (38)
T PF02439_consen    5 TIAIIVAVVVGMAIIIIC-MFYYACCYKKH   33 (38)
T ss_pred             hhhHHHHHHHHHHHHHHH-HHHHHHHHccc
Confidence            445555555555444443 34444553443

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

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

Probab=87.62  E-value=0.29  Score=46.20  Aligned_cols=47  Identities=32%  Similarity=0.861  Sum_probs=40.0

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      .+..+.|+||+++.    ..+..+ |.   |..|+..|+..+..||+|+..+.+.
T Consensus       476 ~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~  522 (543)
T KOG0802|consen  476 REPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED  522 (543)
T ss_pred             hcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence            45568999999997    456677 88   9999999999999999998887765

>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=87.53  E-value=0.25  Score=41.49  Aligned_cols=48  Identities=25%  Similarity=0.678  Sum_probs=35.5

Q ss_pred             CCcccccccccccCCC--ceEEcCCCCcccChHHHHHHHhc-CCCCc--cccc
Q 027813          124 LDTECVICLSNFLPGE--RVRMLPICNHGFHVRCIDKWLRS-HSSCP--KCRR  171 (218)
Q Consensus       124 ~~~~CaICle~f~~~~--~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP--~CR~  171 (218)
                      .+..|+||-.+---+-  .+-+-|.|-|..|..|+|+-+.. ...||  -|-.
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            4568999998754333  33445679999999999999966 45699  6743

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

Probab=87.21  E-value=0.43  Score=46.55  Aligned_cols=52  Identities=19%  Similarity=0.537  Sum_probs=39.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCC-----cccChHHHHHHHhc--CCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICN-----HGFHVRCIDKWLRS--HSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~  176 (218)
                      +++..|-||..+=..++.+ .-| |+     ...|.+|+.+|+.-  ...|-+|+.++.-+
T Consensus        10 ~d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk   68 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK   68 (1175)
T ss_pred             ccchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence            3457999999987666654 456 65     57899999999965  44599998877654

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

Probab=85.10  E-value=0.6  Score=45.46  Aligned_cols=51  Identities=12%  Similarity=0.242  Sum_probs=36.4

Q ss_pred             CCcccccccccccCCC---ceEEcCCCCcccChHHHHHHHhc------CCCCcccccccc
Q 027813          124 LDTECVICLSNFLPGE---RVRMLPICNHGFHVRCIDKWLRS------HSSCPKCRRCLI  174 (218)
Q Consensus       124 ~~~~CaICle~f~~~~---~vr~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~  174 (218)
                      ....|.+|.-++...+   .+-.+..|+|.|+..||..|...      +-.|+.|...|.
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            3467888888887622   22233459999999999999843      345899987765

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.88  E-value=0.48  Score=40.96  Aligned_cols=30  Identities=20%  Similarity=0.617  Sum_probs=23.3

Q ss_pred             CCcccChHHHHHHHhc-------------CCCCcccccccccc
Q 027813          147 CNHGFHVRCIDKWLRS-------------HSSCPKCRRCLIET  176 (218)
Q Consensus       147 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~l~~~  176 (218)
                      |.-+++.+|+.+|+..             +-+||+||+.+.-.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            6788899999999842             33699999987543

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

Probab=84.75  E-value=0.34  Score=43.81  Aligned_cols=38  Identities=24%  Similarity=0.571  Sum_probs=28.4

Q ss_pred             CCcccccccccccCC-CceEEcCCCCcccChHHHHHHHhc
Q 027813          124 LDTECVICLSNFLPG-ERVRMLPICNHGFHVRCIDKWLRS  162 (218)
Q Consensus       124 ~~~~CaICle~f~~~-~~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 PKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhh
Confidence            356999999555444 4445455 9999999999998864

>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=84.06  E-value=0.88  Score=39.27  Aligned_cols=47  Identities=21%  Similarity=0.598  Sum_probs=33.2

Q ss_pred             ccccccccccCC-C-ceEEcCCCCcccChHHHHHHHhc-CCCCcccccccc
Q 027813          127 ECVICLSNFLPG-E-RVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLI  174 (218)
Q Consensus       127 ~CaICle~f~~~-~-~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            588887654322 2 233346 9999999999999865 457999965544

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=83.59  E-value=0.82  Score=37.58  Aligned_cols=40  Identities=38%  Similarity=0.774  Sum_probs=28.3

Q ss_pred             Cccccccccc-----ccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccc
Q 027813          125 DTECVICLSN-----FLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR  170 (218)
Q Consensus       125 ~~~CaICle~-----f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  170 (218)
                      +..|.+|-++     |+.+ .+..-+.|+-+||..|..     +..||-|-
T Consensus       152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~  196 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCA  196 (202)
T ss_pred             CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcH
Confidence            4688888753     3332 444555699999999976     26699993

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.29  E-value=0.46  Score=46.12  Aligned_cols=43  Identities=23%  Similarity=0.566  Sum_probs=32.2

Q ss_pred             CcccccccccccCC----CceEEcCCCCcccChHHHHHHHhcCCCCccc
Q 027813          125 DTECVICLSNFLPG----ERVRMLPICNHGFHVRCIDKWLRSHSSCPKC  169 (218)
Q Consensus       125 ~~~CaICle~f~~~----~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~C  169 (218)
                      +..|.-|++.....    +.+.++. |+|+||..|+.--..+++ |-.|
T Consensus       784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~  830 (846)
T KOG2066|consen  784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE  830 (846)
T ss_pred             hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence            35799999887532    3567777 999999999988876655 5444

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

Probab=82.91  E-value=1.1  Score=40.38  Aligned_cols=43  Identities=21%  Similarity=0.415  Sum_probs=36.2

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC---CCccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS---SCPKC  169 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CP~C  169 (218)
                      ..|||=-+.-.++.....|. |||+..++-+++--++..   .||.|
T Consensus       335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            58999888877777778888 999999999999776643   59999

>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.93  E-value=0.41  Score=36.70  Aligned_cols=59  Identities=29%  Similarity=0.529  Sum_probs=33.7

Q ss_pred             CCCcccccccc-cccCCCceEEcCCCCcccChHHHHHH-HhcCC---CCccccc--ccccccccccC
Q 027813          123 GLDTECVICLS-NFLPGERVRMLPICNHGFHVRCIDKW-LRSHS---SCPKCRR--CLIETCENIVG  182 (218)
Q Consensus       123 ~~~~~CaICle-~f~~~~~vr~lp~C~H~FH~~CI~~W-l~~~~---~CP~CR~--~l~~~~~~~~~  182 (218)
                      +.+..|-||+. .|.+|-.-.-.. |.-.|+..|-.+- |+.++   .|-+|+.  .++.+.+++..
T Consensus        63 ~ddatC~IC~KTKFADG~GH~C~Y-Cq~r~CARCGGrv~lrsNKv~wvcnlc~k~q~il~ksg~wf~  128 (169)
T KOG3799|consen   63 GDDATCGICHKTKFADGCGHNCSY-CQTRFCARCGGRVSLRSNKVMWVCNLCRKQQEILTKSGAWFY  128 (169)
T ss_pred             CcCcchhhhhhcccccccCcccch-hhhhHHHhcCCeeeeccCceEEeccCCcHHHHHHHhcchHHH
Confidence            45689999985 454442222222 4445555554443 23344   4999965  56666677765

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

Probab=81.60  E-value=0.38  Score=46.17  Aligned_cols=46  Identities=30%  Similarity=0.687  Sum_probs=35.1

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc---CCCCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS---HSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  175 (218)
                      .+|+||++.+...   ..+. |.|.|...|+..-|..   ...||+|+..+..
T Consensus        22 lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   22 LECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             ccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            5899999998775   3445 9999999998776643   3469999865543

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

Probab=80.27  E-value=1.3  Score=38.75  Aligned_cols=45  Identities=22%  Similarity=0.585  Sum_probs=33.1

Q ss_pred             CCcccccccccccCCCceEEcCCC--CcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPIC--NHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C--~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      .-.+|+||.+.+..-    +.. |  ||+-+..|=.   +....||.||.++-.-
T Consensus        47 ~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIGNI   93 (299)
T ss_pred             hhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCccccccccH
Confidence            346999999998663    233 7  6888888854   4567799999988743

---

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-11
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-08
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		4e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-04
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		3e-04

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 25/48 (52%), Positives = 31/48 (64%)
Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
           EC +CL+    GE  R LP C HGFH  C+D WL SHS+CP CR  ++
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>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 = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL 173
           G   EC +C  ++  GE VR LP CNH FH  CI  WL  H SCP CR+ L
Sbjct: 13  GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 34/45 (75%), Gaps = 1/45 (2%)
Query: 126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           T CV+C+ +F   + +R+LP CNH FH +C+DKWL+++ +CP CR
Sbjct: 24  TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

>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 = 23/44 (52%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           +C ICLS    GE VR LP C H FH  C+D+WL ++  CP CR
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 116 STELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKC 169
           S ++K   L   C +CL +F P + + + P C H FH +C+ KWL     CP C
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 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 = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 106 ALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSS 165
           ++   P +  + +    G +  C IC S ++ G+    LP C+H FH  C+  WL+   +
Sbjct: 21  SIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGT 79
Query: 166 CPKCR 170
           CP CR
Sbjct: 80  CPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	218
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	5e-26
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-25
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-20
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	8e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-14
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-12
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-09
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-09
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	4e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-04

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

 Score = 95.5 bits (238), Expect = 5e-26
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 103 KKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS 162
            K+++   P +  + +    G +  C IC S ++ G+    LP C+H FH  C+  WL+ 
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQK 76

Query: 163 HSSCPKCRRCL 173
             +CP CR   
Sbjct: 77  SGTCPVCRCMF 87

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

 Score = 92.3 bits (230), Expect = 3e-25
 Identities = 25/50 (50%), Positives = 31/50 (62%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
             EC +CL+    GE  R LP C HGFH  C+D WL SHS+CP CR  ++
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 90.8 bits (226), Expect = 2e-24
 Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 2/68 (2%)

Query: 104 KKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH 163
             +    P   ++         T CV+C+ +F   + +R+LP CNH FH +C+DKWL+++
Sbjct: 3   SGSSGQLPSYRFNPN-NHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKAN 60

Query: 164 SSCPKCRR 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 = 81.6 bits (202), Expect = 7e-21
 Identities = 23/50 (46%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

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

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

 Score = 81.0 bits (200), Expect = 1e-20
 Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

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

Query: 176 TCE 178
             +
Sbjct: 65  LAQ 67

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

 Score = 80.9 bits (200), Expect = 2e-20
 Identities = 25/49 (51%), Positives = 29/49 (59%), Gaps = 1/49 (2%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL 173
             EC +C  ++  GE VR LP CNH FH  CI  WL  H SCP CR+ L
Sbjct: 15  GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 71.9 bits (176), Expect = 5e-17
 Identities = 13/48 (27%), Positives = 25/48 (52%)

Query: 124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           +   C+ C +     + V +   CNH FH  C+  W++ ++ CP C++
Sbjct: 25  VMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72

>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 = 68.1 bits (167), Expect = 8e-16
 Identities = 13/47 (27%), Positives = 19/47 (40%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
            + C ICL +      V  +  C H  H  C ++ L+    CP C  
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

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

 Score = 63.6 bits (155), Expect = 5e-14
 Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 5/52 (9%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET 176
           + EC IC+     G    +LP C H F  +CIDKW   H +CP CR  +   
Sbjct: 15  EEECCICMD----GRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA 61

>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 = 4e-12
 Identities = 19/96 (19%), Positives = 35/96 (36%), Gaps = 17/96 (17%)

Query: 90  ANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVIC--------------LSNF 135
            ++ + +   +G K+  ++ +  V          +   C IC               ++ 
Sbjct: 5   VDTPSGTNSGAGKKRFEVKKWNAVALW---AWDIVVDNCAICRNHIMDLCIECQANQASA 61

Query: 136 LPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
              E      +CNH FH  CI +WL++   CP   R
Sbjct: 62  TSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

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

>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 = 55.2 bits (132), Expect = 2e-10
 Identities = 19/101 (18%), Positives = 34/101 (33%), Gaps = 17/101 (16%)

Query: 85  DSESNANSLTTSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVIC------------- 131
           ++         +   +G K+  ++ +  V          +   C IC             
Sbjct: 11  ENLYFQGGGRGTNSGAGKKRFEVKKWNAVALW---AWDIVVDNCAICRNHIMDLCIECQA 67

Query: 132 -LSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
             ++    E      +CNH FH  CI +WL++   CP   R
Sbjct: 68  NQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108

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

 Score = 51.1 bits (122), Expect = 3e-09
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 3/53 (5%)

Query: 122 PGLDTECVICLSNF---LPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           P     C IC+  +   +   R+ +   C H F  +C+   L++ ++CP CR+
Sbjct: 12  PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 64

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

 Score = 50.5 bits (121), Expect = 3e-09
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)

Query: 123 GLDTECVICLSNF---LPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           G    C IC+  +   +   R+ +   C H F  +C+   L++ ++CP CR+
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 52

>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 = 49.5 bits (118), Expect = 1e-08
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 3/53 (5%)

Query: 122 PGLDTECVICLSNF---LPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           P     C IC+  +   +   R+ +   C H F  +C+   L++ ++CP CR+
Sbjct: 7   PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59

>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 = 49.5 bits (117), Expect = 3e-08
 Identities = 18/80 (22%), Positives = 31/80 (38%), Gaps = 20/80 (25%)

Query: 112 VVNYSTELKLPGLDTECVICLSNF--------------LPGERVRMLPICNHGFHVRCID 157
           +  Y+ ELK+   + +C+IC+                 L    V  L  C+H FH+ C+ 
Sbjct: 13  IRKYTEELKVA-PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71

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

>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 = 47.6 bits (113), Expect = 5e-08
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCRR 171
            C IC S  + G+       C    H+ C+ K+ +S+    CP C  
Sbjct: 17  ICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

>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 = 48.0 bits (114), Expect = 6e-08
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 4/48 (8%)

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

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

 Score = 49.9 bits (118), Expect = 2e-07
 Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 15/61 (24%)

Query: 125 DTECVICLSNFLPGERVRML----PICNHGFHVRCIDKWLRS-----------HSSCPKC 169
           +  C IC +  L G  V ++      C    H  C+++W ++              CP C
Sbjct: 308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFC 367

Query: 170 R 170
           +
Sbjct: 368 K 368

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

 Score = 48.2 bits (114), Expect = 4e-07
 Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 5/52 (9%)

Query: 122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSS--CPKCRR 171
           P     C IC S  + G+       C    H+ C+ K+ +S++   CP C  
Sbjct: 177 PDAVKICNICHSLLIQGQSCET---CGIRMHLPCVAKYFQSNAEPRCPHCND 225

>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 = 21/69 (30%), Positives = 28/69 (40%), Gaps = 6/69 (8%)

Query: 114 NYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRRC 172
            Y    ++      C IC  N    + V++ P C H     C+  W  S    CP C RC
Sbjct: 321 QYELYCEMGSTFQLCKICAEND---KDVKIEP-CGHLMCTSCLTSWQESEGQGCPFC-RC 375

Query: 173 LIETCENIV 181
            I+  E IV
Sbjct: 376 EIKGTEPIV 384

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

 Score = 44.3 bits (104), Expect = 4e-06
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 4/57 (7%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIV 181
           + +C+IC   F+      +   C H F   CI++W++    CP CR+ +     ++V
Sbjct: 64  ELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLV 116

>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 = 8e-06
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 5/63 (7%)

Query: 116 STELKLPGLDTE--CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL 173
           +T +K+  L+    CV+C   F+       +  C H F   CI ++L +   CP C   +
Sbjct: 4   TTRIKITELNPHLMCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

Query: 174 IET 176
            +T
Sbjct: 61  HKT 63

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

 Score = 41.7 bits (98), Expect = 8e-06
 Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 3/50 (6%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET 176
            C IC            +  C H F   CI +     + CPKC   + +T
Sbjct: 17  LCSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT 63

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

 Score = 41.0 bits (96), Expect = 1e-05
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           +   C IC   F    +  ++  C H F   C  +  R+   C  C +
Sbjct: 14  IPFRCFICRQAF----QNPVVTKCRHYFCESCALEHFRATPRCYICDQ 57

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

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 14/49 (28%), Positives = 17/49 (34%), Gaps = 4/49 (8%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL 173
             EC ICL           LP C H F   C+         C  CR+ +
Sbjct: 15  VPECAICLQTC---VHPVSLP-CKHVFCYLCVKGASWLGKRCALCRQEI 59

>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 = 14/87 (16%), Positives = 32/87 (36%), Gaps = 3/87 (3%)

Query: 125 DTECVICLSNFLPGERVRMLPI---CNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIV 181
              C IC+  +    +   L +   C H F  +C+   L++ ++CP CR+ +     + +
Sbjct: 7   TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI 66

Query: 182 GSTQASSSRHSVPETLTTVSIRPLEPH 208
                + S     +  + +        
Sbjct: 67  YIGSGTVSCPICMDGYSEIVQNGRLIV 93

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 3/43 (6%)

Query: 128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR 170
           C IC   F       ++P C+H +   CI K+L   + CP C 
Sbjct: 25  CGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCC 64

>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 = 38.0 bits (88), Expect = 5e-04
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 5/48 (10%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRR 171
             +C+ C        R      C H     C+D+  R+   SCP CR 
Sbjct: 52  TFQCICCQELV---FRPITTV-CQHNVCKDCLDRSFRAQVFSCPACRY 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,	99.81
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.73
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.66
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.64
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.63
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.62
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.61
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.56
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.53
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.53
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.52
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.51
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.5
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.48
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.47
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.45
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.43
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.43
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.4
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.4
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.36
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.35
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.35
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.33
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.31
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.31
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.27
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.26
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.26
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.25
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.24
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.23
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.23
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.22
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.21
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.19
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.16
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.16
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.14
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.11
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.08
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.02
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.02
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.96
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.94
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.94
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.9
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.89
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.88
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.87
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.86
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.77
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.74
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.7
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.68
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.67
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.66
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.59
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.5
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.43
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.39
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.29
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.12
3nw0_A	238	Non-structural maintenance of chromosomes element	97.94
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.31
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.27
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.82
1we9_A	64	PHD finger family protein; structural genomics, PH	93.31
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	93.24
2knc_A	54	Integrin alpha-IIB; transmembrane signaling, prote	92.95
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	92.11
2l8s_A	54	Integrin alpha-1; transmembrane region, detergent	92.06
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	91.84
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	91.63
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	91.48
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	91.03
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	90.22
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	90.16
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.44
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	88.78
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	87.73
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	87.51
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	87.21
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	86.88
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	86.8
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	86.2
2k1a_A	42	Integrin alpha-IIB; single-PASS transmembrane segm	85.76
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	85.63
1wem_A	76	Death associated transcription factor 1; structura	84.94
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	84.78
1wee_A	72	PHD finger family protein; structural genomics, PH	83.57
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	83.01
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	81.3
2yt5_A	66	Metal-response element-binding transcription facto	80.55
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	80.07

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

Probab=99.81  E-value=5.9e-20  Score=131.57  Aligned_cols=80  Identities=26%  Similarity=0.622  Sum_probs=71.4

Q ss_pred             ccCCCCCccHHHHhcCCceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813           95 TSGKSSGIKKKALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus        95 ~~~~~~~~~~~~i~~lp~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      ......+++++.++.+|.+.+.......+.+..|+||+++|..++.++.++ |+|.||..||+.|++.+.+||+||..+.
T Consensus        10 ~~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           10 HMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             CSSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            456678899999999999999876655567789999999999999999999 9999999999999999999999999876


Q ss_pred             c
Q 027813          175 E  175 (218)
Q Consensus       175 ~  175 (218)
                      .
T Consensus        89 ~   89 (91)
T 2l0b_A           89 P   89 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.73  E-value=1.1e-18  Score=120.24  Aligned_cols=69  Identities=33%  Similarity=0.838  Sum_probs=59.4

Q ss_pred             HHhcCCceeeccCCCCCCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          106 ALRNFPVVNYSTELKLPGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       106 ~i~~lp~~~~~~~~~~~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            367788888875432 345679999999999999999999 999999999999999999999999988765

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

Probab=99.66  E-value=4e-17  Score=105.53  Aligned_cols=52  Identities=48%  Similarity=1.134  Sum_probs=47.1

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            3457999999999999988888779999999999999999999999998864

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

Probab=99.64  E-value=2.1e-16  Score=108.34  Aligned_cols=53  Identities=34%  Similarity=0.949  Sum_probs=48.5

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45679999999999988899999 999999999999999999999999998754

>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=99.63  E-value=2.5e-16  Score=106.45  Aligned_cols=54  Identities=43%  Similarity=0.907  Sum_probs=48.6

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            345678999999999888899999 999999999999999999999999988754

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

Probab=99.62  E-value=2.5e-16  Score=110.27  Aligned_cols=53  Identities=26%  Similarity=0.696  Sum_probs=43.4

Q ss_pred             CCcccccccccccC-----------CCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLP-----------GERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~-----------~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45678888888854           455666666999999999999999999999999988654

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

Probab=99.61  E-value=5.9e-16  Score=107.11  Aligned_cols=53  Identities=49%  Similarity=1.050  Sum_probs=48.5

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45679999999999988888999 999999999999999999999999998764

>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=99.56  E-value=2.1e-15  Score=97.21  Aligned_cols=50  Identities=28%  Similarity=0.647  Sum_probs=43.4

Q ss_pred             CCcccccccccccCCC-ceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          124 LDTECVICLSNFLPGE-RVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       124 ~~~~CaICle~f~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      .+.+|+||+++|.+++ .++.++ |+|.||..||..|++.+.+||+||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4578999999996654 567788 9999999999999999999999998764

>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=99.53  E-value=1e-14  Score=108.01  Aligned_cols=52  Identities=25%  Similarity=0.671  Sum_probs=42.6

Q ss_pred             CCcccccccccccCCC---------------ceEEcCCCCcccChHHHHHHHh-----cCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGE---------------RVRMLPICNHGFHVRCIDKWLR-----SHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~---------------~vr~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l~~~  176 (218)
                      .+.+|+||+++|....               .++.++ |+|.||..||+.|+.     .+.+||+||..+.+.
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3469999999996643               345778 999999999999994     467899999988755

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

Probab=99.53  E-value=4.6e-15  Score=103.59  Aligned_cols=55  Identities=25%  Similarity=0.619  Sum_probs=45.8

Q ss_pred             CCCCCCcccccccccccCCCceEEcCCCC-----cccChHHHHHHHhcC--CCCcccccccccc
Q 027813          120 KLPGLDTECVICLSNFLPGERVRMLPICN-----HGFHVRCIDKWLRSH--SSCPKCRRCLIET  176 (218)
Q Consensus       120 ~~~~~~~~CaICle~f~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~~--~~CP~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            3345667999999999887776 689 96     999999999999765  4899999988643

>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=99.52  E-value=6.6e-15  Score=108.16  Aligned_cols=51  Identities=31%  Similarity=0.668  Sum_probs=43.3

Q ss_pred             CCCcccccccccccCC---------------CceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPG---------------ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~---------------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            3567999999999754               1356677 9999999999999999999999999853

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

Probab=99.51  E-value=1e-14  Score=98.08  Aligned_cols=52  Identities=23%  Similarity=0.616  Sum_probs=44.1

Q ss_pred             CCCcccccccccccCC----CceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPG----ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~----~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            4557899999999753    3456788 99999999999999999999999998753

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

Probab=99.50  E-value=7.4e-15  Score=99.47  Aligned_cols=53  Identities=25%  Similarity=0.675  Sum_probs=45.3

Q ss_pred             CCCcccccccccccC----CCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLP----GERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            456799999999865    34557788 999999999999999999999999988754

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

Probab=99.48  E-value=1e-14  Score=96.59  Aligned_cols=52  Identities=25%  Similarity=0.687  Sum_probs=44.5

Q ss_pred             CCcccccccccccC----CCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLP----GERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            35689999999965    24556778 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=6.2e-14  Score=94.21  Aligned_cols=51  Identities=31%  Similarity=0.772  Sum_probs=43.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            345789999999864  357788 999999999999999999999999988644

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

Probab=99.45  E-value=2.8e-14  Score=96.57  Aligned_cols=49  Identities=39%  Similarity=0.920  Sum_probs=43.2

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            445799999999866    5678 999999999999999999999999988754

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

Probab=99.43  E-value=5.7e-14  Score=95.42  Aligned_cols=50  Identities=30%  Similarity=0.547  Sum_probs=43.4

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            445789999999855   45678 999999999999999999999999998754

>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=99.43  E-value=1.5e-14  Score=107.90  Aligned_cols=51  Identities=33%  Similarity=0.746  Sum_probs=1.5

Q ss_pred             CCCcccccccccccC-------------CCc--eEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLP-------------GER--VRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~-------------~~~--vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCC----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            456799999999975             222  22346 9999999999999999999999999854

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

Probab=99.40  E-value=2e-13  Score=92.91  Aligned_cols=51  Identities=25%  Similarity=0.545  Sum_probs=42.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            445799999999875  343347 999999999999999999999999988754

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

Probab=99.40  E-value=2.8e-13  Score=95.31  Aligned_cols=53  Identities=30%  Similarity=0.627  Sum_probs=45.2

Q ss_pred             CCCcccccccccccCCCc-eEEcCCCCcccChHHHHHHHhcC---CCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGER-VRMLPICNHGFHVRCIDKWLRSH---SSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~-vr~lp~C~H~FH~~CI~~Wl~~~---~~CP~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            445789999999988765 67788 99999999999999876   7899999987643

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

Probab=99.36  E-value=5.8e-13  Score=92.61  Aligned_cols=48  Identities=23%  Similarity=0.466  Sum_probs=41.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            445789999999855   45688 9999999999999999999999999875

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

Probab=99.35  E-value=5.6e-13  Score=91.44  Aligned_cols=51  Identities=27%  Similarity=0.719  Sum_probs=42.6

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC--CCCccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCRRCLIE  175 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~~  175 (218)
                      .+..++|+||.+.+..++...  . |+|.||.+||++||+.+  .+||+||....-
T Consensus        12 ~~~i~~C~IC~~~i~~g~~C~--~-C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           12 PDAVKICNICHSLLIQGQSCE--T-CGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSSCBCSSSCCBCSSSEECS--S-SCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             cCCCCcCcchhhHcccCCccC--C-CCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            345579999999998765543  4 99999999999999887  789999987653

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

Probab=99.35  E-value=8.3e-13  Score=90.42  Aligned_cols=51  Identities=22%  Similarity=0.563  Sum_probs=41.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC--CCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CP~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            445789999999875   34566699999999999999865  6899999976644

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

Probab=99.33  E-value=1e-12  Score=89.29  Aligned_cols=50  Identities=24%  Similarity=0.601  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh---cCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR---SHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~---~~~~CP~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            445799999999875   55678 999999999999996   456899999988654

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

Probab=99.31  E-value=7.3e-13  Score=101.41  Aligned_cols=48  Identities=31%  Similarity=0.912  Sum_probs=41.9

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            3579999999865   56788 999999999999999999999999988543

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

Probab=99.31  E-value=1.2e-12  Score=87.42  Aligned_cols=50  Identities=20%  Similarity=0.522  Sum_probs=41.1

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-cCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~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            3457899999998753   2367 999999999999994 567899999988654

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

Probab=99.27  E-value=1.2e-12  Score=98.47  Aligned_cols=53  Identities=23%  Similarity=0.605  Sum_probs=45.3

Q ss_pred             CCCcccccccccccCC----CceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPG----ERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~----~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      .++.+|+||++.|.+.    +.+..++ |||.||..||+.|++.+.+||+||..+...
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            3457899999999653    4557788 999999999999999999999999988755

>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=99.26  E-value=2.9e-12  Score=92.77  Aligned_cols=48  Identities=29%  Similarity=0.735  Sum_probs=41.0

Q ss_pred             CcccccccccccCCCceEE-cCCCCcccChHHHHHHHhcC-CCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRM-LPICNHGFHVRCIDKWLRSH-SSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~-lp~C~H~FH~~CI~~Wl~~~-~~CP~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            4689999999965   445 77 99999999999999887 6899999998643

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

Probab=99.26  E-value=6.5e-12  Score=83.03  Aligned_cols=43  Identities=28%  Similarity=0.670  Sum_probs=36.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh---cCCCCccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR---SHSSCPKC  169 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~---~~~~CP~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            455799999999875   45678 999999999999998   45689998

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

Probab=99.26  E-value=5e-12  Score=87.07  Aligned_cols=49  Identities=24%  Similarity=0.510  Sum_probs=41.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  175 (218)
                      ..+..|+||++.|.+   ..+++ |||.||..||..|+.. +.+||+||..+..
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            345799999999865   45678 9999999999999987 7889999998764

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

Probab=99.25  E-value=2.7e-12  Score=96.54  Aligned_cols=53  Identities=25%  Similarity=0.675  Sum_probs=45.0

Q ss_pred             CCCcccccccccccC----CCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLP----GERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~----~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            456789999999965    23446677 999999999999999999999999998765

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

Probab=99.24  E-value=6.8e-12  Score=87.29  Aligned_cols=49  Identities=31%  Similarity=0.535  Sum_probs=41.4

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc------CCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS------HSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  175 (218)
                      ..+..|+||++.|.+   ..+++ |+|.||..||..|+..      ...||+||..+..
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           17 KEEVTCPICLELLKE---PVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CTTTSCTTTCSCCSS---CEECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             ccCCCCcCCChhhCc---ceeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            345799999999865   34688 9999999999999987      6689999998764

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

Probab=99.23  E-value=6.3e-12  Score=87.47  Aligned_cols=49  Identities=31%  Similarity=0.615  Sum_probs=41.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc------CCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS------HSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  175 (218)
                      ..+.+|+||++.|.+   ...++ |||.||..||..|+..      ...||+||..+..
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           17 KEEVTCPICLELLTQ---PLSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCTTTCSCCSS---CBCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             cCCCCCCCCCcccCC---ceeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            345799999999865   34578 9999999999999977      7789999998875

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

Probab=99.23  E-value=6.4e-12  Score=90.56  Aligned_cols=47  Identities=30%  Similarity=0.716  Sum_probs=40.8

Q ss_pred             CcccccccccccCCCceEEc-CCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRML-PICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~l-p~C~H~FH~~CI~~Wl~~~~~CP~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            4689999999875   3444 7 99999999999999999999999998875

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

Probab=99.22  E-value=2e-12  Score=89.16  Aligned_cols=49  Identities=29%  Similarity=0.511  Sum_probs=41.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-------CCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-------HSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~~l~~  175 (218)
                      ..+..|+||++.|.+   ...++ |||.||..||..|+..       ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTE---PLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSS---CCCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCC---eeECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            445799999999865   34578 9999999999999976       5679999998875

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

Probab=99.21  E-value=8e-12  Score=80.95  Aligned_cols=43  Identities=28%  Similarity=0.878  Sum_probs=35.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh---cCCCCccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR---SHSSCPKC  169 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~---~~~~CP~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            4457999999999763   4578 999999999999954   56789998

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

Probab=99.21  E-value=6.7e-12  Score=83.54  Aligned_cols=51  Identities=22%  Similarity=0.515  Sum_probs=40.6

Q ss_pred             Ccccccccc-cccCCCce-EEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLS-NFLPGERV-RMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle-~f~~~~~v-r~lp~C~H~FH~~CI~~Wl~~-~~~CP~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 77665433 4567 9999999999999765 46799999988654

>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=99.19  E-value=8.3e-12  Score=91.43  Aligned_cols=50  Identities=28%  Similarity=0.672  Sum_probs=42.1

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            34689999999865  344447 999999999999999999999999988753

>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=99.16  E-value=1.6e-11  Score=92.00  Aligned_cols=47  Identities=28%  Similarity=0.619  Sum_probs=40.3

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC-CCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CP~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   55678 999999999999998654 89999998865

>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=99.16  E-value=2.1e-11  Score=95.82  Aligned_cols=48  Identities=35%  Similarity=0.737  Sum_probs=40.7

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            4589999999875  444457 9999999999999987 7789999998853

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

Probab=99.14  E-value=3.9e-11  Score=85.16  Aligned_cols=49  Identities=22%  Similarity=0.584  Sum_probs=40.4

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC--CCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CP~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            455799999999875   44666699999999999999754  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=2.8e-11  Score=88.73  Aligned_cols=48  Identities=29%  Similarity=0.567  Sum_probs=39.8

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC---CCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS---SCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CP~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            3589999999865   33478 999999999999998754   899999987653

>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=99.08  E-value=6e-11  Score=79.01  Aligned_cols=48  Identities=23%  Similarity=0.416  Sum_probs=40.3

Q ss_pred             CCcccccccccccCCCceEEc--CCCCcc-cChHHHHHHHhcCCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRML--PICNHG-FHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~l--p~C~H~-FH~~CI~~Wl~~~~~CP~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            45689999998755   3344  9 9999 7999999999988899999998754

>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=99.07  E-value=7.2e-11  Score=91.65  Aligned_cols=48  Identities=25%  Similarity=0.551  Sum_probs=40.9

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC-CCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CP~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            3689999999865   45588 999999999999998754 899999988754

>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=99.07  E-value=5.7e-11  Score=88.36  Aligned_cols=50  Identities=34%  Similarity=0.626  Sum_probs=42.0

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC-CCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CP~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            345799999999865   45678 999999999999998765 899999988754

>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=99.07  E-value=8.9e-11  Score=86.90  Aligned_cols=48  Identities=31%  Similarity=0.544  Sum_probs=41.1

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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   44578 9999999999999987 77899999988754

>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=99.05  E-value=3e-11  Score=89.32  Aligned_cols=48  Identities=29%  Similarity=0.690  Sum_probs=40.8

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  175 (218)
                      .+..|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            34689999999865   45678 9999999999999976 6689999998864

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

Probab=99.04  E-value=3e-10  Score=78.64  Aligned_cols=53  Identities=19%  Similarity=0.374  Sum_probs=41.3

Q ss_pred             CCCcccccccccccCCCce-EEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERV-RMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~v-r~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            4557999999998654432 2245 9999999999999754 56799999988765

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

Probab=99.02  E-value=1.3e-10  Score=77.02  Aligned_cols=51  Identities=20%  Similarity=0.396  Sum_probs=40.4

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      +.+.+|.||++...+. .+..+| |||. |+..|+..|.+.+..||+||+.+..
T Consensus         5 ~~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            3457899999986541 122238 9998 9999999999888899999998854

>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=99.02  E-value=1.8e-10  Score=101.76  Aligned_cols=49  Identities=31%  Similarity=0.648  Sum_probs=42.6

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-cCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CP~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            34699999999855   66788 999999999999998 678899999988765

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

Probab=98.97  E-value=2e-10  Score=99.32  Aligned_cols=57  Identities=25%  Similarity=0.600  Sum_probs=43.2

Q ss_pred             CCCCcccccccccccCCCceE----EcCCCCcccChHHHHHHHhcC-----------CCCcccccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVR----MLPICNHGFHVRCIDKWLRSH-----------SSCPKCRRCLIETCE  178 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr----~lp~C~H~FH~~CI~~Wl~~~-----------~~CP~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            346689999999998744331    123499999999999999752           359999998876543

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

Probab=98.96  E-value=1.1e-10  Score=75.54  Aligned_cols=47  Identities=21%  Similarity=0.409  Sum_probs=39.1

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            455789999999976   45788 9999999999884   66899999987644

>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=98.94  E-value=3.2e-10  Score=87.08  Aligned_cols=48  Identities=21%  Similarity=0.389  Sum_probs=40.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC-CCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS-SCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l~  174 (218)
                      ..+..|+||++.|.+   ...++ |||.||..||..|+.... +||+||.++.
T Consensus        29 ~~~~~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           29 EAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CcCcCCCCCChhhcC---cEECC-CCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            455799999999866   34577 999999999999998664 8999999764

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

Probab=98.94  E-value=1.1e-09  Score=76.96  Aligned_cols=49  Identities=16%  Similarity=0.063  Sum_probs=42.9

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45799999999876   56788 999999999999999889999999887643

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.90  E-value=8.5e-10  Score=72.50  Aligned_cols=48  Identities=23%  Similarity=0.592  Sum_probs=37.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCC--c---ccChHHHHHHHhc--CCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICN--H---GFHVRCIDKWLRS--HSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~--H---~FH~~CI~~Wl~~--~~~CP~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            4557999999983  3344 578 76  3   9999999999964  678999998764

>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=9.3e-10  Score=79.69  Aligned_cols=48  Identities=17%  Similarity=0.049  Sum_probs=42.4

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45789999999876   56788 99999999999999988999999998764

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

Probab=98.88  E-value=4.6e-10  Score=76.69  Aligned_cols=44  Identities=23%  Similarity=0.662  Sum_probs=37.9

Q ss_pred             CcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~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            3689999998765   66789 9999 999999999    7899999988654

>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=78.41  Aligned_cols=48  Identities=19%  Similarity=0.047  Sum_probs=42.2

Q ss_pred             CCcccccccccccCCCceEEcCCCC-cccChHHHHHHHhcCCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICN-HGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      .+..|+||++-|.+   ..+++ || |.|...||..|+..+.+||+||..+..
T Consensus        21 ~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            45789999999876   55688 99 999999999999988899999998764

>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=98.86  E-value=4.1e-10  Score=83.56  Aligned_cols=44  Identities=23%  Similarity=0.504  Sum_probs=37.8

Q ss_pred             CcccccccccccCCCceEEc-CCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          125 DTECVICLSNFLPGERVRML-PICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~l-p~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      ...|+||++.|.+   ...+ + |||.||..||..|+.  ..||+||..+.
T Consensus        22 ~~~C~IC~~~~~~---pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNILRE---PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSCCSS---CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             CCCCCCCChHhhC---ccEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            4689999999865   3455 7 999999999999988  78999999875

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

Probab=98.77  E-value=8.3e-09  Score=69.36  Aligned_cols=47  Identities=28%  Similarity=0.731  Sum_probs=38.9

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCcccccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ...+..|.||++...+   +..+| |+|. |+..|+..    ...||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3456799999998654   77889 9999 99999984    57899999988764

>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=98.74  E-value=4.3e-09  Score=82.82  Aligned_cols=50  Identities=34%  Similarity=0.622  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC-CCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH-SSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-~~CP~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            445799999999876   35578 99999999999999764 4899999988754

>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=6.7e-09  Score=73.95  Aligned_cols=52  Identities=23%  Similarity=0.603  Sum_probs=41.6

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc--------CCCCcc--cccc--cccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS--------HSSCPK--CRRC--LIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~~CP~--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            4568999999998766666667 9999999999999853        236999  9988  5443

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

Probab=98.68  E-value=6.7e-09  Score=70.94  Aligned_cols=43  Identities=23%  Similarity=0.682  Sum_probs=35.6

Q ss_pred             CcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      +.+|+||++.+.+   ...+| |||. |+..|+..    ...||+||..+..
T Consensus        25 ~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            3589999999755   55688 9999 99999964    4789999998864

>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=98.67  E-value=1.3e-08  Score=72.55  Aligned_cols=46  Identities=20%  Similarity=0.448  Sum_probs=37.1

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC------CCCcc--cccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH------SSCPK--CRRC  172 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~------~~CP~--CR~~  172 (218)
                      .+..|+||++.|.+   ..+++.|||.|+..||..|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            45689999999875   44553499999999999999764      48999  9855

>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=1.5e-08  Score=84.99  Aligned_cols=49  Identities=14%  Similarity=0.063  Sum_probs=41.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  175 (218)
                      .....|+||++-|.+   ..+++ |||.|+..||..|+.. +.+||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            345789999999866   55788 9999999999999976 4459999998864

>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=98.59  E-value=1.7e-08  Score=69.85  Aligned_cols=44  Identities=25%  Similarity=0.644  Sum_probs=37.6

Q ss_pred             CcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~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            3589999998755   67789 9999 999999987    4899999988765

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

Probab=98.50  E-value=7.2e-08  Score=76.72  Aligned_cols=49  Identities=14%  Similarity=0.049  Sum_probs=41.2

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC-CCCccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH-SSCPKCRRCLIE  175 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  175 (218)
                      .....|+||++-|.+   ..+++ |||.|...||..|+..+ .+||+||..+..
T Consensus       104 p~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            455799999999875   55678 99999999999999764 579999988764

>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=98.43  E-value=1.2e-07  Score=62.22  Aligned_cols=47  Identities=11%  Similarity=0.084  Sum_probs=40.5

Q ss_pred             cccccccccccCCCceEEc-CCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          126 TECVICLSNFLPGERVRML-PICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~l-p~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ..|+||++.+.+  . .++ + |||.|-..||.+|++.+.+||+++..|...
T Consensus         4 ~~CpIs~~~m~d--P-V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            4 MLCAISGKVPRR--P-VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             CCCTTTCSCCSS--E-EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             EEecCCCCCCCC--C-EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            579999999874  3 455 6 999999999999999888999999988654

>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=98.39  E-value=6.8e-08  Score=84.39  Aligned_cols=45  Identities=27%  Similarity=0.695  Sum_probs=38.3

Q ss_pred             CCcccccccccccCCCceEEcCCCCcc-cChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHG-FHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CP~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            34689999999865   66779 9999 999999998    7899999987643

>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=98.29  E-value=4e-07  Score=76.19  Aligned_cols=49  Identities=22%  Similarity=0.533  Sum_probs=39.7

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC--CCCcc--ccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPK--CRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CP~--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            44689999999854  565556 99999999999999764  46999  9987654

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

Probab=98.12  E-value=1.5e-06  Score=61.98  Aligned_cols=50  Identities=24%  Similarity=0.427  Sum_probs=39.5

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIETCEN  179 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~~  179 (218)
                      -|.+|--.+  ....|++| |+|+|+.+|+..|.++ .++||.|+..+..-+..
T Consensus         3 fC~~C~~Pi--~iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~   53 (101)
T 3vk6_A            3 FCDKCGLPI--KVYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQC   53 (101)
T ss_dssp             BCTTTCSBC--SEEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEEE
T ss_pred             ecCccCCCe--EEEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeeeEEe
Confidence            477775554  34678999 9999999999999855 67899999988755443

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

Probab=97.94  E-value=4.4e-06  Score=69.30  Aligned_cols=49  Identities=27%  Similarity=0.688  Sum_probs=39.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC--CCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS--SCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--~CP~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 DAVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TTCCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            3467999999998876333   33999999999999997754  8999988643

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=96.27  E-value=0.0033  Score=41.46  Aligned_cols=48  Identities=23%  Similarity=0.407  Sum_probs=34.5

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC----CCccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS----SCPKCRRCL  173 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~~l  173 (218)
                      ...+..|.||.+.   ++ +..-..|...||..|++..|....    .||.|+...
T Consensus         9 ~~~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            9 LAPGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CCTTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            3455789999743   33 444455999999999999886543    599996543

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

Probab=94.82  E-value=0.024  Score=39.87  Aligned_cols=34  Identities=12%  Similarity=0.331  Sum_probs=26.8

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHH
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKW  159 (218)
Q Consensus       125 ~~~CaICle~f~~~~~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            468999998765544444578 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=93.31  E-value=0.02  Score=37.17  Aligned_cols=49  Identities=22%  Similarity=0.524  Sum_probs=35.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-----cCCCCccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-----SHSSCPKCRR  171 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~~CP~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            455689999999876555555555999999999875432     2456999965

>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=93.24  E-value=0.071  Score=36.57  Aligned_cols=35  Identities=20%  Similarity=0.467  Sum_probs=24.2

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHH
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKW  159 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~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            4678999995 4444442211 128999999999996

>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=92.95  E-value=0.33  Score=30.44  Aligned_cols=35  Identities=14%  Similarity=0.047  Sum_probs=24.1

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 027813           49 HSNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRL   83 (218)
Q Consensus        49 ~~~viiil~ill~~li~~l~l~~i~r~~~~R~~~~   83 (218)
                      .+.++++++++..++++.+.++++.+|-|.+|.+.
T Consensus        10 vp~wiIi~svl~GLllL~li~~~LwK~GFFkR~~~   44 (54)
T 2knc_A           10 IPIWWVLVGVLGGLLLLTILVLAMWKVGFFKRNRP   44 (54)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCC
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHcCcccCCCC
Confidence            34566677777777777777777777777666553

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=92.11  E-value=0.1  Score=33.48  Aligned_cols=45  Identities=24%  Similarity=0.741  Sum_probs=32.1

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc----CCCCccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS----HSSCPKCRR  171 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~~CP~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---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            456789999863   3 34444559999999999986533    225999964

>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}

Probab=92.06  E-value=0.55  Score=29.39  Aligned_cols=34  Identities=24%  Similarity=0.073  Sum_probs=24.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 027813           50 SNVVAVLSFLICSLICSLGFHFLLKCVFIRCSRL   83 (218)
Q Consensus        50 ~~viiil~ill~~li~~l~l~~i~r~~~~R~~~~   83 (218)
                      +.++++++++..++++++.++++.+|-|.+|.+.
T Consensus         8 p~WiIi~svl~GLLLL~Lii~~LwK~GFFKR~~~   41 (54)
T 2l8s_A            8 PLWVILLSAFAGLLLLMLLILALWKIGFFKRPLK   41 (54)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCS
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHcCcccCCCc
Confidence            4566777777777777777777777777666553

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=91.84  E-value=0.022  Score=36.56  Aligned_cols=50  Identities=24%  Similarity=0.675  Sum_probs=34.7

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCcccccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRRCLIET  176 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~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---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK   56 (60)
T ss_dssp             CCCSSCTTTCCC---SS-CEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHT
T ss_pred             CCCCCCcCCCCC---Cc-EEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhch
Confidence            346789999863   44 44444599999999999655432    2599997766544

>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=91.63  E-value=0.075  Score=41.96  Aligned_cols=49  Identities=16%  Similarity=0.347  Sum_probs=36.0

Q ss_pred             cccccccccccCCCc---eEEcCCCCcccChHHHHHH------Hh-----cCCCCcccccccc
Q 027813          126 TECVICLSNFLPGER---VRMLPICNHGFHVRCIDKW------LR-----SHSSCPKCRRCLI  174 (218)
Q Consensus       126 ~~CaICle~f~~~~~---vr~lp~C~H~FH~~CI~~W------l~-----~~~~CP~CR~~l~  174 (218)
                      ..|+||...|.+++.   ++.-..|..-||..|+.-=      +.     ....||.|+..-.
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~   65 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHP   65 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCC
Confidence            479999999988763   5555569999999997431      11     1568999987544

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=91.48  E-value=0.11  Score=40.77  Aligned_cols=47  Identities=26%  Similarity=0.489  Sum_probs=33.9

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCcccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRRCLI  174 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~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---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            56789999843   44 44445599999999998876542    35999976543

>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=91.03  E-value=0.055  Score=43.35  Aligned_cols=48  Identities=23%  Similarity=0.382  Sum_probs=34.5

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRRCL  173 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~~l  173 (218)
                      ..+++.|.+|...    ..+..-..|...||..|+++.+...    -.||.|+..-
T Consensus         4 d~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            4 DPNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            3456789999743    3355556699999999998876543    3599997643

>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=90.22  E-value=0.057  Score=34.73  Aligned_cols=48  Identities=23%  Similarity=0.534  Sum_probs=32.4

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRRCL  173 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~~l  173 (218)
                      ..++..|.||-+.   ++ +..-..|...||..|++.-+...    -.||.|+...
T Consensus         6 d~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            6 DHHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            3456789999852   33 33334489999999998655432    2599997654

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=90.16  E-value=0.073  Score=35.52  Aligned_cols=51  Identities=20%  Similarity=0.284  Sum_probs=35.8

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc----CCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS----HSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l~  174 (218)
                      .+...|.||-.... ++.+..-..|.-.||..|+..-...    .-.||.|+..+-
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            34467999987753 4445555559999999999865532    345999977654

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=89.44  E-value=0.16  Score=31.08  Aligned_cols=44  Identities=25%  Similarity=0.612  Sum_probs=29.3

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRR  171 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~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 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCC-CEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            588998664333 344444599999999997644332    24999864

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.78  E-value=0.065  Score=33.78  Aligned_cols=46  Identities=28%  Similarity=0.785  Sum_probs=31.6

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRR  171 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~  171 (218)
                      ..++..|.||.+.   ++ +..-..|...||..|+++=+...    -.||.|+.
T Consensus         6 ~~~~~~C~vC~~~---g~-ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS---SC-CEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC---Ce-EEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            3456789999864   33 44444599999999998755432    24888853

>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=87.73  E-value=0.18  Score=36.22  Aligned_cols=48  Identities=21%  Similarity=0.507  Sum_probs=31.6

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc----CCCCcccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS----HSSCPKCR  170 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR  170 (218)
                      ..+++.|.||.+.-+.++.+ .-..|+..||..|++.++..    .-.||.|+
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll-~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQF-FCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSE-ECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCCcCCCCCCCCcCCe-ECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            35678999998763322223 33449999999999987642    22466654

>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=87.51  E-value=0.45  Score=30.92  Aligned_cols=36  Identities=19%  Similarity=0.356  Sum_probs=27.4

Q ss_pred             CCCcccccccccccCCCceEEcC-CCCcccChHHHHH
Q 027813          123 GLDTECVICLSNFLPGERVRMLP-ICNHGFHVRCIDK  158 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~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            34568999999998877766665 6999999999753

>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=87.21  E-value=0.55  Score=31.53  Aligned_cols=49  Identities=18%  Similarity=0.472  Sum_probs=33.4

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-----cCCCCccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-----SHSSCPKCRRCL  173 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l  173 (218)
                      ....| ||-..+..+...+.-..|..-||..|+.---.     ....||.|+...
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            34567 99988864444445455999999999864321     244699997654

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=86.88  E-value=0.11  Score=33.88  Aligned_cols=46  Identities=28%  Similarity=0.652  Sum_probs=32.1

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRR  171 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~  171 (218)
                      ..++..|.||.+.   ++ +..-..|.-.||..|+.+-+...    -.||.|..
T Consensus         5 ~~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            5 QKNEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             CSCCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            3466799999863   33 44444599999999998655432    24999954

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=86.80  E-value=0.36  Score=33.45  Aligned_cols=47  Identities=28%  Similarity=0.557  Sum_probs=33.4

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC----CCcccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS----SCPKCRRC  172 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~~  172 (218)
                      .+++..|.+|.+.   ++ +..-..|.-.||..|+++=+..-.    .||.|+..
T Consensus        22 d~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           22 DDSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            4566799999864   34 444445899999999987664422    59999754

>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=86.20  E-value=0.27  Score=30.39  Aligned_cols=44  Identities=16%  Similarity=0.233  Sum_probs=30.9

Q ss_pred             ccccccccccCCCceEEcC-CCCcccChHHHHHHH----hcCCCCcccc
Q 027813          127 ECVICLSNFLPGERVRMLP-ICNHGFHVRCIDKWL----RSHSSCPKCR  170 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp-~C~H~FH~~CI~~Wl----~~~~~CP~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            4779999887666555555 589999999976432    2456799885

>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A

Probab=85.76  E-value=0.92  Score=26.87  Aligned_cols=32  Identities=13%  Similarity=0.049  Sum_probs=20.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 027813           50 SNVVAVLSFLICSLICSLGFHFLLKCVFIRCS   81 (218)
Q Consensus        50 ~~viiil~ill~~li~~l~l~~i~r~~~~R~~   81 (218)
                      +.++++++++...+++.+.++++.+|-|.+|.
T Consensus         9 p~wiIi~s~l~GLllL~li~~~LwK~GFFkR~   40 (42)
T 2k1a_A            9 PIWWVLVGVLGGLLLLTILVLAMWKVGFFKRN   40 (42)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHTTTTCCC
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHcCcccCC
Confidence            45666777777777766666666666655543

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=85.63  E-value=0.23  Score=35.76  Aligned_cols=46  Identities=26%  Similarity=0.570  Sum_probs=31.5

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRR  171 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~  171 (218)
                      ..|.||.+.-.+++.+..-..|...||..|+++-|..-    -.||.|+.
T Consensus        62 ~~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           62 KTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CCBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             CccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            36889986533334455555599999999998765442    25999974

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=84.94  E-value=0.37  Score=32.07  Aligned_cols=48  Identities=21%  Similarity=0.330  Sum_probs=31.8

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHH---------hcCCCCccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWL---------RSHSSCPKCRRCL  173 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl---------~~~~~CP~CR~~l  173 (218)
                      ....| ||-..+..+. .+.-..|..-||..|+..-.         .....||.|+..-
T Consensus        15 ~~~~C-~C~~~~~~~~-MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           15 NALYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCCEE-ECCCccCCCC-EEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            34567 8988875433 33444599999999985321         2356799997543

>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=84.78  E-value=0.14  Score=35.78  Aligned_cols=51  Identities=20%  Similarity=0.365  Sum_probs=34.1

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC----CCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH----SSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~~l~  174 (218)
                      .++..|.||...-.. +.+..-..|...||..|+++=|...    -.||.|+..-.
T Consensus        14 ~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~~~   68 (92)
T 2e6r_A           14 IDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAEC   68 (92)
T ss_dssp             CCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHHHH
T ss_pred             cCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCccc
Confidence            345689999876433 3344445599999999998544332    24999976543

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=83.57  E-value=0.21  Score=33.03  Aligned_cols=48  Identities=27%  Similarity=0.402  Sum_probs=33.0

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHH----hcCCCCcccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWL----RSHSSCPKCRRC  172 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl----~~~~~CP~CR~~  172 (218)
                      ....| ||-..+..++..+.-..|..-||..|+..--    .....||.|+..
T Consensus        15 ~~~~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~~   66 (72)
T 1wee_A           15 WKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             SEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             cceEe-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccCC
Confidence            34568 7988776665455555599999999987532    123469999754

>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=83.01  E-value=0.31  Score=37.59  Aligned_cols=49  Identities=20%  Similarity=0.409  Sum_probs=33.6

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHH-----hcCCCCcccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWL-----RSHSSCPKCRRC  172 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl-----~~~~~CP~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            345689 9998876555555555599999999986322     124469999763

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=81.30  E-value=0.62  Score=32.71  Aligned_cols=45  Identities=22%  Similarity=0.418  Sum_probs=30.2

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc---CCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS---HSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~  172 (218)
                      ..| ||-.....+..| .-..|.-.||..|+..=+..   .-.||.|+..
T Consensus        29 vrC-iC~~~~~~~~mi-~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           29 TRC-ICGFTHDDGYMI-CCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             CCC-TTSCCSCSSCEE-EBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             EEe-ECCCccCCCcEE-EcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            467 897776555443 44459999999998763322   2369999743

>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=80.55  E-value=0.87  Score=29.22  Aligned_cols=50  Identities=20%  Similarity=0.536  Sum_probs=33.8

Q ss_pred             CCCcccccccccccC-CCceEEcCCCCcccChHHHHHHHh-------cCCCCcccccc
Q 027813          123 GLDTECVICLSNFLP-GERVRMLPICNHGFHVRCIDKWLR-------SHSSCPKCRRC  172 (218)
Q Consensus       123 ~~~~~CaICle~f~~-~~~vr~lp~C~H~FH~~CI~~Wl~-------~~~~CP~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            456799999976533 234445556999999999886432       12358888543

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=80.07  E-value=1.7  Score=32.72  Aligned_cols=47  Identities=26%  Similarity=0.600  Sum_probs=33.7

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHHHh-----------cCCCCcccccc
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-----------SHSSCPKCRRC  172 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~-----------~~~~CP~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---GN-LICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             TSCBCSCSSSCCC---SS-EEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCCeecccCCC---Cc-EEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            4567899999863   33 444455999999999997652           12359999754

---

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	6e-17
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-07
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	5e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	4e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 69.9 bits (171), Expect = 6e-17
 Identities = 25/50 (50%), Positives = 31/50 (62%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI 174
             EC +CL+    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 = 53.4 bits (128), Expect = 1e-10
 Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIETCENIVGSTQA 186
            C ICL +         LP C H F   CI +W+R + +CP C+  +      I   ++ 
Sbjct: 7   RCPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESDSEF 63

Query: 187 S 187
            
Sbjct: 64  G 64

>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 = 48.2 bits (114), Expect = 1e-08
 Identities = 14/44 (31%), Positives = 20/44 (45%)

Query: 128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
           C    ++    E      +CNH FH  CI +WL++   CP   R
Sbjct: 38  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>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 = 47.0 bits (111), Expect = 2e-08
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 1/46 (2%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR-SHSSCPKCRR 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 = 45.2 bits (106), Expect = 1e-07
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 2/51 (3%)

Query: 125 DTECVICLSNFLPGERVRMLPI-CNHGFHVRCIDKWLR-SHSSCPKCRRCL 173
           D  C  C +       ++++   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 = 45.4 bits (107), Expect = 2e-07
 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSS-CPKCRRCL 173
           C IC  N    + V++ P C H     C+  W  S    CP CR  +
Sbjct: 26  CKICAEND---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 = 41.9 bits (97), Expect = 5e-06
 Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 20/78 (25%)

Query: 112 VVNYSTELKLPGLDTECVICL--------------SNFLPGERVRMLPICNHGFHVRCID 157
           +  Y+ ELK+   + +C+IC+              S  L    V  L  C+H FH+ C+ 
Sbjct: 13  IRKYTEELKVAP-EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71

Query: 158 KWLRS-----HSSCPKCR 170
               +        CP C+
Sbjct: 72  AMYCNGNKDGSLQCPSCK 89

>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 = 10/45 (22%), Positives = 17/45 (37%), Gaps = 7/45 (15%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRR 171
            C  C +     +  ++LP C H     C++        CP C+ 
Sbjct: 8   RCQQCQAEA---KCPKLLP-CLHTLCSGCLEAS---GMQCPICQA 45

>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 = 37.9 bits (87), Expect = 4e-05
 Identities = 10/48 (20%), Positives = 13/48 (27%), Gaps = 3/48 (6%)

Query: 128 CVICLSNF-LPGERVRMLPICNHGFHVRCIDKWLRSH--SSCPKCRRC 172
           C IC         R           H  C+  WL     ++C  C   
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 37.0 bits (85), Expect = 3e-04
 Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 7/50 (14%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS---SCPKCRRCL 173
           EC ICL      +       C+H F   C+ K L        CP C+  +
Sbjct: 23  ECPICLELI---KEPVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 6e-04
 Identities = 8/59 (13%), Positives = 17/59 (28%), Gaps = 3/59 (5%)

Query: 125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCR--RCLIETCENIV 181
            + C +CL  +   +   +   C   F   C+ +++             C    C    
Sbjct: 5   SSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

>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 = 35.3 bits (81), Expect = 6e-04
 Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 128 CVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSS-CPKCRRCL 173
           C IC           +   C H F   CI + L+   S CP CR   
Sbjct: 26  CQICEHIL----ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 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 = 34.0 bits (77), Expect = 0.002
 Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 5/47 (10%)

Query: 127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCL 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	99.79
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.63
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.56
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.55
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.51
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.48
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.36
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.26
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.25
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.2
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.18
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.99
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.92
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.91
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.72
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.69
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.71
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	92.25
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	92.2
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.13
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	91.15
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	89.96
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	87.32
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	86.91
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	82.1
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	81.85
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	81.02
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	80.51
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	80.13

>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=99.79  E-value=2.6e-20  Score=119.72  Aligned_cols=51  Identities=49%  Similarity=1.155  Sum_probs=47.0

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLI  174 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  174 (218)
                      ++.+|+||+++|..++.++.++.|+|.||..||+.|++++.+||+||++++
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            456899999999999999888779999999999999999999999999875

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.63  E-value=1.6e-16  Score=106.02  Aligned_cols=50  Identities=32%  Similarity=0.794  Sum_probs=43.4

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            45689999999864  466788 999999999999999999999999987643

>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=99.56  E-value=1.1e-15  Score=106.89  Aligned_cols=51  Identities=31%  Similarity=0.672  Sum_probs=42.8

Q ss_pred             CCcccccccccccCCC---------------ceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGE---------------RVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~---------------~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      .++.|+||++++....               .+..++ |||+||.+||+.||+.+.+||+||++..-
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            4567999999886532               356677 99999999999999999999999998764

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=3.7e-16  Score=98.81  Aligned_cols=48  Identities=21%  Similarity=0.451  Sum_probs=40.5

Q ss_pred             ccccccccccCCCce-EEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          127 ECVICLSNFLPGERV-RMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       127 ~CaICle~f~~~~~v-r~lp~C~H~FH~~CI~~Wl~~-~~~CP~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 4456 9999999999999986 4569999998864

>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=99.51  E-value=8.4e-15  Score=106.97  Aligned_cols=52  Identities=25%  Similarity=0.628  Sum_probs=41.1

Q ss_pred             CCcccccccccccC---------------CCceEEcCCCCcccChHHHHHHHhcC-----CCCcccccccccc
Q 027813          124 LDTECVICLSNFLP---------------GERVRMLPICNHGFHVRCIDKWLRSH-----SSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~---------------~~~vr~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~l~~~  176 (218)
                      .++.|+||++++..               ...+++++ |+|+||.+||+.||+.+     .+||+||+.+.++
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            34689999999853               23456677 99999999999999753     4799999887544

>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=99.48  E-value=1.5e-14  Score=99.08  Aligned_cols=48  Identities=33%  Similarity=0.684  Sum_probs=41.4

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            4579999998865   77888 9999999999999975 56799999998754

>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=99.48  E-value=1e-14  Score=96.24  Aligned_cols=51  Identities=22%  Similarity=0.521  Sum_probs=40.5

Q ss_pred             CcccccccccccCC--CceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          125 DTECVICLSNFLPG--ERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~--~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            57999999986433  2345667 9999999999999965 55799999987544

>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=99.36  E-value=1.3e-13  Score=88.16  Aligned_cols=47  Identities=13%  Similarity=0.125  Sum_probs=40.4

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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   334545999999999999999999999999988765

>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=99.26  E-value=2.9e-13  Score=86.42  Aligned_cols=45  Identities=22%  Similarity=0.477  Sum_probs=38.2

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  176 (218)
                      ..+|+||++.|.+   .++++ |||.||..||+.|   +.+||+||+.+...
T Consensus         6 ~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            3589999999975   45788 9999999999876   66799999988754

>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=99.25  E-value=2e-12  Score=89.54  Aligned_cols=47  Identities=32%  Similarity=0.552  Sum_probs=40.4

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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   66788 9999999999999975 45799999987654

>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=99.20  E-value=3.9e-12  Score=82.19  Aligned_cols=52  Identities=17%  Similarity=0.285  Sum_probs=37.3

Q ss_pred             CCCcccccccccccCCCceE-EcCCCCcccChHHHHHHHh--cCCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVR-MLPICNHGFHVRCIDKWLR--SHSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr-~lp~C~H~FH~~CI~~Wl~--~~~~CP~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            45578999999986532210 1111469999999999995  4568999998763

>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=99.18  E-value=4e-12  Score=90.91  Aligned_cols=46  Identities=30%  Similarity=0.621  Sum_probs=38.5

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC---CCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS---SCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~  175 (218)
                      ..|+||++.|.+   ...++ |||.||..||..|++.+.   .||+||..+..
T Consensus        22 l~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          22 LECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             TSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCccCchhCC---eEEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            479999999865   34578 999999999999997643   79999988753

>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=98.99  E-value=2.7e-11  Score=85.54  Aligned_cols=45  Identities=22%  Similarity=0.498  Sum_probs=36.6

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCccccccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIE  175 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  175 (218)
                      ..|+||++.|.+  .+...+ |||.||..||..|+.  ..||.||..+..
T Consensus        23 l~C~IC~~~~~~--pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILRE--PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSS--CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCccCCchhhc--CceeCC-CCCchhHHHHHHHHh--ccccccCCcCch
Confidence            589999999965  344456 999999999999984  459999987653

>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=98.92  E-value=4.2e-10  Score=76.43  Aligned_cols=49  Identities=14%  Similarity=0.073  Sum_probs=41.0

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~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            45689999999866   45788 9999999999999975 55799999987643

>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=98.91  E-value=6.3e-10  Score=75.16  Aligned_cols=48  Identities=25%  Similarity=0.531  Sum_probs=40.5

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc-CCCCccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS-HSSCPKCRRCLIE  175 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  175 (218)
                      ++..|+||++-|.+   ..+++ |||.|+..||..|++. +..||.|+..+..
T Consensus         7 ~~l~CpIc~~~m~d---PV~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           7 EYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCcCcCchhhC---ceEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            55789999999866   45678 9999999999999976 4579999988754

>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=98.72  E-value=6e-09  Score=73.36  Aligned_cols=50  Identities=18%  Similarity=0.030  Sum_probs=42.2

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCCCCcccccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHSSCPKCRRCLIET  176 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CP~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            35799999999876   667884556899999999999999999999987643

>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=98.69  E-value=3.3e-09  Score=73.88  Aligned_cols=46  Identities=20%  Similarity=0.549  Sum_probs=37.3

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcC--------CCCcccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSH--------SSCPKCR  170 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--------~~CP~CR  170 (218)
                      ...+|+||++++..++.++.++ |+|.||.+|+..|++.+        -.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            4579999999998777777777 99999999999999531        2599864

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.006  Score=36.32  Aligned_cols=44  Identities=25%  Similarity=0.640  Sum_probs=31.5

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC----CCccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS----SCPKCRR  171 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~  171 (218)
                      .|.||-..-..+ .+..-..|...||..|++.-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588997664443 4445556999999999998764422    4999975

>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=92.25  E-value=0.023  Score=36.06  Aligned_cols=46  Identities=30%  Similarity=0.618  Sum_probs=31.3

Q ss_pred             CCcccccccccccCCCceEEcCCCCcccChHHHHHHHhcCC----CCccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRSHS----SCPKCRRCL  173 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----~CP~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 SATICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            3456777754   344 444455999999999998875432    499996543

>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=92.20  E-value=0.032  Score=34.53  Aligned_cols=50  Identities=22%  Similarity=0.502  Sum_probs=36.3

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHH---h--cCCCCcccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWL---R--SHSSCPKCRRC  172 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl---~--~~~~CP~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            34568999999887777655556699999999986421   1  23469999743

>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=92.13  E-value=0.067  Score=34.84  Aligned_cols=36  Identities=19%  Similarity=0.445  Sum_probs=26.4

Q ss_pred             CCCCcccccccccccCCCceEEcCCCCcccChHHHHHH
Q 027813          122 PGLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKW  159 (218)
Q Consensus       122 ~~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~W  159 (218)
                      ..++..|.|| +.|..++.. --..|+-+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            3567899999 677665533 11228899999999986

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.15  E-value=0.018  Score=35.51  Aligned_cols=48  Identities=23%  Similarity=0.576  Sum_probs=32.9

Q ss_pred             CCCcccccccccccCCCceEEcCCCCcccChHHHHHHHhc----CCCCcccccccc
Q 027813          123 GLDTECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLRS----HSSCPKCRRCLI  174 (218)
Q Consensus       123 ~~~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l~  174 (218)
                      .+++.|.+|.+.   ++ +..-..|.-.||..|++..+..    .-.||.|+....
T Consensus         7 ~~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           7 HHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            445689999753   33 4344458999999999876643    235999976543

>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=89.96  E-value=0.062  Score=28.41  Aligned_cols=29  Identities=21%  Similarity=0.465  Sum_probs=25.2

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHH
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCI  156 (218)
Q Consensus       126 ~~CaICle~f~~~~~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            4799999999999998876  4899999994

>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=87.32  E-value=0.58  Score=29.76  Aligned_cols=47  Identities=17%  Similarity=0.386  Sum_probs=32.3

Q ss_pred             ccccccccccCCCceEEcCCCCcccChHHHHH--HH-hc--CCCCccccccc
Q 027813          127 ECVICLSNFLPGERVRMLPICNHGFHVRCIDK--WL-RS--HSSCPKCRRCL  173 (218)
Q Consensus       127 ~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~--Wl-~~--~~~CP~CR~~l  173 (218)
                      .+-||-..+..++..+.-..|+--||..|+..  .- ..  +..||.|+...
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            44499988776665555566999999999852  22 11  35699997543

>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=86.91  E-value=0.053  Score=35.64  Aligned_cols=48  Identities=21%  Similarity=0.523  Sum_probs=32.0

Q ss_pred             CcccccccccccC-CCceEEcCCCCcccChHHHHHHH-----hc---CCCCcccccc
Q 027813          125 DTECVICLSNFLP-GERVRMLPICNHGFHVRCIDKWL-----RS---HSSCPKCRRC  172 (218)
Q Consensus       125 ~~~CaICle~f~~-~~~vr~lp~C~H~FH~~CI~~Wl-----~~---~~~CP~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            3579999865443 23444455599999999987543     11   3369999654

>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=82.10  E-value=0.24  Score=31.23  Aligned_cols=43  Identities=35%  Similarity=0.656  Sum_probs=24.9

Q ss_pred             cccccccccccCCCceEEc-CCCC-cccChHHHHHHHhc----CCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRML-PICN-HGFHVRCIDKWLRS----HSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~l-p~C~-H~FH~~CI~~Wl~~----~~~CP~CR~~  172 (218)
                      .-| ||.+.. .++.+... ..|. .-||..|+.  |..    +-.||.|+..
T Consensus        17 ~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          17 TYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            456 998753 23333321 1244 469999985  332    2359999653

>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=81.85  E-value=0.73  Score=28.76  Aligned_cols=46  Identities=24%  Similarity=0.460  Sum_probs=29.8

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHHH----HH--H---hcCCCCcccccc
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCID----KW--L---RSHSSCPKCRRC  172 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~----~W--l---~~~~~CP~CR~~  172 (218)
                      ...| ||-.....+. +..-..|.--||..|+.    ..  .   ...-.||.|+..
T Consensus        16 ~~~C-iC~~~~~~~~-mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          16 ALYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             cCEE-ECCCccCCCe-EEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            3458 8987765433 44445599999999982    11  1   224679999644

>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=81.02  E-value=0.17  Score=31.75  Aligned_cols=46  Identities=28%  Similarity=0.423  Sum_probs=32.0

Q ss_pred             cccccccccccCCCceEEcCCCCcccChHHHHHHHh----cCCCCcccccc
Q 027813          126 TECVICLSNFLPGERVRMLPICNHGFHVRCIDKWLR----SHSSCPKCRRC  172 (218)
Q Consensus       126 ~~CaICle~f~~~~~vr~lp~C~H~FH~~CI~~Wl~----~~~~CP~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            357 78877777666666666999999999764221    23469999654

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.51  E-value=0.13  Score=27.82  Aligned_cols=28  Identities=25%  Similarity=0.619  Sum_probs=21.2

Q ss_pred             CcccccccccccCCCceEEcCCCCcccChHHH
Q 027813          125 DTECVICLSNFLPGERVRMLPICNHGFHVRCI  156 (218)
Q Consensus       125 ~~~CaICle~f~~~~~vr~lp~C~H~FH~~CI  156 (218)
                      -+.|++|-+.+.+    |+|...|-.||..|+
T Consensus         8 lEkC~~C~~~I~d----riLrA~Gk~yHP~CF   35 (35)
T d2dloa1           8 LEKCATCSQPILD----RILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCBCTTTCCBCCS----CCEEETTEEECTTTC
T ss_pred             HHHHHHhchHHHH----HHHHHhCCCCCCCCC
Confidence            3689999887654    345558999999984

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.13  E-value=0.8  Score=28.93  Aligned_cols=49  Identities=18%  Similarity=0.335  Sum_probs=31.9

Q ss_pred             CCcccccccccccCCCceEEcC--CCCcccChHHHHH----HHh-----cCCCCcccccccc
Q 027813          124 LDTECVICLSNFLPGERVRMLP--ICNHGFHVRCIDK----WLR-----SHSSCPKCRRCLI  174 (218)
Q Consensus       124 ~~~~CaICle~f~~~~~vr~lp--~C~H~FH~~CI~~----Wl~-----~~~~CP~CR~~l~  174 (218)
                      ....| ||-.....+..+ ...  .|+.-||..|+.-    +-.     .+..||.|+..-.
T Consensus        15 ~~~~C-~C~~~~~~~~~i-~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~   74 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMI-QCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSG   74 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEE-ECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCS
T ss_pred             CccEe-ECCCccCCCcEE-EEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCC
Confidence            34568 899887655444 443  4999999999842    101     1356999976543