Citrus Sinensis ID: 048010

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320
Protein Sequence
MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRWLGPVFQIRPVGV
Secondary Structure (PSIPRED)
cEEEccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHcccEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEccHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHccEEEEEccccccccccccEEEEEEcccccccEEEEcccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccHHHHHHHHHHcccccccEEEcccccccccccccccccccccccccccEEEEEEEEccccc
Coil and Loop (DISEMBL)
MLLVAHAlplslaqrspeppgsvdpysnmkfspsLAIIIVVLISALFFMGFFSIYIRhcsdssnsvirpagaggnrsrrgaargldrevidtfptFVYSEvktlkvgkgaLECAVCLnefeddetlrlipkcdhvfhpecIDAWleshttcpvcrsnlasepgettpqpselgssevdlEAQNdaavaaetpqetqpqaqcsqppepqvisgnfanqtlnrnrtrgsrsgrprkfprshstghslvqpgedterftlrlpVDVRKQIMNRelnrsnslvvlpreassrrgyrpggggegssrgrntrwlgpvfqirpvgv
Flexible Loop (DISEMBL)
MLLVAHALplslaqrspeppgSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNsvirpagaggnrsrrgaargldrevidtfptfVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISgnfanqtlnrnrtrgsrsgrprkfprshstghslvqpgedterftLRLPVDVRKQimnrelnrsnslvvlpreassrrgyrpggggegssrgrntrwlgpvfqirpvgv
Low Complexity Region (SEG)
MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPslaiiivvlisalffMGFFSIYIRHCSDSSNSVIrpagaggnrsrrgaargLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLnrnrtrgsrsgrprKFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREAssrrgyrpggggegssrgrNTRWLGPVFQIRPVGV
Disordered region (IsUnstruct)
******************************FSPSLAIIIVVLISALFFMGFFSIYIRHCS***********************GLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR********************************************************************************************************************************************************WLGPVF*******
Disordered Region (DISOPRED)
MLLV****************************PSLAIIIVVLISALFFMGFFSIYIRHCS****************************VIDTFPTFVYSEV******KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA*********************************************************************************************************************************************************FQIRPVG*
Disordered Region (DISEMBL)
MLLVAHALPLSLA*********VDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPA***********ARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL*******************DLEAQNDAAV******************EPQVISGNFANQTLNRN*************************PGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPR*******************GRNTRWLGPVFQIRPVGV
Disordered Region (DISPRO)
MLLVAHALPLSLA***************MKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS*********************GLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA******************************************************************************************EDTERFTLRLPVDVRKQIMNRELNRSNSLVVL************************TRWLGPVFQIRPV**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSoooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRWLGPVFQIRPVGV
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	320	2.2.26 [Sep-21-2011]
Q8RXX9	398	E3 ubiquitin-protein liga	yes	no	0.890	0.716	0.536	9e-80
Q8LGA5	368	E3 ubiquitin-protein liga	no	no	0.743	0.646	0.527	1e-71
Q84W40	404	RING-H2 finger protein AT	no	no	0.765	0.606	0.431	3e-52
Q9SK92	381	E3 ubiquitin-protein liga	no	no	0.821	0.690	0.436	2e-51
Q9M0R5	345	Putative RING-H2 finger p	no	no	0.75	0.695	0.417	5e-49
Q9M0R4	357	Putative RING-H2 finger p	no	no	0.656	0.588	0.465	2e-48
O64763	378	E3 ubiquitin-protein liga	no	no	0.712	0.603	0.432	7e-48
Q8W571	323	RING-H2 finger protein AT	no	no	0.812	0.804	0.4	2e-45
Q9C7I1	327	RING-H2 finger protein AT	no	no	0.859	0.840	0.377	3e-44
O64762	302	RING-H2 finger protein AT	no	no	0.675	0.715	0.374	7e-41

>sp|Q8RXX9|ATL6_ARATH E3 ubiquitin-protein ligase ATL6 OS=Arabidopsis thaliana GN=ATL6 PE=1 SV=2

 Score =  297 bits (760), Expect = 9e-80,   Method: Compositional matrix adjust.
 Identities = 168/313 (53%), Positives = 208/313 (66%), Gaps = 28/313 (8%)

Query: 1   MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCS 60
            LL+  +  L+ +Q  P P     PY+  + SP++A+I+V+LI+ALFFMGFFSIY RHCS
Sbjct: 17  FLLILSSADLAASQSQPGPTN--QPYNYGRLSPAMAVIVVILIAALFFMGFFSIYFRHCS 74

Query: 61  DSSNSVIRPAGAGGNRSR---RGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCL 117
              ++ + PAG  G RSR     AARGLD  V++TFPTF+YS+VKT K+GKG LECA+CL
Sbjct: 75  GVPDAGVSPAG--GARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGELECAICL 132

Query: 118 NEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEV 177
           NEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +  E   +  E G +E 
Sbjct: 133 NEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQVAEG--ESVEPGGTEP 190

Query: 178 DLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPR 237
           DLE Q    V    P  T P  +  Q    +V S       ++  R          KF R
Sbjct: 191 DLELQQ--VVVNPEPVVTAPVPE--QLVTSEVDSRRLPGVPVDLKRV---------KFSR 237

Query: 238 SHSTGHSLVQPGEDTERFTLRLPVDVRKQIM-NRELNRSNSLVVLPREASSRRGYRPGGG 296
           SH+TGHS+VQPGE TERFTLRLP DVRK+IM + +LNR+NSL+VLPR  SSRRG +P   
Sbjct: 238 SHTTGHSVVQPGECTERFTLRLPEDVRKRIMKDWKLNRTNSLLVLPRGGSSRRG-KP--- 293

Query: 297 GEGSSRGRNTRWL 309
               SR R+ RWL
Sbjct: 294 -IDRSRARSDRWL 305

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. May be involved in the plant C/N response and the early steps of the plant defense signaling pathway.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8LGA5|ATL31_ARATH E3 ubiquitin-protein ligase ATL31 OS=Arabidopsis thaliana GN=ATL31 PE=1 SV=2

 Score =  270 bits (690), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 153/290 (52%), Positives = 190/290 (65%), Gaps = 52/290 (17%)

Query: 24  DPYS-NMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGAGGNR-SRRGA 81
           DPY+ +   SP++A+++VV+I+ALFFMGFF++YIRHC+ + +  + PAG    R +    
Sbjct: 33  DPYAYSGSLSPAMAVVVVVVIAALFFMGFFTVYIRHCTGAVDGSVTPAGGARRRVTNATV 92

Query: 82  ARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECI 141
           ARGLD E I+TFPTFVYSEVKT K+GKGALECA+CLNEFEDDETLRL+PKCDHVFHP CI
Sbjct: 93  ARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLLPKCDHVFHPHCI 152

Query: 142 DAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQC 201
            AWL+ H TCPVCR+NLA    E TP+P  +   E DLEAQ  +AV              
Sbjct: 153 GAWLQGHVTCPVCRTNLA----EQTPEPEVV--VETDLEAQQQSAV-------------- 192

Query: 202 SQPPEPQVISGNFANQTLNRNRTRGSRSGRPR-KFPRSHSTGHSLVQPGEDTERFTLRLP 260
              P P V                      PR KFPRSH+TGHS+V PGE T+RFTLR+P
Sbjct: 193 ---PVPVV--------------------ELPRVKFPRSHTTGHSVVLPGESTDRFTLRVP 229

Query: 261 VDVRKQIM-NRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRWL 309
            ++RK+IM N +LNRSNS+ VLPR  SSR G +        SR ++ RWL
Sbjct: 230 EELRKKIMANWKLNRSNSVFVLPRGGSSRSGKQ-----VDRSRAKSDRWL 274

E3 ubiquitin-protein ligase that is required for the plant C/N response during seedling growth transition. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84W40|ATL11_ARATH RING-H2 finger protein ATL11 OS=Arabidopsis thaliana GN=ATL11 PE=2 SV=2

 Score =  205 bits (522), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 120/278 (43%), Positives = 160/278 (57%), Gaps = 33/278 (11%)

Query: 30  KFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVI--RPAGAGGN-RSRRGAARGLD 86
           +F P++AI+++VL+S  FF+GFFS+YIR C +    +    P  AG    + R  ARGLD
Sbjct: 58  RFDPTMAILMIVLVSVFFFLGFFSVYIRRCLERVMGMDYGNPNDAGNWLATNRQQARGLD 117

Query: 87  REVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 146
             +I+TFPTF YS VKTL++GK ALEC+VCLNEFEDDETLRLIPKC HVFHP CIDAWL 
Sbjct: 118 ASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPKCCHVFHPGCIDAWLR 177

Query: 147 SHTTCPVCRSNLASEPGET--TPQPSELGSSEVDLEAQNDAAVAAETPQETQPQA---QC 201
           SHTTCP+CR++L   PGE+  + Q   L +     +   D   +  +P     ++    C
Sbjct: 178 SHTTCPLCRADLIPVPGESIVSIQIPGLVNDPPGSDPNGDRIRSLGSPDARLIESVALTC 237

Query: 202 SQ--PPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRL 259
           +Q  P        N A    N +RT                      Q  E+ +RFTLRL
Sbjct: 238 NQSMPRRSMSTGWNLAGMFTNSDRTG---------------------QHSENLDRFTLRL 276

Query: 260 PVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGG 297
           P D+  +++N  L++ +  V LP+  SS RGYR G  G
Sbjct: 277 PQDIHNKLVNPNLSKVH--VALPQVMSSTRGYRTGSLG 312

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SK92|ATL15_ARATH E3 ubiquitin-protein ligase ATL15 OS=Arabidopsis thaliana GN=ATL15 PE=1 SV=1

 Score =  202 bits (515), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 121/277 (43%), Positives = 159/277 (57%), Gaps = 14/277 (5%)

Query: 24  DPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGAGGNRSRRGAAR 83
           D      FSP+ AII++VL+S  F +G  S+Y+R C   +  +    G G   + R    
Sbjct: 28  DDEGRTSFSPTTAIIMIVLVSVFFALGCISVYMRRCLQHALGMDSGGGPGNWLNVRQTTE 87

Query: 84  -GLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECID 142
            GLD  VI+TFPTF YS VKTL++GK ALEC VCLNEFEDDETLRLIP+C HVFHP CID
Sbjct: 88  PGLDASVIETFPTFPYSTVKTLRIGKEALECPVCLNEFEDDETLRLIPQCCHVFHPGCID 147

Query: 143 AWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCS 202
           AWL S TTCP+CR+NL   PGE+        SSE+   A+     +  TP +   +   +
Sbjct: 148 AWLRSQTTCPLCRANLVPVPGESV-------SSEIPGLARETGQNSLRTPIDDNRKRVLT 200

Query: 203 QPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVD 262
            P E  + S      T N++  R S S    K    +S   S  QP E+ +R+TLRLP +
Sbjct: 201 SPDERLIDS---VAWTGNQSMPRKSMS-TGWKLAELYSPASSPGQPEENLDRYTLRLPQE 256

Query: 263 VRKQIMNRELNR--SNSLVVLPREASSRRGYRPGGGG 297
           +  Q++N  L +  S   + LP+E SS RG+R G  G
Sbjct: 257 IHDQLVNSSLGKQGSKGQLALPQERSSVRGFRTGSLG 293

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28 and UBC29 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M0R5|ATL36_ARATH Putative RING-H2 finger protein ATL36 OS=Arabidopsis thaliana GN=ATL36 PE=3 SV=1

 Score =  195 bits (495), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 116/278 (41%), Positives = 162/278 (58%), Gaps = 38/278 (13%)

Query: 36  AIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPT 95
           +II +V+++    +G  S  + HC      +     AG +     A RGL++EVI++FPT
Sbjct: 50  SIIAIVVLAIFISLGMVSCCL-HCIFYREEI---GAAGQDVLHSRARRGLEKEVIESFPT 105

Query: 96  FVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           F+YSEVK LK+GKG +ECA+CL+EFED ETLR +P C H FH  CID WL S +TCPVCR
Sbjct: 106 FLYSEVKGLKIGKGGVECAICLSEFEDQETLRWMPPCSHTFHANCIDVWLSSWSTCPVCR 165

Query: 156 SNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFA 215
           +NL+ +PGE+ P  +      +D+E                      + P  + ++GN  
Sbjct: 166 ANLSLKPGESYPYLN------MDVET-----------------GGVQKLPNERSLTGN-- 200

Query: 216 NQTLNRNRTRGSRSGRPRK---FPRSHSTGHSLVQP-GEDTERFTLRLPVDVRKQIMNRE 271
                R+R+ G  S         PRSHSTGHSLVQ  GE+ +RFTL+LP +V++Q+++  
Sbjct: 201 -SVTTRSRSTGLLSSWRMAEIFVPRSHSTGHSLVQQLGENLDRFTLQLPEEVQRQLVSLN 259

Query: 272 LNRSNSLVVLPREASSRRGYRPGGGGE---GSSRGRNT 306
           L R  S +VLP+  SSR+GYR G  G    G S+GR T
Sbjct: 260 LIR-RSHIVLPQAVSSRQGYRSGSVGSERGGFSQGRQT 296

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M0R4|ATL37_ARATH Putative RING-H2 finger protein ATL37 OS=Arabidopsis thaliana GN=ATL37 PE=3 SV=1

 Score =  193 bits (490), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 107/230 (46%), Positives = 143/230 (62%), Gaps = 20/230 (8%)

Query: 83  RGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECID 142
           RG+D++VI++FP F+YSEVK  K+G G +ECA+CL EFED+E LR +P C H FH  CID
Sbjct: 90  RGIDKDVIESFPAFLYSEVKAFKIGNGGVECAICLCEFEDEEPLRWMPPCSHTFHANCID 149

Query: 143 AWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCS 202
            WL S +TCPVCR+NL+ + G++ P PS      +D+E  N      E+P E        
Sbjct: 150 EWLSSRSTCPVCRANLSLKSGDSFPHPS------MDVETGNAQRGVQESPDERSLTGS-- 201

Query: 203 QPPEPQVISGNFANQTLNRNRTRGSRSGR--PRKF-PRSHSTGHSLVQPGEDTERFTLRL 259
                 V   N AN T  R+R+ G  S    P  F PRSHSTGHSLVQP ++ +RFTL+L
Sbjct: 202 -----SVTCNNNANYTTPRSRSTGLLSSWHVPELFLPRSHSTGHSLVQPCQNIDRFTLQL 256

Query: 260 PVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGE---GSSRGRNT 306
           P +V++Q+++  L +  S + LPR  SSR+GYR G  G    G S+GR T
Sbjct: 257 PEEVQRQLVSLNLIK-RSHIALPRARSSRQGYRSGSVGNERTGFSQGRQT 305

Arabidopsis thaliana (taxid: 3702)

>sp|O64763|ATL9_ARATH E3 ubiquitin-protein ligase ATL9 OS=Arabidopsis thaliana GN=ATL9 PE=1 SV=1

 Score =  191 bits (485), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 105/243 (43%), Positives = 145/243 (59%), Gaps = 15/243 (6%)

Query: 35  LAIIIVVLISALFFMGFFSIYIRHCSD--SSNSVIRPAGAGGN----RSRRGAARGLDRE 88
           + ++I VL   +FFM F SI+ R  +   S +S+ R   A       R RR  ARGLD E
Sbjct: 51  VVVVITVLFLVIFFMVFGSIFCRRSNAQFSRSSIFRSTDADAESQVVRIRRLTARGLDAE 110

Query: 89  VIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH 148
            I+TFPTF+YSEVK +++GKG +ECAVCL EFEDDETLRL+P C HVFH +C+D WL  H
Sbjct: 111 AIETFPTFLYSEVKAVRIGKGGVECAVCLCEFEDDETLRLMPPCCHVFHADCVDVWLSEH 170

Query: 149 TTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQ 208
           +TCP+CR++L         Q  +   S       +   +++ T  E     + S      
Sbjct: 171 STCPLCRADLVLN------QQGDDDDSTESYSGTDPGTISSSTDPERGMVLESSDAHLLD 224

Query: 209 VISGNFANQTLNRNRTRGSRSGRPRK--FPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQ 266
            ++ + +N T  R+++ G  S +     FPRSHSTGHSL+QP  + +RFTLRLP DVR+Q
Sbjct: 225 AVTWSNSNIT-PRSKSTGLSSWQITGILFPRSHSTGHSLIQPAGNLDRFTLRLPDDVRRQ 283

Query: 267 IMN 269
           +M 
Sbjct: 284 LMK 286

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8W571|ATL32_ARATH RING-H2 finger protein ATL32 OS=Arabidopsis thaliana GN=ATL32 PE=2 SV=3

 Score =  183 bits (464), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 124/310 (40%), Positives = 157/310 (50%), Gaps = 50/310 (16%)

Query: 16  SPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCS----DSSNSVIRPAG 71
           SP PP     ++     PS   +  VL++  F  G  S+YIRHC+    DSS    R   
Sbjct: 32  SPSPPDLQTGHT-----PSKTTVFAVLVTLFFLTGLLSVYIRHCARSNPDSSTRYFRNRA 86

Query: 72  AGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPK 131
             G+ SRRG   GLD  V+++FP F YS VK  K+G   LECA+CLNE ED ET+RL+P 
Sbjct: 87  NDGS-SRRG---GLDNAVVESFPVFAYSSVKESKIGSKDLECAICLNELEDHETVRLLPI 142

Query: 132 CDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAET 191
           C+H+FH +CID WL SH TCPVCRSNL ++  +  P   + G   V L A  D  V    
Sbjct: 143 CNHLFHIDCIDTWLYSHATCPVCRSNLTAKSNK--PGDEDDG---VPLAAMRDHVVV--- 194

Query: 192 PQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGED 251
             ET   A+         ISG                     KFPRS+STGHS+ +  + 
Sbjct: 195 DIETVEVAKSHHRRLSSEISG---------------------KFPRSNSTGHSMDRFSDG 233

Query: 252 TERFTLRLPVDVRKQIM---NRELNRSNSL-VVLPREASSRRGYRPGGG-GEGSSRGRNT 306
           TERFTLRLP DV+ ++M    R L R+ S  V L  E   R G       G G+  GR  
Sbjct: 234 TERFTLRLPDDVKMRLMAVKGRRLKRTRSFDVDLTAEHYCRSGEESSNTIGSGAKSGRVN 293

Query: 307 ---RWLGPVF 313
              RW   +F
Sbjct: 294 WPDRWGLTLF 303

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7I1|ATL34_ARATH RING-H2 finger protein ATL34 OS=Arabidopsis thaliana GN=ATL34 PE=2 SV=1

 Score =  179 bits (453), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 114/302 (37%), Positives = 165/302 (54%), Gaps = 27/302 (8%)

Query: 18  EPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS----NSVIRPAGAG 73
           +P  +  PY   + +   A+II +L+  L F           +++S    +S     G G
Sbjct: 29  QPRTTAPPYIAQRPNQVPAVIIAMLMFTLLFSMLACCVCYKYTNTSPHGTSSDTEEGGHG 88

Query: 74  GNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCD 133
                R  +RGL ++VI++FP+F+YS+VK LK+GKG +ECA+CLNEFED+ETLRL+P C 
Sbjct: 89  EVAFTRRTSRGLGKDVINSFPSFLYSQVKGLKIGKGGVECAICLNEFEDEETLRLMPPCS 148

Query: 134 HVFHPECIDAWLESHTTCPVCRSNLASEPG----ETTPQPSELGSSEVDLEAQNDAAVAA 189
           H FH  CID WL S +TCPVCR++L  +PG       P      + ++DLE         
Sbjct: 149 HAFHASCIDVWLSSRSTCPVCRASLPPKPGSDQNSLYPFIRPHDNQDMDLENVTARRSVL 208

Query: 190 ETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRK--FPRSHSTGHSLVQ 247
           E+P + +   + S        S N    T  R+R+ G  + R  +  FPRSHSTGHSLV 
Sbjct: 209 ESP-DVRLLDRLSW-------SNNTGANTPPRSRSTGLSNWRITELLFPRSHSTGHSLVP 260

Query: 248 PGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGG-GGEGSSRGRNT 306
             E+ +RFTL+LP +VR+Q+        + +  LP+  SSR GYR G  G E   +G+  
Sbjct: 261 RVENLDRFTLQLPEEVRRQL--------SHMKTLPQARSSREGYRSGSVGSERRGKGKEK 312

Query: 307 RW 308
            +
Sbjct: 313 EF 314

Arabidopsis thaliana (taxid: 3702)

>sp|O64762|ATL38_ARATH RING-H2 finger protein ATL38 OS=Arabidopsis thaliana GN=ATL38 PE=2 SV=1

 Score =  167 bits (424), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 100/267 (37%), Positives = 140/267 (52%), Gaps = 51/267 (19%)

Query: 23  VDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS--SNSVIRPAGAGGNRSRRG 80
           V P + +K S    ++I +++ A+F +G  S+  R  S    S   I P       SR  
Sbjct: 2   VQPGTEIKASDLTLLVITIILFAIFIVGLASVCFRWTSRQFYSQESINPFTDSDVESRTS 61

Query: 81  --AARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHP 138
             A RGLD  +I++FPTF+YSEVK  ++G G +ECAVC+ EFED ETLRL+P+C HVFH 
Sbjct: 62  ITAVRGLDEAIINSFPTFLYSEVKERRIGIGGVECAVCICEFEDHETLRLMPECCHVFHA 121

Query: 139 ECIDAWLESHTTCPVCRSNLASEPGETT---PQPSELGSSEVDLEAQNDAAVAAETPQET 195
           +C+  WL  H+TCP+CR +L  +PGE +   P+P  + S+   L                
Sbjct: 122 DCVSVWLSDHSTCPLCRVDLCLQPGERSYLNPEPDLVESTNSHL---------------- 165

Query: 196 QPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPR---------KFPRSHSTGHSLV 246
                             F   T   NR R SRS   R            RSHSTGHS+V
Sbjct: 166 ------------------FDGVTWT-NRNRPSRSWSTRLSQCRVSQILISRSHSTGHSVV 206

Query: 247 QPGEDTERFTLRLPVDVRKQIMNRELN 273
           QP ++ +RFTLRLP +VR+Q+  + ++
Sbjct: 207 QPLDNLDRFTLRLPEEVRRQLTKKTVD 233

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	320
255542560	380	ring finger protein, putative [Ricinus c	0.912	0.768	0.676	1e-101
224125338	337	predicted protein [Populus trichocarpa]	0.853	0.810	0.677	1e-98
357441591	373	RING finger family protein [Medicago tru	0.871	0.747	0.659	5e-96
224130990	374	predicted protein [Populus trichocarpa]	0.85	0.727	0.627	1e-93
28558782	379	RING/c3HC4/PHD zinc finger-like protein	0.896	0.757	0.593	1e-92
449442843	379	PREDICTED: E3 ubiquitin-protein ligase A	0.9	0.759	0.601	6e-92
357512053	361	RING finger protein [Medicago truncatula	0.853	0.756	0.612	8e-92
356504060	366	PREDICTED: E3 ubiquitin-protein ligase A	0.906	0.792	0.564	2e-87
356573020	375	PREDICTED: E3 ubiquitin-protein ligase A	0.918	0.784	0.589	2e-87
225451024	420	PREDICTED: E3 ubiquitin-protein ligase A	0.865	0.659	0.604	4e-86

>gi|255542560|ref|XP_002512343.1| ring finger protein, putative [Ricinus communis] gi|223548304|gb|EEF49795.1| ring finger protein, putative [Ricinus communis]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 203/300 (67%), Positives = 234/300 (78%), Gaps = 8/300 (2%)

Query: 11  SLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSV-IRP 69
           +LAQ  P P  + DPY   + +PS+AIIIVVLI+ALFFMGFFS+YIRHC++SSN V ++ 
Sbjct: 22  ALAQ--PSPAEARDPYGYARVTPSMAIIIVVLIAALFFMGFFSVYIRHCANSSNGVSVQG 79

Query: 70  AGAGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLI 129
              GG   R  AARGLD  VI+TFPT VYSEVK LK+GKGALECAVCL EFEDDETLRL+
Sbjct: 80  LANGGRSRRAAAARGLDAAVIETFPTLVYSEVKGLKIGKGALECAVCLCEFEDDETLRLL 139

Query: 130 PKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSE-LGSSEVDLEAQNDAAVA 188
           PKCDHVFHP+CIDAWL SHTTCPVCRSNL  +P +   Q +E L  S  DLEAQN+A V 
Sbjct: 140 PKCDHVFHPDCIDAWLASHTTCPVCRSNLTPQPVDPPTQTTESLPDSSSDLEAQNEAVVE 199

Query: 189 AETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQP 248
            E   E    AQ +  PEP+V+S    NQTLNRNRTRGSRSGRP KFPRSHSTGHSL+QP
Sbjct: 200 LEPQPEVCENAQVAVAPEPEVMS---VNQTLNRNRTRGSRSGRPSKFPRSHSTGHSLIQP 256

Query: 249 GEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRW 308
           GE+T+RFTLRLPV+VRKQIMNRELNR+ S+VV  RE SS+RGY+  GGGEGSSRG+  R 
Sbjct: 257 GENTDRFTLRLPVEVRKQIMNRELNRTMSMVVFSRERSSKRGYK-TGGGEGSSRGKYKRL 315

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125338|ref|XP_002319561.1| predicted protein [Populus trichocarpa] gi|222857937|gb|EEE95484.1| predicted protein [Populus trichocarpa]

 Score =  365 bits (937), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 189/279 (67%), Positives = 221/279 (79%), Gaps = 6/279 (2%)

Query: 26  YSNM-KFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS-NSVIRPAGAGGNRSRRGAAR 83
           Y+N  + +PS+AIIIVVL++ALF MGFFSIYIRHC+++S N  IR  G  G   R  A+R
Sbjct: 28  YNNYAQVTPSMAIIIVVLVAALFSMGFFSIYIRHCNEASANGSIRALGVVGLSRRAAASR 87

Query: 84  GLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDA 143
           GLD  VI+TFPT +YS VK LK+GKGALECAVCLNEFEDDETLRLIP CDHVFHP+CIDA
Sbjct: 88  GLDPGVIETFPTLIYSVVKGLKIGKGALECAVCLNEFEDDETLRLIPNCDHVFHPDCIDA 147

Query: 144 WLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQ 203
           WLESHTTCPVCR++L ++P +T  Q SEL S E+DLEAQN A            + Q   
Sbjct: 148 WLESHTTCPVCRADL-TKPADTVSQLSELHSPELDLEAQNGALGIEPENGNANVEVQVVG 206

Query: 204 PPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDV 263
           P EP  +S N  N+TLNRNRTRGSRSGRP +FPRSHSTGHSLVQPGE+T+RFTLRLPV+V
Sbjct: 207 P-EPDDVSVN-VNKTLNRNRTRGSRSGRPPRFPRSHSTGHSLVQPGENTDRFTLRLPVEV 264

Query: 264 RKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSR 302
           RKQ+MNR+LNRS S+VVLPR+ SSR+GYR  G GEGSSR
Sbjct: 265 RKQVMNRKLNRSTSMVVLPRQGSSRKGYRT-GVGEGSSR 302

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357441591|ref|XP_003591073.1| RING finger family protein [Medicago truncatula] gi|355480121|gb|AES61324.1| RING finger family protein [Medicago truncatula] gi|388512099|gb|AFK44111.1| unknown [Medicago truncatula]

 Score =  357 bits (916), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 190/288 (65%), Positives = 219/288 (76%), Gaps = 9/288 (3%)

Query: 24  DPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS-SNSVIRPAGAGGNRSRRGAA 82
           + Y N + SPS+AIIIV+L++ALF MGFFSIYIR C DS SNS+   AG    RSRR AA
Sbjct: 39  NSYYN-RVSPSMAIIIVILVAALFLMGFFSIYIRRCGDSPSNSIRNMAGGLAGRSRR-AA 96

Query: 83  RGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECID 142
           RGLD  VI TFP F YS VK  K+GKGALECAVCLNEFE+ ETLRLIPKCDHVFHPECID
Sbjct: 97  RGLDASVIATFPIFEYSTVKIHKIGKGALECAVCLNEFEESETLRLIPKCDHVFHPECID 156

Query: 143 AWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCS 202
            WL SHTTCPVCR+NL  +PGE+      + +   D+EAQNDA  +    Q      +  
Sbjct: 157 EWLGSHTTCPVCRANLVPQPGESVHGIPSINTEPQDIEAQNDAVESVHEHQNADGSVKV- 215

Query: 203 QPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVD 262
            P EP+V++    +QTLNRNRTRGS+SGRPR F RSHSTGHSLVQPGE+TERFTLRLPV+
Sbjct: 216 DPTEPEVLT---VSQTLNRNRTRGSQSGRPRWFQRSHSTGHSLVQPGENTERFTLRLPVE 272

Query: 263 VRKQIM-NRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRWL 309
           VRKQI+ N EL+R+ SLVVLPRE SSRRGYR  GGGEGSSRG++ R L
Sbjct: 273 VRKQILQNPELHRARSLVVLPRETSSRRGYRT-GGGEGSSRGKSVRRL 319

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130990|ref|XP_002328426.1| predicted protein [Populus trichocarpa] gi|222838141|gb|EEE76506.1| predicted protein [Populus trichocarpa]

 Score =  349 bits (895), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 175/279 (62%), Positives = 217/279 (77%), Gaps = 7/279 (2%)

Query: 25  PYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS-NSVIRPAGAGGNRSRRGAAR 83
           PY+  + +PS+AIIIVVLI+ LF MGFFSIYIRHC++++ N  IRP G GG   R  A+R
Sbjct: 29  PYNYARVTPSMAIIIVVLIAVLFIMGFFSIYIRHCNEANGNGSIRPLGMGGLSRRVAASR 88

Query: 84  GLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDA 143
           GLD  VI+TFPT +YS VK LK+GKGALECAVCLNEFE+DETLRLIP CDHVFHP+CI A
Sbjct: 89  GLDPAVIETFPTLIYSVVKGLKIGKGALECAVCLNEFEEDETLRLIPNCDHVFHPDCIGA 148

Query: 144 WLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQ 203
           WLESHTTCPVCR++L ++P ++ PQ  E    E+DLEAQN A +  + P+      +   
Sbjct: 149 WLESHTTCPVCRADL-TKPADSVPQLGESHDPELDLEAQNGAVM--DEPENGNANVEVVG 205

Query: 204 PPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDV 263
            PEP+V+  +   +TLNRNRTRGSRSGRP +F RSHSTGHS+VQPGE+T+RFTLRLPV+V
Sbjct: 206 -PEPEVMGASVV-KTLNRNRTRGSRSGRPLRFTRSHSTGHSVVQPGENTDRFTLRLPVEV 263

Query: 264 RKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSR 302
           RKQ+MNR+LNR+ S+VVL R+ SS +G +  G GEGS R
Sbjct: 264 RKQVMNRKLNRAMSMVVLSRQGSSVKGNK-NGVGEGSPR 301

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|28558782|gb|AAO45753.1| RING/c3HC4/PHD zinc finger-like protein [Cucumis melo subsp. melo]

 Score =  345 bits (886), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 181/305 (59%), Positives = 222/305 (72%), Gaps = 18/305 (5%)

Query: 13  AQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGA 72
           AQ  P P    DPY   + S S+A+IIV+LI+ALFFM FFS+YIRHC+DS ++ +RP  A
Sbjct: 26  AQFQPAPDPRSDPY-QYRLSGSMAVIIVILIAALFFMAFFSVYIRHCNDSPSNTVRPITA 84

Query: 73  GGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKC 132
              RSRR A RGLD  VI+TFPT +YS+VK  K+GK ALECAVCLNEFEDDETLRLIPKC
Sbjct: 85  AAGRSRR-ATRGLDPAVIETFPTLIYSDVKEHKIGKSALECAVCLNEFEDDETLRLIPKC 143

Query: 133 DHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSE---LGSSEV---DLEAQ-NDA 185
           DHVFHPECIDAWL SH+TCPVCR+NL+ +P ++  +  +   + +S+    D+EAQ ND 
Sbjct: 144 DHVFHPECIDAWLASHSTCPVCRANLSPQPTDSVHRADDSNAVVNSDTDGGDIEAQSNDV 203

Query: 186 AVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRK-FPRSHSTGHS 244
                 P   Q Q +         +S   +N+ LNR RTRGSRS R R  FPRSHSTGHS
Sbjct: 204 VSETTAPPTVQIQTESE-------LSTTTSNKALNRTRTRGSRSNRLRWLFPRSHSTGHS 256

Query: 245 LVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGR 304
           LVQPGEDTERFTLRLPV++RKQ++NR+L+R+ S+VVL R++SS RGYR  G GEGSSRG+
Sbjct: 257 LVQPGEDTERFTLRLPVEIRKQVVNRKLHRATSMVVLARQSSSMRGYR-FGSGEGSSRGK 315

Query: 305 NTRWL 309
             R L
Sbjct: 316 YYRRL 320

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442843|ref|XP_004139190.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Cucumis sativus] gi|449518671|ref|XP_004166360.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Cucumis sativus]

 Score =  343 bits (880), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 183/304 (60%), Positives = 219/304 (72%), Gaps = 16/304 (5%)

Query: 13  AQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPAGA 72
           AQ  P P    DPY   + S S+A+IIV+LI+ALFFM FFS+YIRHC+DS ++ IRP   
Sbjct: 26  AQSQPSPDPRSDPY-QYRLSGSMAVIIVILIAALFFMAFFSVYIRHCNDSQSNTIRPITV 84

Query: 73  GGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKC 132
              RSRR A RGLD  VI+TFPT +YS+VK  K+GK ALECAVCLNEFEDDETLRLIPKC
Sbjct: 85  AAGRSRR-ATRGLDPAVIETFPTLIYSDVKEHKIGKSALECAVCLNEFEDDETLRLIPKC 143

Query: 133 DHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSE---LGSSEV---DLEAQNDAA 186
           DHVFHPECIDAWL SH+TCPVCR+NL+ +  E+  +  +   + +S+    D+EAQ+   
Sbjct: 144 DHVFHPECIDAWLASHSTCPVCRANLSPQLTESVHRVDDSNAVVNSDTDGGDIEAQSTDV 203

Query: 187 VAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRK-FPRSHSTGHSL 245
           V   T     P  Q     E    +GN A   LNR RTRGSRS R R  FPRSHSTGHSL
Sbjct: 204 VLETT---APPTVQIQTESELTTTTGNKA---LNRTRTRGSRSNRLRWLFPRSHSTGHSL 257

Query: 246 VQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRN 305
           VQPGEDTERFTLRLPV++RKQ++NR+LNR+ S+VVL R++SS RGYR  G GEGSSRG+ 
Sbjct: 258 VQPGEDTERFTLRLPVEIRKQVVNRKLNRAMSMVVLARQSSSMRGYR-FGSGEGSSRGKY 316

Query: 306 TRWL 309
            R L
Sbjct: 317 YRRL 320

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512053|ref|XP_003626315.1| RING finger protein [Medicago truncatula] gi|87240525|gb|ABD32383.1| Zinc finger, RING-type [Medicago truncatula] gi|355501330|gb|AES82533.1| RING finger protein [Medicago truncatula]

 Score =  343 bits (879), Expect = 8e-92,   Method: Compositional matrix adjust.
 Identities = 180/294 (61%), Positives = 216/294 (73%), Gaps = 21/294 (7%)

Query: 23  VDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS--SNSVIRPAGAGGNRSRRG 80
            +P  N +F+PS AIIIV+L++ALF MGFFSIYIR CSDS  SN+++ P   G    RR 
Sbjct: 32  TNPNFNQEFNPSFAIIIVILVAALFLMGFFSIYIRRCSDSPSSNNLLLPITNG----RRA 87

Query: 81  AARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPEC 140
            ARGLD  VI+TFP   YSEVK  K+GK  LECAVCL EFED ETLRLIPKCDHVFHPEC
Sbjct: 88  VARGLDPSVIETFPILEYSEVKIHKIGKDVLECAVCLMEFEDTETLRLIPKCDHVFHPEC 147

Query: 141 IDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQ 200
           ID WL SHTTCPVCR+NL  +PG++     E  S + D+EAQND   A + P E+     
Sbjct: 148 IDEWLSSHTTCPVCRANLVPQPGDSVHGVPE--SQQQDVEAQND---AVQLPTESD---- 198

Query: 201 CSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGEDTERFTLRLP 260
            S    P+VIS    N+TLNRNRTRGS+S RPR+FPRSHSTGHSL+QPGE+T+RFTL+LP
Sbjct: 199 -SVLLAPEVIS---LNKTLNRNRTRGSQSNRPRRFPRSHSTGHSLIQPGENTDRFTLKLP 254

Query: 261 VDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTRWLGPVFQ 314
             VRKQIM+R+L R+ SL+ LPRE+SSR GYR   GGEGS+RG++ R L   F+
Sbjct: 255 NKVRKQIMSRQLQRARSLITLPRESSSRHGYR--TGGEGSNRGKSLRRLDLSFK 306

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504060|ref|XP_003520817.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Glycine max]

 Score =  328 bits (842), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 180/319 (56%), Positives = 224/319 (70%), Gaps = 29/319 (9%)

Query: 1   MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCS 60
           +LLV+  +P+++AQ     P      +  +F+ S+AIII++L+ A F M FFSIY+RHC+
Sbjct: 7   LLLVSALIPIAVAQ-----PNDFSDANLNEFNSSVAIIIIILVVAFFLMAFFSIYVRHCA 61

Query: 61  DSSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEF 120
           DS ++ +RP      RSRR AARGLD  +I TFP   YS VK  K+GK ALECAVCL EF
Sbjct: 62  DSPSNTVRPLTTA--RSRR-AARGLDPALIQTFPILEYSVVKIHKIGKEALECAVCLCEF 118

Query: 121 EDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGE----------TTPQPS 170
           ED ETLRL+PKCDHVFHPECID WL SHTTCPVCR+NL     E            P P 
Sbjct: 119 EDTETLRLLPKCDHVFHPECIDEWLSSHTTCPVCRANLLPTESEDAIANANANGVVPVPE 178

Query: 171 ELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSG 230
            L     D+E+QNDA  AA   Q  +        PEP+V+S    ++TLNRNRTRGSRS 
Sbjct: 179 TLTR---DIESQNDAVQAAPEQQNAEADPVL---PEPEVVS---LDKTLNRNRTRGSRSN 229

Query: 231 RPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRG 290
           RPR+FPRSHSTGHSLVQPGE+T+RFTL+LP++VRKQ++NR+L R++SL+VLPRE SSR+G
Sbjct: 230 RPRRFPRSHSTGHSLVQPGENTDRFTLKLPLEVRKQLINRQLQRASSLIVLPREGSSRQG 289

Query: 291 YRPGGGGEGSSRGRNTRWL 309
           YR   GGEGSSRG+ +R L
Sbjct: 290 YR--TGGEGSSRGKISRRL 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573020|ref|XP_003554663.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Glycine max]

 Score =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 188/319 (58%), Positives = 227/319 (71%), Gaps = 25/319 (7%)

Query: 1   MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCS 60
           +LLV+  +P+++AQ   +P    D   N +FSPS+AIIIV+L++ALF M FFSIY+RHC+
Sbjct: 11  LLLVSPLIPIAVAQAQSQPNDFSDANLN-QFSPSIAIIIVILVAALFLMAFFSIYVRHCA 69

Query: 61  DSSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEF 120
           DS ++ + P      RSRR AARGLD  VI TFP   YSEVK  K+GK ALECAVCL EF
Sbjct: 70  DSPSTTVSPLTTA--RSRR-AARGLDPAVIQTFPILEYSEVKIHKIGKEALECAVCLCEF 126

Query: 121 EDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGE----------TTPQPS 170
           ED ETLRLIPKCDHVFHPECID WL SHTTCPVCR+NL     E            P P 
Sbjct: 127 EDTETLRLIPKCDHVFHPECIDEWLGSHTTCPVCRANLVPTDSEDAIANGNANGVVPVPE 186

Query: 171 ELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSG 230
                  D+EAQNDA  AA   Q  +        PEP+V+S    ++TLNRNRTRGSRS 
Sbjct: 187 TFTR---DIEAQNDAVEAAPEQQNAEADPVL---PEPEVVS---LDKTLNRNRTRGSRSN 237

Query: 231 RPRKFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRG 290
           RPR+FPRSHSTGHSLVQPGE+T+RFTLRLP++VRKQ++NR+L R++SL+VLPRE S R+G
Sbjct: 238 RPRRFPRSHSTGHSLVQPGENTDRFTLRLPLEVRKQLINRQLQRASSLIVLPREGSLRQG 297

Query: 291 YRPGGGGEGSSRGRNTRWL 309
           YR   GGEGSSRG+ +R L
Sbjct: 298 YR--TGGEGSSRGKISRRL 314

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451024|ref|XP_002284899.1| PREDICTED: E3 ubiquitin-protein ligase ATL6 isoform 1 [Vitis vinifera] gi|147843962|emb|CAN83712.1| hypothetical protein VITISV_011102 [Vitis vinifera]

 Score =  324 bits (830), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 179/296 (60%), Positives = 216/296 (72%), Gaps = 19/296 (6%)

Query: 22  SVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSN--SVIRPAGAGGNRSRR 79
           S DPY   +FS S+AIIIV+L++ALF MGFFS+YIRHCSDS N  S+   AGA   RSRR
Sbjct: 51  SNDPYQQQRFSSSMAIIIVILVAALFLMGFFSVYIRHCSDSRNGGSIRAAAGAALGRSRR 110

Query: 80  GAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPE 139
           G  RGLD+ V++TFPTF YS VK LK+GKG LECAVCLNEFED+ETLRLIPKCDHVFHPE
Sbjct: 111 GT-RGLDQAVLETFPTFEYSVVKGLKIGKGVLECAVCLNEFEDNETLRLIPKCDHVFHPE 169

Query: 140 CIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDA--------AVAAET 191
           CIDAWL SH TCPVCR+NL +EP   T   + + ++E   E+ +D         AV   +
Sbjct: 170 CIDAWLASHVTCPVCRANL-TEPAVPTDYSAAVEAAESAGESDHDGEDRRSEINAVREVS 228

Query: 192 PQETQPQAQCSQPPEPQVISGNFANQTLNRNRTRGSRSGRPRKFPRSHSTGHSLVQPGED 251
            +    +    Q P+  VI+    NQ+L++NR   S+S RPRKFPRSHSTGHSL+QPGE+
Sbjct: 229 IRVADDETDVQQAPD--VIN---PNQSLHQNRPPRSKSTRPRKFPRSHSTGHSLIQPGEN 283

Query: 252 TERFTLRLPVDVRKQIMNRELNRSNSLVVLPREASSRRGYRPGGGGEGSSRGRNTR 307
            ERFTL+LP DVRKQIM R LNR+ SL+VLPR+ SSR+GYR    GEGSSRG+N R
Sbjct: 284 CERFTLKLPEDVRKQIMKRALNRTTSLLVLPRDGSSRQGYR--TAGEGSSRGKNFR 337

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	320
TAIR|locus:2096309	398	ATL6 "Arabidopsis toxicos en l	0.828	0.665	0.478	8.1e-60
TAIR|locus:2146330	368	CNI1 "carbon/nitrogen insensit	0.581	0.505	0.494	1e-43
TAIR|locus:2122363	345	AT4G09120 [Arabidopsis thalian	0.259	0.240	0.650	3.2e-41
TAIR|locus:2044757	378	ATL9 "Arabidopsis toxicos en l	0.85	0.719	0.348	1.8e-39
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.503	0.498	0.415	1.9e-39
TAIR|locus:2009527	381	ATL15 "Arabidopsis toxicos en	0.778	0.653	0.381	3.7e-39
TAIR|locus:2122378	357	AT4G09130 [Arabidopsis thalian	0.578	0.518	0.415	1.6e-38
TAIR|locus:2207026	404	AT1G72200 [Arabidopsis thalian	0.737	0.584	0.382	4.9e-37
TAIR|locus:2044742	302	AT2G34990 [Arabidopsis thalian	0.296	0.314	0.520	1e-36
TAIR|locus:2206722	327	AT1G35330 [Arabidopsis thalian	0.553	0.541	0.433	1.9e-35

TAIR|locus:2096309 ATL6 "Arabidopsis toxicos en levadura 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 613 (220.8 bits), Expect = 8.1e-60, P = 8.1e-60
 Identities = 136/284 (47%), Positives = 168/284 (59%)

Query:     2 LLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSD 61
             LL+  +  L+ +Q  P P     PY+  + SP               MGFFSIY RHCS 
Sbjct:    18 LLILSSADLAASQSQPGPTNQ--PYNYGRLSPAMAVIVVILIAALFFMGFFSIYFRHCSG 75

Query:    62 SSNSVIX-XXXXXXXXXXXXXXXXLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEF 120
               ++ +                  LD  V++TFPTF+YS+VKT K+GKG LECA+CLNEF
Sbjct:    76 VPDAGVSPAGGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGELECAICLNEF 135

Query:   121 EDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLE 180
             EDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +  E   +  E G +E DLE
Sbjct:   136 EDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQVAEG--ESVEPGGTEPDLE 193

Query:   181 AQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLXXXXXXXXXXXXXXKFPRSHS 240
              Q    V    P  T P       PE Q+++    ++ L              KF RSH+
Sbjct:   194 LQQ--VVVNPEPVVTAPV------PE-QLVTSEVDSRRLPGVPVDLKRV----KFSRSHT 240

Query:   241 TGHSLVQPGEDTERFTLRLPVDVRKQIMNR-ELNRSNSLVVLPR 283
             TGHS+VQPGE TERFTLRLP DVRK+IM   +LNR+NSL+VLPR
Sbjct:   241 TGHSVVQPGECTERFTLRLPEDVRKRIMKDWKLNRTNSLLVLPR 284

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

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

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2146330 CNI1 "carbon/nitrogen insensitive 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 98/198 (49%), Positives = 118/198 (59%)

Query:     8 LPLSLAQRSPEPPGSV-DPYS-NMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDS-SN 64
             L LS++   P  P    DPY+ +   SP               MGFF++YIRHC+ +   
Sbjct:    16 LLLSVSAGQPGTPDQRHDPYAYSGSLSPAMAVVVVVVIAALFFMGFFTVYIRHCTGAVDG 75

Query:    65 SVIXXXXXXXXXXXXXXXXXLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDE 124
             SV                  LD E I+TFPTFVYSEVKT K+GKGALECA+CLNEFEDDE
Sbjct:    76 SVTPAGGARRRVTNATVARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDE 135

Query:   125 TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQND 184
             TLRL+PKCDHVFHP CI AWL+ H TCPVCR+NLA    E TP+P  +   E DLEAQ  
Sbjct:   136 TLRLLPKCDHVFHPHCIGAWLQGHVTCPVCRTNLA----EQTPEPEVV--VETDLEAQQQ 189

Query:   185 AAV---AAETPQETQPQA 199
             +AV     E P+   P++
Sbjct:   190 SAVPVPVVELPRVKFPRS 207

GO:0005576 "extracellular region" evidence=ISM

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

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

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

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

GO:0016020 "membrane" evidence=IDA

GO:0043562 "cellular response to nitrogen levels" evidence=IMP

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

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

GO:0007165 "signal transduction" evidence=RCA

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

TAIR|locus:2122363 AT4G09120 [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 3.2e-41, Sum P(2) = 3.2e-41
 Identities = 54/83 (65%), Positives = 69/83 (83%)

Query:    85 LDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 144
             L++EVI++FPTF+YSEVK LK+GKG +ECA+CL+EFED ETLR +P C H FH  CID W
Sbjct:    95 LEKEVIESFPTFLYSEVKGLKIGKGGVECAICLSEFEDQETLRWMPPCSHTFHANCIDVW 154

Query:   145 LESHTTCPVCRSNLASEPGETTP 167
             L S +TCPVCR+NL+ +PGE+ P
Sbjct:   155 LSSWSTCPVCRANLSLKPGESYP 177

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

TAIR|locus:2044757 ATL9 "Arabidopsis toxicos en levadura 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 421 (153.3 bits), Expect = 1.8e-39, P = 1.8e-39
 Identities = 101/290 (34%), Positives = 143/290 (49%)

Query:     1 MLLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCS 60
             +LL+  ++P    Q    PPG+     N    P               M F SI+ R  +
Sbjct:    21 LLLLLQSVPYGFGQTQTTPPGTTKTKPN---DPVVVVITVLFLVIFF-MVFGSIFCRRSN 76

Query:    61 D--SSNSVIXXXXXXXXXXXXX----XXXXLDREVIDTFPTFVYSEVKTLKVGKGALECA 114
                S +S+                      LD E I+TFPTF+YSEVK +++GKG +ECA
Sbjct:    77 AQFSRSSIFRSTDADAESQVVRIRRLTARGLDAEAIETFPTFLYSEVKAVRIGKGGVECA 136

Query:   115 VCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGS 174
             VCL EFEDDETLRL+P C HVFH +C+D WL  H+TCP+CR++L         Q  +  S
Sbjct:   137 VCLCEFEDDETLRLMPPCCHVFHADCVDVWLSEHSTCPLCRADLV-----LNQQGDDDDS 191

Query:   175 SEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNFANQTLXXXXXXXXX-XXXXX 233
             +E      +   +++ T  E     + S       ++ + +N T                
Sbjct:   192 TE-SYSGTDPGTISSSTDPERGMVLESSDAHLLDAVTWSNSNITPRSKSTGLSSWQITGI 250

Query:   234 KFPRSHSTGHSLVQPGEDTERFTLRLPVDVRKQIMNRELNRSNSLVVLPR 283
              FPRSHSTGHSL+QP  + +RFTLRLP DVR+Q+M       + + +LP+
Sbjct:   251 LFPRSHSTGHSLIQPAGNLDRFTLRLPDDVRRQLMKTSRTMGH-VALLPQ 299

GO:0005576 "extracellular region" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0010200 "response to chitin" evidence=IEP

GO:0050832 "defense response to fungus" evidence=IMP

GO:0048765 "root hair cell differentiation" evidence=RCA

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

 Score = 316 (116.3 bits), Expect = 1.9e-39, Sum P(2) = 1.9e-39
 Identities = 71/171 (41%), Positives = 90/171 (52%)

Query:    50 GFFSIYIRHCSDSSNSVIXXXXXXXXXXXXXXXXXLDREVIDTFPTFVYSEVKTLKVGKG 109
             G  S+YIRHC+ S+                     LD  V+++FP F YS VK  K+G  
Sbjct:    61 GLLSVYIRHCARSNPDSSTRYFRNRANDGSSRRGGLDNAVVESFPVFAYSSVKESKIGSK 120

Query:   110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQP 169
              LECA+CLNE ED ET+RL+P C+H+FH +CID WL SH TCPVCRSNL ++  +  P  
Sbjct:   121 DLECAICLNELEDHETVRLLPICNHLFHIDCIDTWLYSHATCPVCRSNLTAKSNK--PGD 178

Query:   170 SELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQVISGNF--ANQT 218
              + G   V L A  D  V      ET   A+         ISG F  +N T
Sbjct:   179 EDDG---VPLAAMRDHVVV---DIETVEVAKSHHRRLSSEISGKFPRSNST 223

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2009527 ATL15 "Arabidopsis toxicos en levadura 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 101/265 (38%), Positives = 133/265 (50%)

Query:    24 DPYSNMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDSSNSVIXXXXXXXXXXXXXXXX 83
             D      FSP               +G  S+Y+R C   +  +                 
Sbjct:    28 DDEGRTSFSPTTAIIMIVLVSVFFALGCISVYMRRCLQHALGMDSGGGPGNWLNVRQTTE 87

Query:    84 -XLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECID 142
               LD  VI+TFPTF YS VKTL++GK ALEC VCLNEFEDDETLRLIP+C HVFHP CID
Sbjct:    88 PGLDASVIETFPTFPYSTVKTLRIGKEALECPVCLNEFEDDETLRLIPQCCHVFHPGCID 147

Query:   143 AWLESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCS 202
             AWL S TTCP+CR+NL   PGE+        SSE+   A+     +  TP +   +   +
Sbjct:   148 AWLRSQTTCPLCRANLVPVPGESV-------SSEIPGLARETGQNSLRTPIDDNRKRVLT 200

Query:   203 QPPEPQVISGNFA-NQTLXXXXXXXXXXXXXXKFPRSHSTGHSLVQPGEDTERFTLRLPV 261
              P E  + S  +  NQ++                P S S G    QP E+ +R+TLRLP 
Sbjct:   201 SPDERLIDSVAWTGNQSMPRKSMSTGWKLAELYSPAS-SPG----QPEENLDRYTLRLPQ 255

Query:   262 DVRKQIMNRELNRSNSL--VVLPRE 284
             ++  Q++N  L +  S   + LP+E
Sbjct:   256 EIHDQLVNSSLGKQGSKGQLALPQE 280

GO:0005576 "extracellular region" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0009416 "response to light stimulus" evidence=IEP

GO:0033591 "response to L-ascorbic acid" evidence=IEP

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2122378 AT4G09130 [Arabidopsis thaliana (taxid:3702)]

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 84/202 (41%), Positives = 119/202 (58%)

Query:    85 LDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 144
             +D++VI++FP F+YSEVK  K+G G +ECA+CL EFED+E LR +P C H FH  CID W
Sbjct:    92 IDKDVIESFPAFLYSEVKAFKIGNGGVECAICLCEFEDEEPLRWMPPCSHTFHANCIDEW 151

Query:   145 LESHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQE---TQPQAQC 201
             L S +TCPVCR+NL+ + G++ P PS      +D+E  N      E+P E   T     C
Sbjct:   152 LSSRSTCPVCRANLSLKSGDSFPHPS------MDVETGNAQRGVQESPDERSLTGSSVTC 205

Query:   202 SQPPEPQVISGNFANQTLXXXXXXXXXXXXXXKFPRSHSTGHSLVQPGEDTERFTLRLPV 261
             +        + N+                     PRSHSTGHSLVQP ++ +RFTL+LP 
Sbjct:   206 NN-------NANYTTPRSRSTGLLSSWHVPELFLPRSHSTGHSLVQPCQNIDRFTLQLPE 258

Query:   262 DVRKQIMNRELNRSNSLVVLPR 283
             +V++Q+++  L +  S + LPR
Sbjct:   259 EVQRQLVSLNLIK-RSHIALPR 279

GO:0005576 "extracellular region" evidence=ISM

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

TAIR|locus:2207026 AT1G72200 [Arabidopsis thaliana (taxid:3702)]

 Score = 398 (145.2 bits), Expect = 4.9e-37, P = 4.9e-37
 Identities = 99/259 (38%), Positives = 134/259 (51%)

Query:    30 KFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDSSNSVIXXXXXXXX---XXXXXXXXXLD 86
             +F P               +GFFS+YIR C +    +                     LD
Sbjct:    58 RFDPTMAILMIVLVSVFFFLGFFSVYIRRCLERVMGMDYGNPNDAGNWLATNRQQARGLD 117

Query:    87 REVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 146
               +I+TFPTF YS VKTL++GK ALEC+VCLNEFEDDETLRLIPKC HVFHP CIDAWL 
Sbjct:   118 ASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPKCCHVFHPGCIDAWLR 177

Query:   147 SHTTCPVCRSNLASEPGETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPE 206
             SHTTCP+CR++L   PGE+      + S ++     ND       P   + ++  S  P+
Sbjct:   178 SHTTCPLCRADLIPVPGES------IVSIQIP-GLVNDPP--GSDPNGDRIRSLGS--PD 226

Query:   207 PQVISGNF--ANQTLXXXXXXXXXXXXXXKFPRSHSTGHSLVQPGEDTERFTLRLPVDVR 264
              ++I       NQ++               F  S  TG    Q  E+ +RFTLRLP D+ 
Sbjct:   227 ARLIESVALTCNQSMPRRSMSTGWNLAGM-FTNSDRTG----QHSENLDRFTLRLPQDIH 281

Query:   265 KQIMNRELNRSNSLVVLPR 283
              +++N  L++ +  V LP+
Sbjct:   282 NKLVNPNLSKVH--VALPQ 298

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

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

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

 Score = 294 (108.6 bits), Expect = 1.0e-36, Sum P(2) = 1.0e-36
 Identities = 51/98 (52%), Positives = 71/98 (72%)

Query:    85 LDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 144
             LD  +I++FPTF+YSEVK  ++G G +ECAVC+ EFED ETLRL+P+C HVFH +C+  W
Sbjct:    68 LDEAIINSFPTFLYSEVKERRIGIGGVECAVCICEFEDHETLRLMPECCHVFHADCVSVW 127

Query:   145 LESHTTCPVCRSNLASEPGETT---PQPSELGSSEVDL 179
             L  H+TCP+CR +L  +PGE +   P+P  + S+   L
Sbjct:   128 LSDHSTCPLCRVDLCLQPGERSYLNPEPDLVESTNSHL 165

GO:0005576 "extracellular region" evidence=ISM

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

GO:0006863 "purine nucleobase transport" evidence=RCA

TAIR|locus:2206722 AT1G35330 [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 81/187 (43%), Positives = 111/187 (59%)

Query:    85 LDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 144
             L ++VI++FP+F+YS+VK LK+GKG +ECA+CLNEFED+ETLRL+P C H FH  CID W
Sbjct:   100 LGKDVINSFPSFLYSQVKGLKIGKGGVECAICLNEFEDEETLRLMPPCSHAFHASCIDVW 159

Query:   145 LESHTTCPVCRSNLASEPG--ETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCS 202
             L S +TCPVCR++L  +PG  + +  P        D++ +N   V A       P  +  
Sbjct:   160 LSSRSTCPVCRASLPPKPGSDQNSLYPFIRPHDNQDMDLEN---VTARRSVLESPDVRLL 216

Query:   203 QPPEPQVISGNFANQTLXXXXXXXXXXXXXXK--FPRSHSTGHSLVQPGEDTERFTLRLP 260
                +    S N    T               +  FPRSHSTGHSLV   E+ +RFTL+LP
Sbjct:   217 ---DRLSWSNNTGANTPPRSRSTGLSNWRITELLFPRSHSTGHSLVPRVENLDRFTLQLP 273

Query:   261 VDVRKQI 267
              +VR+Q+
Sbjct:   274 EEVRRQL 280

GO:0005576 "extracellular region" evidence=ISM

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

---

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)
Q8RXX9	ATL6_ARATH	6, ., 3, ., 2, ., -	0.5367	0.8906	0.7160	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XIII.1083.1 hypothetical protein (337 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	320
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-17
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-13
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	7e-12
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	5e-10
smart00184	40	smart00184, RING, Ring finger	5e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	9e-09
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	9e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-04
pfam12906	47	pfam12906, RINGv, RING-variant domain	0.001
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	0.001
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	0.002

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

 Score = 74.0 bits (182), Expect = 2e-17
 Identities = 25/45 (55%), Positives = 33/45 (73%), Gaps = 1/45 (2%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 156
           EC +CL+EFE  E + ++P C HVFH EC+D WL S  TCP+CR+
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 63.6 bits (155), Expect = 2e-13
 Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 4/48 (8%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL 158
           EC +CL EF +     ++  C HVF   CID WL+S   TCP+CR+ +
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 59.7 bits (145), Expect = 7e-12
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 9/52 (17%)

Query: 113 CAVCLNEFED---------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           CA+C N F+          D+   +  +C H FH  CI  WL++  TCP+CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 60.2 bits (146), Expect = 1e-10
 Identities = 25/70 (35%), Positives = 36/70 (51%), Gaps = 9/70 (12%)

Query: 92  TFPTFV--YSEVKTLKVGKGALECAVCLNEFEDDET----LRLIPKCDHVFHPECIDAWL 145
           T P+ +  Y ++      K   ECA+C+ +  D E       ++  C+HVF  ECID W 
Sbjct: 157 TIPSVLSEYEKLYNRSKDK---ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK 213

Query: 146 ESHTTCPVCR 155
           +   TCPVCR
Sbjct: 214 KEKNTCPVCR 223

Length = 238

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

 Score = 59.6 bits (144), Expect = 5e-10
 Identities = 35/159 (22%), Positives = 65/159 (40%), Gaps = 9/159 (5%)

Query: 2   LLVAHALPLSLAQRSPEPPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSD 61
           L   +  P   A+   E      P    +F  S    +V     +       +++     
Sbjct: 220 LGNTYQAPSQSAEAQDETGDMFWPRL-SRFVGSRGFRVVF--PRIPSQELRFLFLTQSKG 276

Query: 62  SSNSVIRPAGAGGNRSRRGAARGLDREVIDTFPTFV-YSEVKTLKVGKGALECAVCLNEF 120
           S  ++I       +     ++  +              S  + ++  KG +ECA+C++ F
Sbjct: 277 SRFNIILEIQINFDVGFYSSSEAIPTTTTKGS--LKPLSIERAVEADKG-VECAICMSNF 333

Query: 121 EDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNL 158
             ++ LR++P CDH FH  C+D WL  ++  CPVCR+ +
Sbjct: 334 IKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 51.0 bits (122), Expect = 5e-09
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVC 154
           C +CL E+  D    ++P C H F   CI  WLES   TCP+C
Sbjct: 1   CPICLEEYLKD--PVILP-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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 50.2 bits (120), Expect = 9e-09
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 3/46 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 156
           LEC +CL+   D   + L P C HVF  ECI  +L+  + CP+CR+
Sbjct: 3   LECPICLDLLRD--PVVLTP-CGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 53.8 bits (129), Expect = 5e-08
 Identities = 25/104 (24%), Positives = 45/104 (43%), Gaps = 14/104 (13%)

Query: 83  RGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNE-FEDD-----ETLRLIPK---CD 133
           R   +++   +PT         ++      C +C++E F  D       L + PK   C 
Sbjct: 265 RRATKDLNAMYPT-----ATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG 319

Query: 134 HVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQPSELGSSEV 177
           H+ H  C+  WLE   TCP+CR  +  +    TP    + ++++
Sbjct: 320 HILHLHCLKNWLERQQTCPICRRPVIFDQSSPTPASPNVRNTQI 363

Length = 491

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

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 19/43 (44%), Positives = 29/43 (67%), Gaps = 4/43 (9%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVC 154
           C +CL E +D   + ++P C H+F  +CI +WLES + TCP+C
Sbjct: 1   CPICLEEPKD--PVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 45.2 bits (107), Expect = 2e-06
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 12/55 (21%)

Query: 113 CAVCLNEFED------------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           CA+C N                DE   +   C+H FH  CI  WL++   CP+ R
Sbjct: 23  CAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 40.2 bits (94), Expect = 9e-05
 Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 5/46 (10%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT---CPVCR 155
           C  C  +F  D+   +  KC H FH  CI  WL + T+   CP+CR
Sbjct: 35  CPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 109  GALECAVCLNEFED-DETL--RLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLAS 160
            G  ECA+C +  +  D +L  +    C + FH  C+  W  S   + CP+CRS +  
Sbjct: 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

>gnl|CDD|221845 pfam12906, RINGv, RING-variant domain

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 5/47 (10%)

Query: 113 CAVCLNEFEDDETLRLIPKC---DHVFHPECIDAWLESH--TTCPVC 154
           C +CL   E+DE L    +C       H  C++ WL++   TTC +C
Sbjct: 1   CRICLEGEEEDEPLIRPCRCRGSLKYVHQSCLERWLKTSGNTTCEIC 47

Length = 47

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

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 15/67 (22%)

Query: 109 GALECAVCLNEFEDDETLRLI----PKCDHVFHPECIDAWLESHT-----------TCPV 153
             +EC +C     D   +  I    PKC   FH  C+  WL +             TCP 
Sbjct: 1   FEIECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPY 60

Query: 154 CRSNLAS 160
           C++ ++ 
Sbjct: 61  CKAKISV 67

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

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 38.9 bits (90), Expect = 0.002
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 11/56 (19%)

Query: 112 ECAVCL-----NEFEDDETLRLIPKCDHVFHPECIDAWLESH------TTCPVCRS 156
           EC +C         E+D    L+  C+H+F   CI+ W  +         CP+CR+
Sbjct: 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227

Length = 242

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	320
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.77
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.52
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.39
PHA02929	238	N1R/p28-like protein; Provisional	99.33
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.31
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.25
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.94
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.92
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.89
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.87
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.87
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.87
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.86
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.85
PHA02926	242	zinc finger-like protein; Provisional	98.8
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.75
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.75
PF14634	44	zf-RING_5: zinc-RING finger domain	98.69
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.65
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.64
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.58
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.51
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.46
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.41
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.36
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.36
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.26
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.19
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.1
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.08
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.07
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.02
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.96
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.95
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.91
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.9
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.82
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.67
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.59
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.54
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.42
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.42
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.41
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.2
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.17
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.09
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.73
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.72
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.6
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.43
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.32
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.28
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.26
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.15
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.99
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.99
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.89
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.84
PHA02862	156	5L protein; Provisional	95.84
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.84
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.8
KOG2660	331	consensus Locus-specific chromosome binding protei	95.57
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.57
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.49
PHA03096	284	p28-like protein; Provisional	95.44
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.41
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.35
PF04641	260	Rtf2: Rtf2 RING-finger	95.04
COG5152	259	Uncharacterized conserved protein, contains RING a	94.92
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.61
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.45
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.1
KOG4739	233	consensus Uncharacterized protein involved in syna	94.06
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.8
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.7
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.66
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	93.39
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.04
KOG1940	276	consensus Zn-finger protein [General function pred	92.88
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.91
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.09
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.09
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	90.93
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.9
KOG1001	674	consensus Helicase-like transcription factor HLTF/	90.89
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.66
PF03869	50	Arc: Arc-like DNA binding domain; InterPro: IPR005	89.61
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	89.0
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.94
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.92
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	88.66
KOG1609	323	consensus Protein involved in mRNA turnover and st	88.43
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	87.33
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	86.11
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	85.95
KOG3053	293	consensus Uncharacterized conserved protein [Funct	85.43
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	84.88
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.55
KOG3002	299	consensus Zn finger protein [General function pred	83.93
PF07213	79	DAP10: DAP10 membrane protein; InterPro: IPR009861	83.48
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	81.44
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	80.58

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

Probab=99.77  E-value=4.2e-19  Score=170.13  Aligned_cols=79  Identities=32%  Similarity=0.851  Sum_probs=67.1

Q ss_pred             ccCCCCHHHHhhCCCcccchhhhhccCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCcccccccc
Q 048010           81 AARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLA  159 (320)
Q Consensus        81 ~~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~  159 (320)
                      ..+.+.+..++++|...|....+...   ...|+||||+|++++++|+|| |+|.||..|||+||..+ ..||+|+.++.
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~---~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDA---TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCC---CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            45678899999999999998655432   268999999999999999999 99999999999999776 55999999886


Q ss_pred             CCCC
Q 048010          160 SEPG  163 (320)
Q Consensus       160 ~~~~  163 (320)
                      ....
T Consensus       279 ~~~~  282 (348)
T KOG4628|consen  279 TDSG  282 (348)
T ss_pred             CCCC
Confidence            5443

>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=99.52  E-value=4.6e-15  Score=101.97  Aligned_cols=44  Identities=55%  Similarity=1.302  Sum_probs=40.3

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  155 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR  155 (320)
                      ++|+||+++|..++.+..++ |+|+||.+||..|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999998 999999999999999999999997

...

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

Probab=99.39  E-value=4.2e-13  Score=128.19  Aligned_cols=70  Identities=30%  Similarity=0.817  Sum_probs=53.3

Q ss_pred             CCHHHHhhCCCcccchhhhhccCCCCccccccccc-ccCC---------cceEEecCCCccccHHHHHHHHhcCCCCccc
Q 048010           85 LDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNE-FEDD---------ETLRLIPKCDHVFHPECIDAWLESHTTCPVC  154 (320)
Q Consensus        85 l~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~C  154 (320)
                      ..++..+.+|+.....     ...++..|.||+++ |..+         .+.+.|| |||+||.+|++.|++++++||+|
T Consensus       267 ~~kdl~~~~~t~t~eq-----l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPIC  340 (491)
T COG5243         267 ATKDLNAMYPTATEEQ-----LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPIC  340 (491)
T ss_pred             HhhHHHhhcchhhhhh-----hcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcc
Confidence            4455556666654333     35677899999999 4443         2346787 99999999999999999999999


Q ss_pred             cccccC
Q 048010          155 RSNLAS  160 (320)
Q Consensus       155 R~~l~~  160 (320)
                      |.++.-
T Consensus       341 r~p~if  346 (491)
T COG5243         341 RRPVIF  346 (491)
T ss_pred             cCcccc
Confidence            999543

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.33  E-value=1.3e-12  Score=120.41  Aligned_cols=77  Identities=31%  Similarity=0.686  Sum_probs=59.1

Q ss_pred             cCCCCHHHHhhCCCcccchhhhhccCCCCcccccccccccCCc----ceEEecCCCccccHHHHHHHHhcCCCCcccccc
Q 048010           82 ARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  157 (320)
Q Consensus        82 ~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  157 (320)
                      ..+..+..++.+|.+...-.... ....+.+|+||++.+.+++    .+.+++.|+|.||.+||..|++.+.+||+||.+
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~-~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~  225 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLY-NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTP  225 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhh-cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCE
Confidence            35668889999999865432222 2234679999999987654    234555699999999999999999999999998


Q ss_pred             cc
Q 048010          158 LA  159 (320)
Q Consensus       158 l~  159 (320)
                      +.
T Consensus       226 ~~  227 (238)
T PHA02929        226 FI  227 (238)
T ss_pred             ee
Confidence            75

>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=99.31  E-value=7.8e-13  Score=100.86  Aligned_cols=46  Identities=39%  Similarity=0.959  Sum_probs=36.3

Q ss_pred             CCcccccccccccCC----------cceEEecCCCccccHHHHHHHHhcCCCCcccc
Q 048010          109 GALECAVCLNEFEDD----------ETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  155 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~----------~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR  155 (320)
                      .++.|+||++.|.+.          -.+.+. .|+|.||..||.+||+.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            455699999999432          234444 4999999999999999999999998

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

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

Probab=99.25  E-value=3.1e-12  Score=119.55  Aligned_cols=51  Identities=43%  Similarity=1.158  Sum_probs=46.3

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      .+-+|+|||++|..+++++.+| |.|.||..|+++|+.. +..||+||.++.+
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            4579999999999999999999 9999999999999985 5689999998864

>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=98.94  E-value=6.8e-10  Score=74.53  Aligned_cols=44  Identities=55%  Similarity=1.326  Sum_probs=36.4

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL  158 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l  158 (320)
                      +|+||++.+.  +.+.+.+ |+|.||..|++.|++. ...||+|+..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999983  3455554 9999999999999987 77899999764

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

Probab=98.92  E-value=1e-09  Score=77.30  Aligned_cols=46  Identities=35%  Similarity=0.962  Sum_probs=39.0

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +..|.||++.+.+   +.++| |||. |+..|+..|++....||+||+++.
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            3579999998665   66777 9999 999999999999999999999875

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.89  E-value=1.2e-09  Score=97.45  Aligned_cols=50  Identities=32%  Similarity=0.897  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc----------------CCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----------------HTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.++++   .+++ |||+||..||..|+..                ...||+||.++...
T Consensus        16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            3568999999998764   3455 9999999999999852                34799999998643

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

Probab=98.87  E-value=1.1e-09  Score=102.15  Aligned_cols=50  Identities=28%  Similarity=0.842  Sum_probs=42.8

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .....|.+||+...+....   | |||+||..||..|...+..||+||..+.+.
T Consensus       237 ~a~~kC~LCLe~~~~pSaT---p-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSAT---P-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCCceEEEecCCCCCCcC---c-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            3457899999998876554   4 999999999999999999999999987643

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

Probab=98.87  E-value=1.1e-09  Score=95.67  Aligned_cols=52  Identities=31%  Similarity=0.867  Sum_probs=43.7

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ++...|+|||+.+.+...+  -.+|||+||..||+.-++....||+|++.|..+
T Consensus       129 ~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            3457899999999876543  237999999999999999999999999987643

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

Probab=98.87  E-value=1.2e-09  Score=112.20  Aligned_cols=52  Identities=35%  Similarity=0.943  Sum_probs=45.2

Q ss_pred             CCCcccccccccccCCcc--eEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDET--LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~--~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ..+..|+||++++..+..  .+.++ |+|+||..|+..|+++.++||+||..+..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            356789999999998754  67777 99999999999999999999999995543

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

Probab=98.86  E-value=1.9e-09  Score=72.14  Aligned_cols=39  Identities=46%  Similarity=1.215  Sum_probs=32.7

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~C  154 (320)
                      |+||++.+.+  .+..++ |||+|+.+||.+|++.+..||+|
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            8999999887  345665 99999999999999998999998

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

Probab=98.85  E-value=1.9e-09  Score=84.04  Aligned_cols=51  Identities=31%  Similarity=0.768  Sum_probs=39.8

Q ss_pred             CCcccccccccccC--------Cc-ceEEecCCCccccHHHHHHHHhc---CCCCcccccccc
Q 048010          109 GALECAVCLNEFED--------DE-TLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~--------~~-~~r~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~  159 (320)
                      +++.|.||...|+.        ++ ...++.+|+|.||..||.+||.+   +..||+||++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            46789999999972        22 22334469999999999999975   568999999765

>PHA02926 zinc finger-like protein; Provisional

Probab=98.80  E-value=2.6e-09  Score=96.64  Aligned_cols=51  Identities=27%  Similarity=0.847  Sum_probs=40.2

Q ss_pred             CCcccccccccccCC-----cceEEecCCCccccHHHHHHHHhcC------CCCcccccccc
Q 048010          109 GALECAVCLNEFEDD-----ETLRLIPKCDHVFHPECIDAWLESH------TTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~-----~~~r~lp~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~l~  159 (320)
                      .+.+|+|||+...+.     ....+|+.|+|.||..||+.|.+.+      .+||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            357899999987432     2345777899999999999999753      46999999765

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

Probab=98.75  E-value=4e-09  Score=80.60  Aligned_cols=52  Identities=31%  Similarity=0.676  Sum_probs=40.4

Q ss_pred             CcccccccccccC-----------C-cceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          110 ALECAVCLNEFED-----------D-ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~-----------~-~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .+.|+||...|.+           + +.......|.|.||.+||..||..+..||+||+.....
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            3678888877742           2 33333446999999999999999999999999987644

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

Probab=98.75  E-value=5e-09  Score=95.24  Aligned_cols=53  Identities=28%  Similarity=0.807  Sum_probs=41.7

Q ss_pred             CCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc---CCCCccccccccCCCC
Q 048010          107 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLASEPG  163 (320)
Q Consensus       107 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~  163 (320)
                      ..+..+|.|||+.-+++  |. .. |||+||+.||.+||..   .+.||+|+..+..+..
T Consensus        44 ~~~~FdCNICLd~akdP--Vv-Tl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--VV-TL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCCceeeeeeccccCCC--EE-ee-cccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            34668999999997764  33 33 9999999999999965   4579999999875543

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.69  E-value=1.2e-08  Score=70.05  Aligned_cols=44  Identities=27%  Similarity=0.937  Sum_probs=38.0

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  156 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~  156 (320)
                      +|.||++.|.+.....+++ |||+|+..|+..+......||+||+
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            4999999996666677776 9999999999999866779999984

>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=98.65  E-value=1.6e-08  Score=67.93  Aligned_cols=39  Identities=46%  Similarity=1.261  Sum_probs=33.5

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHh--cCCCCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE--SHTTCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~--~~~~CP~C  154 (320)
                      |+||++.+.+..  .+++ |+|.|+..||..|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988754  4565 999999999999998  56689998

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=98.64  E-value=2.5e-08  Score=64.50  Aligned_cols=38  Identities=42%  Similarity=1.236  Sum_probs=32.1

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~C  154 (320)
                      |+||++..   .....++ |+|.||..|++.|++ .+..||+|
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            78999983   3466676 999999999999998 66789998

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

>smart00504 Ubox Modified RING finger domain

Probab=98.58  E-value=5.5e-08  Score=71.03  Aligned_cols=45  Identities=29%  Similarity=0.620  Sum_probs=39.4

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..|+||++.|.++   .+++ |||+|+..||..|++.+.+||+|+.++.
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            4699999999985   3455 9999999999999988899999998874

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

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

Probab=98.51  E-value=5e-08  Score=66.58  Aligned_cols=38  Identities=32%  Similarity=0.953  Sum_probs=28.5

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHhcC----CCCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----TTCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~----~~CP~C  154 (320)
                      |+||++.|.++..   + .|||.|+..||..|.+..    ..||+|
T Consensus         1 CpiC~~~~~~Pv~---l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVS---L-PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccc---c-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999998644   4 499999999999999653    469988

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

Probab=98.46  E-value=5.3e-08  Score=77.99  Aligned_cols=69  Identities=25%  Similarity=0.500  Sum_probs=47.6

Q ss_pred             hCCCcccchhhhhccCCCCccccccccccc-------------CCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010           92 TFPTFVYSEVKTLKVGKGALECAVCLNEFE-------------DDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus        92 ~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~-------------~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      .|...+++.+..-.-.-..+.|+||...+.             .++.+..-..|+|.||..||..||+.+..||+|-++.
T Consensus        28 rF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   28 RFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            344445555443333334578999887663             2334444446999999999999999999999998776


Q ss_pred             cC
Q 048010          159 AS  160 (320)
Q Consensus       159 ~~  160 (320)
                      ..
T Consensus       108 ~~  109 (114)
T KOG2930|consen  108 VF  109 (114)
T ss_pred             eE
Confidence            43

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

Probab=98.41  E-value=3e-08  Score=75.25  Aligned_cols=52  Identities=31%  Similarity=0.774  Sum_probs=39.2

Q ss_pred             CCCcccccccccccC---------CcceEEecCCCccccHHHHHHHHhc---CCCCcccccccc
Q 048010          108 KGALECAVCLNEFED---------DETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~---------~~~~r~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~  159 (320)
                      ..+..|-||.-.|..         ++...++..|.|.||..||.+|+..   +..||+||....
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            345589999999973         2222344469999999999999954   557999998764

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.36  E-value=2.4e-07  Score=91.47  Aligned_cols=49  Identities=31%  Similarity=0.754  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      +....|+||++.|....   +++ |+|.||..||..|+.....||+||..+..
T Consensus        24 e~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        24 DTSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             ccccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            35578999999997653   455 99999999999999988899999998754

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

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

Probab=98.36  E-value=1.1e-07  Score=88.09  Aligned_cols=54  Identities=30%  Similarity=0.701  Sum_probs=44.0

Q ss_pred             CCCCcccccccccccCCc-------ceEEecCCCccccHHHHHHHH--hcCCCCccccccccCC
Q 048010          107 GKGALECAVCLNEFEDDE-------TLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRSNLASE  161 (320)
Q Consensus       107 ~~~~~~C~ICl~~~~~~~-------~~r~lp~C~H~FH~~Ci~~Wl--~~~~~CP~CR~~l~~~  161 (320)
                      ..++..|+||-..+....       .+-.|. |+|+||..||+-|-  ..+++||-|+..+..+
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            346678999999997655       566775 99999999999996  4577999999887654

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

Probab=98.28  E-value=8.3e-07  Score=88.18  Aligned_cols=49  Identities=33%  Similarity=0.961  Sum_probs=38.0

Q ss_pred             CcccccccccccCC-----cc---------eEEecCCCccccHHHHHHHHhc-CCCCcccccccc
Q 048010          110 ALECAVCLNEFEDD-----ET---------LRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~-----~~---------~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~  159 (320)
                      ..+|+|||.++.--     ..         ..+.| |.|+||..|+..|+.. +--||+||.++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            45799999998621     11         12445 9999999999999985 459999999885

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

Probab=98.26  E-value=4.6e-07  Score=83.93  Aligned_cols=50  Identities=30%  Similarity=0.787  Sum_probs=40.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHH-HHhcCC-CCccccccccCCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDA-WLESHT-TCPVCRSNLASEP  162 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~-Wl~~~~-~CP~CR~~l~~~~  162 (320)
                      .+.+|+||++.......   ++ |||+||..||-. |-+.+. .||+||+.+.++.
T Consensus       214 ~d~kC~lC~e~~~~ps~---t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEVPSC---TP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCCccc---cc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            46789999999877544   44 999999999999 976655 5999999886543

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

Probab=98.19  E-value=1.3e-06  Score=61.65  Aligned_cols=42  Identities=29%  Similarity=0.927  Sum_probs=32.1

Q ss_pred             ccccccccccCCcceEEecCCC-----ccccHHHHHHHHhc--CCCCcccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLES--HTTCPVCR  155 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR  155 (320)
                      .|.||++...++ ...+.| |.     |.+|..|+..|+..  +.+||+|.
T Consensus         1 ~CrIC~~~~~~~-~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEG-DPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCC-CeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            389999944444 444677 85     99999999999954  55899994

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

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

Probab=98.10  E-value=8.1e-07  Score=93.69  Aligned_cols=52  Identities=31%  Similarity=0.869  Sum_probs=39.4

Q ss_pred             CCCcccccccccccCCc-c--eEEecCCCccccHHHHHHHHhc--CCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDE-T--LRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~-~--~r~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  159 (320)
                      .+..|||||+..+..-+ .  -+..+.|.|.||..|+.+|+++  +.+||+||..+.
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            35679999999887221 1  1233459999999999999975  568999998764

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

Probab=98.08  E-value=1.9e-06  Score=86.22  Aligned_cols=51  Identities=25%  Similarity=0.646  Sum_probs=39.9

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhc-----CCCCccccccccCCCCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLASEPGE  164 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~l~~~~~~  164 (320)
                      +..|+|||+....+...    .|||+||..||-.++..     ...||+||..+...+..
T Consensus       186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            67899999997754333    59999999999988743     45899999988764433

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

Probab=98.07  E-value=2.9e-06  Score=58.19  Aligned_cols=38  Identities=32%  Similarity=0.928  Sum_probs=22.4

Q ss_pred             cccccccccCCc-ceEEecCCCccccHHHHHHHHhcC----CCCc
Q 048010          113 CAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESH----TTCP  152 (320)
Q Consensus       113 C~ICl~~~~~~~-~~r~lp~C~H~FH~~Ci~~Wl~~~----~~CP  152 (320)
                      |+||++ |...+ ..++|+ |||+|+.+||+.|++..    ..||
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 76544 457787 99999999999999743    3676

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

Probab=98.02  E-value=1.1e-06  Score=66.56  Aligned_cols=49  Identities=35%  Similarity=0.811  Sum_probs=23.8

Q ss_pred             ccccccccccc-CCcc-eEEe--cCCCccccHHHHHHHHhc----C-------CCCcccccccc
Q 048010          111 LECAVCLNEFE-DDET-LRLI--PKCDHVFHPECIDAWLES----H-------TTCPVCRSNLA  159 (320)
Q Consensus       111 ~~C~ICl~~~~-~~~~-~r~l--p~C~H~FH~~Ci~~Wl~~----~-------~~CP~CR~~l~  159 (320)
                      .+|.||++.+. .++. ..+-  ++|++.||..||.+||..    +       ..||.|+.+|.
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            57999999876 3322 1222  269999999999999953    1       15999999875

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

Probab=97.99  E-value=2.3e-06  Score=77.98  Aligned_cols=44  Identities=39%  Similarity=0.959  Sum_probs=38.9

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  155 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR  155 (320)
                      .+...|+||++.|.+.   ++++ |+|.||..||..|+.....||.||
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            3567899999999998   6676 999999999999988666899999

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

Probab=97.96  E-value=6.4e-06  Score=62.60  Aligned_cols=48  Identities=25%  Similarity=0.540  Sum_probs=36.5

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  161 (320)
                      .+.|+||.+-|.++   .+++ |||.|...||..||+. +.+||+|+.++...
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            46799999999985   3456 9999999999999988 88999999888643

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.95  E-value=6.1e-06  Score=78.75  Aligned_cols=51  Identities=22%  Similarity=0.557  Sum_probs=37.4

Q ss_pred             CcccccccccccCCcc--eEEecCCCccccHHHHHHHH-hcCCCCccccccccCC
Q 048010          110 ALECAVCLNEFEDDET--LRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~--~r~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~l~~~  161 (320)
                      +..|+||+.+--....  +.+. .|||.||..||+..+ .....||.|+..+...
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            3579999997433333  3333 499999999999966 4566899999887643

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).

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

Probab=97.91  E-value=4.5e-06  Score=78.31  Aligned_cols=47  Identities=30%  Similarity=0.656  Sum_probs=39.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..+.|-||-+-|..+-   .. .|||.||.-||...|..+..||+||.+..
T Consensus        24 s~lrC~IC~~~i~ip~---~T-tCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRISIPC---ET-TCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhheeecce---ec-ccccchhHHHHHHHhcCCCCCccccccHH
Confidence            4568999999987542   23 59999999999999999999999999764

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

Probab=97.90  E-value=3.5e-06  Score=80.49  Aligned_cols=48  Identities=29%  Similarity=0.797  Sum_probs=41.3

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      .-+.|.||.+-|..+   .+.| |+|.||.-||..+|..+..||.|+.++.+
T Consensus        22 ~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence            446899999999864   4455 99999999999999999999999997753

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

Probab=97.85  E-value=6.2e-06  Score=80.04  Aligned_cols=46  Identities=35%  Similarity=1.013  Sum_probs=34.5

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhc---CCCCccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRS  156 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~  156 (320)
                      -+|.||-+-+.....+.-...|||+||..|+..|++.   ...||+|+-
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i   53 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI   53 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence            4799994444444455545459999999999999975   357999993

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

Probab=97.82  E-value=7.3e-06  Score=80.85  Aligned_cols=48  Identities=35%  Similarity=0.884  Sum_probs=38.0

Q ss_pred             CCcccccccccccCCcc-eEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~-~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +...|+|||+-+..... ++... |.|.||..|+..|-  ..+||+||.-..
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             cCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            34579999999987652 34444 99999999999993  468999998654

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

Probab=97.72  E-value=2.2e-05  Score=75.77  Aligned_cols=49  Identities=29%  Similarity=0.796  Sum_probs=41.0

Q ss_pred             CCCcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      +...+|.|||.+-.+   +.+|| |.|. .|..|-+...-.++.||+||.++..
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            346799999999766   77888 9996 7889988877778899999998863

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

Probab=97.67  E-value=1.8e-05  Score=76.91  Aligned_cols=51  Identities=27%  Similarity=0.887  Sum_probs=41.0

Q ss_pred             CCcccccccccccCCc----ceEEecCCCccccHHHHHHHH--hc-----CCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWL--ES-----HTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~----~~r~lp~C~H~FH~~Ci~~Wl--~~-----~~~CP~CR~~l~  159 (320)
                      .+.+|.||++...+..    ...++|+|.|.||..||+.|-  ..     .+.||.||....
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            3568999999987643    356778999999999999997  33     468999998664

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

Probab=97.60  E-value=0.00062  Score=62.12  Aligned_cols=54  Identities=24%  Similarity=0.624  Sum_probs=45.6

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--------CCCCccccccccCCCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRSNLASEPG  163 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~l~~~~~  163 (320)
                      +....|..|--.+..++.+|+.  |-|+||.+|+++|-..        ...||.|-.+|+++..
T Consensus        48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N  109 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN  109 (299)
T ss_pred             CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence            4556799999999999999884  9999999999999753        3479999999986543

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

Probab=97.59  E-value=1.4e-05  Score=83.28  Aligned_cols=48  Identities=29%  Similarity=0.621  Sum_probs=40.6

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..|++|+..+.++......+ |+|.||..||+.|-+...+||+||..+.
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence            46888888888776555554 9999999999999999999999999764

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

Probab=97.54  E-value=1.8e-05  Score=58.55  Aligned_cols=47  Identities=28%  Similarity=0.803  Sum_probs=24.7

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      ..|++|.+-++.+..   +..|.|+|+..||..-+..  .||+|+.+...++
T Consensus         8 LrCs~C~~~l~~pv~---l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEPVC---LGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCCce---eccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            579999999887533   2369999999999886554  4999999887554

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

Probab=97.48  E-value=1.6e-05  Score=76.51  Aligned_cols=50  Identities=30%  Similarity=0.632  Sum_probs=41.2

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  161 (320)
                      .+..|+|||+-++.   .+..+.|.|-||.+||..-++ ..+.||.||+.+...
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            46789999999876   344557999999999999986 477999999988653

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

Probab=97.42  E-value=5.5e-05  Score=71.41  Aligned_cols=51  Identities=31%  Similarity=0.824  Sum_probs=42.2

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHh-----------------------cCCCCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----------------------SHTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-----------------------~~~~CP~CR~~l~~~  161 (320)
                      ...|.|||.-|.+++....++ |.|.||..|+..+|.                       .+..||+||..|..+
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            357999999999999888887 999999999988873                       023699999988654

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

Probab=97.42  E-value=9e-05  Score=72.40  Aligned_cols=45  Identities=33%  Similarity=1.008  Sum_probs=37.7

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhc--CCCCccccccccC
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLAS  160 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~  160 (320)
                      -|.||-+.   +..+++.| |||..|..|+..|-.+  .++||.||..|..
T Consensus       371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            59999876   34588888 9999999999999854  5799999998853

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

Probab=97.41  E-value=0.0001  Score=72.23  Aligned_cols=49  Identities=27%  Similarity=0.869  Sum_probs=36.8

Q ss_pred             CcccccccccccCC-cceEEecCCCccccHHHHHHHHh--cCCCCccccccc
Q 048010          110 ALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLE--SHTTCPVCRSNL  158 (320)
Q Consensus       110 ~~~C~ICl~~~~~~-~~~r~lp~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l  158 (320)
                      +..|+||++.+... +.....+.|||.|-.+||+.||.  ....||.|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            46899999999753 33333346999999999999994  244799996543

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

Probab=97.37  E-value=5.4e-05  Score=54.15  Aligned_cols=46  Identities=26%  Similarity=0.648  Sum_probs=32.6

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHH-HHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECI-DAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci-~~Wl~~~~~CP~CR~~l~  159 (320)
                      .+||.||++.-.+.  +  +..|||. .+.+|- +.|-..+..||+||+++.
T Consensus         7 ~dECTICye~pvds--V--lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS--V--LYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH--H--HHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            37999999985543  2  1249996 466664 445457889999999874

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

Probab=97.20  E-value=0.00017  Score=68.23  Aligned_cols=48  Identities=31%  Similarity=0.527  Sum_probs=38.7

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCccccccccCCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLASEP  162 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~~  162 (320)
                      .+|+||+.....+   ..|+ |+|.||.-||+--.+.. .+|++||.++...-
T Consensus         8 ~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    8 KECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            5899999987665   3444 99999999999877654 56999999997543

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

Probab=97.17  E-value=0.00019  Score=69.95  Aligned_cols=46  Identities=37%  Similarity=0.938  Sum_probs=38.6

Q ss_pred             CcccccccccccC-CcceEEecCCCccccHHHHHHHHhcC--CCCccccc
Q 048010          110 ALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRS  156 (320)
Q Consensus       110 ~~~C~ICl~~~~~-~~~~r~lp~C~H~FH~~Ci~~Wl~~~--~~CP~CR~  156 (320)
                      +.-|..|-+.+-. ++.+.-|| |.|+||..|+...|..+  .+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            4679999998864 45788888 99999999999999654  58999994

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

Probab=97.09  E-value=0.00015  Score=75.89  Aligned_cols=49  Identities=35%  Similarity=0.860  Sum_probs=38.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  161 (320)
                      +-..|++|-..+++..    +++|+|+||..||..-+. ++..||.|-+.+...
T Consensus       642 ~~LkCs~Cn~R~Kd~v----I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan  691 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAV----ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN  691 (698)
T ss_pred             hceeCCCccCchhhHH----HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            4568999997766532    337999999999999995 567899998877543

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

Probab=96.73  E-value=0.00069  Score=67.29  Aligned_cols=50  Identities=32%  Similarity=0.764  Sum_probs=42.5

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ..+.|+||...+.++...  . .|||.||..|+..|+..+..||.|+..+...
T Consensus        20 ~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             ccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchh
Confidence            457899999999987553  2 4999999999999999999999998877543

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

Probab=96.72  E-value=0.00067  Score=57.38  Aligned_cols=35  Identities=17%  Similarity=0.730  Sum_probs=29.3

Q ss_pred             CcccccccccccCCcceEEecCCC------ccccHHHHHHHH
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCD------HVFHPECIDAWL  145 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~------H~FH~~Ci~~Wl  145 (320)
                      ..||+||++.+..++-+..++ |+      |.||.+|+..|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            578999999999955566666 66      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.

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

Probab=96.60  E-value=0.0011  Score=48.21  Aligned_cols=42  Identities=36%  Similarity=0.773  Sum_probs=27.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--CCCCcc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPV  153 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--~~~CP~  153 (320)
                      -...|+|.+..|+++  ++-. +|+|+|-.+.|..||..  ...||+
T Consensus        10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            346899999999975  4434 59999999999999943  457998

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

Probab=96.43  E-value=0.0017  Score=64.43  Aligned_cols=49  Identities=37%  Similarity=0.870  Sum_probs=41.9

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ..+++|.||+..+.....   +| |||.|+..||+.-+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~pv~---tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVV---TP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCcc---cc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            467899999998887533   36 99999999999988878889999999975

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

Probab=96.32  E-value=0.0013  Score=57.30  Aligned_cols=29  Identities=31%  Similarity=0.844  Sum_probs=26.5

Q ss_pred             CCcccccccccccCCcceEEecCCCccccH
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHP  138 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~  138 (320)
                      ..-||.||||+++.++++..|| |--+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            4568999999999999999999 9999996

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

Probab=96.28  E-value=0.0055  Score=58.83  Aligned_cols=47  Identities=26%  Similarity=0.455  Sum_probs=37.3

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      ....|+||+.....+-.+.   .-|-+||..||-.++..+..||+=-.++
T Consensus       299 ~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            3467999999987754432   2699999999999999999999865443

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

Probab=96.26  E-value=0.0029  Score=70.14  Aligned_cols=52  Identities=25%  Similarity=0.694  Sum_probs=40.6

Q ss_pred             CCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC----------CCCcccccccc
Q 048010          107 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----------TTCPVCRSNLA  159 (320)
Q Consensus       107 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~l~  159 (320)
                      .+.++.|.||+.+--.......|. |+|+||..|...-|+++          .+||+|..++.
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            346678999998876655555665 99999999998877653          27999998875

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

Probab=96.15  E-value=0.0037  Score=43.58  Aligned_cols=40  Identities=35%  Similarity=1.082  Sum_probs=27.3

Q ss_pred             cccccccccCCcceEEecCCC-----ccccHHHHHHHHh--cCCCCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLE--SHTTCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~-----H~FH~~Ci~~Wl~--~~~~CP~C  154 (320)
                      |-||+++-.+++.+ +.| |.     -..|..|+..|+.  ...+|++|
T Consensus         1 CrIC~~~~~~~~~l-i~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            77999998776633 344 55     4789999999996  45679988

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

Probab=95.99  E-value=0.0036  Score=63.40  Aligned_cols=50  Identities=40%  Similarity=0.850  Sum_probs=39.0

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-----CCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~l~~~  161 (320)
                      ++..+|.+|.+.-++.-..    .|.|.||.-||.+++..     +.+||+|...+.-+
T Consensus       534 k~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            4667999999986654332    69999999999999843     56999998877543

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

Probab=95.99  E-value=0.0031  Score=66.89  Aligned_cols=51  Identities=31%  Similarity=0.780  Sum_probs=39.2

Q ss_pred             cCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-------CCCCccccc
Q 048010          106 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-------HTTCPVCRS  156 (320)
Q Consensus       106 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-------~~~CP~CR~  156 (320)
                      ...+.++|.||++.+..-..+---..|-|+||..||..|-++       .-.||.|..
T Consensus       187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            345678999999999876655333358899999999999753       226999984

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.89  E-value=0.0074  Score=55.92  Aligned_cols=53  Identities=17%  Similarity=0.364  Sum_probs=47.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .-+.|+||.+.+...-.+..|.+|||+|+.+|++..+.....||+|-.++.+.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            34679999999999888888888999999999999999999999998888644

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

Probab=95.84  E-value=0.0065  Score=57.69  Aligned_cols=47  Identities=34%  Similarity=0.774  Sum_probs=36.9

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHH-hcCCCCccc-cccccC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVC-RSNLAS  160 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl-~~~~~CP~C-R~~l~~  160 (320)
                      +.|+.|..-+...-+  . +.|+|.||.+||..-| .+...||.| |+++..
T Consensus       275 LkCplc~~Llrnp~k--T-~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll  323 (427)
T COG5222         275 LKCPLCHCLLRNPMK--T-PCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL  323 (427)
T ss_pred             ccCcchhhhhhCccc--C-ccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence            689999988776533  3 5699999999999776 677899999 555543

>PHA02862 5L protein; Provisional

Probab=95.84  E-value=0.0061  Score=52.17  Aligned_cols=46  Identities=20%  Similarity=0.626  Sum_probs=34.7

Q ss_pred             cccccccccccCCcceEEecCCC-----ccccHHHHHHHHhc--CCCCccccccccCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLES--HTTCPVCRSNLASE  161 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~  161 (320)
                      ..|-||+++-+++  +  -| |.     ...|.+|+..|+..  +..|++|+.++.-.
T Consensus         3 diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          3 DICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            5799999985433  2  33 54     68899999999953  56899999988643

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

Probab=95.84  E-value=0.0076  Score=56.60  Aligned_cols=51  Identities=29%  Similarity=0.546  Sum_probs=38.6

Q ss_pred             cCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--CCCCcccccccc
Q 048010          106 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  159 (320)
Q Consensus       106 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  159 (320)
                      ....+.+|++|-+.-..+-  .+. +|+|+||..||..-+..  ..+||.|-.++.
T Consensus       235 ~~t~~~~C~~Cg~~PtiP~--~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIPH--VIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccCCceeeccCCCCCCCe--eec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3456789999998865543  334 49999999999987653  468999977664

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

Probab=95.80  E-value=0.0053  Score=60.55  Aligned_cols=47  Identities=23%  Similarity=0.774  Sum_probs=38.7

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--------CCCCccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRS  156 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~  156 (320)
                      ...+|.||+++.........+| |+|+||..|+..++..        .-.||-|.-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4578999999998888999998 9999999999999843        235776643

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

Probab=95.57  E-value=0.0032  Score=60.39  Aligned_cols=51  Identities=27%  Similarity=0.636  Sum_probs=42.3

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .....|.+|-.-|-+...+  . .|-|.||..||...|....+||.|...+-..
T Consensus        13 n~~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ccceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            3456899999998886544  3 4999999999999999999999998877543

>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=95.57  E-value=0.0063  Score=48.52  Aligned_cols=32  Identities=31%  Similarity=0.810  Sum_probs=26.1

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHH
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECID  142 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~  142 (320)
                      ....|++|-..+.. ....+.| |||+||..|++
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            45679999999987 4555666 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 [].

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

Probab=95.49  E-value=0.0086  Score=58.16  Aligned_cols=44  Identities=34%  Similarity=0.734  Sum_probs=33.1

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..+.|.||+++..+   ...+| |||+-+  |...-... ..||+||..+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~~l-~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSKHL-PQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHHhhC-CCCchhHHHHH
Confidence            34679999999887   55667 999955  77765433 34999998774

>PHA03096 p28-like protein; Provisional

Probab=95.44  E-value=0.0074  Score=57.50  Aligned_cols=46  Identities=24%  Similarity=0.590  Sum_probs=34.0

Q ss_pred             cccccccccccCC----cceEEecCCCccccHHHHHHHHhc---CCCCccccc
Q 048010          111 LECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRS  156 (320)
Q Consensus       111 ~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~  156 (320)
                      .+|.||++.....    ....+|+.|.|.|+..||..|-..   ..+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            5799999988753    244678899999999999999743   234544443

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.41  E-value=0.012  Score=51.15  Aligned_cols=49  Identities=20%  Similarity=0.713  Sum_probs=35.3

Q ss_pred             CCcccccccccccCCcceEEec-CCCc---cccHHHHHHHHhc--CCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLES--HTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp-~C~H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~  161 (320)
                      .+.+|-||.++-.+  ..  .| +|..   ..|.+|+..|+..  ..+|++|..++.-.
T Consensus         7 ~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          7 MDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            45689999998542  22  23 3544   6699999999953  56899999987543

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

Probab=95.35  E-value=0.013  Score=41.07  Aligned_cols=45  Identities=24%  Similarity=0.623  Sum_probs=22.2

Q ss_pred             cccccccccCCc-ceEEecCCCccccHHHHHHHHh-cCCCCccccccc
Q 048010          113 CAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL  158 (320)
Q Consensus       113 C~ICl~~~~~~~-~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l  158 (320)
                      |++|.+++...+ .+.-- .|++.++..|...-++ ....||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999995443 33223 4889999999888776 477999999875

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.04  E-value=0.026  Score=53.02  Aligned_cols=54  Identities=24%  Similarity=0.594  Sum_probs=43.5

Q ss_pred             CCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          107 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       107 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ....+.|+|+..+|........+..|||+|-..||.+- +....||+|-.++...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            34668899999999776666666669999999999996 3356799999888743

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

Probab=94.92  E-value=0.013  Score=52.74  Aligned_cols=45  Identities=22%  Similarity=0.588  Sum_probs=37.7

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      ...|-||-++|+.+...    .|||.||..|...=++....|-+|-+..
T Consensus       196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchhh
Confidence            46899999999986443    5999999999888888888999997654

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

Probab=94.61  E-value=0.027  Score=54.74  Aligned_cols=48  Identities=21%  Similarity=0.467  Sum_probs=39.4

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      .++..|+||+..-.   ...+.| |+|.=|..||.+-|.+.+.|=.|+..+.
T Consensus       420 sEd~lCpICyA~pi---~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPI---NAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccc---hhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence            35678999987633   244556 9999999999999999999999988775

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

Probab=94.45  E-value=0.0031  Score=61.70  Aligned_cols=48  Identities=23%  Similarity=0.711  Sum_probs=41.5

Q ss_pred             cccccccccccCC-cceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          111 LECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       111 ~~C~ICl~~~~~~-~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..|+||...++.. +.+..+- |||.+|.+||.+||.....||.|++.+.
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            4699999999876 5555554 9999999999999999999999999885

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

Probab=94.10  E-value=0.024  Score=60.44  Aligned_cols=42  Identities=24%  Similarity=0.747  Sum_probs=32.9

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      ..|..|-..++-+-.-  - .|+|.||.+|+.   .....||-|+.++
T Consensus       841 skCs~C~~~LdlP~Vh--F-~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVH--F-LCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccceee--e-ecccHHHHHhhc---cCcccCCccchhh
Confidence            4799999988765322  2 399999999998   4567899998844

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

Probab=94.06  E-value=0.018  Score=53.12  Aligned_cols=44  Identities=27%  Similarity=0.732  Sum_probs=32.3

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      .|..|.---. ++...++- |.|+||..|...-.  ...||+|+..+-
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSIR   48 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccCC--ccccccccceee
Confidence            4776665444 67777775 99999999976632  228999999874

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

Probab=93.80  E-value=0.015  Score=55.15  Aligned_cols=42  Identities=26%  Similarity=0.757  Sum_probs=29.8

Q ss_pred             CcccccccccccCCcceEEecCCCccc-cHHHHHHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVF-HPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~F-H~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ...|+||++.-.+   ..+|+ |||.. |..|-..    -..||+||+.+.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence            4579999998554   67887 99963 4445332    348999998764

>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=93.70  E-value=0.034  Score=38.04  Aligned_cols=41  Identities=20%  Similarity=0.686  Sum_probs=23.2

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHhcCC--CCccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVC  154 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~--~CP~C  154 (320)
                      |.+|.+-...+..-.-. .|+=.+|..|++.++..+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777777666544221 3888999999999997655  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=93.66  E-value=0.037  Score=52.46  Aligned_cols=47  Identities=28%  Similarity=0.812  Sum_probs=38.4

Q ss_pred             cccccccccccCCc---ceEEecCCCccccHHHHHHHHhc-CCCCccccccc
Q 048010          111 LECAVCLNEFEDDE---TLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL  158 (320)
Q Consensus       111 ~~C~ICl~~~~~~~---~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l  158 (320)
                      .+|-||-++|...+   ..+.| +|||.|+..|+..-+.. ...||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            57999999998763   34566 49999999999988754 55799999986

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

Probab=93.39  E-value=0.035  Score=52.77  Aligned_cols=46  Identities=24%  Similarity=0.507  Sum_probs=38.7

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      .+.|-||...|..+...    +|+|.||..|-..-++....|.+|-+..-
T Consensus       241 Pf~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Cccccccccccccchhh----cCCceeehhhhccccccCCcceecccccc
Confidence            35699999999987544    69999999998888888889999977653

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.04  E-value=0.064  Score=51.94  Aligned_cols=56  Identities=16%  Similarity=0.366  Sum_probs=39.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCccccccccCCCCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASEPGE  164 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~  164 (320)
                      +++-|+.|++++...++-..-..||...|.-|....-+ -+..||-||+...++...
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            34559999999987775544445998888888554332 256899999988755433

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

Probab=92.88  E-value=0.053  Score=51.38  Aligned_cols=46  Identities=24%  Similarity=0.657  Sum_probs=38.3

Q ss_pred             CcccccccccccCCcce-EEecCCCccccHHHHHHHHhcCCCCccccc
Q 048010          110 ALECAVCLNEFEDDETL-RLIPKCDHVFHPECIDAWLESHTTCPVCRS  156 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~-r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~  156 (320)
                      ...|+||.+.+...... ..+ +|||..|..|+......+.+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~-~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVL-KCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCcc-CcccchHHHHHHHHhccCCCCCcccc
Confidence            34599999998876644 444 59999999999999877799999988

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

Probab=91.91  E-value=0.25  Score=48.65  Aligned_cols=29  Identities=31%  Similarity=0.982  Sum_probs=22.5

Q ss_pred             CCccccHHHHHHHHhc-------------CCCCccccccccC
Q 048010          132 CDHVFHPECIDAWLES-------------HTTCPVCRSNLAS  160 (320)
Q Consensus       132 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~l~~  160 (320)
                      |.-.+|.+|+.+|+.+             +-.||+||+...-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4466799999999954             2379999998753

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

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

Probab=91.09  E-value=0.12  Score=54.70  Aligned_cols=23  Identities=35%  Similarity=0.985  Sum_probs=21.2

Q ss_pred             CCCccccHHHHHHHHhcCCCCcc
Q 048010          131 KCDHVFHPECIDAWLESHTTCPV  153 (320)
Q Consensus       131 ~C~H~FH~~Ci~~Wl~~~~~CP~  153 (320)
                      .|+|+.|.+|..+|+.....||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            39999999999999999999984

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

Probab=91.09  E-value=0.25  Score=48.13  Aligned_cols=65  Identities=20%  Similarity=0.486  Sum_probs=43.5

Q ss_pred             HHhhCCCcccchhhhhccCCCCcccccccccccCCcceEEecCCCccccHHHHHHH--HhcCCCCcccccccc
Q 048010           89 VIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW--LESHTTCPVCRSNLA  159 (320)
Q Consensus        89 ~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~W--l~~~~~CP~CR~~l~  159 (320)
                      .+..-|.++-+...+  ..++...|-||-+.+.-   ..++| |+|..|.-|--..  |...+.||+||....
T Consensus        42 nlsaEPnlttsSadd--tDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          42 NLSAEPNLTTSSADD--TDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccCCccccccccc--cccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            334445544333222  22345679999988654   55677 9999999996554  467889999998653

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=90.93  E-value=0.13  Score=37.12  Aligned_cols=43  Identities=21%  Similarity=0.580  Sum_probs=30.2

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      .|-.|...   +.+-.++| |+|+.+..|.+.+  +-+-||+|-+++..
T Consensus         9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence            45555544   23344566 9999999997764  55679999888754

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

Probab=90.90  E-value=0.17  Score=44.98  Aligned_cols=31  Identities=32%  Similarity=0.941  Sum_probs=25.2

Q ss_pred             CCCccccHHHHHHHHhc----C-------CCCccccccccCC
Q 048010          131 KCDHVFHPECIDAWLES----H-------TTCPVCRSNLASE  161 (320)
Q Consensus       131 ~C~H~FH~~Ci~~Wl~~----~-------~~CP~CR~~l~~~  161 (320)
                      .||.-||.-|+..||+.    +       ..||.|-.++..+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            59999999999999963    2       2699998888644

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

Probab=90.89  E-value=0.1  Score=55.36  Aligned_cols=47  Identities=26%  Similarity=0.711  Sum_probs=36.3

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhc--CCCCccccccccCCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLASEP  162 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~  162 (320)
                      ..|.||++    .+...+.+ |+|.||..|+..-+..  ...||+||..+....
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            68999999    34455555 9999999999888753  336999999886544

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

Probab=90.66  E-value=0.096  Score=50.20  Aligned_cols=41  Identities=37%  Similarity=0.842  Sum_probs=28.3

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      |--|-..+.  ..-|++| |.|+||.+|-..  ...+.||.|-..|
T Consensus        93 Cd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   93 CDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             ecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            555544333  2347787 999999999654  4456899997655

>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site

Probab=89.61  E-value=0.27  Score=34.70  Aligned_cols=19  Identities=26%  Similarity=0.686  Sum_probs=16.4

Q ss_pred             CCcccccccCcHHHHHHHH
Q 048010          250 EDTERFTLRLPVDVRKQIM  268 (320)
Q Consensus       250 ~~~~r~tlrLpe~v~~~~~  268 (320)
                      .+.++|+||||++++.+|-
T Consensus         2 r~~~~f~lRlP~~l~~~lk   20 (50)
T PF03869_consen    2 RKDPQFNLRLPEELKEKLK   20 (50)
T ss_dssp             CCSEEEEEECEHHHHHHHH
T ss_pred             CCCCceeeECCHHHHHHHH
Confidence            3568999999999998877

Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=89.00  E-value=0.52  Score=33.89  Aligned_cols=40  Identities=25%  Similarity=0.734  Sum_probs=32.6

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPV  153 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~  153 (320)
                      ...|.+|-+.|.+++.+.+-|.|+=.+|.+|-+.    ...|-+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            3579999999998888888999999999999554    445544

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

Probab=88.94  E-value=0.21  Score=53.84  Aligned_cols=36  Identities=22%  Similarity=0.571  Sum_probs=28.0

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHH
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL  145 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl  145 (320)
                      +.++.|.+|.-.+... ...+-| |||.||.+||..-.
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            4567899999988765 334455 99999999998764

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

Probab=88.92  E-value=0.15  Score=56.83  Aligned_cols=45  Identities=27%  Similarity=0.762  Sum_probs=36.9

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  158 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  158 (320)
                      ..|.||++.+.....+.   .|+|.++..|+..|+..+..||.|....
T Consensus      1154 ~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             cchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhhh
Confidence            47999999988432222   4999999999999999999999998533

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

Probab=88.66  E-value=0.29  Score=52.33  Aligned_cols=51  Identities=27%  Similarity=0.649  Sum_probs=39.3

Q ss_pred             CCcccccccccccCCcceEEecCCC---ccccHHHHHHHHhc--CCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCD---HVFHPECIDAWLES--HTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~---H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  159 (320)
                      ++..|.||..+=..++.+---.+|.   -..|.+|+.+|+.-  ...|-+|+.++.
T Consensus        11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            4467999999988777764433455   56899999999963  557999999774

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

Probab=88.43  E-value=0.25  Score=46.68  Aligned_cols=50  Identities=28%  Similarity=0.784  Sum_probs=36.9

Q ss_pred             CcccccccccccCCcc-eEEecCCC-----ccccHHHHHHHHh--cCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDET-LRLIPKCD-----HVFHPECIDAWLE--SHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~-~r~lp~C~-----H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~  160 (320)
                      +..|-||.++...... ....| |.     +..|..|++.|+.  ....|.+|......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            4679999998765432 23344 65     7789999999996  56689999886643

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

Probab=87.33  E-value=0.25  Score=34.56  Aligned_cols=43  Identities=26%  Similarity=0.700  Sum_probs=25.2

Q ss_pred             ccccccccccCCcceEEecCCC-ccccHHHHHHHHhcCCCCccccccccC
Q 048010          112 ECAVCLNEFEDDETLRLIPKCD-HVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      .|.-|+-+.+  ..+    +|+ |..+..|+...|.....||+|..++..
T Consensus         4 nCKsCWf~~k--~Li----~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCWFANK--GLI----KCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS-S--S--SEE----E-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhhhcCC--Cee----eecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            4666664432  223    366 999999999999999999999988753

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.

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

Probab=86.11  E-value=0.39  Score=49.76  Aligned_cols=50  Identities=28%  Similarity=0.848  Sum_probs=40.3

Q ss_pred             ccCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          105 KVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       105 ~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      ...+....|.||+.++    ..+..+ |.   |..|+.+|+..+..||+|+..+..+.
T Consensus       474 ~l~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~  523 (543)
T KOG0802|consen  474 QLREPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDD  523 (543)
T ss_pred             hhhcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccc
Confidence            3445567899999998    455555 88   89999999999999999999876544

>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=85.95  E-value=0.64  Score=40.57  Aligned_cols=37  Identities=22%  Similarity=0.591  Sum_probs=22.2

Q ss_pred             CcccccccccccCCcceEEec---C-----CC-ccccHHHHHHHHh
Q 048010          110 ALECAVCLNEFEDDETLRLIP---K-----CD-HVFHPECIDAWLE  146 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp---~-----C~-H~FH~~Ci~~Wl~  146 (320)
                      +..|+|||+--.....+.-..   .     |+ -.-|..|++++-+
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            357999999865532221100   0     33 3458999999854

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.43  E-value=0.37  Score=45.15  Aligned_cols=51  Identities=22%  Similarity=0.662  Sum_probs=34.8

Q ss_pred             CCcccccccccccCCcceEEecCCC-----ccccHHHHHHHHhc--------CCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLES--------HTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~Ci~~Wl~~--------~~~CP~CR~~l~  159 (320)
                      .+.-|-||+..=+++-.-...-+|.     |-.|..|+..|+..        ..+||-|+.+..
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            3456999998855543221222254     99999999999942        237999998764

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

Probab=84.88  E-value=3  Score=41.37  Aligned_cols=45  Identities=20%  Similarity=0.545  Sum_probs=38.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC---CCCccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVC  154 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~---~~CP~C  154 (320)
                      ....|+|=.+.=.+.+....|. |||+...+-|....++.   ..||-|
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            4578999888888888888887 99999999999987654   479999

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

Probab=84.55  E-value=0.38  Score=47.82  Aligned_cols=39  Identities=26%  Similarity=0.663  Sum_probs=28.8

Q ss_pred             CCcccccccccccCC-cceEEecCCCccccHHHHHHHHhcC
Q 048010          109 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLESH  148 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~-~~~r~lp~C~H~FH~~Ci~~Wl~~~  148 (320)
                      ...+|.||+.+.... +... ..+|+|.||.+|+...++.+
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhh
Confidence            356899999555444 4444 44699999999999998643

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

Probab=83.93  E-value=0.75  Score=44.27  Aligned_cols=45  Identities=24%  Similarity=0.582  Sum_probs=33.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +-.+|+||.+.+..+..  .-. =||+-|..|-.   +....||.||-++.
T Consensus        47 ~lleCPvC~~~l~~Pi~--QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPPIF--QCD-NGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCcccce--ecC-CCcEehhhhhh---hhcccCCccccccc
Confidence            34689999999988643  211 36888888864   45778999999886

>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins

Probab=83.48  E-value=4  Score=31.59  Aligned_cols=51  Identities=22%  Similarity=0.215  Sum_probs=26.2

Q ss_pred             chhhhhhhhhhccCCCCCCCCCCCC--CCCCcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 048010            2 LLVAHALPLSLAQRSPEPPGSVDPY--SNMKFSPSLAIIIVVLISALFFMGFFSIYIR   57 (320)
Q Consensus         2 l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~iiiiilv~~~~ll~~~~i~~r   57 (320)
                      +||+++++.+++|..+   .  ..+  ...+......|++.-++..+++.+..+.+.|
T Consensus         7 lLflLLL~VaAaq~~~---g--scs~C~~ls~g~LaGiV~~D~vlTLLIv~~vy~car   59 (79)
T PF07213_consen    7 LLFLLLLPVAAAQTQP---G--SCSGCYPLSPGLLAGIVAADAVLTLLIVLVVYYCAR   59 (79)
T ss_pred             cHHHHHHHHhhhcCCC---C--CCCCccccCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            4555666665554421   1  233  2334445555666666666666655544444

In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].

>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=81.44  E-value=1.2  Score=42.45  Aligned_cols=48  Identities=23%  Similarity=0.585  Sum_probs=34.4

Q ss_pred             cccccccccc-CCcceEEecCCCccccHHHHHHHHh-cCCCCcccccccc
Q 048010          112 ECAVCLNEFE-DDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLA  159 (320)
Q Consensus       112 ~C~ICl~~~~-~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~  159 (320)
                      .|++|..+.- .++...+...|+|-.|..|++..+. ....||.|-..+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            4899987644 3333223334999999999999985 5668999977653

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

Probab=80.58  E-value=2.7  Score=35.25  Aligned_cols=33  Identities=21%  Similarity=0.214  Sum_probs=20.4

Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 048010           31 FSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS   63 (320)
Q Consensus        31 ~~~~~~iiiiilv~~~~ll~~~~i~~r~c~~~~   63 (320)
                      -..+.+|+++++..++++++++++++|+.+++.
T Consensus        63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~   95 (122)
T PF01102_consen   63 EPAIIGIIFGVMAGVIGIILLISYCIRRLRKKS   95 (122)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred             ccceeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            345677777777777777777766666655443

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	320
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		7e-14
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-09
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		4e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		5e-04

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

Iteration: 1
 Score = 74.7 bits (182), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 34/46 (73%)
Query: 110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
            +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>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 = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 39/62 (62%), Gaps = 2/62 (3%)
Query: 106 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGET 165
           VG G LEC VC  ++   E++R +P C+H+FH  CI  WLE H +CPVCR +L  +   T
Sbjct: 12  VGSG-LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT 69
Query: 166 TP 167
            P
Sbjct: 70  NP 71

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 36/51 (70%), Gaps = 1/51 (1%)
Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPG 163
           C VC+ +FE  + LR++P C+H FH +C+D WL+++ TCP+CR++     G
Sbjct: 26  CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPSSG 75

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 37/55 (67%), Gaps = 2/55 (3%)
Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE-PGET 165
           +C +CL+  E+ E +R +P C H+FH  C+D WL ++  CP+CR ++ ++ P E+
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC 154
           CAVCL +F+  + L + P C H FH +C+  WLE    CP+C
Sbjct: 18  CAVCLEDFKPRDELGICP-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 = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 87  REVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 146
           +E ID  P  + +E     VG+  + C +C +E+   +    +P C H FH  C+  WL+
Sbjct: 19  KESIDALPEILVTEDHG-AVGQ-EMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 147 SHTTCPVCRS 156
              TCPVCR 
Sbjct: 76  KSGTCPVCRC 85

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           EC +C++   D     LI  C H F  +CID W + H  CP+CR
Sbjct: 17  ECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICR 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	320
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-33
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	8e-32
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-30
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-26
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-26
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-23
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-20
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	4e-20
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-18
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-16
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-15
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	5e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	9e-13
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	5e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	9e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	5e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-07
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	8e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	9e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	1e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	6e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	9e-04

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

 Score =  117 bits (296), Expect = 1e-33
 Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 4/77 (5%)

Query: 87  REVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 146
                  P++ ++             C VC+ +FE  + LR++P C+H FH +C+D WL+
Sbjct: 3   SGSSGQLPSYRFNPNNH---QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLK 58

Query: 147 SHTTCPVCRSNLASEPG 163
           ++ TCP+CR++     G
Sbjct: 59  ANRTCPICRADSGPSSG 75

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

 Score =  112 bits (282), Expect = 8e-32
 Identities = 28/52 (53%), Positives = 35/52 (67%)

Query: 107 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
               +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score =  109 bits (274), Expect = 2e-30
 Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 3/84 (3%)

Query: 75  NRSRRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDH 134
           + S   A     +E ID  P  + +E          + C +C +E+   +    +P C H
Sbjct: 7   HHSHMVANPPASKESIDALPEILVTE--DHGAVGQEMCCPICCSEYVKGDVATELP-CHH 63

Query: 135 VFHPECIDAWLESHTTCPVCRSNL 158
            FH  C+  WL+   TCPVCR   
Sbjct: 64  YFHKPCVSIWLQKSGTCPVCRCMF 87

>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 = 98.7 bits (246), Expect = 2e-26
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 103 TLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 162
           T +     LEC VC  ++   E++R +P C+H+FH  CI  WLE H +CPVCR +L  + 
Sbjct: 8   TEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

Query: 163 GETTPQPSE 171
             T P    
Sbjct: 67  TATNPPGLT 75

>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 = 97.8 bits (244), Expect = 3e-26
 Identities = 19/55 (34%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETT 166
           +C +CL+  E+ E +R +P C H+FH  C+D WL ++  CP+CR ++ ++    +
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

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

 Score = 90.6 bits (225), Expect = 2e-23
 Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTP 167
            CAVCL +F+  + L + P C H FH +C+  WLE    CP+C   +      + P
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGP 71

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

 Score = 83.0 bits (205), Expect = 2e-20
 Identities = 12/46 (26%), Positives = 26/46 (56%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
           C  C  E + ++ + +  +C+H FH  C+  W++ +  CP+C+ + 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

>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 = 81.2 bits (201), Expect = 4e-20
 Identities = 11/48 (22%), Positives = 20/48 (41%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 159
            C +CL +      +  +  C H+ H  C +  L+    CP+C    +
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 76.3 bits (188), Expect = 5e-18
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 5/70 (7%)

Query: 98  YSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 157
                 +K      EC +C+    D     ++P C H F  +CID W + H  CP+CR  
Sbjct: 3   SGSSGRVKQLTDEEECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQ 57

Query: 158 LASEPGETTP 167
           +      + P
Sbjct: 58  MTGANESSGP 67

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

 Score = 72.4 bits (178), Expect = 1e-16
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 160
            C +CL +  +         C H F   CI  W+  + TCP+C+  + S
Sbjct: 7   RCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

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

 Score = 67.2 bits (164), Expect = 9e-15
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 3/56 (5%)

Query: 109 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNLASE 161
           G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +  +
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69

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

 Score = 64.8 bits (158), Expect = 5e-14
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 3/53 (5%)

Query: 109 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNL 158
             + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>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 = 63.7 bits (155), Expect = 2e-13
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 109 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNL 158
           G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>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 = 63.4 bits (154), Expect = 4e-13
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNL 158
             C +C+ +  D    RL P C  +    CI  WL E    CP CR+ L
Sbjct: 23  FRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

>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 = 62.9 bits (152), Expect = 9e-13
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           C         +E       C+H FH  CI  WL++   CP+  
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 61.0 bits (147), Expect = 5e-12
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 155
           C         +E       C+H FH  CI  WL++   CP+  
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 57.1 bits (138), Expect = 4e-11
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 3/48 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
           + C++C     D  T   I +C H F   CI         CP C   +
Sbjct: 16  ILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 57.9 bits (139), Expect = 1e-10
 Identities = 17/106 (16%), Positives = 34/106 (32%), Gaps = 13/106 (12%)

Query: 106 VGKGALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNLASEP 162
           +G G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR       
Sbjct: 3   MGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR------- 55

Query: 163 GETTPQPSELGSSEVDLEAQNDAAVAAETPQETQPQAQCSQPPEPQ 208
                   +               +  +   E     +     E  
Sbjct: 56  ---KKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECG 98

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

 Score = 49.0 bits (116), Expect = 1e-07
 Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 3/51 (5%)

Query: 111 LECAVCLNEFED---DETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
           + C +C++ + +   +  L +  +C HVF  +C+   L++  TCP CR  +
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 53.3 bits (128), Expect = 8e-10
 Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPGETTPQ 168
            ECA+CL       +L     C HVF   C+         C +CR  +  +  ++ P 
Sbjct: 16  PECAICLQTCVHPVSL----PCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSGPS 69

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

 Score = 53.7 bits (129), Expect = 9e-10
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 4/47 (8%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 157
             C +C   F++        KC H F   C      +   C +C   
Sbjct: 16  FRCFICRQAFQNPVVT----KCRHYFCESCALEHFRATPRCYICDQP 58

>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 = 54.1 bits (130), Expect = 1e-09
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 160
           L C +C   F D  T   I +C H F   CI  +LE+   CP+C   +  
Sbjct: 16  LMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

>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 = 52.6 bits (126), Expect = 2e-09
 Identities = 12/67 (17%), Positives = 20/67 (29%), Gaps = 8/67 (11%)

Query: 109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLASEPGETT 166
               C +C +     ++      C    H  C+  + +S+    CP C       P E  
Sbjct: 14  AVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW---PHEIP 67

Query: 167 PQPSELG 173
                 G
Sbjct: 68  KSGPSSG 74

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

 Score = 56.0 bits (134), Expect = 5e-09
 Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 16/87 (18%)

Query: 90  IDTFP-TFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLI----PKCDHVFHPECIDAW 144
           +  FP        K  +     L C +C     D   + L+     KC    H  C++ W
Sbjct: 287 LCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEW 346

Query: 145 LES-----------HTTCPVCRSNLAS 160
            ++              CP C++ L++
Sbjct: 347 FKTLMDGKTFLEVSFGQCPFCKAKLST 373

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

 Score = 52.0 bits (124), Expect = 2e-08
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 4/52 (7%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 162
           L+C +C   F +  TL     C H F   CI+ W++    CP+CR ++ S+ 
Sbjct: 65  LQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

 Score = 50.2 bits (119), Expect = 3e-08
 Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 19/75 (25%)

Query: 112 ECAVCLNEFED--------------DETLRLIPKCDHVFHPECIDAWLES-----HTTCP 152
           +C +C+ +                    +  + KC H FH  C+ A   +        CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 153 VCRSNLASEPGETTP 167
            C++    + G    
Sbjct: 87  SCKTIYGEKTGTQPW 101

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

 Score = 49.8 bits (119), Expect = 3e-08
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
           L C +C   F       +IP+C H +   CI  +L   T CP C   +
Sbjct: 23  LRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

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

 Score = 48.2 bits (115), Expect = 5e-08
 Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 5/59 (8%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVCRSNLASEPGETTP 167
           L C +C +   D     +IP C + +  ECI   L      TCP C  N  S    + P
Sbjct: 16  LLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGP 71

>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 = 50.9 bits (121), Expect = 2e-07
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 5/52 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE 161
             C +C    +D   +++ P C H+    C+ +W ES    CP CR  +   
Sbjct: 333 QLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380

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

 Score = 45.9 bits (108), Expect = 4e-07
 Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 1/62 (1%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT-CPVCRSNLASEPGETTPQP 169
           +EC +C+   E D+       C +     C           CP CR     +P    P  
Sbjct: 12  VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLS 71

Query: 170 SE 171
            E
Sbjct: 72  QE 73

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

 Score = 45.9 bits (109), Expect = 5e-07
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCR 155
           LEC +C+  F +++    +  C H    +C++  L S      CP C 
Sbjct: 16  LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 48.6 bits (115), Expect = 8e-07
 Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 6/64 (9%)

Query: 108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLASEPGET 165
                C +C +     ++      C    H  C+  + +S+    CP C      E  + 
Sbjct: 178 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKV 234

Query: 166 -TPQ 168
             P+
Sbjct: 235 FDPE 238

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

 Score = 44.8 bits (106), Expect = 1e-06
 Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECI-DAWLESHT-TCPVCRSNLASEP 162
           L C +C +   D     +IP C + +  ECI  A LES   TCP C  N  S  
Sbjct: 14  LLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE 161
            +C  C       +      +C H F   C+ A L S +  C  C+ ++  +
Sbjct: 16  YKCEKCHLVLCSPKQT----ECGHRFCESCMAALLSSSSPKCTACQESIVKD 63

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

 Score = 44.5 bits (105), Expect = 4e-06
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 156
           L C+ C N   +      +  C+H+F   C+   +   T CPVC +
Sbjct: 23  LRCSRCTNILREPVC---LGGCEHIFCSNCVSDCIG--TGCPVCYT 63

>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 = 43.0 bits (101), Expect = 1e-05
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 5/53 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 162
            +C  C        T      C H    +C+D    +   +CP CR +L    
Sbjct: 53  FQCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSY 101

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

 Score = 43.8 bits (103), Expect = 2e-05
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 162
           L C +CL+  ++  T     +C H F  +CI   L S    CP CR  L S+ 
Sbjct: 55  LMCPICLDMLKNTMT---TKECLHRFCADCIITALRSGNKECPTCRKKLVSKR 104

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 14/72 (19%)

Query: 109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--------TCPVCRSNLAS 160
           G+  C +CL E+  ++   +  +C  +F   C+  ++E           +CP       +
Sbjct: 4   GSSGCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDA-----A 57

Query: 161 EPGETTPQPSEL 172
            P +   Q +E+
Sbjct: 58  CPKQGHLQENEI 69

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

 Score = 42.6 bits (100), Expect = 2e-05
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNL 158
           + C +C +   D     +   C H+F   CI   L+   + CP CR   
Sbjct: 24  ISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

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

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 13/56 (23%), Positives = 16/56 (28%), Gaps = 11/56 (19%)

Query: 111 LECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 162
            EC +CL    +            C H F   CI   +      CPV    L    
Sbjct: 19  YECPICLMALRE-------AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

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

 Score = 41.6 bits (97), Expect = 9e-05
 Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 5/53 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLASEP 162
            EC +CL    +     +   C H F   CI   +      CPV    L    
Sbjct: 19  YECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

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

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 113 CAVCLNEFEDDETLRLIPKCD---HVFHPECIDAWLES--HTTCPVCR 155
           C +C  E +D+  L     C    H  H  C+  W++S     C +C+
Sbjct: 18  CRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

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

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 9/62 (14%), Positives = 20/62 (32%), Gaps = 6/62 (9%)

Query: 110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE---PGETT 166
            + CA+              PK   +F    ++ +++     P+    L+ E       +
Sbjct: 3   HMLCAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPS 59

Query: 167 PQ 168
            Q
Sbjct: 60  AQ 61

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 7/46 (15%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 156
           L C  C  E +  + L     C H     C++A   S   CP+C++
Sbjct: 7   LRCQQCQAEAKCPKLL----PCLHTLCSGCLEA---SGMQCPICQA 45

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

 Score = 39.1 bits (91), Expect = 3e-04
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 5/53 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASEP 162
            +C +C+    +  TL     C+H     C  + +E +   CP CR  ++S  
Sbjct: 16  CQCGICMEILVEPVTLP----CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWT 64

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

 Score = 39.6 bits (92), Expect = 3e-04
 Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 5/53 (9%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASEP 162
             C  C        T     +C H    +C+    ++   +CP CR +L    
Sbjct: 79  FMCVCCQELVYQPVTT----ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNY 127

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

 Score = 37.3 bits (87), Expect = 4e-04
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 7/48 (14%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCR 155
           + C +CL+  +   T+     C H F  +CI    E+      CP+C+
Sbjct: 21  VICPICLDILQKPVTI----DCGHNFCLKCITQIGETSCGFFKCPLCK 64

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

 Score = 38.6 bits (89), Expect = 5e-04
 Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEPGETTPQP 169
             C+ C N            +C H +   C+ + L S    C  C      E G +  + 
Sbjct: 32  YLCSACRNVLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILES 87

Query: 170 SEL 172
           S  
Sbjct: 88  SSA 90

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

 Score = 37.4 bits (87), Expect = 6e-04
 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 18/66 (27%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH------TTCPVCRSNLASEPGE 164
           + C +CL   ++  +      C+H F   CI    ES+        CPVCR         
Sbjct: 20  VTCPICLELLKEPVSA----DCNHSFCRACITLNYESNRNTDGKGNCPVCR--------V 67

Query: 165 TTPQPS 170
             P  +
Sbjct: 68  PYPFGN 73

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

 Score = 37.4 bits (87), Expect = 9e-04
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 7/48 (14%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCR 155
           LEC +CL   ++  +     KCDH+F   C+   L      + CP+C+
Sbjct: 22  LECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	320
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.69
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.62
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.54
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.53
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.51
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.5
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.43
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.43
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.4
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.38
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.38
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.35
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.33
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.31
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.31
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.29
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.28
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.26
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.24
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.24
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.19
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.17
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.16
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.15
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.12
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.12
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.1
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.1
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.09
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.05
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.05
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.03
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.03
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.01
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.99
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.99
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.95
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.92
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.9
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.89
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.85
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.85
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.83
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.83
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.81
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.8
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.79
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.76
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.75
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.74
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.73
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.73
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.68
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.67
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.6
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.55
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.53
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.52
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.45
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.45
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.38
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.35
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.27
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.19
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.14
3nw0_A	238	Non-structural maintenance of chromosomes element	97.98
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.88
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.81
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.07
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.8
1we9_A	64	PHD finger family protein; structural genomics, PH	89.26
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	85.62
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	85.55
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	85.48
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	84.12
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	83.05
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	82.54
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	82.48
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	82.2
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	80.46
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	80.38

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

Probab=99.69  E-value=4.1e-17  Score=127.73  Aligned_cols=80  Identities=29%  Similarity=0.676  Sum_probs=68.6

Q ss_pred             cccccCCCCHHHHhhCCCcccchhhhhccCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccc
Q 048010           78 RRGAARGLDREVIDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  157 (320)
Q Consensus        78 ~r~~~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  157 (320)
                      ......+++++.|+.||.+.+.....  ......+|+||+++|..++.++.++ |+|.||..||+.|++.+.+||+||+.
T Consensus        10 ~~~~~~~~s~~~i~~lp~~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A           10 HMVANPPASKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             CSSCCCCCCHHHHHTSCEEECCTTCS--SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             CCcCCCCCCHHHHHhCCCeeeccccc--ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCcc
Confidence            34467899999999999998876432  2345678999999999999999998 99999999999999999999999998


Q ss_pred             ccC
Q 048010          158 LAS  160 (320)
Q Consensus       158 l~~  160 (320)
                      +..
T Consensus        87 ~~~   89 (91)
T 2l0b_A           87 FPP   89 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            853

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

Probab=99.62  E-value=1.5e-16  Score=119.65  Aligned_cols=68  Identities=32%  Similarity=0.915  Sum_probs=57.5

Q ss_pred             HhhCCCcccchhhhhccCCCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010           90 IDTFPTFVYSEVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus        90 i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ++.+|.+.|....   ...+..+|+||+++|..++.++.++ |+|+||..||..|++.+.+||+||+++...
T Consensus         6 i~~lp~~~~~~~~---~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNN---HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSS---CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCcc---ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            4678888876532   2335678999999999999999998 999999999999999999999999988643

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

Probab=99.54  E-value=2.6e-15  Score=105.88  Aligned_cols=51  Identities=55%  Similarity=1.249  Sum_probs=46.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +..+|+||+++|..++.+..++.|+|+||..||..|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            457899999999999888888779999999999999999999999999874

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

Probab=99.53  E-value=9.7e-15  Score=109.19  Aligned_cols=53  Identities=36%  Similarity=0.879  Sum_probs=48.1

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ....+|+||+++|..++.+.+++ |+|+||..||..|++.+.+||+||+++...
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            34678999999999999999998 999999999999999999999999998653

>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=99.51  E-value=1.4e-14  Score=106.86  Aligned_cols=53  Identities=36%  Similarity=1.026  Sum_probs=47.8

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ....+|+||++.|..++.++.++ |+|+||..||..|++.+.+||+||+.+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            45678999999999888888898 999999999999999999999999998754

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

Probab=99.51  E-value=8.9e-15  Score=112.11  Aligned_cols=52  Identities=25%  Similarity=0.790  Sum_probs=43.3

Q ss_pred             CCcccccccccccC-----------CcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFED-----------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~-----------~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ++.+|+||+++|.+           ++.++.+++|+|+||.+||++||+.+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            34678888888864           45566666799999999999999999999999998754

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

Probab=99.50  E-value=1.3e-14  Score=109.51  Aligned_cols=54  Identities=44%  Similarity=1.104  Sum_probs=48.6

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      ....+|+||++.|..++.++.++ |+|+||..||..|++.+.+||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            34578999999999998888898 9999999999999999999999999987544

>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=99.43  E-value=1e-13  Score=111.93  Aligned_cols=54  Identities=26%  Similarity=0.676  Sum_probs=43.1

Q ss_pred             CCcccccccccccCCc---------------ceEEecCCCccccHHHHHHHH-----hcCCCCccccccccCCCC
Q 048010          109 GALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWL-----ESHTTCPVCRSNLASEPG  163 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~Ci~~Wl-----~~~~~CP~CR~~l~~~~~  163 (320)
                      .+.+|+||+++|..+.               .+++++ |+|+||..||+.||     +.+.+||+||+.+....+
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g   97 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCC
Confidence            3468999999997653               344665 99999999999999     456799999998875543

>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=99.43  E-value=3.6e-14  Score=114.60  Aligned_cols=66  Identities=27%  Similarity=0.528  Sum_probs=50.1

Q ss_pred             CCCcccchhhhhccCCCCcccccccccccCCc---------------ceEEecCCCccccHHHHHHHHhcCCCCcccccc
Q 048010           93 FPTFVYSEVKTLKVGKGALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  157 (320)
Q Consensus        93 lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  157 (320)
                      +...+|..+........++.|+||++.|...-               .+++++ |+|.||..||+.||+.+.+||+||++
T Consensus        20 ~~ik~~~~v~~w~~d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~   98 (106)
T 3dpl_R           20 FEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNRE   98 (106)
T ss_dssp             EEEEEEEEEEEEEESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSB
T ss_pred             eeEEEEEEeeEeecCCCCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCc
Confidence            33444454444444446688999999998641               356666 99999999999999999999999998


Q ss_pred             cc
Q 048010          158 LA  159 (320)
Q Consensus       158 l~  159 (320)
                      +.
T Consensus        99 ~~  100 (106)
T 3dpl_R           99 WE  100 (106)
T ss_dssp             CC
T ss_pred             ce
Confidence            64

>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=99.40  E-value=1.4e-13  Score=96.72  Aligned_cols=50  Identities=26%  Similarity=0.828  Sum_probs=43.0

Q ss_pred             CCcccccccccccCCc-ceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~-~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +..+|+||++.|.+++ .+..++ |+|+||..||..|++.+.+||+||+++.
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            4568999999997654 466676 9999999999999999999999999864

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

Probab=99.38  E-value=2.6e-13  Score=100.22  Aligned_cols=53  Identities=26%  Similarity=0.805  Sum_probs=44.9

Q ss_pred             CCCcccccccccccCC----cceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.|.+.    +.+..++ |||.||..||..|++.+.+||+||.++...
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            3567899999999763    4456676 999999999999999999999999998744

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

Probab=99.38  E-value=2.4e-13  Score=99.59  Aligned_cols=51  Identities=27%  Similarity=0.830  Sum_probs=43.5

Q ss_pred             CCCcccccccccccCC----cceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      .+..+|+||++.|.+.    ..+.+++ |+|+||..||..|++.+.+||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            3567899999999864    3446676 9999999999999999999999999875

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

Probab=99.35  E-value=3.3e-13  Score=97.37  Aligned_cols=52  Identities=25%  Similarity=0.772  Sum_probs=44.0

Q ss_pred             CCcccccccccccCC----cceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      +..+|+||++.|.+.    +.+..++ |||.||..||..|++.+.+||+||.++...
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            356899999999864    4456676 999999999999999999999999988643

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

Probab=99.33  E-value=6e-14  Score=115.19  Aligned_cols=68  Identities=26%  Similarity=0.511  Sum_probs=9.2

Q ss_pred             hCCCcccchhhhhccCCCCcccccccccccCC--------------cceEEecCCCccccHHHHHHHHhcCCCCcccccc
Q 048010           92 TFPTFVYSEVKTLKVGKGALECAVCLNEFEDD--------------ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  157 (320)
Q Consensus        92 ~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~--------------~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  157 (320)
                      .+...+++.+........++.|+||+++|.+.              +...++++|+|.||..||+.||+.+.+||+||++
T Consensus        30 r~~ikkw~ava~w~wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~  109 (117)
T 4a0k_B           30 RFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE  109 (117)
T ss_dssp             SEEEEEEEEEEEEEECCCC-------------------------------------------------------------
T ss_pred             ceEEEEEEEEEEEeecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCe
Confidence            33444455554444444667999999999752              1222323499999999999999999999999998


Q ss_pred             cc
Q 048010          158 LA  159 (320)
Q Consensus       158 l~  159 (320)
                      +.
T Consensus       110 ~~  111 (117)
T 4a0k_B          110 WE  111 (117)
T ss_dssp             --
T ss_pred             ee
Confidence            64

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

Probab=99.31  E-value=6.4e-13  Score=98.13  Aligned_cols=49  Identities=35%  Similarity=1.011  Sum_probs=43.0

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.+.+    .+++ |+|.||..||..|++.+.+||+||.++...
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            356789999999887    5666 999999999999999999999999998744

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

Probab=99.31  E-value=1.1e-12  Score=100.60  Aligned_cols=53  Identities=28%  Similarity=0.792  Sum_probs=44.1

Q ss_pred             CCCcccccccccccCCcceEEecCCC-----ccccHHHHHHHHhcC--CCCccccccccCCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLESH--TTCPVCRSNLASEP  162 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~Ci~~Wl~~~--~~CP~CR~~l~~~~  162 (320)
                      .+..+|.||+++|.+++.+ ++| |.     |.||.+||+.||..+  .+||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            3457899999999887776 577 86     999999999999765  59999999986543

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

Probab=99.29  E-value=2.1e-12  Score=96.10  Aligned_cols=52  Identities=21%  Similarity=0.492  Sum_probs=43.3

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      +....|+||++.|.+.  +.+++ |+|.||..||..|++.+..||+||.++....
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             CCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            3457899999999873  33345 9999999999999999999999999987543

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

Probab=99.28  E-value=1.9e-12  Score=94.95  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=42.1

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ...+|+||++.+.+.  ...++ |||.||..||..|++.+.+||+||.++.
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            456899999998753  46676 9999999999999999999999999885

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

Probab=99.26  E-value=4.4e-12  Score=97.23  Aligned_cols=53  Identities=26%  Similarity=0.770  Sum_probs=44.9

Q ss_pred             CCCcccccccccccCCcc-eEEecCCCccccHHHHHHHHhcC---CCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~-~r~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.|.+.+. .++++ |||.||..||..|++.+   ..||+||..+...
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            356789999999998765 66776 99999999999999875   7999999987643

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

Probab=99.24  E-value=3e-12  Score=95.00  Aligned_cols=48  Identities=29%  Similarity=0.654  Sum_probs=41.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      +..+|+||++.|.+.   ..++ |+|+||..||..|+..+.+||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           14 TVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            457899999998763   4556 99999999999999999999999998864

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

Probab=99.24  E-value=5.1e-12  Score=95.59  Aligned_cols=51  Identities=20%  Similarity=0.562  Sum_probs=42.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC--CCCccccccccCCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLASEP  162 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~--~~CP~CR~~l~~~~  162 (320)
                      ...+|+||++.|..++...   .|+|.||..||++||+++  .+||+||+++....
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            4568999999999775443   599999999999999887  89999999886443

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

Probab=99.19  E-value=1.3e-11  Score=91.62  Aligned_cols=50  Identities=26%  Similarity=0.681  Sum_probs=41.2

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHh---cCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~~~  161 (320)
                      ....+|+||++.|.+   ...++ |||.||..||..|++   .+..||+||.++...
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            356789999999986   34455 999999999999996   456899999988643

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

Probab=99.17  E-value=1.7e-11  Score=93.16  Aligned_cols=48  Identities=19%  Similarity=0.571  Sum_probs=41.6

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ....+|+||++.|.+.   .+++ |+|.||..||..|++....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3457899999999763   3566 9999999999999999999999999885

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

Probab=99.16  E-value=1.4e-11  Score=103.25  Aligned_cols=47  Identities=32%  Similarity=0.936  Sum_probs=41.2

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...|+||++.|.+   ..++| |||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            4579999999976   34566 99999999999999999999999998853

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

Probab=99.16  E-value=2.1e-11  Score=89.02  Aligned_cols=50  Identities=22%  Similarity=0.599  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHH-hcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~l~~~  161 (320)
                      .+...|+||++.+.+...   ++ |||.||..||..|+ .....||+||.++...
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQ---TE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESSCCC---CS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcCeeE---CC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            356789999999987644   45 99999999999999 4567999999988643

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

Probab=99.15  E-value=1.5e-11  Score=100.69  Aligned_cols=53  Identities=26%  Similarity=0.805  Sum_probs=45.0

Q ss_pred             CCCcccccccccccCC----cceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.|.++    +.+..++ |||.||..||..|++.+.+||+||+.+...
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            3567899999999864    4456776 999999999999999999999999988643

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

Probab=99.12  E-value=2.3e-11  Score=91.12  Aligned_cols=48  Identities=33%  Similarity=0.720  Sum_probs=39.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC--CCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~--~~CP~CR~~l~  159 (320)
                      ....|+||++.|.+..   .++.|||.||..||..|++.+  ..||+||+++.
T Consensus        14 ~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           14 DELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             GGGSCSSSCCCCTTCE---ECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCcCCChHHhCCe---EcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            4578999999998753   354599999999999999865  68999999754

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

Probab=99.12  E-value=2.8e-11  Score=99.01  Aligned_cols=53  Identities=26%  Similarity=0.805  Sum_probs=44.4

Q ss_pred             CCCcccccccccccCC----cceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          108 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .+..+|+||++.|.+.    .....++ |||+||..||+.|++.+.+||+||.++...
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            4567899999999863    3345665 999999999999999999999999998643

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

Probab=99.10  E-value=7.4e-11  Score=89.36  Aligned_cols=48  Identities=31%  Similarity=0.718  Sum_probs=41.2

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc------CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES------HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~~  160 (320)
                      ...+|+||++.|.+..   +++ |+|.||..||..|+..      ...||+||..+..
T Consensus        18 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           18 EEVTCPICLELLKEPV---SAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TTTSCTTTCSCCSSCE---ECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             cCCCCcCCChhhCcce---eCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            4578999999998753   566 9999999999999987      6789999998864

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

Probab=99.10  E-value=5.6e-11  Score=86.50  Aligned_cols=50  Identities=20%  Similarity=0.555  Sum_probs=40.4

Q ss_pred             Ccccccccc-cccCCcce-EEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          110 ALECAVCLN-EFEDDETL-RLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~-~~~~~~~~-r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      ...|+||++ .|.+.... .+++ |||.||..||..|+.. ...||+||..+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            467999999 78776544 3455 9999999999999754 5689999998864

>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=99.09  E-value=4.9e-11  Score=94.51  Aligned_cols=49  Identities=27%  Similarity=0.722  Sum_probs=40.7

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~  160 (320)
                      +...|+||++.|.+.  +..++ |||.||..||..|++.. ..||+||.++..
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA--RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCccCCccccCc--cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            346899999999863  32255 99999999999999887 699999999854

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

Probab=99.07  E-value=1.7e-10  Score=87.41  Aligned_cols=49  Identities=29%  Similarity=0.737  Sum_probs=41.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc------CCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES------HTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~~~  161 (320)
                      +..+|+||++.|.+..   .++ |+|.||..||..|+..      ...||+||..+...
T Consensus        18 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           18 EEVTCPICLELLTQPL---SLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCTTTCSCCSSCB---CCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCCCcccCCce---eCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            4578999999998753   345 9999999999999977      78999999998753

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

Probab=99.05  E-value=1e-10  Score=92.08  Aligned_cols=48  Identities=31%  Similarity=0.829  Sum_probs=40.8

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...|+||++.|.++   ..++.|||.||..||..|+..+.+||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            46899999999863   3342499999999999999999999999998864

>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=99.05  E-value=8e-11  Score=94.24  Aligned_cols=49  Identities=33%  Similarity=0.722  Sum_probs=41.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ....|+||++.|.+.  +.+++ |||.||..||..|+..+..||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA--TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGTBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CcCCCccCChHHhCc--CEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            356899999999863  33346 99999999999999999999999998864

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

Probab=99.05  E-value=9.3e-11  Score=88.17  Aligned_cols=48  Identities=23%  Similarity=0.630  Sum_probs=41.2

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      ....|+||++.|.++   .+++ |||.||..||..|++. +.+||+||.++..
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            457899999999874   3456 9999999999999986 7899999998864

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

Probab=99.03  E-value=6.8e-11  Score=88.82  Aligned_cols=49  Identities=22%  Similarity=0.658  Sum_probs=41.5

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-------CCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-------HTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-------~~~CP~CR~~l~~  160 (320)
                      .+..+|+||++.|.+...   ++ |||.||..||..|++.       ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~~p~~---l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTEPLS---LD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSSCCC---CS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCCeeE---CC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            356789999999987543   55 9999999999999976       6689999998864

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

Probab=99.03  E-value=1.5e-10  Score=83.63  Aligned_cols=43  Identities=30%  Similarity=0.748  Sum_probs=36.0

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHh---cCCCCccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVC  154 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~---~~~~CP~C  154 (320)
                      .+..+|+||++.|.+.   ..++ |||.||..||..|++   ....||+|
T Consensus        18 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3567899999999864   3455 999999999999997   45689998

>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=99.01  E-value=1.6e-10  Score=99.31  Aligned_cols=49  Identities=35%  Similarity=0.791  Sum_probs=41.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      ....|+||++.|.+.  +.+++ |||.||..||..|+.. +..||+||.++..
T Consensus        53 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNT--MTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCc--CEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            346899999999863  43446 9999999999999987 7899999999854

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

Probab=98.99  E-value=2.2e-10  Score=80.97  Aligned_cols=43  Identities=37%  Similarity=0.938  Sum_probs=35.6

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHH---hcCCCCccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL---ESHTTCPVC  154 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl---~~~~~CP~C  154 (320)
                      .+...|+||++.|.+..   +++ |+|.||..||..|+   ..+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEPV---IIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSCC---CCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCccE---eCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34578999999998763   355 99999999999995   456789998

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

Probab=98.99  E-value=2.5e-10  Score=93.55  Aligned_cols=47  Identities=23%  Similarity=0.642  Sum_probs=39.8

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC-CCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~  160 (320)
                      ...|+||++.|.++   ..++ |||.||..||..|+..+. .||+||.++..
T Consensus        52 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            46799999999864   3456 999999999999998544 99999999864

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

Probab=98.95  E-value=4.1e-10  Score=87.27  Aligned_cols=49  Identities=33%  Similarity=0.701  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC--CCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~--~~CP~CR~~l~  159 (320)
                      .+...|+||++.|.++.   .++.|||.||..||..|+...  ..||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSCE---ECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCce---ECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            35678999999998753   444499999999999999643  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=98.92  E-value=5.6e-10  Score=89.26  Aligned_cols=48  Identities=29%  Similarity=0.841  Sum_probs=40.1

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC---CCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~---~CP~CR~~l~~~  161 (320)
                      ..+|+||++.|.+...   ++ |||.||..||..|+..+.   .||+||..+...
T Consensus        21 ~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEPVS---TK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSCCB---CT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCeEE---CC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            4679999999987543   45 999999999999998654   899999988643

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

Probab=98.90  E-value=8e-10  Score=94.06  Aligned_cols=48  Identities=21%  Similarity=0.604  Sum_probs=40.5

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC-CCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~  161 (320)
                      ...|+||++.|.++   .+++ |||.||..||..|+.... .||+||.++...
T Consensus        78 ~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            46899999999874   3356 999999999999998654 899999998754

>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=98.89  E-value=5.7e-10  Score=90.76  Aligned_cols=48  Identities=29%  Similarity=0.629  Sum_probs=40.7

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC-CCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~  160 (320)
                      +...|+||++.|.++   ..++ |||.||..||..|++... +||+||.++..
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            457899999999875   3455 999999999999997655 99999998864

>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=98.85  E-value=1.1e-09  Score=80.08  Aligned_cols=47  Identities=19%  Similarity=0.504  Sum_probs=39.5

Q ss_pred             CCcccccccccccCCcceEEe--cCCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLI--PKCDHV-FHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~l--p~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +..+|.||++.+.+   ..++  | |||. |+..|+..|.+.+..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34579999998765   3344  7 9999 899999999998899999999874

>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=98.85  E-value=1.4e-09  Score=87.90  Aligned_cols=48  Identities=27%  Similarity=0.618  Sum_probs=40.5

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  161 (320)
                      ...|+||++.|.++   ..++ |||.||..||..|+.. ..+||+||.++...
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            46799999999864   3355 9999999999999986 77999999998643

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

Probab=98.83  E-value=3.4e-09  Score=80.66  Aligned_cols=54  Identities=22%  Similarity=0.538  Sum_probs=41.4

Q ss_pred             CCCcccccccccccCCcce-EEecCCCccccHHHHHHHHh-cCCCCccccccccCCC
Q 048010          108 KGALECAVCLNEFEDDETL-RLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASEP  162 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~-r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~  162 (320)
                      ++..+|+||++.+...+.. .-++ |||.||..|+..|+. ....||+||+++...+
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            3567899999998754332 2233 999999999999984 4678999999987543

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

Probab=98.83  E-value=2.1e-09  Score=104.46  Aligned_cols=49  Identities=27%  Similarity=0.819  Sum_probs=41.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  161 (320)
                      ...+|+||++.+.+   ...+| |||.||..||..|+. .+.+||+||.++...
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            34689999999865   55676 999999999999998 688999999988654

>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=98.81  E-value=1.7e-09  Score=91.18  Aligned_cols=50  Identities=22%  Similarity=0.477  Sum_probs=41.5

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC-CCccccccccCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE  161 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~  161 (320)
                      .....|+||++.|.++   ..++ |||.||..||..|++... +||+||.++...
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             CcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            4567899999999876   3355 999999999999998654 899999987543

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

Probab=98.80  E-value=6.4e-10  Score=89.83  Aligned_cols=47  Identities=26%  Similarity=0.790  Sum_probs=39.8

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      ...|+||++.|.+.   ..++ |||.||..||..|+.. ...||+||..+..
T Consensus        15 ~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            46799999999864   3445 9999999999999965 6789999998863

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

Probab=98.79  E-value=3.6e-09  Score=81.53  Aligned_cols=48  Identities=19%  Similarity=0.160  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ....|+||++-|.++   .+++ |||.|+..||..|+..+.+||+|+.++..
T Consensus        13 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            457899999999985   3456 99999999999999989999999998753

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

Probab=98.76  E-value=1.3e-09  Score=103.88  Aligned_cols=53  Identities=25%  Similarity=0.672  Sum_probs=41.4

Q ss_pred             CCCcccccccccccCCcce----EEecCCCccccHHHHHHHHhcC-----------CCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETL----RLIPKCDHVFHPECIDAWLESH-----------TTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~----r~lp~C~H~FH~~Ci~~Wl~~~-----------~~CP~CR~~l~~  160 (320)
                      ++..+|+||++.+.++..+    ...++|+|.||..||.+||++.           .+||.||+++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            4667999999999873322    2234699999999999999752           469999998864

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

Probab=98.75  E-value=3.4e-09  Score=77.15  Aligned_cols=48  Identities=17%  Similarity=0.462  Sum_probs=39.1

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..+|.||++.+.+.. +..+| |||. |+..|+..|.+....||+||+++.
T Consensus         7 ~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            468999999876521 22337 9998 999999999988889999999874

>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=98.74  E-value=7.1e-09  Score=82.15  Aligned_cols=48  Identities=21%  Similarity=0.179  Sum_probs=41.7

Q ss_pred             CCcccccccccccCCcceEEecCCC-ccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCD-HVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ....|+||++.|.++.   +++ || |.|+..||..||..+.+||+||.++..
T Consensus        21 ~~~~CpI~~~~m~dPV---~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDPV---VLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSEE---ECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccCCe---ECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            4578999999999853   455 99 999999999999988999999998863

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

Probab=98.73  E-value=3.1e-09  Score=75.34  Aligned_cols=48  Identities=27%  Similarity=0.647  Sum_probs=39.5

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      .+...|+||++.|.+.   ++++ |+|.||..||..|   ...||+||+.+..++
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            3567899999999875   3456 9999999999885   678999999887543

>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=98.73  E-value=5e-09  Score=83.30  Aligned_cols=48  Identities=17%  Similarity=0.176  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ....|+||++-|.++   .+++ |||.|+..||..|+..+.+||+||.++..
T Consensus        28 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            457899999999985   3455 99999999999999988999999998864

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

Probab=98.68  E-value=6.3e-09  Score=77.91  Aligned_cols=43  Identities=23%  Similarity=0.730  Sum_probs=36.8

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...|+||++.+.+   ..++| |||. ||..|+..|    ..||+||.++..
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            4579999999876   45667 9999 999999999    889999998753

>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=98.67  E-value=4.4e-09  Score=85.34  Aligned_cols=44  Identities=30%  Similarity=0.778  Sum_probs=38.0

Q ss_pred             CcccccccccccCCcceEEe-cCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          110 ALECAVCLNEFEDDETLRLI-PKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~l-p~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ...|+||++.|.++   ..+ + |||.||..||..|+.  ..||+||..+.
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            46899999999875   334 5 999999999999998  88999999874

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

Probab=98.60  E-value=2.9e-08  Score=71.79  Aligned_cols=48  Identities=23%  Similarity=0.637  Sum_probs=37.1

Q ss_pred             CCCcccccccccccCCcceEEecCCC--c---cccHHHHHHHHhc--CCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCD--H---VFHPECIDAWLES--HTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~--H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~  159 (320)
                      .+...|.||+++..  +.+ ++| |.  |   .||..||+.|+..  +.+||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~~--~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS--CCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCC--Cce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            35578999999843  334 466 55  4   9999999999964  678999998774

>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=98.55  E-value=3.5e-08  Score=77.23  Aligned_cols=48  Identities=21%  Similarity=0.540  Sum_probs=38.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC------CCCcc--cccc-cc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH------TTCPV--CRSN-LA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~------~~CP~--CR~~-l~  159 (320)
                      ....|+||++.|.++   .+++.|||.|+..||..|+..+      .+||+  |+.. +.
T Consensus         6 ~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~   62 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR   62 (94)
T ss_dssp             SCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC
T ss_pred             cEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC
Confidence            457899999999974   3343499999999999999753      48999  9866 53

>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=98.55  E-value=2.4e-08  Score=85.87  Aligned_cols=49  Identities=29%  Similarity=0.630  Sum_probs=40.9

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~  160 (320)
                      .+.+.|+||++.|.++   ..++ |||.||..||..|+... .+||+||.++..
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            3567899999999875   3455 99999999999999764 499999998864

>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=98.53  E-value=3.8e-08  Score=89.88  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=40.3

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      ....|+||++.|.++   .+++ |||.||..||..|+.. +.+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            467899999999985   3456 9999999999999976 4569999998853

>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=98.52  E-value=4.2e-08  Score=76.49  Aligned_cols=48  Identities=25%  Similarity=0.763  Sum_probs=40.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--------CCCCcc--cccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPV--CRSN  157 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~--CR~~  157 (320)
                      +..+|+||++++..++.+.+.+ |+|.||.+|+..|++.        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4568999999998887777666 9999999999999853        237999  9987

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

Probab=98.45  E-value=9.9e-08  Score=70.46  Aligned_cols=44  Identities=30%  Similarity=0.794  Sum_probs=37.1

Q ss_pred             CCcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      +..+|.||++.+.+   +.++| |+|. |+..|+..    ...||+||.++..
T Consensus        14 ~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            45789999998765   66787 9999 99999984    5789999998864

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

Probab=98.45  E-value=5.7e-08  Score=72.71  Aligned_cols=43  Identities=23%  Similarity=0.735  Sum_probs=35.2

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ..+|+||++.+.+   ..++| |||. ||..|+..    ...||+||.++..
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            3579999999876   34566 9999 99999965    4789999998864

>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=98.38  E-value=1.2e-07  Score=72.07  Aligned_cols=43  Identities=35%  Similarity=0.790  Sum_probs=36.4

Q ss_pred             CcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...|.||++.+.+   ..++| |||. |+..|+..|    ..||+||.++..
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            3579999998765   56777 9999 999999987    499999998864

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

Probab=98.35  E-value=2.3e-07  Score=81.24  Aligned_cols=48  Identities=19%  Similarity=0.259  Sum_probs=40.2

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~  160 (320)
                      ....|+||++-|.++   .+++ |||.|+..||..|+..+ .+||+|+.++..
T Consensus       105 ~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            567899999999984   3445 99999999999999764 479999998753

>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=98.27  E-value=4.5e-07  Score=65.61  Aligned_cols=48  Identities=19%  Similarity=0.361  Sum_probs=41.0

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      ..|+||++.|.++   .+++.|||+|...||.+||+.+.+||+++.++...
T Consensus         4 ~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             EEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            5799999999974   45534999999999999999888999999988654

>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=98.19  E-value=3.5e-07  Score=87.81  Aligned_cols=43  Identities=30%  Similarity=0.833  Sum_probs=37.1

Q ss_pred             CCcccccccccccCCcceEEecCCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      +...|+||++.+.+   ...+| |||. ||..|+..|    ..||+||.++.
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            45689999999876   55667 9999 999999998    78999999875

>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=98.14  E-value=7.4e-07  Score=82.20  Aligned_cols=49  Identities=29%  Similarity=0.624  Sum_probs=39.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcC--CCCcc--ccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPV--CRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~--~~CP~--CR~~l~~  160 (320)
                      ....|+||++.|.++  |+.. +|||.|+..||..|++.+  .+||+  |+..+..
T Consensus       180 ~el~CPIcl~~f~DP--Vts~-~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISR-KCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEES-SSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccCC--eeeC-CCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            446799999999875  4434 499999999999999754  47999  9997753

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

Probab=97.98  E-value=8e-06  Score=74.45  Aligned_cols=50  Identities=20%  Similarity=0.588  Sum_probs=41.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCC--CCccccccccCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVCRSNLASE  161 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~--~CP~CR~~l~~~  161 (320)
                      ...+|+||.+-...+...   +.|+|.||..|+..|++.+.  .||.|+.++...
T Consensus       179 ~i~~C~iC~~iv~~g~~C---~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            467899999999976433   35999999999999998754  899999987544

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

Probab=97.88  E-value=9e-06  Score=64.25  Aligned_cols=44  Identities=30%  Similarity=0.635  Sum_probs=37.0

Q ss_pred             cccccccccCCcceEEecCCCccccHHHHHHHHh-cCCCCcccccccc
Q 048010          113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLA  159 (320)
Q Consensus       113 C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~  159 (320)
                      |.+|--.+..  ..|++| |.|+|+.+|+..|.+ ..++||.|+.++.
T Consensus         4 C~~C~~Pi~i--ygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            4 CDKCGLPIKV--YGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             CTTTCSBCSE--EEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             cCccCCCeEE--Eeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            7777766653  578898 999999999999985 5689999999885

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

Probab=95.81  E-value=0.0067  Score=44.25  Aligned_cols=48  Identities=21%  Similarity=0.440  Sum_probs=35.1

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l~~  160 (320)
                      ...+|.||.+.   ++ +..--.|...||..|++..|..    .-.||.|.+...+
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p   62 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTP   62 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCCcc
Confidence            45679999753   34 4444569999999999988854    3479999876543

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

Probab=92.80  E-value=0.069  Score=41.13  Aligned_cols=34  Identities=21%  Similarity=0.527  Sum_probs=25.6

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHH
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW  144 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~W  144 (320)
                      +..|.||++++.......-+. |+|.|+..|+..|
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            467999998754433444465 9999999999984

>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=89.26  E-value=0.083  Score=37.64  Aligned_cols=49  Identities=22%  Similarity=0.569  Sum_probs=34.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh-----cCCCCcccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----SHTTCPVCRSN  157 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~~  157 (320)
                      +...|+||...+.++.....--.|..-||..|+..-..     ....||.|+..
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            45679999998865444434446999999999875432     35679999763

>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=85.62  E-value=0.32  Score=42.22  Aligned_cols=47  Identities=28%  Similarity=0.573  Sum_probs=34.2

Q ss_pred             cccccccccccCCcc---eEEecCCCccccHHHHHHH------Hh-----cCCCCcccccc
Q 048010          111 LECAVCLNEFEDDET---LRLIPKCDHVFHPECIDAW------LE-----SHTTCPVCRSN  157 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~---~r~lp~C~H~FH~~Ci~~W------l~-----~~~~CP~CR~~  157 (320)
                      ..|+||...+.+++.   ....-.|..-||..|+..-      +.     ....||.|+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            459999999988762   4444469999999996431      11     26799999764

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=85.55  E-value=0.46  Score=33.60  Aligned_cols=45  Identities=29%  Similarity=0.671  Sum_probs=32.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh----cCCCCcccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVCRSN  157 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~----~~~~CP~CR~~  157 (320)
                      ....|.||...   ++ +..-..|...||..|+..-+.    ..-.||.|...
T Consensus        10 ~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A           10 HQDYCEVCQQG---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            45679999873   33 444446999999999998653    24479999753

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=85.48  E-value=0.21  Score=36.65  Aligned_cols=50  Identities=18%  Similarity=0.422  Sum_probs=35.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh----cCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~----~~~~CP~CR~~l~  159 (320)
                      +...|.||..... ++.+..--.|.-.||..|+..-+.    ....||.|+..+.
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            4456999988754 433444446999999999987653    2457999987664

>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=84.12  E-value=0.65  Score=35.38  Aligned_cols=34  Identities=24%  Similarity=0.565  Sum_probs=22.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHH
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW  144 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~W  144 (320)
                      .+..|.||-. +..++...- ..|+-+||..|+.+-
T Consensus        14 ~D~~C~VC~~-~t~~~l~pC-RvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEV-WTAESLFPC-RVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCC-CCSSCCSSC-SSSSSCCCHHHHHHH
T ss_pred             CCcccCcccc-ccccceecc-ccccccccHhhcccc
Confidence            5678999963 233332211 139999999999996

>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=83.05  E-value=0.27  Score=43.11  Aligned_cols=46  Identities=37%  Similarity=0.536  Sum_probs=33.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNL  158 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l  158 (320)
                      ....|.+|...   + .+.....|...||..|+.+.|..    .-.||.|+..-
T Consensus         6 ~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            45679999853   3 35555569999999999887743    34799998643

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=82.54  E-value=0.21  Score=39.47  Aligned_cols=48  Identities=27%  Similarity=0.579  Sum_probs=34.7

Q ss_pred             cccccccccccCCcceEEec-CCCccccHHHHHHHH----------hcCCCCccccccc
Q 048010          111 LECAVCLNEFEDDETLRLIP-KCDHVFHPECIDAWL----------ESHTTCPVCRSNL  158 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp-~C~H~FH~~Ci~~Wl----------~~~~~CP~CR~~l  158 (320)
                      ..|.||...+.++.....-- .|.--||..|+..--          ..+..||.|+..-
T Consensus         4 ~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~   62 (105)
T 2xb1_A            4 YPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTK   62 (105)
T ss_dssp             CBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTT
T ss_pred             CCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcC
Confidence            56999999987665554443 589999999975321          1356899998754

>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=82.48  E-value=0.29  Score=42.03  Aligned_cols=45  Identities=38%  Similarity=0.618  Sum_probs=32.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCcccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSN  157 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~  157 (320)
                      ++..|.||...   ++ +.....|.-.||..|+.+-|..    .-.||.|+..
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   51 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDL   51 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCc
Confidence            34679999854   44 4444569999999999887643    3479999864

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.20  E-value=0.36  Score=36.82  Aligned_cols=50  Identities=20%  Similarity=0.503  Sum_probs=35.9

Q ss_pred             CcccccccccccC-CcceEEecCCCccccHHHHHHHHh--------cCCCCcccccccc
Q 048010          110 ALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWLE--------SHTTCPVCRSNLA  159 (320)
Q Consensus       110 ~~~C~ICl~~~~~-~~~~r~lp~C~H~FH~~Ci~~Wl~--------~~~~CP~CR~~l~  159 (320)
                      ...|.||...-.. ++.+.+--.|...||..|+++=|.        ..-.|+.|+....
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~   74 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhh
Confidence            3579999976432 245556667999999999987653        2347999977554

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=80.46  E-value=0.41  Score=37.21  Aligned_cols=46  Identities=20%  Similarity=0.446  Sum_probs=31.9

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHh---cCCCCccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRS  156 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~---~~~~CP~CR~  156 (320)
                      +...| ||......+..+.- -.|.-.||..|+..=+.   ....||.|+.
T Consensus        27 d~vrC-iC~~~~~~~~mi~C-d~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           27 DVTRC-ICGFTHDDGYMICC-DKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CBCCC-TTSCCSCSSCEEEB-TTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCEEe-ECCCccCCCcEEEc-CCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            34568 89887766655544 46999999999876332   2357999963

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.38  E-value=0.64  Score=31.33  Aligned_cols=44  Identities=34%  Similarity=0.780  Sum_probs=30.0

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  156 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  156 (320)
                      .|.||...-..++.+ .-..|...||..|+++=|..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll-~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLI-LCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCE-ECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEE-ECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488998764444344 44469999999999764432    346999964

---

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	320
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-22
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-16
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-14
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-14
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-11
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-10
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	9e-07
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-06
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	0.002
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	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 = 86.5 bits (214), Expect = 1e-22
 Identities = 28/48 (58%), Positives = 35/48 (72%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
           +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR  +
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 69.2 bits (169), Expect = 6e-16
 Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 160
           A  C +CL +  +         C H F   CI  W+  + TCP+C+  + S
Sbjct: 5   AERCPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.3 bits (161), Expect = 1e-14
 Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 14/59 (23%)

Query: 112 ECAVCLNEFEDDETLRLIP--------------KCDHVFHPECIDAWLESHTTCPVCRS 156
            CA+C N   D                       C+H FH  CI  WL++   CP+   
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 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 = 63.2 bits (153), Expect = 6e-14
 Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 1/52 (1%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE 161
           +EC +C+   E D+       C +     C        +  CP CR     +
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 58.6 bits (141), Expect = 4e-12
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 111 LECAVCLNEFEDDETLR-LIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL 158
             C  C      + +L+ ++  C H     C+D         CP C + L
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 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 = 57.7 bits (139), Expect = 1e-11
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 5/49 (10%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS 160
           C +C    +D   +++ P C H+    C+ +W ES    CP CR  +  
Sbjct: 26  CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG 70

>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 = 55.3 bits (133), Expect = 4e-11
 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 7/53 (13%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEPG 163
           L C  C  E +  + L     C H     C++A       CP+C++       
Sbjct: 7   LRCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQAPWPLGAD 52

>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 = 53.3 bits (127), Expect = 2e-10
 Identities = 10/49 (20%), Positives = 15/49 (30%), Gaps = 3/49 (6%)

Query: 111 LECAVCLNEFEDDETLRLIPK-CDHVFHPECIDAWLESH--TTCPVCRS 156
             C +C  E  ++              H  C+  WL     T C +C  
Sbjct: 7   PVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.3 bits (124), Expect = 2e-09
 Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 5/69 (7%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLASEPGETT 166
              +  ++      +  + KC H FH  C+ A   +        CP C++    + G   
Sbjct: 41  YSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQP 100

Query: 167 PQPSELGSS 175
               E+  S
Sbjct: 101 WGKMEVFRS 109

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.8 bits (121), Expect = 5e-09
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLASE 161
           LEC +CL   ++  +     KCDH+F   C+   L      + CP+C++++   
Sbjct: 22  LECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>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 = 46.4 bits (110), Expect = 1e-07
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 5/50 (10%)

Query: 110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNL 158
           ++ C +C +   D     +   C H+F   CI   L+   + CP CR   
Sbjct: 23  SISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 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 = 45.8 bits (108), Expect = 3e-07
 Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 9/56 (16%)

Query: 108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--------TCPVCR 155
            G+  C +CL E+  ++   +  +C  +F   C+  ++E           +CP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 44.4 bits (104), Expect = 9e-07
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 5/49 (10%)

Query: 110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 158
            L C+ C N   +   L     C+H+F   C+   +   T CPVC +  
Sbjct: 22  LLRCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.7 bits (97), Expect = 3e-06
 Identities = 8/51 (15%), Positives = 18/51 (35%), Gaps = 3/51 (5%)

Query: 111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 161
           + CA+              PK   +F    ++ +++     P+    L+ E
Sbjct: 1   MLCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

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]

 Score = 34.2 bits (78), Expect = 0.002
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSN 157
           +C  C   +  DE       C+  FH +C+              CP C + 
Sbjct: 8   QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK 58

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]} Length = 61

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]

 Score = 34.2 bits (78), Expect = 0.002
 Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 8/48 (16%)

Query: 113 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT----CPVCRS 156
           C VC    +D   L     C   +H  C++  L         CP C  
Sbjct: 12  CRVC----KDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	320
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.68
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.46
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.46
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.44
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.42
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.31
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.21
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.08
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.06
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.02
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.97
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.88
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.78
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.77
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.65
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.47
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	91.09
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.9
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	87.96
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	86.45
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	85.36
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	82.27

>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=99.68  E-value=7e-18  Score=119.09  Aligned_cols=51  Identities=55%  Similarity=1.249  Sum_probs=47.1

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ++.+|+||+++|.+++.+..++.|+|.||..||+.||+.+.+||+||++|.
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            456899999999999999888779999999999999999999999999874

>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=99.46  E-value=1.3e-14  Score=106.06  Aligned_cols=49  Identities=31%  Similarity=0.800  Sum_probs=42.6

Q ss_pred             CCCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  159 (320)
                      ..+++|+||++.|.+.  ++.++ |+|.||..||..|++.+.+||+||+++.
T Consensus         3 ~~~d~C~IC~~~~~~~--~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           3 TVAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCccCCcCccCC--cEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            3467899999999753  55676 9999999999999999999999999875

>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=99.46  E-value=9.9e-15  Score=112.00  Aligned_cols=52  Identities=31%  Similarity=0.622  Sum_probs=43.1

Q ss_pred             CCCcccccccccccCCc---------------ceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          108 KGALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...++|+||++++.+..               .+..++ |+|+||..||+.||+.+.+||+||+++..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            35567999999987533               245666 99999999999999999999999998753

>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=99.44  E-value=1.1e-14  Score=101.19  Aligned_cols=50  Identities=22%  Similarity=0.501  Sum_probs=40.8

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      .||+||+++|..++....+..|||.||.+||+.|++. +.+||+||+++.+
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            3799999999877654333349999999999999986 4579999998864

>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=99.42  E-value=8.4e-14  Score=111.15  Aligned_cols=53  Identities=26%  Similarity=0.653  Sum_probs=41.4

Q ss_pred             CcccccccccccCC---------------cceEEecCCCccccHHHHHHHHhc-----CCCCccccccccCCCC
Q 048010          110 ALECAVCLNEFEDD---------------ETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLASEPG  163 (320)
Q Consensus       110 ~~~C~ICl~~~~~~---------------~~~r~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~l~~~~~  163 (320)
                      +.+|+||+++|...               ..+.+++ |+|+||..||+.||+.     +.+||+||+.+..+.+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~   97 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             cccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcC
Confidence            46799999998642               2345665 9999999999999974     3489999998865543

>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=99.31  E-value=9.2e-13  Score=98.91  Aligned_cols=48  Identities=29%  Similarity=0.858  Sum_probs=40.7

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccCC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASE  161 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  161 (320)
                      ...|+||++.+.+   .++++ |||.||..||..||.. +.+||+||.+|...
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            3569999999875   56777 9999999999999975 56899999999643

>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=99.31  E-value=5.6e-13  Score=96.44  Aligned_cols=50  Identities=22%  Similarity=0.523  Sum_probs=39.5

Q ss_pred             CcccccccccccCC-c-ceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          110 ALECAVCLNEFEDD-E-TLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~-~-~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      +..|+||++++..+ + .+.+++ |||.||.+||..|+.. +.+||+||+++..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            46899999987543 2 344555 9999999999999965 5689999998853

>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=99.21  E-value=2.6e-12  Score=90.17  Aligned_cols=47  Identities=19%  Similarity=0.349  Sum_probs=40.8

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCC
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  161 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  161 (320)
                      .|+||++.|.++   .++++|||+||.+||.+||+.+.+||+||.++...
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            599999999863   34456999999999999999999999999988654

>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=99.08  E-value=3.4e-11  Score=91.72  Aligned_cols=47  Identities=28%  Similarity=0.612  Sum_probs=39.6

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhcC-CCCccccccccCC
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLASE  161 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~  161 (320)
                      ..|+||++.|.+   ..+++ |||.||..||..|++.+ .+||+||.++...
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            579999999976   45566 99999999999999754 5899999988644

>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=99.06  E-value=1.5e-11  Score=86.35  Aligned_cols=47  Identities=28%  Similarity=0.684  Sum_probs=38.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccCCC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  162 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  162 (320)
                      ...+|+||++.|.+.   +++| |||.||..||+.|   +.+||+||+++...+
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            346899999999875   3456 9999999999876   678999999987544

>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=99.02  E-value=6.5e-11  Score=92.58  Aligned_cols=47  Identities=30%  Similarity=0.841  Sum_probs=39.3

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcC---CCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~l~~  160 (320)
                      ..+|+||++.|.++.   .++ |||.||..||..|++..   ..||+||.++..
T Consensus        21 ~l~CpIC~~~~~~pv---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          21 ILECPICLELIKEPV---STK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HTSCSSSCCCCSSCC---BCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CcCCCccCchhCCeE---EcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            367999999998753   355 99999999999999764   379999998854

>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=98.97  E-value=1.8e-10  Score=81.44  Aligned_cols=52  Identities=19%  Similarity=0.461  Sum_probs=38.2

Q ss_pred             CCCcccccccccccCCcceE-EecCCCccccHHHHHHHHh--cCCCCcccccccc
Q 048010          108 KGALECAVCLNEFEDDETLR-LIPKCDHVFHPECIDAWLE--SHTTCPVCRSNLA  159 (320)
Q Consensus       108 ~~~~~C~ICl~~~~~~~~~r-~lp~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l~  159 (320)
                      ++...|.||++++.+..... ....|+|.||..||..|+.  .+.+||+||+++.
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            35568999999987653321 1112459999999999994  4568999999874

>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=98.88  E-value=1.3e-10  Score=89.88  Aligned_cols=46  Identities=30%  Similarity=0.703  Sum_probs=37.6

Q ss_pred             CcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          110 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       110 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      ...|+||++.|.++.  .+.+ |||.||..||..|+.  ..||+||.++..
T Consensus        22 ~l~C~IC~~~~~~pv--~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          22 LLRCSRCTNILREPV--CLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TTSCSSSCSCCSSCB--CCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             cCCCccCCchhhcCc--eeCC-CCCchhHHHHHHHHh--ccccccCCcCch
Confidence            467999999998763  3334 999999999999985  459999988754

>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=98.78  E-value=2.5e-09  Score=79.22  Aligned_cols=48  Identities=23%  Similarity=0.630  Sum_probs=40.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      +.+.|+||++.|.+.   .+++ |||.|+..||..|++. ...||.|+.++..
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            467899999999885   3456 9999999999999976 4679999998764

>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=98.77  E-value=2e-09  Score=80.11  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=40.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc-CCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  160 (320)
                      +.+.|+||++-|.++   .+++ |||.|+..||..||.. +.+||+||.++..
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            467899999999985   3466 9999999999999965 5689999998753

>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=98.65  E-value=1.1e-08  Score=79.09  Aligned_cols=49  Identities=20%  Similarity=0.170  Sum_probs=41.4

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhcCCCCccccccccC
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  160 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  160 (320)
                      +.+.|+||++-|.++   .+++.|+|.|+..||..||+.+.+||+|+.++..
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            357899999999985   4556455689999999999999999999998864

>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=98.47  E-value=2.6e-08  Score=75.85  Aligned_cols=47  Identities=23%  Similarity=0.699  Sum_probs=37.8

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc--------CCCCccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRS  156 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~  156 (320)
                      +..+|+||++++...+.+.+++ |+|.||.+|+..|++.        ..+||.|.-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4578999999998877777665 9999999999999953        126998643

>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=91.09  E-value=0.027  Score=38.51  Aligned_cols=49  Identities=24%  Similarity=0.593  Sum_probs=36.0

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHH---h--cCCCCcccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL---E--SHTTCPVCRSN  157 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl---~--~~~~CP~CR~~  157 (320)
                      ....|.||.....+++.+..-..|+..||..|+..=.   .  .+..||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            3468999999887776655555799999999986421   1  34589999753

>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=90.90  E-value=0.038  Score=36.02  Aligned_cols=44  Identities=36%  Similarity=0.781  Sum_probs=31.6

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  156 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  156 (320)
                      .|.||...-..+. +..-..|...||..|++.-+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~-~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDK-LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSC-CEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCC-EEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            4889977654444 4445569999999999987643    336999974

>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=87.96  E-value=0.12  Score=35.87  Aligned_cols=43  Identities=26%  Similarity=0.646  Sum_probs=29.9

Q ss_pred             cccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCcccccc
Q 048010          111 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSN  157 (320)
Q Consensus       111 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~  157 (320)
                      ..|.||..   .++ +..--.|...||..|+...+..    .-.||.|+..
T Consensus         8 ~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   54 (70)
T d1fp0a1           8 TICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   54 (70)
T ss_dssp             SCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCc
Confidence            45667754   344 4444569999999999988743    3469999653

>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=86.45  E-value=0.13  Score=37.12  Aligned_cols=49  Identities=20%  Similarity=0.516  Sum_probs=33.4

Q ss_pred             cccccccccccC-CcceEEecCCCccccHHHHHHHH-----h---cCCCCcccccccc
Q 048010          111 LECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWL-----E---SHTTCPVCRSNLA  159 (320)
Q Consensus       111 ~~C~ICl~~~~~-~~~~r~lp~C~H~FH~~Ci~~Wl-----~---~~~~CP~CR~~l~  159 (320)
                      ..|.||...... ...+..--.|...||..|+...+     .   ....||.|.....
T Consensus        17 ~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          17 LACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            469999875543 23454455699999999987543     1   1457999976543

>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=85.36  E-value=0.61  Score=32.77  Aligned_cols=47  Identities=17%  Similarity=0.408  Sum_probs=32.3

Q ss_pred             ccccccccccCCcceEEecCCCccccHHHHHH--HH-h--cCCCCccccccc
Q 048010          112 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDA--WL-E--SHTTCPVCRSNL  158 (320)
Q Consensus       112 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~--Wl-~--~~~~CP~CR~~l  158 (320)
                      .|-||...+..++....-..|.--||..|+..  .- .  .+..||.|+...
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            34499987766554545557999999999852  21 2  246899998644

>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=82.27  E-value=0.1  Score=35.24  Aligned_cols=46  Identities=26%  Similarity=0.554  Sum_probs=31.6

Q ss_pred             CCcccccccccccCCcceEEecCCCccccHHHHHHHHhc----CCCCccccccc
Q 048010          109 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNL  158 (320)
Q Consensus       109 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l  158 (320)
                      ....|.||.+   .++.+ .--.|.-.||..|++..+..    .-.||.|+...
T Consensus         8 ~~~~C~~C~~---~g~lv-~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKD---GGELL-CCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCC---CSSCB-CCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCC---CCeEE-EeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3456999975   34433 34469999999999876642    44799997543