Citrus Sinensis ID: 039646

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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
YENESTPSSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWSKKSRLPSSSSNAHMAELGLASSRSYYKFANEV
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHccccccccHHHHHHcccEEEEccccccccccccEEccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccHHHHccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHcccccccccccccHHHHHHccEEEEEccccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccEccccccccccccccccccccccEEEEEcccEEEEEcHcHHEEEEcccccccccccccccccccccccEEEEEcccccEEEEEEEEccccccccccccccccccccccccHHHHHHHccc
Coil and Loop (DISEMBL)
yenestpssatsrisPVLLLILVIVAVVFFIFGLVHLLIRYLkkrpsplpnhqsnrfpetTLQTQLQQLFRLHDsgldqslidalpmfyykdivglkepfdcavclcefsehdnlrllpscshafHITCIDtwllsnstcplcrgtlsssdnslenpvssfdvsreistgfttdeengfsgrhkpenvhesaapkRVFSVRLGkfksingdnrervqgemsscnkldarrcysmGAFQYVLVDSDLQVALSNHiacdgtgssnslvdgelegkkisertrgesysvSKIWLwskksrlpssssnaHMAELGLASSRSYYKFANEV
Flexible Loop (DISEMBL)
yenestpssatsrispVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTlsssdnslenpvssfdvsreistgfttdeengfsgrhkpenvhesaapkrvfsvrlgkfksingdnrervqgemsscnkLDARRCYSMGAFQYVLVDSDLQVALSNHIAcdgtgssnslvdgelegkkisertrgesysvskiwlwskksrlpssssnAHMAelglassrsyykfanev
Low Complexity Region (SEG)
YENESTPSSATSRISPvlllilvivavvffifglvHLLIRYLKKRPSPLPNHQSNRFPEttlqtqlqqlFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIwlwskksrlpssssNAHMAELGLASSRSYYKFANEV
Disordered region (IsUnstruct)
*************ISPVLLLILVIVAVVFFIFGLVHLLIRYLK********************TQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGT****************************************************************************CNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDG**************************SVSKIWLW*********************************
Disordered Region (DISOPRED)
*****************LLLILVIVAVVFFIFGLVHLLIRYLKK***********************************SLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL**************************************************************************************MGAFQYVLVDSDL***********************************************************************YYKFA***
Disordered Region (DISEMBL)
***********SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWSKKS********AHMAELGLASSRSYYKFANEV
Disordered Region (DISPRO)
***********SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKR**********************Q*****DSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS**********************************************KRVFS*RLGKFKS******************LDARRCYSMGAFQYVLVDSDLQVALSN*******************GKKISERTRGESYSVSKIWLWSK*******************************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
YENESTPSSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWSKKSRLPSSSSNAHMAELGLASSRSYYKFANEV
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	325	2.2.26 [Sep-21-2011]
Q9FL07	376	RING-H2 finger protein AT	yes	no	0.870	0.752	0.513	3e-81
Q8GW38	369	RING-H2 finger protein AT	no	no	0.873	0.769	0.530	9e-75
Q9ZV53	423	Putative RING-H2 finger p	no	no	0.883	0.678	0.404	4e-49
Q7X843	349	RING-H2 finger protein AT	no	no	0.695	0.647	0.445	4e-49
Q940Q4	472	RING-H2 finger protein AT	no	no	0.713	0.491	0.388	1e-44
Q9FHG8	210	Putative RING-H2 finger p	no	no	0.403	0.623	0.518	1e-35
Q84W40	404	RING-H2 finger protein AT	no	no	0.4	0.321	0.380	1e-21
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.713	0.651	0.292	6e-21
O64763	378	E3 ubiquitin-protein liga	no	no	0.390	0.335	0.360	9e-21
Q5EAE9	407	RING-H2 finger protein AT	no	no	0.498	0.398	0.327	5e-20

>sp|Q9FL07|ATL46_ARATH RING-H2 finger protein ATL46 OS=Arabidopsis thaliana GN=ATL46 PE=2 SV=1

 Score =  302 bits (773), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 169/329 (51%), Positives = 212/329 (64%), Gaps = 46/329 (13%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
           +RISP +L ++VI+AV+FFI GL+HLL+R+L K PS   + +SNRFPE +    LQ QLQ
Sbjct: 39  NRISPAVLFVIVILAVLFFISGLLHLLVRFLIKHPSATASSRSNRFPEISTSDALQRQLQ 98

Query: 68  QLFRLHDSGLDQSLIDALPMFYYKDIVGL----------KEPFDCAVCLCEFSEHDNLRL 117
           QLF L+DSGLDQ+ IDALP+F+YK+IVG           +EPFDCAVCLCEFSE D LRL
Sbjct: 99  QLFHLNDSGLDQAFIDALPVFHYKEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEKDKLRL 158

Query: 118 LPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEEN 177
           LP CSHAFH+ CIDTWL SNSTCPLCRGTL S   S+ENP+  FD  RE   G T +   
Sbjct: 159 LPMCSHAFHLNCIDTWLQSNSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEGVTEN--- 215

Query: 178 GFSGRHKPENVHESAAPKRVFSVRLGKFKSI----NGDNRERVQGEMSSCNKLDARRCYS 233
              G  K   + E    K V  VRLGKFK +    NG  ++ V G  +S + LDARRC+S
Sbjct: 216 ---GSQKTMEIQEIVVEKGVLPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDARRCFS 272

Query: 234 MGAFQYVLVDSDLQVALSN---------HIACDGTGSSNSLVDGELEGKKISERTRGESY 284
           MG++QY+L +S+L+V  +N             + TG+S+S      + KKI+   +GES+
Sbjct: 273 MGSYQYILGNSELKVPFANDRLPRLKPQDKESEQTGNSSS-----EDNKKINTVAKGESF 327

Query: 285 SVSKIWLWSKKS--------RLPSSSSNA 305
           SVSKIWLW KK         RLPSSS N 
Sbjct: 328 SVSKIWLWPKKDKFSSDAQRRLPSSSLNV 356

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GW38|ATL47_ARATH RING-H2 finger protein ATL47 OS=Arabidopsis thaliana GN=ATL47 PE=2 SV=1

 Score =  280 bits (716), Expect = 9e-75,   Method: Compositional matrix adjust.
 Identities = 167/315 (53%), Positives = 208/315 (66%), Gaps = 31/315 (9%)

Query: 10  ATSRISPVLLLILVIVAVVFFIFGLVHLLIRY-LKKRPSPL---PNHQSNRFPE----TT 61
             +RISP++L I+V+++V+FFI  ++HLL+RY LKK+ S L   PN +SN+ PE     T
Sbjct: 45  GNNRISPIILFIIVLLSVIFFICSILHLLVRYYLKKKRSNLSSSPN-ESNQNPEFSDSDT 103

Query: 62  LQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSC 121
            Q QLQQLF LHDSGLDQ+LIDALP+F YK+I G KEPFDCAVCLCEFSE D LRLLP+C
Sbjct: 104 YQRQLQQLFHLHDSGLDQALIDALPVFLYKEIKGTKEPFDCAVCLCEFSEDDKLRLLPNC 163

Query: 122 SHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSG 181
           SHAFHI CIDTWLLSNSTCPLCRGTL S  +  E P    D +     G         S 
Sbjct: 164 SHAFHIDCIDTWLLSNSTCPLCRGTLFSLGHQFEYP----DFNFGFFAGDDGGGGVRVSP 219

Query: 182 RHKPENVHESAAPKRVFSVRLGKFKSIN---GDNRERVQGEMSSCNKLDARRCYSMGAFQ 238
             KP    E+   KRVFSVRLGKF+S N           G  +S + LD RRC+SMG++Q
Sbjct: 220 VQKPA---ENEIGKRVFSVRLGKFRSSNIVNNGEVVVGGGGETSSSSLDNRRCFSMGSYQ 276

Query: 239 YVLVDSDLQVALSNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWS-KKSR 297
           Y++ +SDL VAL      +  G  N   + ++EGKKI+ R++GES+SVSKIW WS K+S+
Sbjct: 277 YIVAESDLVVAL----CPNNEGLKN---NKDVEGKKINMRSKGESFSVSKIWQWSNKRSK 329

Query: 298 LPSSSSNAHMAELGL 312
            P    N H +E  L
Sbjct: 330 FP----NNHPSETNL 340

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZV53|ATL49_ARATH Putative RING-H2 finger protein ATL49 OS=Arabidopsis thaliana GN=ATL49 PE=3 SV=1

 Score =  195 bits (496), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 136/336 (40%), Positives = 198/336 (58%), Gaps = 49/336 (14%)

Query: 8   SSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT-LQTQL 66
           S+  S+I+P +LLI++I++++FFI GL+H+L+++L    +P    + + F   T LQ QL
Sbjct: 33  SNLNSKITPNILLIIIILSIIFFISGLLHILVKFLL---TPSRESREDYFDNVTALQGQL 89

Query: 67  QQLFRLHDSGLDQSLIDALPMFYYKDIVGLK-EPFDCAVCLCEFSEHDNLRLLPSCSHAF 125
           QQLF LHDSG+DQSLID LP+F+YK IVGLK  PFDC VCLCEF   D LRLLP CSHAF
Sbjct: 90  QQLFNLHDSGVDQSLIDTLPVFHYKSIVGLKISPFDCPVCLCEFETEDKLRLLPKCSHAF 149

Query: 126 HITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSF-------DVSREISTGFTTDEENG 178
           H+ CIDTWLLS+STCPLCR  L S  +S  N  SS+         SR++     ++ + G
Sbjct: 150 HVECIDTWLLSHSTCPLCRSNLLSGFSSHHNLSSSYLLVLESEQSSRDMVPVLESNSQLG 209

Query: 179 F------------SGRH--KPENVHESAAPKRV-FSVRLGKFKSIN--GDNRERVQGEMS 221
           +            SGR    P+   +    K V   V+LGKF++I+  G+  ++ +  +S
Sbjct: 210 YDVNNDSESTRIRSGRKSCDPDGDMDGLDEKVVPLEVKLGKFRNIDHVGEGSDQKKNSIS 269

Query: 222 SCNK-LDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSL-----------VDGE 269
             +K +D RRC SMG+++Y++   D +  L  H++       + +            D  
Sbjct: 270 GNSKNVDGRRCLSMGSYEYIM---DQEATLKVHVSTKKLSGKDRVPSHRTVMSECGFDPT 326

Query: 270 LEG--KKISERTRGESYSVSKIWLWSKKSRLPSSSS 303
           ++G  K + ER   ES+S+SKIWL  KK +   +S+
Sbjct: 327 VKGIEKSVVER---ESFSLSKIWLRGKKEKQKGTSA 359

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  195 bits (495), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 115/258 (44%), Positives = 158/258 (61%), Gaps = 32/258 (12%)

Query: 3   NESTPSSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPS--PLPNHQSNRFPET 60
           N+  PSS  S I  VL L++  +A++    G+++L+ ++L+K  +  P+P+   N    +
Sbjct: 107 NQKDPSS--SSIVSVLCLVISGLALIIVFLGVLYLIFKFLRKSSTLFPIPHFNYNPDLFS 164

Query: 61  TLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDI-VGLKEPFDCAVCLCEFSEHDNLRLLP 119
               QLQ LF LHDSGLDQ+ IDALP+F Y ++ + L++PFDCAVCL EFS+ D LRLLP
Sbjct: 165 FSSPQLQHLFFLHDSGLDQTAIDALPVFLYGNVTISLEQPFDCAVCLNEFSDTDKLRLLP 224

Query: 120 SCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD---NSLENPVSSFDVSREISTGFTTDEE 176
            CSHAFH+ CIDTWLLSNSTCPLCR +LS+S+   N  E  V+     +++  G      
Sbjct: 225 VCSHAFHLHCIDTWLLSNSTCPLCRRSLSTSNVCYNHSETLVAPLSGHQQVDDG------ 278

Query: 177 NGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRER--VQGEMSSCNKLDARRCYSM 234
                        +++  KRVFSVRLG+FKS N    +R  V+ E+        RRCYSM
Sbjct: 279 -------------KASLAKRVFSVRLGRFKSTNESQSQRHDVKDEI---GVRMPRRCYSM 322

Query: 235 GAFQYVLVDSDLQVALSN 252
           G  QY++ D D  VALS+
Sbjct: 323 GTQQYLVCDQDFVVALSS 340

Arabidopsis thaliana (taxid: 3702)

>sp|Q940Q4|ATL13_ARATH RING-H2 finger protein ATL13 OS=Arabidopsis thaliana GN=ATL13 PE=2 SV=2

 Score =  180 bits (457), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 118/304 (38%), Positives = 154/304 (50%), Gaps = 72/304 (23%)

Query: 60  TTLQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKE-PFDCAVCLCEFSEHDNLRLL 118
           T LQ QLQQLF LHDSG+DQS ID LP+F+YK I+GLK  PFDCAVCLCEF   D LRLL
Sbjct: 91  TALQGQLQQLFHLHDSGVDQSFIDTLPVFHYKSIIGLKNYPFDCAVCLCEFETEDKLRLL 150

Query: 119 PSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSF---------DVSREIST 169
           P CSHAFH+ CIDTWLLS+STCPLCR +L S  +S ++P SSF           SREI  
Sbjct: 151 PKCSHAFHMDCIDTWLLSHSTCPLCRSSLLSDLSSHQDPRSSFLLVLESASDHSSREIGG 210

Query: 170 G----------------------------FTTDEENGFSGRHKPENVHESAAPKRVFSVR 201
                                         +T  ++G   ++    +  S      FSV+
Sbjct: 211 DRDSAACVAANDDIDVSSAHLGLVGNNDLGSTRIDSGHGDQYLDGELGGSVGKVVPFSVK 270

Query: 202 LGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTGS 261
           LGKF++I+          + + + LD RRC+SMG+++Y++   D +  L  H++     S
Sbjct: 271 LGKFRNIDIGEGTSSNNNIGNSSSLDERRCFSMGSYEYIM---DEETTLKVHVSTKKQSS 327

Query: 262 SNSLVDG----------------------------ELEGKKISERTRGESYSVSKIWLWS 293
            N  + G                            E   K + ER   ES+SVSKIWL  
Sbjct: 328 KNRGLPGHRTAMSECGFDPTGRLKFSGSGSMRIVEEAAEKNVVER---ESFSVSKIWLRG 384

Query: 294 KKSR 297
           KK +
Sbjct: 385 KKEK 388

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHG8|ATL50_ARATH Putative RING-H2 finger protein ATL50 OS=Arabidopsis thaliana GN=ATL50 PE=3 SV=1

 Score =  150 bits (379), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 70/135 (51%), Positives = 96/135 (71%), Gaps = 4/135 (2%)

Query: 14  ISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPE--TTLQTQLQQLFR 71
           ISP++LL + +++++FF+  L+HLL+++L  RP    +   +   E  T LQ + Q  F 
Sbjct: 32  ISPIVLLYITLLSIIFFVAALIHLLVKFLH-RPQTRLDDAYDGITESSTALQGRYQTRFN 90

Query: 72  LHDSGLDQSLIDALPMFYYKDIVGLKEPF-DCAVCLCEFSEHDNLRLLPSCSHAFHITCI 130
           LHD+ +DQS IDALP+ +YK ++GL+    DCAVCL EF+  D LRLLP CSHAFH+ CI
Sbjct: 91  LHDAEIDQSFIDALPLLHYKTMIGLRHDLSDCAVCLREFTAEDELRLLPKCSHAFHVECI 150

Query: 131 DTWLLSNSTCPLCRG 145
           DTWLL+NSTCPLCR 
Sbjct: 151 DTWLLTNSTCPLCRD 165

Arabidopsis thaliana (taxid: 3702)

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

 Score =  103 bits (258), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 56/147 (38%), Positives = 77/147 (52%), Gaps = 17/147 (11%)

Query: 8   SSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPL----PNHQSNRFPETTLQ 63
           S  +SR  P + ++++++  VFF  G   + IR   +R   +    PN   N      L 
Sbjct: 53  SGDSSRFDPTMAILMIVLVSVFFFLGFFSVYIRRCLERVMGMDYGNPNDAGN-----WLA 107

Query: 64  TQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGL---KEPFDCAVCLCEFSEHDNLRLLPS 120
           T  QQ       GLD S+I+  P F Y  +  L   KE  +C+VCL EF + + LRL+P 
Sbjct: 108 TNRQQA-----RGLDASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPK 162

Query: 121 CSHAFHITCIDTWLLSNSTCPLCRGTL 147
           C H FH  CID WL S++TCPLCR  L
Sbjct: 163 CCHVFHPGCIDAWLRSHTTCPLCRADL 189

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score =  101 bits (252), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 82/280 (29%), Positives = 127/280 (45%), Gaps = 48/280 (17%)

Query: 16  PVLLLILVIVAVVFFIFGLVHLLIRYLKKR---PSPLPNHQSNRFP-ETTLQTQL----- 66
           P+L+ ++ I+A  F +     L+ +Y  +R    S       NR   + T Q        
Sbjct: 58  PLLIALIGILASAFILVSYYTLISKYCHRRRHNSSSTSAAAINRISSDYTWQGTNNNNNN 117

Query: 67  ------QQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPS 120
                 Q +      GLD+SLI ++ ++ Y+ + G  E  DC+VCL EF E+++LRLLP 
Sbjct: 118 GATNPNQTIGGGGGDGLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPK 177

Query: 121 CSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSRE---ISTG------F 171
           C+HAFH+ CIDTWL S+S CPLCR  + +S       +++  +  E   ISTG       
Sbjct: 178 CNHAFHVPCIDTWLKSHSNCPLCRAFIVTSSAVEIVDLTNQQIVTENNSISTGDDSVVVV 237

Query: 172 TTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRC 231
             D EN    R + E V+E + PK                       EM      + RR 
Sbjct: 238 NLDLEN---SRSRNETVNEGSTPK---------------------PPEMQDSRDGEERRS 273

Query: 232 YSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGELE 271
            S+ +   V+  +D+   + +     G G+S  + +GE E
Sbjct: 274 ASLNSGGGVVSIADILREIEDDEESAGVGTSRWVEEGEGE 313

Arabidopsis thaliana (taxid: 3702)

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

 Score =  101 bits (251), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 49/136 (36%), Positives = 76/136 (55%), Gaps = 9/136 (6%)

Query: 16  PVLLLILVIVAVVFF-IFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLFRLHD 74
           PV+++I V+  V+FF +FG +     + ++  +        R  +   ++Q+ ++ RL  
Sbjct: 50  PVVVVITVLFLVIFFMVFGSI-----FCRRSNAQFSRSSIFRSTDADAESQVVRIRRLTA 104

Query: 75  SGLDQSLIDALPMFYYKDIVGL---KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCID 131
            GLD   I+  P F Y ++  +   K   +CAVCLCEF + + LRL+P C H FH  C+D
Sbjct: 105 RGLDAEAIETFPTFLYSEVKAVRIGKGGVECAVCLCEFEDDETLRLMPPCCHVFHADCVD 164

Query: 132 TWLLSNSTCPLCRGTL 147
            WL  +STCPLCR  L
Sbjct: 165 VWLSEHSTCPLCRADL 180

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|Q5EAE9|ATL43_ARATH RING-H2 finger protein ATL43 OS=Arabidopsis thaliana GN=ATL43 PE=2 SV=2

 Score = 98.6 bits (244), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 56/171 (32%), Positives = 92/171 (53%), Gaps = 9/171 (5%)

Query: 11  TSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETTLQTQLQQLF 70
           TS + P + +++ ++   F +  L+ L +++ K+R   +  +   RF  T          
Sbjct: 51  TSSLMPGIAVVIAVLTAFFSLTFLLLLYVKHCKRRNGSVYVNHPQRFAITRYGGGYYNGG 110

Query: 71  RL----HDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFH 126
            +     +SG+D+S+I++LP+F +  + G K+  +CAVCL  F   + LRLLP C HAFH
Sbjct: 111 GVVGGRKNSGIDRSVIESLPVFRFGALSGHKDGLECAVCLARFEPTEVLRLLPKCKHAFH 170

Query: 127 ITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEEN 177
           + C+DTWL ++STCPLCR  +   D  L    +S+         F+ DE N
Sbjct: 171 VECVDTWLDAHSTCPLCRYRVDPEDILLIGDCNSW-----FELQFSKDESN 216

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	325
147860397	1090	hypothetical protein VITISV_043284 [Viti	0.898	0.267	0.596	5e-92
359488718	397	PREDICTED: RING-H2 finger protein ATL46-	0.907	0.743	0.587	4e-91
255540737	354	ring finger protein, putative [Ricinus c	0.898	0.824	0.605	1e-90
255560019	374	ring finger protein, putative [Ricinus c	0.923	0.802	0.567	5e-89
359473435	393	PREDICTED: RING-H2 finger protein ATL46-	0.92	0.760	0.553	9e-89
255552646	376	ring finger protein, putative [Ricinus c	0.92	0.795	0.576	1e-88
209171162	392	RING finger protein [Glycine max]	0.88	0.729	0.581	5e-85
356550006	410	PREDICTED: RING-H2 finger protein ATL46-	0.88	0.697	0.581	5e-85
449449200	375	PREDICTED: RING-H2 finger protein ATL46-	0.932	0.808	0.549	5e-85
224055501	318	predicted protein [Populus trichocarpa]	0.92	0.940	0.571	1e-84

>gi|147860397|emb|CAN80445.1| hypothetical protein VITISV_043284 [Vitis vinifera]

 Score =  343 bits (881), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 183/307 (59%), Positives = 216/307 (70%), Gaps = 15/307 (4%)

Query: 12   SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
            +RISP +L I+VIVAV+FFI GL+HLL+R+L + PS   + QSNR+PE +    LQ QLQ
Sbjct: 768  TRISPAVLFIIVIVAVLFFISGLLHLLVRFLIRHPSSSTSSQSNRYPEISESDALQRQLQ 827

Query: 68   QLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
            QLF LHDSGLDQ+ IDALP+F YK+IVGLKEPFDCAVCLCEFSE D LRLLP CSHAFHI
Sbjct: 828  QLFHLHDSGLDQAFIDALPVFLYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPVCSHAFHI 887

Query: 128  TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPEN 187
             CIDTWLLSNSTCPLCRGTL +   S+ENP+  FD  RE   GF    ENGF+   K   
Sbjct: 888  NCIDTWLLSNSTCPLCRGTLFAPGFSMENPIFDFDDLRE-EDGFPGHGENGFASGPKTVE 946

Query: 188  VHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQ 247
            + E    K VF VRLGKF+ +   + E   GE SS N LDARRCYSMG+FQYV+ DS L+
Sbjct: 947  IEEVVGEKGVFPVRLGKFRKVADXSGETAGGETSSSN-LDARRCYSMGSFQYVVGDSILR 1005

Query: 248  VALSNH--------IACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWSKKSRLP 299
            VAL NH        I      ++N  ++ E EG + S  T+G+SYSVSKIWLWSKK + P
Sbjct: 1006 VAL-NHEQQHPDGKIVKGIENNANPSINEETEGTRNSFVTKGDSYSVSKIWLWSKKGKFP 1064

Query: 300  SSSSNAH 306
            SSS N  
Sbjct: 1065 SSSDNTQ 1071

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488718|ref|XP_003633804.1| PREDICTED: RING-H2 finger protein ATL46-like [Vitis vinifera]

 Score =  340 bits (873), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 181/308 (58%), Positives = 216/308 (70%), Gaps = 13/308 (4%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
           +RISP +L I+VIVAV+FFI GL+HLL+R+L + PS   + QSNR+PE +    LQ QLQ
Sbjct: 75  TRISPAVLFIIVIVAVLFFISGLLHLLVRFLIRHPSSSTSSQSNRYPEISESDALQRQLQ 134

Query: 68  QLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
           QLF LHDSGLDQ+ IDALP+F YK+IVGLKEPFDCAVCLCEFSE D LRLLP CSHAFHI
Sbjct: 135 QLFHLHDSGLDQAFIDALPVFLYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPVCSHAFHI 194

Query: 128 TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPEN 187
            CIDTWLLSNSTCPLCRGTL +   S+ENP+  FD  RE   GF    ENGF+   K   
Sbjct: 195 NCIDTWLLSNSTCPLCRGTLFAPGFSMENPIFDFDDLRE-EDGFPGHGENGFASGPKTVE 253

Query: 188 VHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQ 247
           + E    K VF VRLGKF+ +   + E   GE SS N LDARRCYSMG+FQYV+ DS L+
Sbjct: 254 IEEVVGEKGVFPVRLGKFRKVADGSGETAGGETSSSN-LDARRCYSMGSFQYVVGDSILR 312

Query: 248 VALSNH-------IACDGTGSSNSLVDGELEGKKISERTRGESYSVSKIWLWSKKSRLPS 300
           VAL++        I      ++N  ++ E EG + S  T+G+SYSVSKIWLWSKK + PS
Sbjct: 313 VALNHEQQHPDGKIVKGIENNANPSINEETEGTRNSFVTKGDSYSVSKIWLWSKKGKFPS 372

Query: 301 SSSNAHMA 308
           SS N    
Sbjct: 373 SSDNTQTG 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540737|ref|XP_002511433.1| ring finger protein, putative [Ricinus communis] gi|223550548|gb|EEF52035.1| ring finger protein, putative [Ricinus communis]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 181/299 (60%), Positives = 226/299 (75%), Gaps = 7/299 (2%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
           +RISPV+LL+++I+AV+FF+ G++HLL+R L KR        SNR+PE +    LQ QLQ
Sbjct: 48  NRISPVILLVIIILAVIFFVSGVLHLLVRCLLKRSHFSAIFHSNRYPEISRSHSLQRQLQ 107

Query: 68  QLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
           QLFR HDSGLDQ+ +DALP+FYYKDI+GLKEPFDCAVCLCEFS+ D LRLLP CSHAFHI
Sbjct: 108 QLFRQHDSGLDQAFVDALPVFYYKDIMGLKEPFDCAVCLCEFSDRDRLRLLPMCSHAFHI 167

Query: 128 TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFS--GRHKP 185
            CIDTWLLSNSTCPLCRGTL SS   +ENP  +FDV RE+S G  +D +N  S  G+   
Sbjct: 168 HCIDTWLLSNSTCPLCRGTLLSSSLPMENPSFNFDVLREVSNGLPSDGDNDGSSNGQKTG 227

Query: 186 ENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSD 245
               ES   KRVFSVRLGKF+S+N       +G   + + LDARRCYS+G  QYV+ DS+
Sbjct: 228 ITTEESVVEKRVFSVRLGKFRSLNEGETSGERGREETRSNLDARRCYSLGTVQYVVGDSN 287

Query: 246 LQVALSNHIACDGTGS-SNSLVDGELEGKKISERTRGESYSVSKIWLWSKKSRLPSSSS 303
           LQVALS+H + +  G   +S VDG++EGKKI+ RTRG+S+SVSKIWLWSKK++ PSS++
Sbjct: 288 LQVALSHHDSINVRGEYESSAVDGDVEGKKINGRTRGDSFSVSKIWLWSKKNKFPSSTT 346

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560019|ref|XP_002521028.1| ring finger protein, putative [Ricinus communis] gi|223539865|gb|EEF41445.1| ring finger protein, putative [Ricinus communis]

 Score =  333 bits (855), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 185/326 (56%), Positives = 229/326 (70%), Gaps = 26/326 (7%)

Query: 8   SSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKR--PSPLPNHQSNRFPETT---- 61
           SS+ ++ISP +L I+VI+AV+FFI GL+HLL+R+L K    S     +SNR+PE +    
Sbjct: 43  SSSGNKISPAILFIIVILAVIFFISGLLHLLVRFLIKHRSSSSSSVSESNRYPEMSGSDA 102

Query: 62  LQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSC 121
            Q QLQQLF LHDSGLDQ+ IDALP+F YK+I+GLKEPFDCAVCLCE+SE D LRLLP+C
Sbjct: 103 FQRQLQQLFHLHDSGLDQAFIDALPVFLYKEIMGLKEPFDCAVCLCEYSEKDKLRLLPAC 162

Query: 122 SHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSG 181
           SHAFHI CIDTWLLSNSTCPLCRGTL +   S ENPV  F+ SRE   G +++  NG S 
Sbjct: 163 SHAFHIDCIDTWLLSNSTCPLCRGTLYTPGLSFENPVFDFEESRE-EEGLSSNVGNGISV 221

Query: 182 RHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVL 241
             KP   +E    KRVFSVRLGKFKS N +    V+GE SS N LDARRC+SMG++QYV+
Sbjct: 222 GQKPAE-NERINSKRVFSVRLGKFKSSNVEVDRVVEGETSSSN-LDARRCFSMGSYQYVV 279

Query: 242 VDSDLQVAL--------------SNHIACDGTGSSNSLVDGELEGKKISERTRGESYSVS 287
            D +LQVAL               +    +G  SSN +  G+ EGKKI+ R++GES+SVS
Sbjct: 280 ADLNLQVALCPGRNVGTGSFKLVKSKNGQNGNTSSNDI--GDAEGKKINIRSKGESFSVS 337

Query: 288 KIWLWSKKSRLPSSSSNAHMAELGLA 313
           KIW WS+K +LP SSS+ +M    LA
Sbjct: 338 KIWQWSRKGKLP-SSSDTYMGSSPLA 362

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473435|ref|XP_002265075.2| PREDICTED: RING-H2 finger protein ATL46-like [Vitis vinifera]

 Score =  333 bits (853), Expect = 9e-89,   Method: Compositional matrix adjust.
 Identities = 186/336 (55%), Positives = 230/336 (68%), Gaps = 37/336 (11%)

Query: 1   YENESTPS-SATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPE 59
           Y+ ESTPS S+ SRISP +L I+VI+AV+FFI GL+HLL+R+L K  S     QSNR+ E
Sbjct: 40  YQKESTPSPSSGSRISPAVLFIIVILAVIFFISGLLHLLVRFLVKHRSSSSISQSNRYQE 99

Query: 60  TT----LQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNL 115
           T+     Q QLQQLF LHDSGLDQ+ IDALP+F YKDIVGLKEPFDCAVCLCEFS+ D L
Sbjct: 100 TSSSHAFQRQLQQLFHLHDSGLDQAFIDALPVFLYKDIVGLKEPFDCAVCLCEFSQEDKL 159

Query: 116 RLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDE 175
           RLLP CSHAFHI CIDTWLLSNSTCPLCRGTL +   ++EN V  F+ SRE   G +++ 
Sbjct: 160 RLLPMCSHAFHIECIDTWLLSNSTCPLCRGTLFNPGLAMENSVFDFEDSRE-EGGLSSNG 218

Query: 176 ENGFSGRHKPENVHESAAPKRVFSVRLGKFKSIN-----------------GDNRERVQG 218
           +   S +  PE+  + A+ KRVFSVRLGKF+ +N                 G+      G
Sbjct: 219 DGVSSAQKPPED--DIASEKRVFSVRLGKFRGLNGGGGGGGGGGGGGGGGEGEGEGERGG 276

Query: 219 EMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSNHIACDGTG------------SSNSLV 266
             +SC+ LDARRC+SMG+FQYV+ +SDLQVAL  + A  G+             + NS  
Sbjct: 277 GETSCSNLDARRCFSMGSFQYVVANSDLQVALCPNRADAGSDAVVKLMKGRGGHTGNSST 336

Query: 267 DGELEGKKISERTRGESYSVSKIWLWSKKSRLPSSS 302
           DG++EGKKIS  ++ ES+SVSKIWLW KK + PSSS
Sbjct: 337 DGDVEGKKISIGSKDESFSVSKIWLWPKKGKFPSSS 372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552646|ref|XP_002517366.1| ring finger protein, putative [Ricinus communis] gi|223543377|gb|EEF44908.1| ring finger protein, putative [Ricinus communis]

 Score =  332 bits (851), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 184/319 (57%), Positives = 224/319 (70%), Gaps = 20/319 (6%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQ-SNRFPETT----LQTQL 66
           +RISP +L I+VI+AV+FFI GL+HLL+R+L K PS   + Q +NR+PE +    LQ QL
Sbjct: 53  TRISPAVLFIIVILAVLFFISGLLHLLVRFLIKHPSSSASSQSNNRYPEISGPDALQRQL 112

Query: 67  QQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFH 126
           QQLF LHDSGLDQ+ IDALP+F Y++IVGLKEPFDCAVCLCEF+E D LRLLP CSHAFH
Sbjct: 113 QQLFHLHDSGLDQAFIDALPVFQYREIVGLKEPFDCAVCLCEFTEKDKLRLLPVCSHAFH 172

Query: 127 ITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPE 186
           I CIDTWLLSNSTCPLCRGTL +   S+ENP+  FD  RE + G+    ENGF    K  
Sbjct: 173 INCIDTWLLSNSTCPLCRGTLFTPGFSIENPMFDFDDLRE-NDGYPGSGENGFPASQKIM 231

Query: 187 NVHESAA-PKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSD 245
            + E A   K V  VRLGKF+ +  D      GE SS N LDARRC+SMG++QYVL DSD
Sbjct: 232 EIEEPAVIEKGVLPVRLGKFRRLT-DGTGEAGGETSSSN-LDARRCFSMGSYQYVLGDSD 289

Query: 246 LQVAL-----SNHIACDGTGSSNS--LVDGELEGKKISERTRGESYSVSKIWLWSKKSRL 298
           L+VAL     +  +  +     N   LVDG+LEGKKIS  T+ ES+SVSKIWLWSKK + 
Sbjct: 290 LRVALCTDRHARSVKPEKGNDQNGSVLVDGDLEGKKISRVTKRESFSVSKIWLWSKKGKF 349

Query: 299 PSSSSNAHMAELGLASSRS 317
            SS+     A++G+ SS S
Sbjct: 350 SSSTD----AQMGMPSSLS 364

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209171162|gb|ACI42847.1| RING finger protein [Glycine max]

 Score =  320 bits (820), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 179/308 (58%), Positives = 218/308 (70%), Gaps = 22/308 (7%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
           +RISP +L I+V++AV+FFI GL+HLLIR+L K PS   + QSNR  E +    LQ QLQ
Sbjct: 63  TRISPAVLFIIVVLAVLFFISGLLHLLIRFLIKHPSS-ASAQSNRHQELSTSDALQRQLQ 121

Query: 68  QLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
           QLF LHDSGLDQ+ IDALP+F YK+IVGLKEPFDCAVCLCEFSE D LRLLP CSHAFHI
Sbjct: 122 QLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHI 181

Query: 128 TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPEN 187
           +CIDTWLLSNSTCPLCRGTL +   S+ENP+  FD  RE   G   + ENGF+ R K   
Sbjct: 182 SCIDTWLLSNSTCPLCRGTLLTQGFSIENPIFDFDDLRE-DEGCPCNGENGFNTRQKTVV 240

Query: 188 VHESAAPKR-VFSVRLGKFK--SINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDS 244
           V ES   ++ VF VRLGKFK  S+ G     V GE SS N LDARRCYSMG++QYV+ +S
Sbjct: 241 VEESVEKEKGVFPVRLGKFKKLSVKGGGESEV-GETSSSN-LDARRCYSMGSYQYVVGNS 298

Query: 245 DLQVALSNHIACDGT-----------GSSNSLVDGELEGKKISERTRGESYSVSKIWLWS 293
           DL+V L++     G                S+ +G++E KKIS  ++G+S+SVSKIWLW 
Sbjct: 299 DLRVTLNHDEIGKGQVTRLTKGMELDDGKVSVEEGDVEAKKISSVSKGDSFSVSKIWLWP 358

Query: 294 KKSRLPSS 301
           KK +LP+S
Sbjct: 359 KKGKLPTS 366

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550006|ref|XP_003543381.1| PREDICTED: RING-H2 finger protein ATL46-like [Glycine max]

 Score =  320 bits (820), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 179/308 (58%), Positives = 218/308 (70%), Gaps = 22/308 (7%)

Query: 12  SRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT----LQTQLQ 67
           +RISP +L I+V++AV+FFI GL+HLLIR+L K PS   + QSNR  E +    LQ QLQ
Sbjct: 81  TRISPAVLFIIVVLAVLFFISGLLHLLIRFLIKHPSS-ASAQSNRHQELSTSDALQRQLQ 139

Query: 68  QLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
           QLF LHDSGLDQ+ IDALP+F YK+IVGLKEPFDCAVCLCEFSE D LRLLP CSHAFHI
Sbjct: 140 QLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHI 199

Query: 128 TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPEN 187
           +CIDTWLLSNSTCPLCRGTL +   S+ENP+  FD  RE   G   + ENGF+ R K   
Sbjct: 200 SCIDTWLLSNSTCPLCRGTLLTQGFSIENPIFDFDDLRE-DEGCPCNGENGFNTRQKTVV 258

Query: 188 VHESAAPKR-VFSVRLGKFK--SINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDS 244
           V ES   ++ VF VRLGKFK  S+ G     V GE SS N LDARRCYSMG++QYV+ +S
Sbjct: 259 VEESVEKEKGVFPVRLGKFKKLSVKGGGESEV-GETSSSN-LDARRCYSMGSYQYVVGNS 316

Query: 245 DLQVALSNHIACDGT-----------GSSNSLVDGELEGKKISERTRGESYSVSKIWLWS 293
           DL+V L++     G                S+ +G++E KKIS  ++G+S+SVSKIWLW 
Sbjct: 317 DLRVTLNHDEIGKGQVTRLTKGMELDDGKVSVEEGDVEAKKISSVSKGDSFSVSKIWLWP 376

Query: 294 KKSRLPSS 301
           KK +LP+S
Sbjct: 377 KKGKLPTS 384

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449200|ref|XP_004142353.1| PREDICTED: RING-H2 finger protein ATL46-like [Cucumis sativus] gi|449492685|ref|XP_004159071.1| PREDICTED: RING-H2 finger protein ATL46-like [Cucumis sativus]

 Score =  320 bits (820), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 178/324 (54%), Positives = 223/324 (68%), Gaps = 21/324 (6%)

Query: 6   TPSSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT---- 61
           +P+S+ +RISP +L I+VI+AV+FFI GL+HLL+R+L K PS   + QSNR PE +    
Sbjct: 44  SPTSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLIKHPSSSASSQSNRNPELSPSDA 103

Query: 62  LQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSC 121
           LQ QLQQLF LHDSGLDQ+ IDALP+F YK+IVGLKEPFDCAVCLCEFS+ D LRLLP C
Sbjct: 104 LQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSDKDQLRLLPMC 163

Query: 122 SHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSF-DVSREISTGFTTDEENGFS 180
           SHAFH+ CIDTWLLSNSTCPLCRGTL +   S+ENP+  F D+  E       D      
Sbjct: 164 SHAFHVNCIDTWLLSNSTCPLCRGTLFNPGFSIENPMYDFDDLGEEDECAGNADHR--LP 221

Query: 181 GRHKPENVHESAAPKRVFSVRLGKFKSIN-GDNRERVQGEMSSCNKLDARRCYSMGAFQY 239
              K   + E    K VF VRLGKF+ ++  +  E   GE SS N LDARRCYSMG++QY
Sbjct: 222 NCQKTMEIQEVVNEKGVFPVRLGKFRRMDAAEVVETEVGETSSSN-LDARRCYSMGSYQY 280

Query: 240 VLVDSDLQVALS------NHIACDGTGSSNSL--VDGELEGKKISERTRGESYSVSKIWL 291
           V++D+DL++ALS      ++        SNS+  V  +L+GKK+S   +GESYSVSKIWL
Sbjct: 281 VVIDADLRIALSKARGEGDNTQPSKEAESNSISPVQADLDGKKLSSVAKGESYSVSKIWL 340

Query: 292 WSKKSRLPSSSSNAHMAELGLASS 315
           WSKK +  S S+  H   +G+ SS
Sbjct: 341 WSKKGKY-SGSTEPH---IGMPSS 360

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055501|ref|XP_002298515.1| predicted protein [Populus trichocarpa] gi|222845773|gb|EEE83320.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (816), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 180/315 (57%), Positives = 215/315 (68%), Gaps = 16/315 (5%)

Query: 6   TPSSATSRISPVLLLILVIVAVVFFIFGLVHLLIRYLKKRPSPLPNHQSNRFPETT---- 61
           +P SA S ISP +L ++VI+AV+FFI GL+HLLIR+L K P+     QSNR+PE +    
Sbjct: 5   SPPSA-SLISPAVLFVIVILAVLFFISGLLHLLIRFLIKHPTSSAASQSNRYPEISGSDA 63

Query: 62  LQTQLQQLFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSC 121
           LQ QLQQLF LHDSGLDQ+ IDALP+F YK+IVG KEPFDC VCLCEFSE D LRLLP C
Sbjct: 64  LQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGPKEPFDCPVCLCEFSEKDKLRLLPMC 123

Query: 122 SHAFHITCIDTWLLSNSTCPLCRGTL-SSSDNSLENPVSSFDVSREISTGFTTDEENGFS 180
           SHAFHI CIDTWLLSNSTCPLCRGTL +++  S+ENP+  FD  RE       D +  F 
Sbjct: 124 SHAFHINCIDTWLLSNSTCPLCRGTLFNTAGFSMENPMFDFDDLRE-DDECPGDGDIVFI 182

Query: 181 GRHKPENVHESAAPKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYV 240
              K   +  +   K V  VRLGKF+ +NG   E   GE SS N LDARRC+SMG++QYV
Sbjct: 183 PSQKTGEIEGTVVEKGVLPVRLGKFRKLNGGVGE-AGGETSSSN-LDARRCFSMGSYQYV 240

Query: 241 LVDSDLQVALSNH------IACDGTGSSNSL-VDGELEGKKISERTRGESYSVSKIWLWS 293
           L D+DL+V LSN           GT    +L VDG+LE  KIS  ++GES+SVSKIWLW 
Sbjct: 241 LGDTDLRVGLSNERQSRDIKPARGTEQKVNLSVDGDLEENKISSLSQGESFSVSKIWLWR 300

Query: 294 KKSRLPSSSSNAHMA 308
            K    SSSS+A M 
Sbjct: 301 NKKGKFSSSSDAPMG 315

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	325
TAIR|locus:2199902	369	AT1G23980 [Arabidopsis thalian	0.827	0.728	0.501	3.4e-61
TAIR|locus:2173772	376	AT5G40250 [Arabidopsis thalian	0.852	0.736	0.462	8.1e-60
TAIR|locus:2118666	472	AT4G30400 [Arabidopsis thalian	0.504	0.347	0.467	1.1e-44
TAIR|locus:2054049	423	MEE16 "maternal effect embryo	0.483	0.371	0.456	8.5e-43
TAIR|locus:2097890	349	AT3G48030 "AT3G48030" [Arabido	0.504	0.469	0.459	1.2e-33
TAIR|locus:2172550	210	AT5G57750 [Arabidopsis thalian	0.341	0.528	0.513	3.5e-27
TAIR|locus:2096444	356	AT3G03550 [Arabidopsis thalian	0.36	0.328	0.434	1.5e-21
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.793	0.712	0.270	1e-20
TAIR|locus:2123558	432	AT4G28890 [Arabidopsis thalian	0.609	0.458	0.320	3.1e-20
TAIR|locus:2061698	390	AT2G20030 [Arabidopsis thalian	0.627	0.523	0.309	4e-20

TAIR|locus:2199902 AT1G23980 [Arabidopsis thaliana (taxid:3702)]

 Score = 626 (225.4 bits), Expect = 3.4e-61, P = 3.4e-61
 Identities = 151/301 (50%), Positives = 184/301 (61%)

Query:     3 NESTPSSATSRISPXXXXXXXXXXXXXXXXXXXHLLIRY-LKKRPSPL---PNHQSNRFP 58
             + S+ S   +RISP                   HLL+RY LKK+ S L   PN +SN+ P
Sbjct:    38 SSSSSSGGNNRISPIILFIIVLLSVIFFICSILHLLVRYYLKKKRSNLSSSPN-ESNQNP 96

Query:    59 EXXXXXXXXXX----FRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDN 114
             E              F LHDSGLDQ+LIDALP+F YK+I G KEPFDCAVCLCEFSE D 
Sbjct:    97 EFSDSDTYQRQLQQLFHLHDSGLDQALIDALPVFLYKEIKGTKEPFDCAVCLCEFSEDDK 156

Query:   115 LRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTD 174
             LRLLP+CSHAFHI CIDTWLLSNSTCPLCRGTL S  +  E P  +F        GF   
Sbjct:   157 LRLLPNCSHAFHIDCIDTWLLSNSTCPLCRGTLFSLGHQFEYPDFNF--------GFFAG 208

Query:   175 EENGFSGRHKP-ENVHESAAPKRVFSVRLGKFKSINGDNRERVQ----GEMSSCNKLDAR 229
             ++ G   R  P +   E+   KRVFSVRLGKF+S N  N   V     GE SS + LD R
Sbjct:   209 DDGGGGVRVSPVQKPAENEIGKRVFSVRLGKFRSSNIVNNGEVVVGGGGETSS-SSLDNR 267

Query:   230 RCYSMGAFQYVLVDSDLQVALSNHIAC-DGTGSSNSLVDGELEGKKISERTRGESYSVSK 288
             RC+SMG++QY++ +SDL VAL     C +  G  N+    ++EGKKI+ R++GES+SVSK
Sbjct:   268 RCFSMGSYQYIVAESDLVVAL-----CPNNEGLKNNK---DVEGKKINMRSKGESFSVSK 319

Query:   289 I 289
             I
Sbjct:   320 I 320

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 613 (220.8 bits), Expect = 8.1e-60, P = 8.1e-60
 Identities = 141/305 (46%), Positives = 176/305 (57%)

Query:     7 PSSATSRISPXXXXXXXXXXXXXXXXXXXHLLIRYLKKRPSPLPNHQSNRFPEXXXXXXX 66
             P S+ +RISP                   HLL+R+L K PS   + +SNRFPE       
Sbjct:    34 PPSSGNRISPAVLFVIVILAVLFFISGLLHLLVRFLIKHPSATASSRSNRFPEISTSDAL 93

Query:    67 XXX----FRLHDSGLDQSLIDALPMFYYKDIVG----------LKEPFDCAVCLCEFSEH 112
                    F L+DSGLDQ+ IDALP+F+YK+IVG           +EPFDCAVCLCEFSE 
Sbjct:    94 QRQLQQLFHLNDSGLDQAFIDALPVFHYKEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEK 153

Query:   113 DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFT 172
             D LRLLP CSHAFH+ CIDTWL SNSTCPLCRGTL S   S+ENP+  FD  RE   G T
Sbjct:   154 DKLRLLPMCSHAFHLNCIDTWLQSNSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEGVT 213

Query:   173 TDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSI----NGDNRERVQGEMSSCNKLDA 228
                ENG     K   + E    K V  VRLGKFK +    NG  ++ V G  +S + LDA
Sbjct:   214 ---ENG---SQKTMEIQEIVVEKGVLPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDA 267

Query:   229 RRCYSMGAFQYVLVDSDLQVALSN----HIACDGTGSSNSLVDGELEGKKISERTRGESY 284
             RRC+SMG++QY+L +S+L+V  +N     +      S  +      + KKI+   +GES+
Sbjct:   268 RRCFSMGSYQYILGNSELKVPFANDRLPRLKPQDKESEQTGNSSSEDNKKINTVAKGESF 327

Query:   285 SVSKI 289
             SVSKI
Sbjct:   328 SVSKI 332

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2118666 AT4G30400 [Arabidopsis thaliana (taxid:3702)]

 Score = 376 (137.4 bits), Expect = 1.1e-44, Sum P(2) = 1.1e-44
 Identities = 79/169 (46%), Positives = 100/169 (59%)

Query:    12 SRISPXXXXXXXXXXXXXXXXXXXHLLIRYLKKRPSPLPNHQSNRFPEXXXXXXXXXX-F 70
             S+ISP                   HLL+R+L    +P    + + F             F
Sbjct:    45 SKISPSILLIIIILSIIFFISGLLHLLVRFLL---TPSSRDREDYFDNVTALQGQLQQLF 101

Query:    71 RLHDSGLDQSLIDALPMFYYKDIVGLKE-PFDCAVCLCEFSEHDNLRLLPSCSHAFHITC 129
              LHDSG+DQS ID LP+F+YK I+GLK  PFDCAVCLCEF   D LRLLP CSHAFH+ C
Sbjct:   102 HLHDSGVDQSFIDTLPVFHYKSIIGLKNYPFDCAVCLCEFETEDKLRLLPKCSHAFHMDC 161

Query:   130 IDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENG 178
             IDTWLLS+STCPLCR +L S  +S ++P SSF +  E ++  ++ E  G
Sbjct:   162 IDTWLLSHSTCPLCRSSLLSDLSSHQDPRSSFLLVLESASDHSSREIGG 210

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2054049 MEE16 "maternal effect embryo arrest 16" [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 8.5e-43, Sum P(2) = 8.5e-43
 Identities = 74/162 (45%), Positives = 95/162 (58%)

Query:     2 ENESTPSSATSRISPXXXXXXXXXXXXXXXXXXXHLLIRYLKKRPSPLPNHQSNRFPEXX 61
             ++ ++ S+  S+I+P                   H+L+++L    +P    + + F    
Sbjct:    27 KSNTSLSNLNSKITPNILLIIIILSIIFFISGLLHILVKFLL---TPSRESREDYFDNVT 83

Query:    62 XXXXXXXX-FRLHDSGLDQSLIDALPMFYYKDIVGLK-EPFDCAVCLCEFSEHDNLRLLP 119
                      F LHDSG+DQSLID LP+F+YK IVGLK  PFDC VCLCEF   D LRLLP
Sbjct:    84 ALQGQLQQLFNLHDSGVDQSLIDTLPVFHYKSIVGLKISPFDCPVCLCEFETEDKLRLLP 143

Query:   120 SCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSF 161
              CSHAFH+ CIDTWLLS+STCPLCR  L S  +S  N  SS+
Sbjct:   144 KCSHAFHVECIDTWLLSHSTCPLCRSNLLSGFSSHHNLSSSY 185

GO:0005634 "nucleus" evidence=ISM

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

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

TAIR|locus:2097890 AT3G48030 "AT3G48030" [Arabidopsis thaliana (taxid:3702)]

 Score = 366 (133.9 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 84/183 (45%), Positives = 112/183 (61%)

Query:    36 HLLIRYLKKRPS--PLPNHQSNRFPEXXXXXXXXXXFRLHDSGLDQSLIDALPMFYYKDI 93
             +L+ ++L+K  +  P+P+   N              F LHDSGLDQ+ IDALP+F Y ++
Sbjct:   138 YLIFKFLRKSSTLFPIPHFNYNPDLFSFSSPQLQHLFFLHDSGLDQTAIDALPVFLYGNV 197

Query:    94 -VGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN 152
              + L++PFDCAVCL EFS+ D LRLLP CSHAFH+ CIDTWLLSNSTCPLCR +LS+S+ 
Sbjct:   198 TISLEQPFDCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCRRSLSTSN- 256

Query:   153 SLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVHESAAPKRVFSVRLGKFKSINGDN 212
                     ++ S  +            SG  + ++   S A KRVFSVRLG+FKS N   
Sbjct:   257 ------VCYNHSETLVAPL--------SGHQQVDDGKASLA-KRVFSVRLGRFKSTNESQ 301

Query:   213 RER 215
              +R
Sbjct:   302 SQR 304

GO:0001666 "response to hypoxia" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2172550 AT5G57750 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 59/115 (51%), Positives = 74/115 (64%)

Query:    36 HLLIRYLKKRPSPLPNHQSNRFPEXXXXXXXX--XXFRLHDSGLDQSLIDALPMFYYKDI 93
             HLL+++L  RP    +   +   E            F LHD+ +DQS IDALP+ +YK +
Sbjct:    54 HLLVKFLH-RPQTRLDDAYDGITESSTALQGRYQTRFNLHDAEIDQSFIDALPLLHYKTM 112

Query:    94 VGLKEPF-DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL 147
             +GL+    DCAVCL EF+  D LRLLP CSHAFH+ CIDTWLL+NSTCPLCR  L
Sbjct:   113 IGLRHDLSDCAVCLREFTAEDELRLLPKCSHAFHVECIDTWLLTNSTCPLCRDNL 167

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

TAIR|locus:2096444 AT3G03550 [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 56/129 (43%), Positives = 79/129 (61%)

Query:    76 GLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL 135
             GLD+SLI ++ ++ Y+ + G  E  DC+VCL EF E+++LRLLP C+HAFH+ CIDTWL 
Sbjct:   133 GLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLK 192

Query:   136 SNSTCPLCRGTL-SSSDNSLENPVSSFDVSRE--ISTG------FTTDEENGFSGRHKPE 186
             S+S CPLCR  + +SS   + +  +   V+    ISTG         D EN    R + E
Sbjct:   193 SHSNCPLCRAFIVTSSAVEIVDLTNQQIVTENNSISTGDDSVVVVNLDLENS---RSRNE 249

Query:   187 NVHESAAPK 195
              V+E + PK
Sbjct:   250 TVNEGSTPK 258

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2151421 AT5G17600 [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 77/285 (27%), Positives = 121/285 (42%)

Query:     8 SSATSRISPXXXXXXXXXXXXXXXXXXXHLLIRYLKKRPSPLPNHQSNRFPEXXXXXXXX 67
             SS++S  SP                    L+ +Y  +      +   N            
Sbjct:    48 SSSSSSFSPLLIALIGILTSALILVSYYTLISKYCHRHHQTSSSETLNLNHNGEGFFSST 107

Query:    68 XXFRLHDSGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI 127
                  +  GL++S+I ++ ++ YK   G  +  DC+VCL EF E+++LRLLP C+HAFH+
Sbjct:   108 QRISTNGDGLNESMIKSITVYKYKSGDGFVDGSDCSVCLSEFEENESLRLLPKCNHAFHL 167

Query:   128 TCIDTWLLSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPEN 187
              CIDTWL S+S CPLCR  ++     + NP +S  V + +S     ++ N     H+  +
Sbjct:   168 PCIDTWLKSHSNCPLCRAFVTG----VNNPTAS--VGQNVSV-VVANQSNS---AHQTGS 217

Query:   188 VHESAAPKRVFSVRLGKFKSI-----------NGDNRERVQ-----GEMSSCNKLDARRC 231
             V E       +  + G F S+           N D R  +Q      E    + L  RR 
Sbjct:   218 VSEINLNLAGYESQTGDFDSVVVIEDLEIGSRNSDARSELQLPEERRETKDEDSLPIRRS 277

Query:   232 YSMGAFQYVLVDSDLQVALSNHIACDGTGSSNSLVDGEL-EGKKI 275
              S+ +   V +   L+          G G+S    +GE  +GK I
Sbjct:   278 VSLNSGVVVSIADVLREIEDEEGESGGVGTSQRREEGEDGDGKTI 322

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2123558 AT4G28890 [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 3.1e-20, P = 3.1e-20
 Identities = 66/206 (32%), Positives = 103/206 (50%)

Query:    75 SGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL 134
             SGLD++ I++LP+F +  + G K+  DC+VCL +F   + LRLLP C HAFHI CID WL
Sbjct:    96 SGLDKTAIESLPLFRFSALKGSKQGLDCSVCLSKFESVEILRLLPKCRHAFHIGCIDQWL 155

Query:   135 LSNSTCPLCRGTLS-SSDNSLENPVSSFDVSREISTGFTTDEENGFSGRHKPENVH-ESA 192
               ++TCPLCR  +S   D+S+    +SF    +      +  E       + E +H E  
Sbjct:   156 EQHATCPLCRDRVSMEEDSSVLTNGNSFRFLNQSEIREDSSLELYIEREEEEERIHREEL 215

Query:   193 APKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYVLVDSDLQVALSN 252
             +    FS+     K +   N+E+   +    N  D ++   M  F + +V SD  V   N
Sbjct:   216 SGSSRFSIGESFRKILKLGNKEKTLLD-EHVNDKDEKKL--MHKFNHRIVVSD--VVFKN 270

Query:   253 HIACDGTGSSNSLVDGELEGKKISER 278
               + + + S    ++ E+     SER
Sbjct:   271 RWS-NVSSSDLMFLNSEMVNSISSER 295

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0000041 "transition metal ion transport" evidence=RCA

GO:0048527 "lateral root development" evidence=RCA

GO:0048589 "developmental growth" evidence=RCA

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

GO:0048767 "root hair elongation" evidence=RCA

TAIR|locus:2061698 AT2G20030 [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 4.0e-20, P = 4.0e-20
 Identities = 66/213 (30%), Positives = 105/213 (49%)

Query:    75 SGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL 134
             SGLD+  I++LP F +  + GLK+  +C+VCL +F + + LRLLP C HAFHI CID WL
Sbjct:    97 SGLDKKAIESLPFFRFSALKGLKQGLECSVCLSKFEDVEILRLLPKCRHAFHIGCIDQWL 156

Query:   135 LSNSTCPLCRGTLSSSDNSLENPVSSFDVSREISTGFTTDEENGFSGR-HKPENVHESAA 193
               ++TCPLCR  ++  D+      SS  + R ++   T +E++       + E  ++ ++
Sbjct:   157 EQHATCPLCRNRVNIEDDLSVLGNSSTSL-RILNQSETREEDSRLEIYIEREEGTNDGSS 215

Query:   194 PKRVFSVRLGKFKSINGDNRERVQGEMSSCNKLDARRCYSMGAFQYV---LVDSDLQVAL 250
                 F   L K   +  +  E +  E    +K + R   S   F+     +  SDL    
Sbjct:   216 RFSSFRKILKKSLLLEREGNENID-EKKLMHKFNHRIVVSDAVFKNRWSNITSSDLTFLT 274

Query:   251 S---NHIACDGTGSSNSLVDGELEGKKISERTR 280
             S   N ++ D   S + +  G L  K+  E  R
Sbjct:   275 SEMLNSVSSDRFSSVDRVHRGNLRDKEDMEMKR 307

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

GO:0010043 "response to zinc ion" evidence=RCA

---

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)
Q9FL07	ATL46_ARATH	No assigned EC number	0.5136	0.8707	0.7526	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pm.C_LG_I000838 hypothetical protein (318 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

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	325
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-11
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-10
smart00184	40	smart00184, RING, Ring finger	2e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	7e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-05
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	4e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	4e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	5e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	5e-04
pfam12906	47	pfam12906, RINGv, RING-variant domain	0.002
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	0.002
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	0.003

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

 Score = 69.0 bits (169), Expect = 2e-15
 Identities = 22/45 (48%), Positives = 30/45 (66%), Gaps = 1/45 (2%)

Query: 100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
            +C +CL EF   + + +LP C H FH  C+D WL S++TCPLCR
Sbjct: 1   DECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 56.7 bits (137), Expect = 5e-11
 Identities = 21/45 (46%), Positives = 26/45 (57%), Gaps = 4/45 (8%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCR 144
           +C +CL EF       +L  C H F  +CID WL S  +TCPLCR
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 56.3 bits (136), Expect = 1e-10
 Identities = 20/53 (37%), Positives = 24/53 (45%), Gaps = 9/53 (16%)

Query: 101 DCAVCLCEFSEHDNLRLLPS---------CSHAFHITCIDTWLLSNSTCPLCR 144
            CA+C   F         P          C HAFH+ CI  WL + +TCPLCR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 4/43 (9%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLC 143
           C +CL E+ +  +  +LP C H F  +CI  WL S N+TCP+C
Sbjct: 1   CPICLEEYLK--DPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 54.2 bits (130), Expect = 3e-08
 Identities = 23/45 (51%), Positives = 32/45 (71%), Gaps = 2/45 (4%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCR 144
           +CA+C+  F ++D LR+LP C H FH+ C+D WLL  S  CP+CR
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 47.9 bits (114), Expect = 7e-08
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLC 143
           C +CL E  +     +LP C H F   CI +WL S + TCPLC
Sbjct: 1   CPICLEEPKDPV--TILP-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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 46.3 bits (110), Expect = 2e-07
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           E  +C +CL       +  +L  C H F   CI  +L   S CP+CR
Sbjct: 1   EELECPICLDLLR---DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 50.5 bits (121), Expect = 2e-07
 Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 4/64 (6%)

Query: 90  YKDIVGLKEPFDCAVCLCEF--SEHDN--LRLLPSCSHAFHITCIDTWLLSNSTCPLCRG 145
           Y+ +    +  +CA+C+ +    E  N    +L +C+H F I CID W    +TCP+CR 
Sbjct: 165 YEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Query: 146 TLSS 149
              S
Sbjct: 225 PFIS 228

Length = 238

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

 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 21/86 (24%), Positives = 32/86 (37%), Gaps = 13/86 (15%)

Query: 102 CAVCLCEFSEHDNLRL----------LPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
           C +C+ E    D+  L          LP C H  H+ C+  WL    TCP+CR       
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICR--RPVIF 346

Query: 152 NSLENPVSSFDVSREISTGFTTDEEN 177
           +      +S +V          + +N
Sbjct: 347 DQSSPTPASPNVRNTQIATQVPNPDN 372

Length = 491

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

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 14/26 (53%), Positives = 16/26 (61%)

Query: 121 CSHAFHITCIDTWLLSNSTCPLCRGT 146
           C+HAFH  CI  WL +   CPL R T
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQT 79

Length = 88

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

 Score = 45.0 bits (106), Expect = 4e-05
 Identities = 25/85 (29%), Positives = 36/85 (42%), Gaps = 15/85 (17%)

Query: 75   SGLDQSLIDALPMF---YYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPS-----CSHAFH 126
               + S +D L ++     +   G +E   CA+C       D  R LPS     C + FH
Sbjct: 1445 IKKNGSFMDLLGLWKKNIDEKFSGHEE---CAICYSVLDMVD--RSLPSKRCATCKNKFH 1499

Query: 127  ITCIDTWLLS--NSTCPLCRGTLSS 149
              C+  W  S   S CPLCR  ++ 
Sbjct: 1500 TRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

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

 Score = 40.9 bits (96), Expect = 5e-05
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)

Query: 99  PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNST---CPLCRGT 146
            FD     C+F   D   +   C H FH+ CI  WL + ++   CP+CR T
Sbjct: 30  SFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQT 80

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|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 41.1 bits (96), Expect = 5e-04
 Identities = 23/77 (29%), Positives = 28/77 (36%), Gaps = 12/77 (15%)

Query: 95  GLKEPFDCAVCLCEFSEHDNLR--LLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS-- 150
            L     C +C       D     +L SCSH F   CI   L +   CPLCR     S  
Sbjct: 22  PLDTSLRCHIC------KDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL 75

Query: 151 --DNSLENPVSSFDVSR 165
             +  +   V SF   R
Sbjct: 76  RSNWLVSEIVESFKNLR 92

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

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 5/47 (10%)

Query: 102 CAVCLCEFSEHDNLRLLPSCS---HAFHITCIDTWL--LSNSTCPLC 143
           C +CL    E + L     C       H +C++ WL    N+TC +C
Sbjct: 1   CRICLEGEEEDEPLIRPCRCRGSLKYVHQSCLERWLKTSGNTTCEIC 47

Length = 47

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

 Score = 38.5 bits (89), Expect = 0.002
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 11/66 (16%)

Query: 90  YKDIVGLKEPFDCAVCL----CEFSEHDN-LRLLPSCSHAFHITCIDTWLLS------NS 138
           Y+D+  + +  +C +C      +  E+D    LL SC+H F ITCI+ W  +      + 
Sbjct: 161 YEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASD 220

Query: 139 TCPLCR 144
            CP+CR
Sbjct: 221 NCPICR 226

Length = 242

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

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 15/66 (22%)

Query: 101 DCAVCLCEFSEHDNLRLL----PSCSHAFHITCIDTWLLSNS-----------TCPLCRG 145
           +C +C     +   +  +    P C   FHI C+  WL +             TCP C+ 
Sbjct: 4   ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63

Query: 146 TLSSSD 151
            +S   
Sbjct: 64  KISVKF 69

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	325
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.71
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.46
PHA02929	238	N1R/p28-like protein; Provisional	99.37
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.22
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.21
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.2
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.92
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.91
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.91
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.89
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.82
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.82
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.81
PHA02926	242	zinc finger-like protein; Provisional	98.75
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.67
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.65
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.64
PF14634	44	zf-RING_5: zinc-RING finger domain	98.64
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.58
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.57
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.56
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.41
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.32
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.31
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.26
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.25
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.15
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.14
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.1
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.08
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.05
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.96
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.96
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.95
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.78
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.78
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.54
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.51
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.42
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.42
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.34
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.24
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.14
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.11
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.88
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.86
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
COG5152	259	Uncharacterized conserved protein, contains RING a	96.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.45
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.18
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.04
KOG2660	331	consensus Locus-specific chromosome binding protei	96.03
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.9
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.82
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.8
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.78
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.77
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.77
PHA02862	156	5L protein; Provisional	95.63
PF04641	260	Rtf2: Rtf2 RING-finger	95.6
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.56
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.54
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.52
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.08
PHA03096	284	p28-like protein; Provisional	95.0
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.97
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.93
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.81
KOG4739	233	consensus Uncharacterized protein involved in syna	94.43
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.38
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.92
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.88
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.73
COG5222	427	Uncharacterized conserved protein, contains RING Z	93.32
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.1
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.96
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	92.86
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.69
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.48
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.3
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.3
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.63
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.58
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.61
KOG1940	276	consensus Zn-finger protein [General function pred	90.57
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.19
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.03
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.48
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	89.19
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	89.16
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	87.15
KOG0298	1394	consensus DEAD box-containing helicase-like transc	86.74
KOG4367	699	consensus Predicted Zn-finger protein [Function un	86.34
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	85.85
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	85.32
KOG1829	580	consensus Uncharacterized conserved protein, conta	84.79
KOG3002	299	consensus Zn finger protein [General function pred	84.78
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	84.49
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	84.19
KOG3053	293	consensus Uncharacterized conserved protein [Funct	83.78
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	82.58
KOG1609	323	consensus Protein involved in mRNA turnover and st	82.19
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	81.24
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	80.84
KOG3899	381	consensus Uncharacterized conserved protein [Funct	80.8

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

Probab=99.71  E-value=2.2e-17  Score=159.23  Aligned_cols=76  Identities=36%  Similarity=0.830  Sum_probs=66.5

Q ss_pred             CCCCHHHHhhCCceeeecccCCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCC-CCcccccccCCC
Q 039646           75 SGLDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNST-CPLCRGTLSSSD  151 (325)
Q Consensus        75 ~g~~~~~i~~Lp~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~t-CPlCR~~l~~~~  151 (325)
                      ..+.++.++++|..+|....+......|+||||+|+.+|++++|| |+|.||..||++||.++.+ ||+|++++....
T Consensus       205 ~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            457789999999999998765555578999999999999999999 9999999999999998755 999999776543

>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=99.46  E-value=2.6e-14  Score=98.82  Aligned_cols=43  Identities=47%  Similarity=1.240  Sum_probs=40.4

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR  144 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR  144 (325)
                      +|+||+++|..++.+..++ |+|.||..||.+|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999999999999 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.37  E-value=2.2e-12  Score=119.63  Aligned_cols=75  Identities=24%  Similarity=0.628  Sum_probs=58.3

Q ss_pred             CCCCCHHHHhhCCceeeecc--cCCCCCCcCceecccccCCC----ceeecCCCCceecHHHHHHHHhcCCCCCcccccc
Q 039646           74 DSGLDQSLIDALPMFYYKDI--VGLKEPFDCAVCLCEFSEHD----NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL  147 (325)
Q Consensus        74 ~~g~~~~~i~~Lp~~~~~~~--~~~~~~~~C~ICle~~~~~~----~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  147 (325)
                      ..+....+++.+|.+...-.  .+...+.+|+||++.+....    .+.+++.|+|.||..||.+|+..+.+||+||.++
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            45668999999999865432  23345678999999986543    1234445999999999999999999999999977


Q ss_pred             c
Q 039646          148 S  148 (325)
Q Consensus       148 ~  148 (325)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            5

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

Probab=99.22  E-value=8.5e-12  Score=95.72  Aligned_cols=45  Identities=42%  Similarity=0.980  Sum_probs=35.6

Q ss_pred             CCcCceecccccCC----------CceeecCCCCceecHHHHHHHHhcCCCCCccc
Q 039646           99 PFDCAVCLCEFSEH----------DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR  144 (325)
Q Consensus        99 ~~~C~ICle~~~~~----------~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR  144 (325)
                      +..|+||++.|.+.          -.+...+ |+|.||..||.+||..+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            44699999999322          2344555 999999999999999999999998

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

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

Probab=99.21  E-value=8.4e-11  Score=113.38  Aligned_cols=67  Identities=28%  Similarity=0.724  Sum_probs=51.2

Q ss_pred             HHHHhhCCceeeecccCCCCCCcCceeccc-ccCC---------CceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           79 QSLIDALPMFYYKDIVGLKEPFDCAVCLCE-FSEH---------DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        79 ~~~i~~Lp~~~~~~~~~~~~~~~C~ICle~-~~~~---------~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ++.-+-+|.++..+.  ..++..|.|||++ |..+         ..+..|| |||+||.+|++.|++++++||+||.++.
T Consensus       269 kdl~~~~~t~t~eql--~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         269 KDLNAMYPTATEEQL--TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hHHHhhcchhhhhhh--cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            344444555544432  4567889999999 5544         2467888 9999999999999999999999999954

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

Probab=99.20  E-value=8.4e-12  Score=117.49  Aligned_cols=52  Identities=42%  Similarity=1.179  Sum_probs=47.2

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~  149 (325)
                      ....+|+|||+.|..+|.++.|| |.|.||..|+++|+. -+..||+||.++++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            44578999999999999999999 999999999999999 46679999999875

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

Probab=98.92  E-value=1.3e-09  Score=102.46  Aligned_cols=50  Identities=34%  Similarity=0.787  Sum_probs=43.2

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ....|.+||+..+.   +..+| |||+||+.||..|...+..||+||..+.+..
T Consensus       238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            45789999998655   66788 9999999999999999999999999876643

>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=98.91  E-value=9.3e-10  Score=78.02  Aligned_cols=46  Identities=30%  Similarity=0.822  Sum_probs=39.1

Q ss_pred             CCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCccccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      +..|.||++....   +..+| |||. ||..|+..|+.....||+||+++.
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            4579999998654   77888 9999 999999999999999999999874

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.91  E-value=9.2e-10  Score=98.77  Aligned_cols=52  Identities=29%  Similarity=0.788  Sum_probs=42.0

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc----------------CCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS----------------NSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~----------------~~tCPlCR~~l~~~~  151 (325)
                      ..++.+|+||++.+.+   +++++ |||.||..||..|+..                ...||+||..+....
T Consensus        15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            4567899999998765   56677 9999999999999852                346999999986543

>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=98.89  E-value=1.3e-09  Score=73.48  Aligned_cols=44  Identities=52%  Similarity=1.250  Sum_probs=36.6

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTL  147 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l  147 (325)
                      +|+||++.+  .+.+...+ |+|.||..|+..|+.. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998  33455565 9999999999999997 77799999764

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

Probab=98.86  E-value=1.4e-09  Score=99.51  Aligned_cols=52  Identities=29%  Similarity=0.710  Sum_probs=41.9

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC---CCCCcccccccCCCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN---STCPLCRGTLSSSDN  152 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l~~~~~  152 (325)
                      ...++|.|||+.-++   ++++. |||.||+.||.+||+.+   +.||+|+..+..+..
T Consensus        45 ~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            456899999998544   55665 99999999999999863   449999998876543

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

Probab=98.82  E-value=2.8e-09  Score=109.93  Aligned_cols=54  Identities=35%  Similarity=0.769  Sum_probs=46.4

Q ss_pred             CCCCcCceecccccCCCc--eeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEHDN--LRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~--~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ..+..|+||++++..+..  +..+| |+|+||..|+..|+++.++||+||..+....
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYV  344 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence            346789999999987655  67888 9999999999999999999999999665543

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

Probab=98.82  E-value=3e-09  Score=83.54  Aligned_cols=52  Identities=33%  Similarity=0.771  Sum_probs=38.9

Q ss_pred             CCCCcCceecccccC--------C-CceeecCCCCceecHHHHHHHHhc---CCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSE--------H-DNLRLLPSCSHAFHITCIDTWLLS---NSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~--------~-~~~~~lp~C~H~FH~~CI~~Wl~~---~~tCPlCR~~l~  148 (325)
                      .++..|.||...|..        + +.+.+.-.|+|.||.+||.+|+..   +..||+||++..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            346789999988852        1 223333359999999999999985   467999998764

>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=98.81  E-value=3.1e-09  Score=71.55  Aligned_cols=39  Identities=38%  Similarity=1.069  Sum_probs=32.6

Q ss_pred             CceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlC  143 (325)
                      |+||++.+.+  .+..++ |||.||..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998866  346777 99999999999999998889998

>PHA02926 zinc finger-like protein; Provisional

Probab=98.75  E-value=3.3e-09  Score=96.61  Aligned_cols=53  Identities=32%  Similarity=0.817  Sum_probs=40.0

Q ss_pred             CCCCCcCceecccccCC-----CceeecCCCCceecHHHHHHHHhcC------CCCCccccccc
Q 039646           96 LKEPFDCAVCLCEFSEH-----DNLRLLPSCSHAFHITCIDTWLLSN------STCPLCRGTLS  148 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~-----~~~~~lp~C~H~FH~~CI~~Wl~~~------~tCPlCR~~l~  148 (325)
                      ...+.+|+|||+..-..     ....+|+.|+|.||..||..|...+      .+||+||..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            44567899999986332     2234566699999999999999753      35999999764

>smart00504 Ubox Modified RING finger domain

Probab=98.67  E-value=2.2e-08  Score=73.52  Aligned_cols=47  Identities=28%  Similarity=0.581  Sum_probs=41.0

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ..|+||++.+.+   +.+++ |||.|+..||..|+..+.+||+|+..+...
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~   48 (63)
T smart00504        2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE   48 (63)
T ss_pred             cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence            579999999876   46777 999999999999999988999999887543

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

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

Probab=98.65  E-value=1.2e-08  Score=89.98  Aligned_cols=52  Identities=29%  Similarity=0.682  Sum_probs=42.6

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      +...|+|||+.+..... .-+ +|||+||..||..-+.....||+||+.|..+.
T Consensus       130 ~~~~CPiCl~~~sek~~-vsT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVP-VST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             cccCCCceecchhhccc-ccc-ccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            44779999999866432 224 49999999999999999999999999887654

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

Probab=98.64  E-value=2.2e-08  Score=68.84  Aligned_cols=38  Identities=34%  Similarity=0.897  Sum_probs=29.6

Q ss_pred             CceecccccCCCceeecCCCCceecHHHHHHHHhcC----CCCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN----STCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~----~tCPlC  143 (325)
                      |+||++.|.+   ++.|+ |||.|+..||..|+...    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999977   77888 99999999999999753    359988

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.64  E-value=2.1e-08  Score=69.31  Aligned_cols=44  Identities=32%  Similarity=0.819  Sum_probs=38.2

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRG  145 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~  145 (325)
                      .|.||++.|......++++ |||.||..|+..+......||+||+
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            4999999996666788888 9999999999999866778999985

>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=98.58  E-value=2.9e-08  Score=67.08  Aligned_cols=39  Identities=44%  Similarity=1.174  Sum_probs=32.8

Q ss_pred             CceecccccCCCceeecCCCCceecHHHHHHHHh--cCCCCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL--SNSTCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~--~~~tCPlC  143 (325)
                      |+||++.+...  ..+++ |+|.||..||.+|+.  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998663  34777 999999999999999  45569998

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.57  E-value=3.9e-08  Score=97.45  Aligned_cols=55  Identities=33%  Similarity=0.612  Sum_probs=45.8

Q ss_pred             cCCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646           94 VGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus        94 ~~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      ..+.....|+||++.|..   +++++ |+|.||..||..|+.....||+||..+.....
T Consensus        21 ~~Le~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L   75 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL   75 (397)
T ss_pred             cccccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence            345667899999999865   45677 99999999999999988889999998875433

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

>smart00184 RING Ring finger

Probab=98.56  E-value=5e-08  Score=63.30  Aligned_cols=38  Identities=47%  Similarity=1.231  Sum_probs=32.5

Q ss_pred             CceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlC  143 (325)
                      |+||++..   ..+..++ |+|.||..|+..|+. .+..||+|
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            88999883   4577888 999999999999998 56679987

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

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

Probab=98.41  E-value=1.5e-07  Score=72.73  Aligned_cols=29  Identities=48%  Similarity=0.948  Sum_probs=27.0

Q ss_pred             CCCceecHHHHHHHHhcCCCCCccccccc
Q 039646          120 SCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus       120 ~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      .|.|.||.+||.+||..+..||+||++..
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            49999999999999999999999998764

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

Probab=98.40  E-value=3.2e-07  Score=91.63  Aligned_cols=51  Identities=33%  Similarity=0.842  Sum_probs=39.3

Q ss_pred             CCCcCceecccccCCC--------------ceeecCCCCceecHHHHHHHHh-cCCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHD--------------NLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~--------------~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~  149 (325)
                      ...+|+|||.++..-.              ....+| |.|+||..|+.+|+. .+-.||+||.++++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4568999998863211              123557 999999999999999 45589999998864

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

Probab=98.32  E-value=7.7e-08  Score=101.74  Aligned_cols=72  Identities=26%  Similarity=0.607  Sum_probs=51.1

Q ss_pred             CCHHHHhhCCceeeecccCCCCCCcCceecccccCCC---ceeecCCCCceecHHHHHHHHhc--CCCCCccccccc
Q 039646           77 LDQSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHD---NLRLLPSCSHAFHITCIDTWLLS--NSTCPLCRGTLS  148 (325)
Q Consensus        77 ~~~~~i~~Lp~~~~~~~~~~~~~~~C~ICle~~~~~~---~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~  148 (325)
                      ...++++.|-.++..-..+..+-.+||||+..+..-+   .-..+++|.|.||..|+.+|++.  +.+||+||.+++
T Consensus      1447 ~ngs~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1447 KNGSFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             ccchHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3445566665555555456667789999998775221   11234569999999999999986  567999998764

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

Probab=98.31  E-value=2.7e-07  Score=86.04  Aligned_cols=50  Identities=30%  Similarity=0.771  Sum_probs=41.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHH-HHhcCCC-CCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDT-WLLSNST-CPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~-Wl~~~~t-CPlCR~~l~~~~  151 (325)
                      .+..|+||++....   +..++ |||+||..||.. |-.++.. ||+||+.+.++.
T Consensus       214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            46789999998655   66777 999999999999 8777666 999999876654

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

Probab=98.26  E-value=1.7e-07  Score=71.77  Aligned_cols=50  Identities=36%  Similarity=0.798  Sum_probs=36.6

Q ss_pred             CCcCceecccccC---------CCceeecCCCCceecHHHHHHHHhc---CCCCCccccccc
Q 039646           99 PFDCAVCLCEFSE---------HDNLRLLPSCSHAFHITCIDTWLLS---NSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~---------~~~~~~lp~C~H~FH~~CI~~Wl~~---~~tCPlCR~~l~  148 (325)
                      +..|-||.-.|..         ++-+.++-.|.|.||..||.+|+..   +..||+||++..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3479999888742         2223333359999999999999975   445999998753

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

Probab=98.25  E-value=1.9e-07  Score=89.63  Aligned_cols=53  Identities=34%  Similarity=0.733  Sum_probs=45.5

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      +..-..|-||.+.|..   +.++| |+|.||.-||..+|..+..||+|+.++.....
T Consensus        20 lD~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L   72 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL   72 (442)
T ss_pred             hHHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence            3445689999999977   66788 99999999999999999999999998866543

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

Probab=98.15  E-value=1.4e-06  Score=61.77  Aligned_cols=42  Identities=26%  Similarity=0.797  Sum_probs=33.2

Q ss_pred             cCceecccccCCCceeecCCCC-----ceecHHHHHHHHhc--CCCCCccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCS-----HAFHITCIDTWLLS--NSTCPLCR  144 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~tCPlCR  144 (325)
                      .|.||++ ...++.+.++| |.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 44455566788 85     89999999999975  44799995

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

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

Probab=98.14  E-value=1.1e-06  Score=67.26  Aligned_cols=50  Identities=30%  Similarity=0.562  Sum_probs=39.0

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      +.+.|+||.+.|.+   ++++| |||.|...||..|+.. +.+||+|+..+....
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~   53 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD   53 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred             cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence            35789999999877   77888 9999999999999998 888999998887643

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 ....

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

Probab=98.13  E-value=1.2e-06  Score=88.17  Aligned_cols=51  Identities=29%  Similarity=0.579  Sum_probs=40.2

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-----CCCCCcccccccCCCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-----NSTCPLCRGTLSSSDNS  153 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-----~~tCPlCR~~l~~~~~~  153 (325)
                      +..|+|||++...   ...+. |||+||..||..+|..     ...||+||..+..++..
T Consensus       186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            6789999998655   34444 9999999999998864     34599999998875543

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

Probab=98.10  E-value=6.6e-07  Score=83.60  Aligned_cols=54  Identities=31%  Similarity=0.663  Sum_probs=43.6

Q ss_pred             CCCCcCceecccccCCC-------ceeecCCCCceecHHHHHHHHh--cCCCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEHD-------NLRLLPSCSHAFHITCIDTWLL--SNSTCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~-------~~~~lp~C~H~FH~~CI~~Wl~--~~~tCPlCR~~l~~~~  151 (325)
                      .++..|+||-..+....       +.-.|. |+|+||..||.-|-.  ++++||.|++.+..+.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r  284 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR  284 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence            45678999998875444       566787 999999999999975  6889999999886543

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

Probab=98.08  E-value=1.3e-06  Score=82.45  Aligned_cols=51  Identities=31%  Similarity=0.690  Sum_probs=42.9

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ++..-..|-||-+-|..   +..++ |||.||.-||...|..+..||+||.+...
T Consensus        21 ~LDs~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          21 GLDSMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             cchhHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence            34455679999998876   45666 99999999999999999999999987644

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

Probab=98.05  E-value=3.1e-06  Score=58.51  Aligned_cols=34  Identities=29%  Similarity=0.730  Sum_probs=21.7

Q ss_pred             CceecccccC-CCceeecCCCCceecHHHHHHHHhcC
Q 039646          102 CAVCLCEFSE-HDNLRLLPSCSHAFHITCIDTWLLSN  137 (325)
Q Consensus       102 C~ICle~~~~-~~~~~~lp~C~H~FH~~CI~~Wl~~~  137 (325)
                      |+||.+ |.. ...+++|+ |||.|+.+||.+++...
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence            899999 754 44568899 99999999999999853

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

Probab=97.96  E-value=1.5e-06  Score=66.22  Aligned_cols=51  Identities=29%  Similarity=0.823  Sum_probs=24.2

Q ss_pred             CCcCceecccccCCC-ce-eecC--CCCceecHHHHHHHHhc----C-------CCCCcccccccC
Q 039646           99 PFDCAVCLCEFSEHD-NL-RLLP--SCSHAFHITCIDTWLLS----N-------STCPLCRGTLSS  149 (325)
Q Consensus        99 ~~~C~ICle~~~~~~-~~-~~lp--~C~H~FH~~CI~~Wl~~----~-------~tCPlCR~~l~~  149 (325)
                      +.+|.||+..+...+ .+ ...+  +|++.||..||.+||+.    +       .+||.|+++|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            357999999876332 22 2332  69999999999999973    1       139999998753

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

Probab=97.96  E-value=7.5e-07  Score=85.98  Aligned_cols=64  Identities=28%  Similarity=0.466  Sum_probs=51.3

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCCCCCCCCCCCc
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSDNSLENPVSSF  161 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~~~~~p~~~~  161 (325)
                      .+..+..|+|||+-++.   .+.++.|.|.||..||..-++. +++||.||+.+...-....+|.++.
T Consensus        39 ~~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fda  103 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDA  103 (381)
T ss_pred             HhhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHH
Confidence            34567889999998876   4455569999999999998875 7789999999988776666776654

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.95  E-value=6.5e-06  Score=79.08  Aligned_cols=52  Identities=21%  Similarity=0.615  Sum_probs=38.2

Q ss_pred             CCcCceeccc-ccCCC-ceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           99 PFDCAVCLCE-FSEHD-NLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        99 ~~~C~ICle~-~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      +..|++|... |...+ .+.+.+ |||.||..|++..+.. ...||.|+..+....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4579999985 33332 333445 9999999999996654 557999999887654

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

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

Probab=97.93  E-value=3.4e-06  Score=76.91  Aligned_cols=46  Identities=39%  Similarity=0.879  Sum_probs=39.4

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccc
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRG  145 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~  145 (325)
                      ..+...|+||++.|...   .++| |+|.||..||..++.....||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            34667899999999885   7888 9999999999999885556999993

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

Probab=97.92  E-value=6.4e-06  Score=79.82  Aligned_cols=47  Identities=28%  Similarity=0.764  Sum_probs=40.6

Q ss_pred             CCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ..+|.|||.+-.+   ..+|| |.|. .|..|.+....+++.||+||+++..
T Consensus       290 gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  290 GKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            5689999998655   88999 9995 9999999977788999999998754

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

Probab=97.78  E-value=1.2e-05  Score=65.16  Aligned_cols=28  Identities=43%  Similarity=1.028  Sum_probs=25.7

Q ss_pred             CCCceecHHHHHHHHhcCCCCCcccccc
Q 039646          120 SCSHAFHITCIDTWLLSNSTCPLCRGTL  147 (325)
Q Consensus       120 ~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  147 (325)
                      .|.|.||..||.+||+.++.||+|.++-
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            4999999999999999999999997753

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

Probab=97.78  E-value=1e-05  Score=80.29  Aligned_cols=50  Identities=36%  Similarity=0.859  Sum_probs=39.3

Q ss_pred             CCCCCcCceecccccCCC-ceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           96 LKEPFDCAVCLCEFSEHD-NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ..+-.+|+|||+-+.... .++... |.|.||..|+..|.  ..+||+||.-..
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            446678999999985543 345555 99999999999994  478999998655

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

Probab=97.71  E-value=1.4e-05  Score=78.05  Aligned_cols=46  Identities=30%  Similarity=0.874  Sum_probs=33.7

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhc---CCCCCcccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS---NSTCPLCRG  145 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~---~~tCPlCR~  145 (325)
                      ..|.||.+-+-....+.-+-.|||+||..|+..|+..   +.+||+|+-
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            3699995444333344434359999999999999985   457999993

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

Probab=97.54  E-value=1.6e-05  Score=83.34  Aligned_cols=49  Identities=24%  Similarity=0.542  Sum_probs=40.5

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ..|++|+..+.++......+ |+|.||..||..|-+..++||+||..+..
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            45888888876655555555 99999999999999999999999987643

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

Probab=97.51  E-value=3.4e-05  Score=73.31  Aligned_cols=56  Identities=29%  Similarity=0.778  Sum_probs=45.8

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-----------------------CCCCCcccccccCCCCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-----------------------NSTCPLCRGTLSSSDNSL  154 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-----------------------~~tCPlCR~~l~~~~~~~  154 (325)
                      ...+|.|||.-|..++...+++ |-|.||..|+.++|..                       ...||+||..|....+.+
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~sl  192 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSL  192 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccce
Confidence            3467999999999999898998 9999999999877631                       234999999997765554

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

Probab=97.42  E-value=6.5e-05  Score=73.44  Aligned_cols=53  Identities=30%  Similarity=0.856  Sum_probs=39.6

Q ss_pred             CCCCcCceecccccCCC----ceeecCCCCceecHHHHHHHHh--c-----CCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHD----NLRLLPSCSHAFHITCIDTWLL--S-----NSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~----~~~~lp~C~H~FH~~CI~~Wl~--~-----~~tCPlCR~~l~~  149 (325)
                      ..+..|.|||+......    ...++|+|.|.||..||..|-.  +     ...||.||....-
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            34678999999864432    1235677999999999999984  3     4679999986543

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

Probab=97.42  E-value=4.1e-05  Score=57.16  Aligned_cols=48  Identities=29%  Similarity=0.643  Sum_probs=23.4

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      ..|++|.+.+..   ++.+..|.|+||..||..-+.  ..||+|+.+.-..+.
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~   55 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDI   55 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS-
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHH
Confidence            469999998766   444445999999999988554  349999987654443

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

Probab=97.37  E-value=8.9e-05  Score=73.85  Aligned_cols=51  Identities=33%  Similarity=0.836  Sum_probs=43.6

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ....++.|.||+..+..   ++.+| |||.||..||++-+.....||+||..+..
T Consensus        80 ~~~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            34677899999988766   56778 99999999999988878889999999876

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

Probab=97.34  E-value=0.00013  Score=71.87  Aligned_cols=48  Identities=27%  Similarity=0.848  Sum_probs=39.9

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhc--CCCCCcccccccCCCC
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPLCRGTLSSSDN  152 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~~~~~  152 (325)
                      -|-||-+.   +..+++-| |||..|..|+..|...  .++||.||.+|.-.+.
T Consensus       371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            49999876   55588888 9999999999999854  6789999999876543

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

Probab=97.33  E-value=9.8e-05  Score=70.28  Aligned_cols=48  Identities=27%  Similarity=0.520  Sum_probs=38.4

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSS  150 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~  150 (325)
                      ..+|+||+...   ..+..|+ |+|.||..||+--... ..+|++||.++.+.
T Consensus         7 ~~eC~IC~nt~---n~Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTG---NCPVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccC---CcCcccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            35799999874   4456777 9999999999976654 66799999998764

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

Probab=97.24  E-value=7.6e-05  Score=53.92  Aligned_cols=45  Identities=22%  Similarity=0.575  Sum_probs=33.8

Q ss_pred             CcCceecccccCCCceeecCCCCce-ecHHHHHHHHh-cCCCCCccccccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLL-SNSTCPLCRGTLS  148 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~-~~~tCPlCR~~l~  148 (325)
                      .+|.||++.-.+   -++- .|||. .|.+|-.+.++ .+..||+||+++.
T Consensus         8 dECTICye~pvd---sVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVD---SVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcch---HHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            579999987433   2233 39996 78889777665 6889999999874

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

Probab=97.14  E-value=0.0003  Score=69.38  Aligned_cols=48  Identities=33%  Similarity=0.865  Sum_probs=36.1

Q ss_pred             CCcCceecccccCCC--ceeecCCCCceecHHHHHHHHhc--CCCCCcccccc
Q 039646           99 PFDCAVCLCEFSEHD--NLRLLPSCSHAFHITCIDTWLLS--NSTCPLCRGTL  147 (325)
Q Consensus        99 ~~~C~ICle~~~~~~--~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l  147 (325)
                      ...|+||++.+...-  .+..+ .|+|.|-..||+.||-+  ...||.|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            357999999886443  33344 59999999999999963  23499997643

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

Probab=97.11  E-value=0.00015  Score=76.20  Aligned_cols=52  Identities=27%  Similarity=0.706  Sum_probs=40.3

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~~  151 (325)
                      .++-..|++|-.-+.+   .+++ +|+|+||..|+.+-+. ++..||.|.+.+-..+
T Consensus       640 yK~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  640 YKELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HHhceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3455789999976655   4444 4999999999999887 5778999988776543

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

Probab=96.91  E-value=0.00082  Score=61.79  Aligned_cols=55  Identities=25%  Similarity=0.581  Sum_probs=45.5

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc--------CCCCCcccccccCCCCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--------NSTCPLCRGTLSSSDNS  153 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--------~~tCPlCR~~l~~~~~~  153 (325)
                      +....|..|-..+..+|.+++.  |-|.||..|+.+|-..        ...||.|..+|+++.+.
T Consensus        48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl  110 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL  110 (299)
T ss_pred             CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence            3345799999999999998876  9999999999999764        33599999999986543

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

Probab=96.88  E-value=0.001  Score=48.67  Aligned_cols=42  Identities=21%  Similarity=0.604  Sum_probs=26.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc--CCCCCc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPL  142 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPl  142 (325)
                      -...|+|.+..|++  .++-. .|+|.|-...|..|+..  ...||+
T Consensus        10 ~~~~CPiT~~~~~~--PV~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED--PVKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS--EEEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC--CcCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            45679999999876  24444 49999999999999954  334998

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

Probab=96.86  E-value=0.00054  Score=68.36  Aligned_cols=53  Identities=26%  Similarity=0.686  Sum_probs=43.1

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ..+...|++|+..+.+.-.  .+. |||.||..|+..|+..+..||.|+..+....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~--~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQ--TTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccCCCC--CCC-CCCcccccccchhhccCcCCcccccccchhh
Confidence            3566789999999877422  234 9999999999999999999999998876544

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

Probab=96.82  E-value=0.00047  Score=60.42  Aligned_cols=38  Identities=29%  Similarity=0.600  Sum_probs=30.5

Q ss_pred             eeecccCCCCCCcCceecccccCCCceeecCCCCceecH
Q 039646           89 YYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHI  127 (325)
Q Consensus        89 ~~~~~~~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~  127 (325)
                      .|.+..-.++..+|.||||+++.++.+..|| |-.+||+
T Consensus       167 sYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  167 SYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             ccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            3333333345678999999999999999999 9999996

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

Probab=96.55  E-value=0.00094  Score=60.35  Aligned_cols=47  Identities=21%  Similarity=0.540  Sum_probs=40.1

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      -++.|.||-++|+.   ++++. |||.||..|..+-++....|-+|.+...
T Consensus       195 IPF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         195 IPFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             Cceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhhc
Confidence            35789999999977   55665 9999999999999999999999987543

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

Probab=96.45  E-value=0.0015  Score=64.30  Aligned_cols=45  Identities=38%  Similarity=0.900  Sum_probs=36.4

Q ss_pred             CcCceecccccCC-CceeecCCCCceecHHHHHHHHhcC--CCCCcccc
Q 039646          100 FDCAVCLCEFSEH-DNLRLLPSCSHAFHITCIDTWLLSN--STCPLCRG  145 (325)
Q Consensus       100 ~~C~ICle~~~~~-~~~~~lp~C~H~FH~~CI~~Wl~~~--~tCPlCR~  145 (325)
                      .-|-.|-+.+-.. +.+--|| |.|+||..|+.+.|.++  .+||.||+
T Consensus       366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            5699998887543 4566788 99999999999999865  46999994

>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=96.18  E-value=0.0017  Score=55.30  Aligned_cols=36  Identities=17%  Similarity=0.540  Sum_probs=30.4

Q ss_pred             CCcCceecccccCCCceeecCCCC------ceecHHHHHHHHh
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCS------HAFHITCIDTWLL  135 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~------H~FH~~CI~~Wl~  135 (325)
                      ..+|+||++.+...+.++.++ |+      |.||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence            468999999998866777777 76      8899999999943

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.

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.04  E-value=0.0061  Score=56.83  Aligned_cols=53  Identities=15%  Similarity=0.328  Sum_probs=47.1

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .+.|+||.+.+.+...+..|.+|||+|+.+|+.+.+.....||+|-.++.+.+
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            46799999999998888888779999999999999999999999988887654

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

Probab=96.03  E-value=0.0019  Score=62.32  Aligned_cols=54  Identities=22%  Similarity=0.554  Sum_probs=43.2

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      +......|.+|-..|.+...+  .. |-|.||..||.+.|....+||.|...+-...
T Consensus        11 ~~n~~itC~LC~GYliDATTI--~e-CLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTI--TE-CLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             hcccceehhhccceeecchhH--HH-HHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            345566899999888775433  33 9999999999999999999999988776543

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

Probab=95.90  E-value=0.0047  Score=68.90  Aligned_cols=67  Identities=24%  Similarity=0.500  Sum_probs=47.7

Q ss_pred             HhhCCceeeeccc-CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc----------CCCCCcccccccC
Q 039646           82 IDALPMFYYKDIV-GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS----------NSTCPLCRGTLSS  149 (325)
Q Consensus        82 i~~Lp~~~~~~~~-~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~----------~~tCPlCR~~l~~  149 (325)
                      -.-||-+..+... ....+..|.||..+-........|- |+|+||..|...-|.+          --+||+|+.++..
T Consensus      3468 E~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3468 EHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             hhcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            3445655544322 3345678999998876667777887 9999999999876653          1259999988754

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

Probab=95.82  E-value=0.0031  Score=64.25  Aligned_cols=51  Identities=31%  Similarity=0.607  Sum_probs=39.4

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-----CCCCCcccccccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-----NSTCPLCRGTLSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-----~~tCPlCR~~l~~~  150 (325)
                      .++...|-+|.++-++   ..... |.|.||..||.++...     +-+||.|...+.-.
T Consensus       533 nk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             ccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            3456789999988544   45555 9999999999998753     56799998877543

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

Probab=95.80  E-value=0.0055  Score=59.86  Aligned_cols=44  Identities=32%  Similarity=0.674  Sum_probs=32.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      -+..|.||+++..+   ...+| |||.-|  |..-- +....||+||..+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            45679999999766   67888 999866  65543 23445999998764

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

Probab=95.78  E-value=0.005  Score=43.21  Aligned_cols=40  Identities=30%  Similarity=0.901  Sum_probs=26.9

Q ss_pred             CceecccccCCCceeecCCCC-----ceecHHHHHHHHhc--CCCCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCS-----HAFHITCIDTWLLS--NSTCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~tCPlC  143 (325)
                      |-||++.-...+ ..+.| |.     ...|..|+.+|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998866555 44566 65     36899999999984  5569987

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

Probab=95.77  E-value=0.008  Score=56.83  Aligned_cols=49  Identities=29%  Similarity=0.503  Sum_probs=36.4

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc--CCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~  148 (325)
                      ..+.+|++|-+.-..+  ....+ |+|+||..||..-+..  ..+||.|-.+..
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4567899999875442  23444 9999999999986653  468999977654

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

Probab=95.77  E-value=0.0039  Score=59.45  Aligned_cols=47  Identities=23%  Similarity=0.507  Sum_probs=39.9

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ++.|-||...|..   ++++. |+|.||..|...-++....|++|-+.+..
T Consensus       241 Pf~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             Ccccccccccccc---chhhc-CCceeehhhhccccccCCcceeccccccc
Confidence            4679999999977   45565 99999999999999999999999876643

>PHA02862 5L protein; Provisional

Probab=95.63  E-value=0.0089  Score=51.58  Aligned_cols=45  Identities=24%  Similarity=0.564  Sum_probs=33.8

Q ss_pred             CcCceecccccCCCceeecCCCC-----ceecHHHHHHHHhc--CCCCCcccccccC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCS-----HAFHITCIDTWLLS--NSTCPLCRGTLSS  149 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~tCPlCR~~l~~  149 (325)
                      ..|=||+++-.+  .  .-| |.     ...|..|+.+|+..  +..||+|+.++.-
T Consensus         3 diCWIC~~~~~e--~--~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDE--R--NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCC--C--ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            469999998433  2  245 65     46999999999974  4569999998754

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.60  E-value=0.013  Score=55.30  Aligned_cols=62  Identities=23%  Similarity=0.431  Sum_probs=47.5

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCCCCCCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPV  158 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~~~p~  158 (325)
                      ....+.|||+..+|......+.+.+|||+|...+|..-- ....||+|-.++...+.-.-+|.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~  171 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPP  171 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCC
Confidence            345678999999997666666665599999999999962 35679999999887655444443

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

Probab=95.56  E-value=0.0065  Score=60.31  Aligned_cols=47  Identities=30%  Similarity=0.735  Sum_probs=38.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc--------CCCCCcccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--------NSTCPLCRG  145 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--------~~tCPlCR~  145 (325)
                      .-++|.||+++.........+| |+|+||..|+..++..        .-.||-|.-
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            3478999999988778889999 9999999999999863        224877654

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

Probab=95.54  E-value=0.0095  Score=42.14  Aligned_cols=45  Identities=27%  Similarity=0.583  Sum_probs=21.8

Q ss_pred             CceecccccCCC-ceeecCCCCceecHHHHHHHHh-cCCCCCcccccc
Q 039646          102 CAVCLCEFSEHD-NLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTL  147 (325)
Q Consensus       102 C~ICle~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l  147 (325)
                      |++|.+++...+ ...-.+ |++.++..|...-+. ....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999983322 333444 889999999888775 467799999864

>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=95.52  E-value=0.0061  Score=48.84  Aligned_cols=34  Identities=29%  Similarity=0.773  Sum_probs=27.3

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHH
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCID  131 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~  131 (325)
                      ..+...|++|-..+.. ....+.| |||+||..|+.
T Consensus        75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            3456679999999876 4566778 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 [].

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.08  E-value=0.018  Score=50.45  Aligned_cols=49  Identities=22%  Similarity=0.602  Sum_probs=35.4

Q ss_pred             CCCCcCceecccccCCCceeecCCCC--c---eecHHHHHHHHhc--CCCCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCS--H---AFHITCIDTWLLS--NSTCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~--H---~FH~~CI~~Wl~~--~~tCPlCR~~l~~~  150 (325)
                      ..+..|-||.++-.  +.  ..| |.  .   ..|.+|+.+|+..  ...|++|++++.-.
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            34568999998843  22  235 54  3   5799999999985  44599999987543

>PHA03096 p28-like protein; Provisional

Probab=95.00  E-value=0.011  Score=56.61  Aligned_cols=46  Identities=28%  Similarity=0.595  Sum_probs=32.7

Q ss_pred             CcCceecccccCC----CceeecCCCCceecHHHHHHHHhc---CCCCCcccc
Q 039646          100 FDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLS---NSTCPLCRG  145 (325)
Q Consensus       100 ~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~---~~tCPlCR~  145 (325)
                      -.|.|||+.....    ..-.+|+.|.|.||..||..|-..   ..+||.||.
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            4699999976532    233467789999999999999864   233555543

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

Probab=94.97  E-value=0.012  Score=62.90  Aligned_cols=49  Identities=29%  Similarity=0.802  Sum_probs=38.2

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC-------CCCCcccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN-------STCPLCRG  145 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-------~tCPlCR~  145 (325)
                      ....+|.||++.+...+.+--...|-|+||..||..|-++.       -.||.|+.
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            45678999999987766554444589999999999998741       13999984

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

Probab=94.93  E-value=0.0056  Score=58.34  Aligned_cols=42  Identities=26%  Similarity=0.615  Sum_probs=32.2

Q ss_pred             CCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCccccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ..-|+|||+.-.   ....|+ |||. -|..|-...    +.||+||+.+.
T Consensus       300 ~~LC~ICmDaP~---DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPR---DCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCc---ceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence            456999998844   478898 9994 678886553    48999998664

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

Probab=94.81  E-value=0.018  Score=56.26  Aligned_cols=49  Identities=29%  Similarity=0.583  Sum_probs=41.2

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      .++..|+||...   +-..+..| |+|.=|..||.+.+...+.|=.|+.++.+
T Consensus       420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            466789999865   33356778 99999999999999999999999998875

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

Probab=94.43  E-value=0.015  Score=54.02  Aligned_cols=51  Identities=25%  Similarity=0.578  Sum_probs=35.7

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCCCCC
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLE  155 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~~  155 (325)
                      .|-.|..-- .++...++. |.|+||..|...-  ....||+|++.+..-....+
T Consensus         5 hCn~C~~~~-~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~s   55 (233)
T KOG4739|consen    5 HCNKCFRFP-SQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNRS   55 (233)
T ss_pred             EeccccccC-CCCceeeee-chhhhhhhhcccC--Cccccccccceeeeeecccc
Confidence            477776443 367777776 9999999997653  22389999999765544443

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

Probab=94.38  E-value=0.15  Score=49.46  Aligned_cols=48  Identities=21%  Similarity=0.433  Sum_probs=36.8

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL  147 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  147 (325)
                      .+...|+||+..-.++.   .+..-|-+||..||-.++..+..||+-..+.
T Consensus       298 ~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            34567999998876632   2222699999999999999999999865543

>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=93.92  E-value=0.035  Score=38.28  Aligned_cols=41  Identities=22%  Similarity=0.594  Sum_probs=22.8

Q ss_pred             CceecccccCCCceeecCCCCceecHHHHHHHHhcCC--CCCcc
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS--TCPLC  143 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~--tCPlC  143 (325)
                      |.+|.+....+...... .|+=.+|..|+..+++...  .||.|
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            66777766555433322 3888999999999998655  69988

; PDB: 3NW0_A 2CT0_A.

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

Probab=93.88  E-value=0.053  Score=53.00  Aligned_cols=60  Identities=25%  Similarity=0.504  Sum_probs=41.8

Q ss_pred             hCCceeeecccCC-CCCCcCceecccccCCCceeecCCCCceecHHHHHHH--HhcCCCCCcccccc
Q 039646           84 ALPMFYYKDIVGL-KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTW--LLSNSTCPLCRGTL  147 (325)
Q Consensus        84 ~Lp~~~~~~~~~~-~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~W--l~~~~tCPlCR~~l  147 (325)
                      .-|..+..+..+. .+...|.||-+.+.-   ..++| |+|..|..|..+.  |.....||+||..-
T Consensus        45 aEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          45 AEPNLTTSSADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cCCccccccccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            3444444443333 345569999987544   56888 9999999998653  45688899999854

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

Probab=93.73  E-value=0.048  Score=51.92  Aligned_cols=47  Identities=32%  Similarity=0.723  Sum_probs=38.1

Q ss_pred             CcCceecccccCCC---ceeecCCCCceecHHHHHHHHhc-CCCCCcccccc
Q 039646          100 FDCAVCLCEFSEHD---NLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTL  147 (325)
Q Consensus       100 ~~C~ICle~~~~~~---~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l  147 (325)
                      ..|-||-++|...+   .++.|. |||.|+..|+.+.+.. ...||.||.+.
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            46999999998764   356666 9999999999987765 34599999986

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

Probab=93.32  E-value=0.043  Score=52.64  Aligned_cols=43  Identities=37%  Similarity=0.839  Sum_probs=34.5

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRG  145 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~  145 (325)
                      ..|+.|...+..   ...+|.|+|.||.+||..-|. ....||.|..
T Consensus       275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            679999988766   334566999999999997766 5667999965

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

Probab=93.10  E-value=0.0067  Score=59.82  Aligned_cols=50  Identities=22%  Similarity=0.606  Sum_probs=42.7

Q ss_pred             CcCceecccccCC-CceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646          100 FDCAVCLCEFSEH-DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus       100 ~~C~ICle~~~~~-~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ..|+||.+.+... +.+..+- |||++|..||.+||.....||.|+.++...
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            4699999988765 5666666 999999999999999988899999988654

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

Probab=92.96  E-value=0.047  Score=58.59  Aligned_cols=41  Identities=22%  Similarity=0.655  Sum_probs=31.1

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGT  146 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~  146 (325)
                      ..|..|--.+..+  .+.-. |+|.||.+|+.   .....||-|+.+
T Consensus       841 skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchh
Confidence            4699998777553  33333 99999999988   455679999873

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=92.86  E-value=0.094  Score=38.01  Aligned_cols=40  Identities=25%  Similarity=0.671  Sum_probs=32.8

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPL  142 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPl  142 (325)
                      ...|.+|-+.|.+++.+++.|.|+-.+|+.|..+    ...|-+
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            3569999999998899999999999999999544    444544

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

Probab=92.69  E-value=0.076  Score=47.48  Aligned_cols=31  Identities=29%  Similarity=0.938  Sum_probs=24.9

Q ss_pred             CCCceecHHHHHHHHhc----C-------CCCCcccccccCC
Q 039646          120 SCSHAFHITCIDTWLLS----N-------STCPLCRGTLSSS  150 (325)
Q Consensus       120 ~C~H~FH~~CI~~Wl~~----~-------~tCPlCR~~l~~~  150 (325)
                      .||.-||.-|+..||+.    .       ..||.|-.++..+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            39999999999999974    1       2499998887654

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

Probab=92.48  E-value=0.05  Score=57.98  Aligned_cols=47  Identities=30%  Similarity=0.761  Sum_probs=37.4

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhc--CCCCCcccccccCCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPLCRGTLSSSD  151 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~~~~  151 (325)
                      ..|.||++    .+.+...+ |+|.||..|+..-+..  ...||+||..+....
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            78999998    44566777 9999999999988764  235999998876543

>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=92.30  E-value=0.072  Score=37.56  Aligned_cols=44  Identities=27%  Similarity=0.707  Sum_probs=24.9

Q ss_pred             cCceecccccCCCceeecCCCC-ceecHHHHHHHHhcCCCCCcccccccCC
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCS-HAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~-H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      .|--|+-....   ++  . |. |..|..|+...|.....||+|..+++..
T Consensus         4 nCKsCWf~~k~---Li--~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFANKG---LI--K-CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S--SS---EE--E--SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcCCC---ee--e-ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            46667644322   32  2 75 9999999999999999999999988653

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.

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

Probab=92.30  E-value=0.093  Score=51.86  Aligned_cols=29  Identities=28%  Similarity=0.940  Sum_probs=22.4

Q ss_pred             CCceecHHHHHHHHhc-------------CCCCCcccccccC
Q 039646          121 CSHAFHITCIDTWLLS-------------NSTCPLCRGTLSS  149 (325)
Q Consensus       121 C~H~FH~~CI~~Wl~~-------------~~tCPlCR~~l~~  149 (325)
                      |.-.+|.+|+-+|+..             +-+||+||+.+.-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4567899999999853             3359999998764

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

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

Probab=91.63  E-value=0.18  Score=44.35  Aligned_cols=33  Identities=24%  Similarity=0.565  Sum_probs=21.6

Q ss_pred             CCcCceecccccCCCceeecC-----------CCCc-eecHHHHHHHH
Q 039646           99 PFDCAVCLCEFSEHDNLRLLP-----------SCSH-AFHITCIDTWL  134 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp-----------~C~H-~FH~~CI~~Wl  134 (325)
                      +..|+|||+--.+.   ++|-           .|+- .-|..|++++-
T Consensus         2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence            56799999875442   2332           1442 36899999875

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.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.58  E-value=0.12  Score=37.52  Aligned_cols=45  Identities=22%  Similarity=0.513  Sum_probs=31.4

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ..|..|...   +..-.++| |+|+.+..|..-+  +-+-||.|.+++...
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence            346666544   33456788 9999999996553  456699999887653

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

Probab=90.61  E-value=0.73  Score=45.89  Aligned_cols=48  Identities=23%  Similarity=0.483  Sum_probs=39.9

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC---CCCccc
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS---TCPLCR  144 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~---tCPlCR  144 (325)
                      ....+.|||=.+.=.+...+..|. |||+...+-|.+..+...   .||.|=
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP  381 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP  381 (394)
T ss_pred             ccceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence            456789999888877888888998 999999999999776543   499993

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

Probab=90.57  E-value=0.12  Score=49.22  Aligned_cols=46  Identities=26%  Similarity=0.683  Sum_probs=37.4

Q ss_pred             CCcCceecccccCCC-ceeecCCCCceecHHHHHHHHhcCCCCCcccc
Q 039646           99 PFDCAVCLCEFSEHD-NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRG  145 (325)
Q Consensus        99 ~~~C~ICle~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~  145 (325)
                      ...|+||.+.+.... .+..++ |+|.-|..|+......+-+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            345999999765544 345666 9999999999998888888999988

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

Probab=90.19  E-value=0.17  Score=53.99  Aligned_cols=23  Identities=30%  Similarity=0.949  Sum_probs=21.2

Q ss_pred             CCCceecHHHHHHHHhcCCCCCc
Q 039646          120 SCSHAFHITCIDTWLLSNSTCPL  142 (325)
Q Consensus       120 ~C~H~FH~~CI~~Wl~~~~tCPl  142 (325)
                      .|+|+.|..|...|+.....||.
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

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.03  E-value=0.19  Score=49.05  Aligned_cols=54  Identities=22%  Similarity=0.474  Sum_probs=38.1

Q ss_pred             CCCcCceecccccCCCc-eeecCCCCceecHHHHHHHHh-cCCCCCcccccccCCCC
Q 039646           98 EPFDCAVCLCEFSEHDN-LRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSSSDN  152 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~-~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~~~  152 (325)
                      ++..|+.|++++...|+ ..-.| ||...|..|...--+ .+..||-||....+...
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv   68 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENV   68 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence            34459999999876654 34456 998888888655333 25669999998776543

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

Probab=89.48  E-value=0.14  Score=49.50  Aligned_cols=42  Identities=31%  Similarity=0.764  Sum_probs=29.2

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL  147 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  147 (325)
                      .|--|--.+..  .-|+.| |.|+||.+|...  ...+.||+|-..+
T Consensus        92 fCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            36667544432  346788 999999999654  3356799997665

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

Probab=89.19  E-value=0.2  Score=45.88  Aligned_cols=40  Identities=33%  Similarity=0.760  Sum_probs=30.2

Q ss_pred             CceecccccCCCceeecCCCCc-eecHHHHHHHHhcCCCCCcccccccC
Q 039646          102 CAVCLCEFSEHDNLRLLPSCSH-AFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus       102 C~ICle~~~~~~~~~~lp~C~H-~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      |-.|-+.   ...+.++| |.| .+|..|-..    -.+||+|+.....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence            8888765   55688999 998 589999554    3559999876543

>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=89.16  E-value=0.53  Score=39.72  Aligned_cols=27  Identities=33%  Similarity=0.368  Sum_probs=11.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039646           18 LLLILVIVAVVFFIFGLVHLLIRYLKK   44 (325)
Q Consensus        18 iliIi~IL~vv~~ii~ll~ll~r~l~r   44 (325)
                      ++||+.+++.++++++++.+++|.++|
T Consensus        67 ~~Ii~gv~aGvIg~Illi~y~irR~~K   93 (122)
T PF01102_consen   67 IGIIFGVMAGVIGIILLISYCIRRLRK   93 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred             eehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344455555554444444444433333

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.

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

Probab=87.15  E-value=0.26  Score=53.35  Aligned_cols=36  Identities=22%  Similarity=0.546  Sum_probs=27.6

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHH
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL  134 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl  134 (325)
                      ..+..|.+|...+... .-.+-| |||.||..||.+-.
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            4456799999887664 344566 99999999998654

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

Probab=86.74  E-value=0.19  Score=56.28  Aligned_cols=48  Identities=27%  Similarity=0.746  Sum_probs=38.6

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL  147 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l  147 (325)
                      .+...|.||++.+.....+  .. |+|.+|..|+..|+..+..||.|....
T Consensus      1151 ~~~~~c~ic~dil~~~~~I--~~-cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGI--AG-CGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             hcccchHHHHHHHHhcCCe--ee-echhHhhhHHHHHHHHhccCcchhhhh
Confidence            3456899999998753333  22 999999999999999999999998543

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=86.34  E-value=1  Score=45.44  Aligned_cols=35  Identities=34%  Similarity=0.726  Sum_probs=28.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS  136 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~  136 (325)
                      ++..|+||..-|++   +++|| |+|..|..|...-+.+
T Consensus         3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceehhhccC---ceEee-cccHHHHHHHHhhccc
Confidence            45679999988876   67888 9999999998865543

>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=85.85  E-value=0.6  Score=44.75  Aligned_cols=50  Identities=22%  Similarity=0.556  Sum_probs=35.9

Q ss_pred             cCceeccc-ccCCCce-eecCCCCceecHHHHHHHHhcCC-CCCcccccccCCC
Q 039646          101 DCAVCLCE-FSEHDNL-RLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSSD  151 (325)
Q Consensus       101 ~C~ICle~-~~~~~~~-~~lp~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~~  151 (325)
                      .|++|-.+ |..++.. .+-+ |+|..|..|++..+..+. .||.|-..+....
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n   54 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKNN   54 (300)
T ss_pred             CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence            48999864 4444433 3335 999999999999887654 5999987665443

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

Probab=85.32  E-value=0.24  Score=51.96  Aligned_cols=42  Identities=26%  Similarity=0.590  Sum_probs=31.3

Q ss_pred             CcCceecccccCCCc-eeecCCCCceecHHHHHHHHhcCCCCCcccc
Q 039646          100 FDCAVCLCEFSEHDN-LRLLPSCSHAFHITCIDTWLLSNSTCPLCRG  145 (325)
Q Consensus       100 ~~C~ICle~~~~~~~-~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~  145 (325)
                      ..|.||+..|..... ++-+- |||..|..|+..-  .+.+|| |..
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCccccc-ccchHHHHHHHhH--hhccCC-CCc
Confidence            469999988866543 44454 9999999999874  467788 554

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

Probab=84.79  E-value=0.97  Score=47.38  Aligned_cols=44  Identities=27%  Similarity=0.747  Sum_probs=27.8

Q ss_pred             CCCcCceeccc-----ccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccc
Q 039646           98 EPFDCAVCLCE-----FSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRG  145 (325)
Q Consensus        98 ~~~~C~ICle~-----~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~  145 (325)
                      ..+.|.+|...     |+.....+.. .|+++||..|+..   ....||.|-.
T Consensus       510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  510 KGFICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             CeeeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhc---cCCCCCchHH
Confidence            34678888432     3322233344 4999999999544   4555999943

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

Probab=84.78  E-value=0.71  Score=44.71  Aligned_cols=47  Identities=23%  Similarity=0.504  Sum_probs=34.1

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      .+-.+|+||.+.+...  +...+ =||+.|..|-.   ...+.||.||.++..
T Consensus        46 ~~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCcccccccc
Confidence            3456899999998774  22222 26999999965   346779999998863

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

Probab=84.49  E-value=0.37  Score=45.11  Aligned_cols=50  Identities=28%  Similarity=0.685  Sum_probs=36.5

Q ss_pred             CCCcCceeccc-ccCCC-ceeecCCCCceecHHHHHHHHhcCC-CCC--cccccc
Q 039646           98 EPFDCAVCLCE-FSEHD-NLRLLPSCSHAFHITCIDTWLLSNS-TCP--LCRGTL  147 (325)
Q Consensus        98 ~~~~C~ICle~-~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~-tCP--lCR~~l  147 (325)
                      .+..|+||..+ |..++ .+.+-|.|-|..|..|+++-+...+ .||  -|-+-|
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            45679999976 33333 3445566999999999999998755 599  786544

>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=84.19  E-value=1.3  Score=37.44  Aligned_cols=30  Identities=17%  Similarity=0.298  Sum_probs=21.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 039646           18 LLLILVIVAVVFFIFGLVHLLIRYLKKRPS   47 (325)
Q Consensus        18 iliIi~IL~vv~~ii~ll~ll~r~l~rr~~   47 (325)
                      -.++.+|+++++.|+++++|+..+++|++.
T Consensus        64 ~~i~~Ii~gv~aGvIg~Illi~y~irR~~K   93 (122)
T PF01102_consen   64 PAIIGIIFGVMAGVIGIILLISYCIRRLRK   93 (122)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred             cceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            378888888888888777666655555543

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.78  E-value=0.51  Score=44.54  Aligned_cols=52  Identities=19%  Similarity=0.553  Sum_probs=35.3

Q ss_pred             CCCCcCceecccccCCCce-eecCCCC-----ceecHHHHHHHHhcC--------CCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNL-RLLPSCS-----HAFHITCIDTWLLSN--------STCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~-~~lp~C~-----H~FH~~CI~~Wl~~~--------~tCPlCR~~l~~  149 (325)
                      ..+..|=||+..=+++... -+-| |.     |-.|..|+..|+..+        -+||.|+.+..-
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            3456799999764443221 1334 53     789999999999642        249999998654

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

Probab=82.58  E-value=0.82  Score=47.60  Aligned_cols=47  Identities=36%  Similarity=0.862  Sum_probs=38.5

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNS  153 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~  153 (325)
                      ...|.||+.+.    ..+..+ |.   |..|+..|+..+..||+|+..+......
T Consensus       479 ~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~  525 (543)
T KOG0802|consen  479 NDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL  525 (543)
T ss_pred             cCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence            46799999987    455666 88   9999999999999999999887765443

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

Probab=82.19  E-value=0.67  Score=43.91  Aligned_cols=51  Identities=29%  Similarity=0.687  Sum_probs=37.0

Q ss_pred             CCcCceecccccCCCc-eeecCCCC-----ceecHHHHHHHHh--cCCCCCcccccccCC
Q 039646           99 PFDCAVCLCEFSEHDN-LRLLPSCS-----HAFHITCIDTWLL--SNSTCPLCRGTLSSS  150 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~-~~~lp~C~-----H~FH~~CI~~Wl~--~~~tCPlCR~~l~~~  150 (325)
                      ...|-||+++...... ....| |.     +..|..|+..|+.  ....|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4679999997654322 34556 65     5689999999998  455699998866554

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

Probab=81.24  E-value=1.2  Score=38.15  Aligned_cols=53  Identities=21%  Similarity=0.516  Sum_probs=37.0

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHh---cCCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL---SNSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~---~~~tCPlCR~~l~~~  150 (325)
                      .-.+|-||.|.-.+..-+.--.-||-..|..|-...++   .++.||.|+..+...
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            34679999988654332221124899999998877555   477899999988654

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

Probab=80.84  E-value=1.1  Score=48.50  Aligned_cols=50  Identities=24%  Similarity=0.626  Sum_probs=36.8

Q ss_pred             CCCcCceecccccCCCceeecCCCCc-----eecHHHHHHHHhcC--CCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSH-----AFHITCIDTWLLSN--STCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H-----~FH~~CI~~Wl~~~--~tCPlCR~~l~~  149 (325)
                      +...|-||..+=..++.+ .-| |..     ..|.+|+.+|+.-.  ..|-+|+.++.=
T Consensus        11 d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F   67 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF   67 (1175)
T ss_pred             cchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence            346799999886665554 445 653     58999999999853  349999987743

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.80  E-value=0.81  Score=43.99  Aligned_cols=32  Identities=22%  Similarity=0.686  Sum_probs=24.6

Q ss_pred             CCceecHHHHHHHHh-------------cCCCCCcccccccCCCC
Q 039646          121 CSHAFHITCIDTWLL-------------SNSTCPLCRGTLSSSDN  152 (325)
Q Consensus       121 C~H~FH~~CI~~Wl~-------------~~~tCPlCR~~l~~~~~  152 (325)
                      |.-.+|.+|+.+|+.             .+-+||+||+.+.-.+.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            567789999999874             24579999998876543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	325
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-11
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		3e-09
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		8e-08
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-05
2ecl_A	81	Solution Structure Of The Ring Domain Of The Human		4e-04
1chc_A	68	Structure Of The C3hc4 Domain By 1h-Nuclear Magneti		6e-04

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

Iteration: 1
 Score = 67.0 bits (162), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 26/47 (55%), Positives = 32/47 (68%)
Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL 147
           +CAVCL E  + +  R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 85  LPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           LP + +       E   C VC+C+F     LR+LP C+H FH  C+D WL +N TCP+CR
Sbjct: 9   LPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
Query: 145 G 145
Sbjct: 68  A 68

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/43 (46%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           C +CL    E +++R LP C H FH  C+D WL++N  CP+CR
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 82  IDALP-MFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTC 140
           IDALP +   +D   + +   C +C  E+ + D    LP C H FH  C+  WL  + TC
Sbjct: 22  IDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTC 80
Query: 141 PLCR 144
           P+CR
Sbjct: 81  PVCR 84

>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 = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 37/58 (63%), Gaps = 2/58 (3%)
Query: 100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENP 157
            +C VC  +++  +++R LP C+H FH +CI  WL  + +CP+CR +L +  N+  NP
Sbjct: 16  LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL-TGQNTATNP 71

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLC 143
           CAVCL +F   D L + P C HAFH  C+  WL     CPLC
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring-Box Protein 2 Length = 81

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           C  C  E  + D + +   C+H+FH  C+  W+  N+ CPLC+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic Resonance Spectroscopy; A New Structural Class Of Zinc- Finger Length = 68

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLEN 156
           C +CL    +  N  +   C HAF   CI  W+  N TCPLC+  + S  +++E+
Sbjct: 8   CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	325
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-32
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	8e-29
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-20
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-15
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	6e-13
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	3e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	5e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	8e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-09
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	7e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	8e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	8e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	8e-04

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

 Score =  114 bits (288), Expect = 2e-32
 Identities = 27/72 (37%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 79  QSLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS 138
                 LP + +       E   C VC+C+F     LR+LP C+H FH  C+D WL +N 
Sbjct: 3   SGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR 61

Query: 139 TCPLCRGTLSSS 150
           TCP+CR     S
Sbjct: 62  TCPICRADSGPS 73

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

 Score =  104 bits (262), Expect = 8e-29
 Identities = 26/53 (49%), Positives = 34/53 (64%)

Query: 95  GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL 147
            + +  +CAVCL E  + +  R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 95.9 bits (239), Expect = 4e-25
 Identities = 25/85 (29%), Positives = 36/85 (42%), Gaps = 7/85 (8%)

Query: 66  LQQLFRLHDS-----GLDQSLIDALPMFYY-KDIVGLKEPFDCAVCLCEFSEHDNLRLLP 119
           +      H          +  IDALP     +D   + +   C +C  E+ + D    LP
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 120 SCSHAFHITCIDTWLLSNSTCPLCR 144
            C H FH  C+  WL  + TCP+CR
Sbjct: 61  -CHHYFHKPCVSIWLQKSGTCPVCR 84

>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 = 90.5 bits (225), Expect = 2e-23
 Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNS 153
            C +CL    E +++R LP C H FH  C+D WL++N  CP+CR  + +   S
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPS 67

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

 Score = 85.9 bits (213), Expect = 1e-21
 Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLE 155
           +    +C VC  +++  +++R LP C+H FH +CI  WL  + +CP+CR +L+  + +  
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70

Query: 156 NP 157
            P
Sbjct: 71  PP 72

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

 Score = 83.3 bits (206), Expect = 1e-20
 Identities = 24/59 (40%), Positives = 28/59 (47%), Gaps = 2/59 (3%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLENPVS 159
            CAVCL +F   D L + P C HAFH  C+  WL     CPLC   +      L  P S
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL-AQLSGPSS 73

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

 Score = 76.5 bits (188), Expect = 5e-18
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 97  KEPFD--CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           +      C  C  E  + D + +   C+H+FH  C+  W+  N+ CPLC+
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 74.4 bits (183), Expect = 2e-17
 Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 5/58 (8%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNS 153
           L +  +C +C+   ++     +LP C+H+F   CID W   +  CP+CR  ++ ++ S
Sbjct: 12  LTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANES 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 Length = 55

 Score = 73.5 bits (181), Expect = 3e-17
 Identities = 15/48 (31%), Positives = 20/48 (41%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS 148
            C +CL +      +  +  C H  H TC +  L     CPLC G  S
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 68.6 bits (168), Expect = 3e-15
 Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLEN 156
           C +CL + S  +    LP C HAF   CI  W+  N TCPLC+  + S  +++E+
Sbjct: 8   CPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

>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 = 63.3 bits (153), Expect = 6e-13
 Identities = 13/46 (28%), Positives = 18/46 (39%)

Query: 99  PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
             +C       +  +       C+HAFH  CI  WL +   CPL  
Sbjct: 51  CIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 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 = 61.8 bits (149), Expect = 3e-12
 Identities = 13/46 (28%), Positives = 18/46 (39%)

Query: 99  PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
             +C       +  +       C+HAFH  CI  WL +   CPL  
Sbjct: 62  CIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 59.9 bits (145), Expect = 3e-12
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 3/53 (5%)

Query: 100 FDCAVCLCEFSEHDNLRLLPS---CSHAFHITCIDTWLLSNSTCPLCRGTLSS 149
             C +C+  +SE      L     C H F   C+   L + +TCP CR  ++ 
Sbjct: 16  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

>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 = 60.7 bits (147), Expect = 5e-12
 Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 4/57 (7%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSSSD 151
           + E F C +C+ +     + RL P CS     +CI  WL    + CP CR  L   +
Sbjct: 19  IAEVFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE 72

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

 Score = 59.0 bits (143), Expect = 8e-12
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLPS---CSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
               C +C+  +SE      L     C H F   C+   L + +TCP CR  ++   
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

>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 = 57.9 bits (140), Expect = 2e-11
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 100 FDCAVCLCEFSEHDNLRLLPS---CSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
             C +C+  +SE      L     C H F   C+   L + +TCP CR  ++   
Sbjct: 11  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65

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

 Score = 55.5 bits (134), Expect = 2e-10
 Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 4/64 (6%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLE 155
           L     C++C     +      +  C H F  +CI      ++ CP C   +  +   L 
Sbjct: 12  LTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ-PLS 67

Query: 156 NPVS 159
            P S
Sbjct: 68  GPSS 71

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

 Score = 50.6 bits (121), Expect = 8e-09
 Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 12/73 (16%)

Query: 91  KDIVGLKEPFDCAVCLCEFSEHDNLRLLPS---CSHAFHITCIDTWLLSNSTCPLCRGTL 147
            +        +CA+CL            P    C H F   C+         C LCR  +
Sbjct: 7   GNTAPSLTVPECAICLQTCVH-------PVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

Query: 148 SSSDNSLENPVSS 160
              ++ L++  SS
Sbjct: 60  --PEDFLDSGPSS 70

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

 Score = 50.9 bits (122), Expect = 1e-08
 Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 7/75 (9%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD---- 151
           + +   C +C   F+      ++P CSH +   CI  +L   + CP C  T++  D    
Sbjct: 19  IDDLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNN 75

Query: 152 NSLENPVSSFDVSRE 166
             L+  V S + +R 
Sbjct: 76  RILDELVKSLNFARN 90

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

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 97  KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           + PF C +C   F      +    C H F  +C      +   C +C 
Sbjct: 13  EIPFRCFICRQAFQNPVVTK----CRHYFCESCALEHFRATPRCYICD 56

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

 Score = 50.9 bits (121), Expect = 3e-08
 Identities = 19/92 (20%), Positives = 30/92 (32%), Gaps = 3/92 (3%)

Query: 97  KEPFDCAVCLCEFSEHDNLRLLP---SCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNS 153
                C +C+  +SE      L     C H F   C+   L + +TCP CR  ++     
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 154 LENPVSSFDVSREISTGFTTDEENGFSGRHKP 185
                S          G++   +NG       
Sbjct: 65  PIYIGSGTVSCPICMDGYSEIVQNGRLIVSTE 96

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

 Score = 37.8 bits (87), Expect = 9e-04
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLPS---CSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
               C +C+  +SE      L     C H F   C+   L + +TCP CR  ++   
Sbjct: 71  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 127

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

 Score = 53.3 bits (127), Expect = 3e-08
 Identities = 16/74 (21%), Positives = 26/74 (35%), Gaps = 15/74 (20%)

Query: 98  EPFDCAVCLCEFSEHDNLRLL----PSCSHAFHITCIDTWLLSNS-----------TCPL 142
           E   C +C     +   + L+      C    H  C++ W  +              CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 143 CRGTLSSSDNSLEN 156
           C+  LS+S  +L N
Sbjct: 367 CKAKLSTSFAALLN 380

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

 Score = 50.0 bits (119), Expect = 7e-08
 Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 4/59 (6%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSL 154
           L+    C +C   F E     +  +C+H+F   CI+ W+     CP+CR  + S   SL
Sbjct: 61  LENELQCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 115

>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 = 49.0 bits (117), Expect = 8e-08
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 3/56 (5%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
           L     C +C   F   D   ++  C H+F  TCI  +L ++  CP+C   +  + 
Sbjct: 12  LNPHLMCVLCGGYF--IDATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64

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

 Score = 47.2 bits (112), Expect = 1e-07
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 5/46 (10%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPLCR 144
            C +C     +    +   +C    H+ C+  +  S     CP C 
Sbjct: 17  ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 48.3 bits (114), Expect = 2e-07
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 19/63 (30%)

Query: 101 DCAVCLCEFSEH--------------DNLRLLPSCSHAFHITCIDTWLLSNS-----TCP 141
           DC +C+ + +                  +  L  CSHAFH+ C+     + +      CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 142 LCR 144
            C+
Sbjct: 87  SCK 89

>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 = 46.7 bits (111), Expect = 2e-07
 Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 6/66 (9%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS--TCPLCRGTLSSSDNS 153
           + +   C +C        +  ++P C +++   CI T LL +   TCP C     S D +
Sbjct: 12  IPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD-A 67

Query: 154 LENPVS 159
           L  P S
Sbjct: 68  LSGPSS 73

>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 = 2e-06
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN--STCPLCRGTLSSSDN 152
           + +   C +C        +  ++P C +++   CI T LL +   TCP C     S D 
Sbjct: 10  IPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 65

>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 = 48.2 bits (114), Expect = 2e-06
 Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSSD 151
               C +C        ++++ P C H    +C+ +W  S    CP CR  +  ++
Sbjct: 331 TFQLCKICAENDK---DVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

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

 Score = 43.2 bits (102), Expect = 5e-06
 Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 5/53 (9%)

Query: 96  LKEPFDCAVCLCEFSEHDNL-RLLPSCSHAFHITCIDTWLLSNS---TCPLCR 144
           L+E  +C +C+  F+E     +LL  C H     C++  L S+     CP C 
Sbjct: 12  LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 5/57 (8%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD 151
           +++ + C  C               C H F  +C+   L S +  C  C+ ++    
Sbjct: 12  VEDKYKCEKCHLVLCS----PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

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

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 15/70 (21%), Positives = 27/70 (38%), Gaps = 2/70 (2%)

Query: 97  KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSDNSLE 155
           ++P +C +C+      D      +C +     C        N  CP CR      D ++ 
Sbjct: 9   EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY-PEDPAVY 67

Query: 156 NPVSSFDVSR 165
            P+S  ++ R
Sbjct: 68  KPLSQEELQR 77

>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 = 42.3 bits (99), Expect = 3e-05
 Identities = 14/56 (25%), Positives = 19/56 (33%), Gaps = 5/56 (8%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSS 150
           ++E F C  C               C H     C+D    +   +CP CR  L  S
Sbjct: 49  VEETFQCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRS 100

>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 = 41.8 bits (98), Expect = 3e-05
 Identities = 18/77 (23%), Positives = 26/77 (33%), Gaps = 11/77 (14%)

Query: 91  KDIVGLKEPFDCAVCLCEFSEHDNLRLLP---SCSHAFHITCI-DTWLLSNSTCPLCRGT 146
           KD +       C +C+    E       P    C+H     C   T   ++  CP CR  
Sbjct: 7   KDAIPSLSECQCGICMEILVE-------PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRR 59

Query: 147 LSSSDNSLENPVSSFDV 163
           +SS         S  +V
Sbjct: 60  VSSWTRYHTRRNSLVNV 76

>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 = 40.6 bits (95), Expect = 8e-05
 Identities = 16/87 (18%), Positives = 34/87 (39%), Gaps = 9/87 (10%)

Query: 82  IDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTC 140
           ++ +  +  +    L+  ++C +CL      + ++    C H F   CI   +  +   C
Sbjct: 1   MEEIQGYDVEFDPPLESKYECPICLMAL--REAVQT--PCGHRFCKACIIKSIRDAGHKC 56

Query: 141 PLCRGTLSSS----DNSLENPVSSFDV 163
           P+    L  +    DN  +  + S  V
Sbjct: 57  PVDNEILLENQLFPDNFAKREILSLMV 83

>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 = 41.5 bits (97), Expect = 8e-05
 Identities = 18/58 (31%), Positives = 20/58 (34%), Gaps = 4/58 (6%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL-LSNSTCPLCRGTLSSSDN 152
           L     C +CL              C H F   CI T L   N  CP CR  L S  +
Sbjct: 51  LHSELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRS 105

>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 = 41.2 bits (96), Expect = 1e-04
 Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 9/73 (12%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL-LSNSTCPLCRGTLSSS---- 150
           L+  ++C +CL    E     +   C H F   CI   +  +   CP+    L  +    
Sbjct: 15  LESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP 70

Query: 151 DNSLENPVSSFDV 163
           DN  +  + S  V
Sbjct: 71  DNFAKREILSLMV 83

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

 Score = 40.3 bits (94), Expect = 1e-04
 Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 13/70 (18%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLP---SCSHAFHITCIDTWL-LSNSTCPLCRGTLSSSD 151
             +   C +C    ++       P   SC H F   CI   L +  S CP CR     +D
Sbjct: 20  FVKSISCQICEHILAD-------PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

Query: 152 NSLENPVSSF 161
             LE+PV SF
Sbjct: 73  --LESPVKSF 80

>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 = 14/48 (29%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 102 CAVCLCEFSEHDNLRLLPSCS---HAFHITCIDTWLLS--NSTCPLCR 144
           C +C CE  +   L     C+   H  H  C+  W+ S     C LC+
Sbjct: 18  CRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

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

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 11/60 (18%), Positives = 17/60 (28%), Gaps = 5/60 (8%)

Query: 87  MFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--NSTCPLCR 144
           M  Y           C +C     +        +C    H+ C+  +  S     CP C 
Sbjct: 168 MEQYIRETYPDAVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCN 224

>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 = 38.3 bits (89), Expect = 3e-04
 Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 1/40 (2%)

Query: 95  GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL 134
           G      C +CL E+        +  C   F   C+  ++
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYV 39

>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 = 39.3 bits (91), Expect = 3e-04
 Identities = 15/92 (16%), Positives = 28/92 (30%), Gaps = 7/92 (7%)

Query: 79  QSLIDALPMFYYKDIVG--LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS 136
              ++ L   + K ++G  L+  + C+ C          +    C H +   C+ + L S
Sbjct: 9   PGSLELLQPGFSKTLLGTKLEAKYLCSACRNVL--RRPFQA--QCGHRYCSFCLASILSS 64

Query: 137 -NSTCPLCRGTLSSSDNSLENPVSSFDVSREI 167
               C  C       +       SS       
Sbjct: 65  GPQNCAACVHEGIYEEGISILESSSAFPDNAA 96

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 37.2 bits (86), Expect = 5e-04
 Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLPS-CSHAFHITCIDTWLLSNS-TCPLCRGTLSSSD 151
           +   C  C      + +L+L+ + C H    +C+D   +  +  CP C   L  S+
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

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

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 7/43 (16%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           C  C  E       +LLP C H     C++   +    CP+C+
Sbjct: 9   CQQCQAEAKCP---KLLP-CLHTLCSGCLEASGMQ---CPICQ 44

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	325
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.65
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.62
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.51
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.49
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.48
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.47
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.38
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.37
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.36
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.35
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.35
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.33
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.32
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.31
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.28
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.27
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.26
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.24
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.23
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.22
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.21
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.2
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.19
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.18
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.18
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.17
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.17
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.17
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.15
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.14
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.1
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.09
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.06
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.03
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.01
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.0
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.98
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.96
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.96
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.96
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.95
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.94
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.93
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.9
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.89
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.84
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.82
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.8
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.8
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.8
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.71
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.71
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.69
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.68
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.62
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.58
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.53
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.51
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.45
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.44
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.39
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.35
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.27
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.25
3nw0_A	238	Non-structural maintenance of chromosomes element	97.9
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.83
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.99
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.63
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.23
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	89.57
1we9_A	64	PHD finger family protein; structural genomics, PH	86.98
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	86.71
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	84.8
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	84.13
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	83.83
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	83.68
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	83.37
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	82.79
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	82.14
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	81.71
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	80.91
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	80.87
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	80.19

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

Probab=99.65  E-value=1.3e-16  Score=125.35  Aligned_cols=77  Identities=31%  Similarity=0.720  Sum_probs=67.6

Q ss_pred             hcCCCCCHHHHhhCCceeeecccC-CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           72 LHDSGLDQSLIDALPMFYYKDIVG-LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        72 ~~~~g~~~~~i~~Lp~~~~~~~~~-~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ....+++++.|+.||.+.+..... ..+...|+||++.|..++.++.+| |+|.||..||..|+..+.+||+||+.+..
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            345789999999999998876543 456678999999999999999999 99999999999999999999999998865

>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=1.7e-16  Score=119.94  Aligned_cols=70  Identities=39%  Similarity=0.898  Sum_probs=61.7

Q ss_pred             HHHhhCCceeeecccCCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           80 SLIDALPMFYYKDIVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        80 ~~i~~Lp~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      +.++.||.+++.......+...|+||++.|..++.++.+| |+|.||..||.+|+..+.+||+||+++...
T Consensus         4 ~~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hhHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            3567899998887666667789999999999988899999 999999999999999999999999988653

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

Probab=99.51  E-value=8.7e-15  Score=103.62  Aligned_cols=52  Identities=50%  Similarity=1.118  Sum_probs=46.9

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      .+..+|+||++.|..++.+..++.|+|.||..||.+|+..+.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4567899999999998888888779999999999999999999999998764

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

Probab=99.49  E-value=2e-14  Score=108.97  Aligned_cols=58  Identities=33%  Similarity=0.895  Sum_probs=50.9

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSL  154 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~~~  154 (325)
                      ..+...|+||++.|...+.++.++ |+|.||..||.+|+..+.+||+||+.+.......
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCC
Confidence            455678999999999888888898 9999999999999999999999999988765443

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

Probab=99.48  E-value=3.9e-14  Score=106.30  Aligned_cols=55  Identities=40%  Similarity=0.817  Sum_probs=49.1

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      .......|+||++.|.....++.++ |+|.||..||.+|+..+.+||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            3455678999999999988888998 999999999999999999999999988653

>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=99.47  E-value=5.2e-14  Score=104.20  Aligned_cols=54  Identities=37%  Similarity=0.974  Sum_probs=48.4

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ......|+||++.|..++.++.++ |+|.||..||..|+..+.+||+||..+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345678999999998888899999 999999999999999999999999988764

>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=99.38  E-value=4.3e-13  Score=108.68  Aligned_cols=52  Identities=29%  Similarity=0.636  Sum_probs=42.1

Q ss_pred             CCCcCceecccccCCC---------------ceeecCCCCceecHHHHHHHH-----hcCCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEHD---------------NLRLLPSCSHAFHITCIDTWL-----LSNSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~---------------~~~~lp~C~H~FH~~CI~~Wl-----~~~~tCPlCR~~l~~~  150 (325)
                      .+..|+||++.|....               .+++++ |+|.||..||..|+     ..+.+||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4468999999996643               334677 99999999999999     4567899999988654

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

Probab=99.37  E-value=1.3e-13  Score=106.14  Aligned_cols=52  Identities=31%  Similarity=0.779  Sum_probs=41.8

Q ss_pred             CCCcCceecccccC-----------CCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSE-----------HDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~-----------~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ++..|+||+++|..           ++.++.++.|+|.||..||.+||..+.+||+||+++..
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            34568888887753           45466665699999999999999999999999998754

>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=99.36  E-value=4.5e-13  Score=94.58  Aligned_cols=50  Identities=34%  Similarity=0.777  Sum_probs=43.0

Q ss_pred             CCCcCceecccccCCC-ceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHD-NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      +...|+||++.|...+ .++.++ |+|.||..||.+|+..+.+||+||+.+.
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            4568999999996543 467777 9999999999999999999999998764

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

Probab=99.35  E-value=4.7e-13  Score=99.18  Aligned_cols=54  Identities=26%  Similarity=0.632  Sum_probs=45.9

Q ss_pred             CCCCcCceecccccCC----CceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .+...|+||++.|...    +.++.++ |||.||..||.+|+..+.+||+||+.+....
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            4567899999998653    4457777 9999999999999999999999999987654

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

Probab=99.35  E-value=5.7e-13  Score=97.91  Aligned_cols=53  Identities=26%  Similarity=0.630  Sum_probs=44.8

Q ss_pred             CCCCCcCceecccccCC----CceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           96 LKEPFDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ..+...|+||++.|...    ..+..++ |+|.||..||..|+..+.+||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            45667899999998763    3446777 99999999999999999999999998754

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

Probab=99.33  E-value=6.5e-13  Score=98.52  Aligned_cols=52  Identities=31%  Similarity=0.880  Sum_probs=45.0

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ...+...|+||++.+..    +.++ |+|.||..||..|+..+.+||+||+.+....
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             cCCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            34567789999999866    6778 9999999999999999999999999887654

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

Probab=99.32  E-value=6.3e-13  Score=96.28  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=44.4

Q ss_pred             CCCcCceecccccCC----CceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      +...|+||++.|...    +.+..++ |||.||..||.+|+..+.+||+||+.+...
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            456899999998753    4456777 999999999999999999999999988754

>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=99.31  E-value=1.2e-12  Score=106.30  Aligned_cols=50  Identities=30%  Similarity=0.653  Sum_probs=42.3

Q ss_pred             CCCcCceecccccCCC---------------ceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHD---------------NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~---------------~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ++..|+||++.|...-               .++.++ |+|.||..||.+||..+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4568999999997541               256677 9999999999999999999999999853

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

Probab=99.28  E-value=2.7e-12  Score=96.01  Aligned_cols=54  Identities=20%  Similarity=0.508  Sum_probs=44.4

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .+.+...|+||++.|.+  .+.+++ |+|.||..||..|+..+..||+||+.+....
T Consensus        11 ~~~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           11 ELTPYILCSICKGYLID--ATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCGGGSCTTTSSCCSS--CEECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hcCCCCCCCCCChHHHC--cCEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            34566789999999876  233347 9999999999999999999999999887654

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

Probab=99.27  E-value=2.8e-12  Score=95.63  Aligned_cols=50  Identities=28%  Similarity=0.605  Sum_probs=43.3

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      .+...|+||++.+..   .+.++ |+|.||..||..|+..+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            456789999999865   56778 999999999999999999999999988643

>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=5.8e-12  Score=96.91  Aligned_cols=55  Identities=29%  Similarity=0.749  Sum_probs=46.6

Q ss_pred             CCCCCCcCceecccccCCCc-eeecCCCCceecHHHHHHHHhcC---CCCCcccccccCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDN-LRLLPSCSHAFHITCIDTWLLSN---STCPLCRGTLSSS  150 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~-~~~lp~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l~~~  150 (325)
                      ...+...|+||++.|...+. ++.++ |||.||..||..|+..+   ..||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             hccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            34567889999999987665 77888 99999999999999875   7899999987654

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

Probab=99.24  E-value=5e-12  Score=93.06  Aligned_cols=49  Identities=41%  Similarity=0.863  Sum_probs=42.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ....|+||++.+..  .++.++ |+|.||..||..|+..+.+||+||..+..
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            45679999999864  357788 99999999999999999999999998764

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

Probab=99.23  E-value=6.8e-12  Score=94.44  Aligned_cols=54  Identities=28%  Similarity=0.642  Sum_probs=43.5

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC--CCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN--STCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~~  151 (325)
                      ...+...|+||++.|.+   ++.++.|+|.||..||..|+..+  ..||+||+.+...+
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           11 PIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             CSCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             cCCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            34556789999999876   45566699999999999999865  68999999765543

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

Probab=99.22  E-value=1.1e-11  Score=92.31  Aligned_cols=53  Identities=26%  Similarity=0.601  Sum_probs=43.8

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh---cCCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL---SNSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~---~~~tCPlCR~~l~~~~  151 (325)
                      ...+...|+||++.|..   ++.++ |||.||..||..|+.   ....||+||+.+....
T Consensus        16 ~~~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           16 KLQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             hCccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            34567889999999875   66677 999999999999997   4567999999886543

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

Probab=99.21  E-value=7.8e-12  Score=96.43  Aligned_cols=53  Identities=28%  Similarity=0.742  Sum_probs=44.0

Q ss_pred             CCCCcCceecccccCCCceeecCCCC-----ceecHHHHHHHHhcC--CCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCS-----HAFHITCIDTWLLSN--STCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~~  151 (325)
                      .+...|.||+++|..++.+ ++| |+     |.||..||++||..+  .+||+||..+....
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            3456899999999877665 688 96     999999999999865  48999999987543

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

Probab=99.20  E-value=1.1e-11  Score=94.62  Aligned_cols=49  Identities=22%  Similarity=0.548  Sum_probs=42.9

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ......|+||++.|..   +.+++ |+|.||..||..|+.....||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3456789999999865   55788 9999999999999999899999999885

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

Probab=99.19  E-value=1.1e-11  Score=90.98  Aligned_cols=52  Identities=19%  Similarity=0.600  Sum_probs=42.7

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcccccccCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSSS  150 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~  150 (325)
                      ...+...|+||++.+...   ..++ |||.||..||..|+. ....||+||+.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSP---KQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             SCCCCEECTTTCCEESSC---CCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCcCCCCCCCChHhcCe---eECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            345677899999998763   4467 999999999999995 567899999988654

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

Probab=99.18  E-value=1.6e-11  Score=92.74  Aligned_cols=52  Identities=23%  Similarity=0.517  Sum_probs=44.5

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ..+...|+||++.|.+   ++.++ |||.||..||..|+.. +.+||+||..+....
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            4567889999999866   56778 9999999999999987 778999999887653

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

Probab=99.18  E-value=1.1e-11  Score=104.36  Aligned_cols=49  Identities=33%  Similarity=0.838  Sum_probs=42.8

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ++..|+||++.|..   ++++| |||.||..||..|+..+.+||+||+++...
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            34679999999865   67788 999999999999999999999999988543

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

Probab=99.17  E-value=2e-11  Score=92.85  Aligned_cols=53  Identities=30%  Similarity=0.610  Sum_probs=44.3

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc------CCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS------NSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~------~~tCPlCR~~l~~~~  151 (325)
                      ...+...|+||++.|..   ...++ |+|.||..||..|+..      ...||+||..+....
T Consensus        15 ~~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKE---PVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CCCTTTSCTTTCSCCSS---CEECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             hCccCCCCcCCChhhCc---ceeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            34567889999999866   44778 9999999999999987      667999999887643

>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=99.17  E-value=2.8e-12  Score=105.85  Aligned_cols=50  Identities=30%  Similarity=0.692  Sum_probs=1.0

Q ss_pred             CCCcCceecccccCC-------------C--ceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEH-------------D--NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~-------------~--~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      .+..|+||+++|...             +  .+..++ |+|.||..||.+||..+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            456899999999652             1  223345 9999999999999999999999999754

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

Probab=99.17  E-value=2.5e-11  Score=92.34  Aligned_cols=55  Identities=27%  Similarity=0.634  Sum_probs=45.4

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc------CCCCCcccccccCCCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS------NSTCPLCRGTLSSSDNS  153 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~------~~tCPlCR~~l~~~~~~  153 (325)
                      ...+...|+||++.|..   +..++ |+|.||..||..|+..      ...||+||..+......
T Consensus        15 ~~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQ---PLSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCCTTTCSCCSS---CBCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCC
T ss_pred             HccCCCCCCCCCcccCC---ceeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcC
Confidence            34567889999999865   45677 9999999999999987      77899999998765433

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

Probab=99.15  E-value=7.8e-12  Score=94.41  Aligned_cols=53  Identities=28%  Similarity=0.588  Sum_probs=44.1

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-------CCCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-------NSTCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-------~~tCPlCR~~l~~~~  151 (325)
                      ...+...|+||++.|..   ++.++ |||.||..||..|+..       ...||+||..+....
T Consensus         8 ~~~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            8 NVQEEVTCPICLELLTE---PLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCCEETTTTEECSS---CCCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             hcccCCCCcCCCcccCC---eeECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            34567889999999866   45678 9999999999999986       567999999887643

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

Probab=99.14  E-value=4.2e-11  Score=91.10  Aligned_cols=51  Identities=20%  Similarity=0.542  Sum_probs=41.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC--CCCCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN--STCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~~~~  151 (325)
                      ....|+||++.|..++...   .|+|.||..||.+||+.+  .+||+||+++....
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            3467999999998654333   499999999999999987  78999998876543

>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=99.11  E-value=3.2e-11  Score=96.05  Aligned_cols=51  Identities=33%  Similarity=0.833  Sum_probs=42.8

Q ss_pred             CCCCcCceecccccCCCceee-cCCCCceecHHHHHHHHhcC-CCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRL-LPSCSHAFHITCIDTWLLSN-STCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~-lp~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~  151 (325)
                      .+...|+||++.|..   ++. ++ |||.||..||..|+... .+||+||..+....
T Consensus        20 ~~~~~C~IC~~~~~~---p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD---ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCccCCccccC---ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            345789999999865   555 77 99999999999999987 68999999986543

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

Probab=99.10  E-value=3.5e-11  Score=98.73  Aligned_cols=54  Identities=26%  Similarity=0.632  Sum_probs=45.7

Q ss_pred             CCCCcCceecccccCC----CceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .+...|+||++.|...    +.++.++ |||.||..||.+|+..+.+||+||+.+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            3567899999999763    4457788 9999999999999999999999999886543

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

Probab=99.09  E-value=8.4e-11  Score=85.33  Aligned_cols=45  Identities=31%  Similarity=0.668  Sum_probs=38.1

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh---cCCCCCcc
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL---SNSTCPLC  143 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~---~~~tCPlC  143 (325)
                      ...+...|+||++.|.+   ++.++ |||.||..||..|+.   ....||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            45567889999999875   56677 999999999999998   45689998

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

Probab=99.07  E-value=5.2e-11  Score=94.18  Aligned_cols=49  Identities=27%  Similarity=0.709  Sum_probs=42.0

Q ss_pred             CCCcCceecccccCCCceeec-CCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLL-PSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~l-p~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      +...|+||++.|..   ++.+ + |||.||..||..|+..+.+||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNI---AMIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCC---cCEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            45689999999875   4455 6 999999999999999989999999988753

>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=99.07  E-value=4.9e-11  Score=95.91  Aligned_cols=51  Identities=27%  Similarity=0.650  Sum_probs=43.3

Q ss_pred             CCCCCcCceecccccCCCceeec-CCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLL-PSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~l-p~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      +.+...|+||++.|.+   ++.+ + |||.||..||..|+..+..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFID---ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSS---EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhC---cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            3456789999999865   4455 7 999999999999999999999999988753

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

Probab=99.06  E-value=1.2e-10  Score=95.95  Aligned_cols=49  Identities=27%  Similarity=0.560  Sum_probs=41.9

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC-CCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~  149 (325)
                      .+...|+||++.|..   ++.++ |||.||..||..|+..+. .||+||..+..
T Consensus        50 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            345789999999875   66778 999999999999998544 89999999876

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

Probab=99.05  E-value=1.3e-10  Score=84.89  Aligned_cols=53  Identities=21%  Similarity=0.557  Sum_probs=41.8

Q ss_pred             CCCcCceecc-cccCCCce-eecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           98 EPFDCAVCLC-EFSEHDNL-RLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle-~~~~~~~~-~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ++..|+||++ .|...... ..++ |||.||..||.+|+.. ...||+||+.+....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3567999999 77765443 4566 9999999999999765 467999999886543

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

Probab=99.04  E-value=1.1e-10  Score=90.85  Aligned_cols=51  Identities=25%  Similarity=0.632  Sum_probs=42.0

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC--CCCCccccccc
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN--STCPLCRGTLS  148 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~tCPlCR~~l~  148 (325)
                      .+.+...|+||++.|.+   ++.++.|||.||..||..|+...  ..||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            34567889999999875   45666599999999999999753  58999999874

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

Probab=99.03  E-value=1.4e-10  Score=82.39  Aligned_cols=45  Identities=33%  Similarity=0.840  Sum_probs=37.1

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh---cCCCCCcc
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL---SNSTCPLC  143 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~---~~~tCPlC  143 (325)
                      ...+...|+||++.+..   .+.++ |+|.||..||..|+.   .+..||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKE---PVIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSS---CCCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCc---cEeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34567789999999876   35677 999999999999954   56779998

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

Probab=99.01  E-value=1.4e-10  Score=95.13  Aligned_cols=53  Identities=26%  Similarity=0.646  Sum_probs=44.6

Q ss_pred             CCCCcCceecccccCC----CceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEH----DNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      .+...|+||++.|...    ..++.++ |||.||..||.+|+..+.+||+||..+...
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            4567899999998752    3346777 999999999999999999999999988654

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

Probab=99.00  E-value=1.8e-10  Score=92.54  Aligned_cols=51  Identities=25%  Similarity=0.607  Sum_probs=42.0

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC---CCCcccccccCCCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS---TCPLCRGTLSSSDNS  153 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~---tCPlCR~~l~~~~~~  153 (325)
                      ...|+||++.|..   +..++ |||.||..||..|+..+.   .||+||..+......
T Consensus        21 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~   74 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQ   74 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCB
T ss_pred             CCCCcccChhhcC---eEECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcC
Confidence            4579999999865   44577 999999999999998654   899999988765443

>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=98.98  E-value=1.8e-10  Score=94.14  Aligned_cols=52  Identities=27%  Similarity=0.630  Sum_probs=43.6

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC-CCCcccccccCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSS  150 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  150 (325)
                      .+.+...|+||++.+..   ++.++ |||.||..||..|+.... +||+||..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           14 PLESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCcCChhhcC---eEECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            34566789999999876   56677 999999999999998765 899999988653

>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=98.96  E-value=4.3e-10  Score=96.21  Aligned_cols=50  Identities=22%  Similarity=0.525  Sum_probs=42.7

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC-CCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  150 (325)
                      .+...|+||++.|..   ++.++ |||.||..||..|+.... .||+||..+...
T Consensus        76 ~~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            345789999999866   56688 999999999999998754 799999998765

>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=98.96  E-value=3.1e-10  Score=97.80  Aligned_cols=49  Identities=37%  Similarity=0.697  Sum_probs=40.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~  149 (325)
                      +...|+||++.|..  .+.+++ |||.||..||..|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            45689999999876  233347 9999999999999997 7789999998854

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

Probab=98.96  E-value=3.6e-10  Score=87.66  Aligned_cols=51  Identities=22%  Similarity=0.239  Sum_probs=45.3

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      ..+.+.|+||++.|.+   +++++ |||.|+..||..|+..+.+||+||..+...
T Consensus        11 ~p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CchheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            4567899999999977   77888 999999999999999889999999988654

>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=98.95  E-value=4.6e-10  Score=89.85  Aligned_cols=52  Identities=23%  Similarity=0.229  Sum_probs=45.9

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ..+.+.|+||++.|.+   +++++ |||.|+..||..|+..+.+||+||.++....
T Consensus        26 ~p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           26 APDEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             CSTTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             CcHhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            4567899999999977   77888 9999999999999998889999999887643

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

Probab=98.94  E-value=8.1e-10  Score=84.60  Aligned_cols=57  Identities=19%  Similarity=0.438  Sum_probs=43.5

Q ss_pred             CCCCCCcCceecccccCCCce-eecCCCCceecHHHHHHHHhc-CCCCCcccccccCCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNL-RLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSDN  152 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~-~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~~  152 (325)
                      ...++..|+||++.+...+.. ..++ |||.||..|+..++.. ...||+||+.+.....
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            345678899999998654322 2245 9999999999998854 5679999999877544

>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=98.93  E-value=6.7e-10  Score=88.57  Aligned_cols=52  Identities=23%  Similarity=0.269  Sum_probs=45.7

Q ss_pred             CCCCCcCceecccccCCCceeecCCCC-ceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCS-HAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~-H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ..+.+.|+||++.|.+   +++++ || |.|+..||..||..+.+||+||.++....
T Consensus        19 ~p~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             CcHhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhh
Confidence            4567899999999977   67788 99 99999999999998889999999887643

>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=98.90  E-value=7e-10  Score=90.10  Aligned_cols=50  Identities=28%  Similarity=0.551  Sum_probs=42.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      +...|+||++.|.+   +..++ |||.||..||..|+.. ..+||+||..+....
T Consensus        22 ~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            34679999999865   55677 9999999999999987 778999999887643

>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=98.89  E-value=3.3e-10  Score=91.90  Aligned_cols=48  Identities=29%  Similarity=0.715  Sum_probs=41.1

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~  149 (325)
                      ++..|+||++.|..   ++.++ |||.||..||..|+.. +..||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            45679999999875   56778 9999999999999986 6679999998864

>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=98.84  E-value=1.3e-09  Score=79.98  Aligned_cols=47  Identities=21%  Similarity=0.458  Sum_probs=39.5

Q ss_pred             CCCcCceecccccCCCceeec--CCCCce-ecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLL--PSCSHA-FHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~l--p~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ++..|+||++.+.+   +..+  | |||. |+..|+..|+..+..||+||+++.
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            34579999998654   4444  8 9999 899999999998899999999874

>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=98.82  E-value=1.1e-09  Score=92.84  Aligned_cols=51  Identities=20%  Similarity=0.423  Sum_probs=42.6

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC-CCCcccccccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-tCPlCR~~l~~~  150 (325)
                      +.+...|+||++.|..   ++.++ |||.||..||..|+.... .||+||.++...
T Consensus        28 l~~~~~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           28 LEAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             CCcCcCCCCCChhhcC---cEECC-CCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            4567889999999876   45677 999999999999998664 899999987543

>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=98.80  E-value=1.2e-09  Score=89.02  Aligned_cols=48  Identities=23%  Similarity=0.541  Sum_probs=40.4

Q ss_pred             CCCCcCceecccccCCCceeec-CCCCceecHHHHHHHHhcCCCCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLL-PSCSHAFHITCIDTWLLSNSTCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~l-p~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~  150 (325)
                      .+...|+||++.|..   ++.+ + |||.||..||..|+.  ..||+||..+...
T Consensus        20 ~~~~~C~IC~~~~~~---pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           20 EKLLRCSRCTNILRE---PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HHTTSCSSSCSCCSS---CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hhCCCCCCCChHhhC---ccEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            345789999999865   4566 7 999999999999988  7899999998543

>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=98.80  E-value=2.2e-09  Score=104.83  Aligned_cols=48  Identities=23%  Similarity=0.733  Sum_probs=42.0

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHh-cCCCCCcccccccCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-SNSTCPLCRGTLSSS  150 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~tCPlCR~~l~~~  150 (325)
                      ...|+||++.+..   ++.+| |||.||..|+..|+. .+.+||+||..+...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            4689999999855   67888 999999999999998 688899999988654

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

Probab=98.80  E-value=1.3e-09  Score=77.77  Aligned_cols=48  Identities=25%  Similarity=0.634  Sum_probs=39.7

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .+...|+||++.|..   ++.++ |+|.||..||..|   ...||+||+.+..+.
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCC---eEEcC-CCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            355789999999876   56788 9999999999884   668999999887543

>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=98.73  E-value=4.4e-09  Score=76.97  Aligned_cols=46  Identities=15%  Similarity=0.457  Sum_probs=38.4

Q ss_pred             CCcCceecccccCCCceeec--CCCCce-ecHHHHHHHHhcCCCCCccccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLL--PSCSHA-FHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~l--p~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ...|.||++.+.+   ..++  | |||. ||..|+..|...+..||+||+++.
T Consensus         7 ~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRD---GNIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSC---EEEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCC---eEEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4579999997644   3344  8 9998 999999999988889999999874

>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=98.71  E-value=4.9e-09  Score=96.09  Aligned_cols=52  Identities=13%  Similarity=0.202  Sum_probs=43.8

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ....+.|+||++.|.+   ++++| |||.||..||..|+.. +.+||+||.++....
T Consensus       205 ~~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          205 IPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            3457889999999977   77888 9999999999999986 445999999886543

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.71  E-value=4.1e-09  Score=83.01  Aligned_cols=52  Identities=23%  Similarity=0.413  Sum_probs=41.7

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC------CCCCc--cccc-ccCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN------STCPL--CRGT-LSSS  150 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~------~tCPl--CR~~-l~~~  150 (325)
                      ....+.|+||++.|.+   +++++.|||.|+..||..||..+      .+||+  |+.. +...
T Consensus         4 ~~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             CSSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG
T ss_pred             CCcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh
Confidence            3456889999999976   66664499999999999999864      48999  9876 5443

>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=98.69  E-value=6.8e-09  Score=89.68  Aligned_cols=52  Identities=27%  Similarity=0.627  Sum_probs=43.5

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC-CCCCcccccccCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN-STCPLCRGTLSSS  150 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~  150 (325)
                      .+.+...|+||++.|.+   ++.++ |||.||..||..|+... .+||+||..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           14 PLESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCChhhcC---cEECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            45567889999999876   46677 99999999999999864 4899999988653

>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=5e-09  Score=78.86  Aligned_cols=44  Identities=23%  Similarity=0.636  Sum_probs=37.6

Q ss_pred             CCCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      +...|+||++.+.+   +..+| |||. ||..|+..|    ..||+||+.+..
T Consensus        23 ~~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            34579999998765   67788 9999 999999998    889999998754

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

Probab=98.62  E-value=6.6e-09  Score=99.65  Aligned_cols=54  Identities=24%  Similarity=0.684  Sum_probs=41.0

Q ss_pred             CCCCcCceecccccCCCcee----ecCCCCceecHHHHHHHHhcC-----------CCCCcccccccCC
Q 039646           97 KEPFDCAVCLCEFSEHDNLR----LLPSCSHAFHITCIDTWLLSN-----------STCPLCRGTLSSS  150 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~----~lp~C~H~FH~~CI~~Wl~~~-----------~tCPlCR~~l~~~  150 (325)
                      .+..+|+||++.+..+..+.    ..++|+|.||..||.+||+..           .+||.||+++..+
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            35668999999988733332    223599999999999999752           3599999988653

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

Probab=98.58  E-value=1.8e-08  Score=88.83  Aligned_cols=53  Identities=13%  Similarity=0.170  Sum_probs=44.4

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC-CCCCcccccccCCC
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN-STCPLCRGTLSSSD  151 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~  151 (325)
                      ...+.+.|+||++.|.+   ++++| |||.|+..||..|+..+ .+||+||.++....
T Consensus       102 ~ip~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~  155 (179)
T 2f42_A          102 EIPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQ  155 (179)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCcHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChhh
Confidence            34567889999999976   77788 99999999999999864 57999999886543

>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=98.53  E-value=4.3e-08  Score=76.77  Aligned_cols=48  Identities=21%  Similarity=0.575  Sum_probs=39.7

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc--------CCCCCc--cccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS--------NSTCPL--CRGT  146 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--------~~tCPl--CR~~  146 (325)
                      +...|+||++++...+.+.+++ |+|.||..|+..++..        ...||.  |+..
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            4568999999998766666667 9999999999999863        135999  9987

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

Probab=98.51  E-value=3.9e-08  Score=73.97  Aligned_cols=43  Identities=21%  Similarity=0.626  Sum_probs=35.7

Q ss_pred             CCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ...|+||++.+..   +..+| |||. ||..|+..    ...||+||..+..
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            3469999998755   66788 9999 99999965    3789999998865

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

Probab=98.45  E-value=8.6e-08  Score=69.70  Aligned_cols=48  Identities=25%  Similarity=0.646  Sum_probs=36.9

Q ss_pred             CCCCcCceecccccCCCceeecCCCC--c---eecHHHHHHHHhc--CCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCS--H---AFHITCIDTWLLS--NSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~--H---~FH~~CI~~Wl~~--~~tCPlCR~~l~  148 (325)
                      .+...|.||+++.  ++.+ ++| |.  |   .||..||.+|+..  +.+||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            3456799999873  2333 577 65  4   8999999999974  577999998764

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

Probab=98.44  E-value=1.1e-07  Score=70.67  Aligned_cols=45  Identities=31%  Similarity=0.725  Sum_probs=37.4

Q ss_pred             CCCCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      .+...|.||++.+.+   +..+| |+|. ||..|+..    ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            345689999998654   77889 9999 99999984    4789999998865

>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=98.39  E-value=8.3e-08  Score=73.32  Aligned_cols=43  Identities=28%  Similarity=0.693  Sum_probs=36.6

Q ss_pred             CCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      ...|+||++.+.+   +..+| |||. ||..|+..|    ..||+||..+..
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            3579999998655   77888 9999 999999987    389999998865

>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=98.35  E-value=1.9e-07  Score=68.07  Aligned_cols=50  Identities=16%  Similarity=0.224  Sum_probs=42.3

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      +.|+||++.+.+   +++++.|||.|...||.+|+..+.+||+++.++...+.
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            679999999976   56662399999999999999988889999998876543

>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=98.27  E-value=3.6e-07  Score=84.76  Aligned_cols=53  Identities=25%  Similarity=0.475  Sum_probs=41.9

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC--CCCCc--ccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN--STCPL--CRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~tCPl--CR~~l~~~~  151 (325)
                      ......|+||++.|.+  .++.+. |||.|+..||..|+..+  ..||+  ||+.+...+
T Consensus       178 ~~~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          178 GKIELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             SBCCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             CceeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            3456789999999966  233346 99999999999999864  46999  999876544

>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=98.25  E-value=2.1e-07  Score=89.75  Aligned_cols=45  Identities=29%  Similarity=0.795  Sum_probs=38.7

Q ss_pred             CCCCcCceecccccCCCceeecCCCCce-ecHHHHHHHHhcCCCCCcccccccC
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHA-FHITCIDTWLLSNSTCPLCRGTLSS  149 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~tCPlCR~~l~~  149 (325)
                      .+...|+||++.+..   +..+| |||. ||..|+..|    ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            456789999999865   77788 9999 999999988    789999998753

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

Probab=97.90  E-value=1.1e-05  Score=73.81  Aligned_cols=52  Identities=19%  Similarity=0.489  Sum_probs=40.5

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC--CCCcccccccCCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS--TCPLCRGTLSSSDN  152 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~--tCPlCR~~l~~~~~  152 (325)
                      ....|+||.+....+  . ..+.|+|.||..|+..|++.+.  .||.|+.......+
T Consensus       179 ~i~~C~iC~~iv~~g--~-~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          179 AVKICNICHSLLIQG--Q-SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             TCCBCTTTCSBCSSC--E-ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCC
T ss_pred             CCCcCcchhhHHhCC--c-ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC
Confidence            356799999988765  2 3344999999999999998654  79999987655433

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

Probab=97.83  E-value=1.1e-05  Score=64.21  Aligned_cols=46  Identities=24%  Similarity=0.535  Sum_probs=37.3

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccC
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSS  149 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~  149 (325)
                      -|.+|--.+..  ..|++| |+|+||.+|+..|..+ .++||.|+.++..
T Consensus         3 fC~~C~~Pi~i--ygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSE--EEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEE--Eeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            37788766643  578899 9999999999999864 6789999988754

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

Probab=93.63  E-value=0.06  Score=39.39  Aligned_cols=46  Identities=26%  Similarity=0.459  Sum_probs=33.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTL  147 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l  147 (325)
                      ....|.||.+.   + .+...-.|...||..|+...|....    .||.|....
T Consensus        11 ~~~~C~vC~~~---~-~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---T-DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---T-TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---C-eEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            34579999753   3 3444555999999999998887543    499997643

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=93.23  E-value=0.055  Score=41.93  Aligned_cols=35  Identities=14%  Similarity=0.343  Sum_probs=25.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHH
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTW  133 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~W  133 (325)
                      ++..|.||++.+.......-+. |+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            3467999998753332333376 9999999999983

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=89.57  E-value=0.25  Score=35.23  Aligned_cols=46  Identities=26%  Similarity=0.627  Sum_probs=32.2

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC----CCCCccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN----STCPLCRGT  146 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~----~tCPlCR~~  146 (325)
                      ..+..|.||...   + .+.....|...||..|+..-+...    -.||.|+..
T Consensus         9 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            445679999863   3 344444588999999999865432    249999753

>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=86.98  E-value=0.16  Score=36.32  Aligned_cols=50  Identities=18%  Similarity=0.398  Sum_probs=34.5

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHh-----cCCCCCccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLL-----SNSTCPLCRGT  146 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-----~~~tCPlCR~~  146 (325)
                      .+...|+||...+.++...+..-.|..-||..|+.--..     ..-.||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            345679999998865444444445999999999864321     24569999753

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=86.71  E-value=0.35  Score=32.89  Aligned_cols=44  Identities=34%  Similarity=0.757  Sum_probs=29.3

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRG  145 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~  145 (325)
                      .|.||...-.. +.+.....|...||..|+.+=+...+    .||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            48888865322 33444445999999999976444322    3999965

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=84.80  E-value=0.52  Score=50.71  Aligned_cols=52  Identities=27%  Similarity=0.328  Sum_probs=44.7

Q ss_pred             CCCCCcCceecccccCCCceeecCCCC-ceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCS-HAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~-H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ..+.+.|+|-++.+.+   ++++| .| +.|-..+|.+||..+.+||.=|.++....
T Consensus       888 iP~~F~cPIs~~lM~D---PVilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~  940 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKD---PVILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLED  940 (968)
T ss_dssp             SCGGGBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CcHHhCCcchhhHHhC---CeEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCccc
Confidence            4567889999999877   77888 77 68999999999999999999999887644

>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=84.13  E-value=0.29  Score=42.28  Aligned_cols=45  Identities=29%  Similarity=0.547  Sum_probs=32.3

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTL  147 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l  147 (325)
                      +..|.||...   ++ +.....|...||..|+.+-+....    .||.|+..-
T Consensus         4 ~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            4 EDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             CSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            4569999854   33 445555999999999987766432    499998643

>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=83.83  E-value=0.4  Score=41.84  Aligned_cols=47  Identities=21%  Similarity=0.396  Sum_probs=33.9

Q ss_pred             CcCceecccccCCCc---eeecCCCCceecHHHHHH------HHh-----cCCCCCccccc
Q 039646          100 FDCAVCLCEFSEHDN---LRLLPSCSHAFHITCIDT------WLL-----SNSTCPLCRGT  146 (325)
Q Consensus       100 ~~C~ICle~~~~~~~---~~~lp~C~H~FH~~CI~~------Wl~-----~~~tCPlCR~~  146 (325)
                      ..|+||...|..++.   .+..-.|..-||..|+.-      -+.     ..-.||.|+..
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            359999999987763   555556999999999842      111     15679999864

>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=83.68  E-value=0.29  Score=43.14  Aligned_cols=46  Identities=35%  Similarity=0.593  Sum_probs=33.2

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTL  147 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l  147 (325)
                      .+..|.+|...    ..+.....|...||..|+.+-+...+    .||.|+..-
T Consensus         6 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            44569999854    23555556999999999988766432    499998643

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=83.37  E-value=0.28  Score=35.04  Aligned_cols=47  Identities=26%  Similarity=0.508  Sum_probs=31.6

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTL  147 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l  147 (325)
                      ..+..|.||.+.   + .+...-.|...||..|+.+-+....    .||.|+...
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            345679999853   3 3434445889999999987554322    499997643

>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=82.79  E-value=0.97  Score=34.69  Aligned_cols=35  Identities=20%  Similarity=0.479  Sum_probs=22.9

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHH
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTW  133 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~W  133 (325)
                      ..+..|.||-. |..++... ...|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~~-~t~~~l~p-CRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEV-WTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCC-CCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             CCCcccCcccc-ccccceec-cccccccccHhhcccc
Confidence            45678999962 33332221 1138899999999985

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.14  E-value=0.23  Score=34.73  Aligned_cols=45  Identities=29%  Similarity=0.656  Sum_probs=30.7

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRG  145 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~  145 (325)
                      ..+..|.||...   + .+.....|...||..|+.+-+...+    .||.|+.
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            445679999874   3 3444445999999999987554322    3888854

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=81.71  E-value=0.44  Score=37.98  Aligned_cols=45  Identities=31%  Similarity=0.662  Sum_probs=30.5

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcC----CCCCcccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN----STCPLCRG  145 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~----~tCPlCR~  145 (325)
                      .|.||...-.+.+.+...-.|...||..|+.+-|...    =.||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            5788876433334455555699999999998765542    24999974

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.91  E-value=1.3  Score=34.22  Aligned_cols=46  Identities=28%  Similarity=0.562  Sum_probs=32.5

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGT  146 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~  146 (325)
                      ..+..|.||...   ++ +.....|.-.||..|+.+=+...+    .||.|+..
T Consensus        23 ~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           23 DSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            345679999864   33 444445889999999987665433    49999754

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=80.87  E-value=0.22  Score=35.33  Aligned_cols=48  Identities=27%  Similarity=0.628  Sum_probs=32.9

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l~~  149 (325)
                      .+..|.||...   + .+.....|...||..|+.+-+...+    .||.|......
T Consensus         4 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~   55 (60)
T 2puy_A            4 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLK   55 (60)
T ss_dssp             CCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHH
T ss_pred             CCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhc
Confidence            34579999864   3 3444445999999999987554322    49999775543

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=80.19  E-value=0.55  Score=34.53  Aligned_cols=51  Identities=16%  Similarity=0.374  Sum_probs=34.5

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc----CCCCCcccccccC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS----NSTCPLCRGTLSS  149 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~----~~tCPlCR~~l~~  149 (325)
                      +...|.||..... ++.++..-.|.-.||..|+..-+..    .-.||.|+..+..
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k   71 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKK   71 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCS
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhh
Confidence            3456999987653 3334444458999999999765432    3359999876543

---

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	325
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-19
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-12
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	6e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	8e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	8e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	4e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	4e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 78.8 bits (194), Expect = 1e-19
 Identities = 26/53 (49%), Positives = 34/53 (64%)

Query: 95  GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTL 147
            + +  +CAVCL E  + +  R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 60.0 bits (145), Expect = 1e-12
 Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDNSLEN 156
           C +CL + S  +    LP C HAF   CI  W+  N TCPLC+  + S  +++E+
Sbjct: 8   CPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

>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 = 55.2 bits (132), Expect = 6e-11
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 2/56 (3%)

Query: 98  EPFDCAVCLCEFSEHDNLRLLP-SCSHAFHITCIDTWLLSNS-TCPLCRGTLSSSD 151
           +   C  C      + +L+L+   C H    +C+D   +  +  CP C   L  S+
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

>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 = 55.5 bits (133), Expect = 8e-11
 Identities = 13/43 (30%), Positives = 17/43 (39%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCR 144
           C       +  +       C+HAFH  CI  WL +   CPL  
Sbjct: 38  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.0 bits (132), Expect = 1e-10
 Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS-TCPLCRGTLSSSDNSLENP 157
           C +C        ++++ P C H    +C+ +W  S    CP CR  +  ++  + +P
Sbjct: 26  CKICAEND---KDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP 78

>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 = 52.4 bits (125), Expect = 4e-10
 Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 1/45 (2%)

Query: 101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL-LSNSTCPLCR 144
           +C +C+      D      +C +     C        N  CP CR
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.1 bits (117), Expect = 8e-09
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 7/51 (13%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN 152
           C  C  E       +LLP C H     C++        CP+C+       +
Sbjct: 9   CQQCQAEA---KCPKLLP-CLHTLCSGCLEAS---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 = 47.2 bits (111), Expect = 4e-08
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 102 CAVCLCEFSEHDNLRLLPS-CSHAFHITCIDTWLLSN--STCPLCR 144
           C +C  E           +      H +C+ TWL  +  + C +C 
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.6 bits (113), Expect = 5e-08
 Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 7/67 (10%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL-LSNSTCPLCRGTLSSSDNSL 154
             +   C +C    ++     +  SC H F   CI   L +  S CP CR     +D  L
Sbjct: 20  FVKSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD--L 73

Query: 155 ENPVSSF 161
           E+PV SF
Sbjct: 74  ESPVKSF 80

>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 = 46.2 bits (109), Expect = 2e-07
 Identities = 18/89 (20%), Positives = 28/89 (31%), Gaps = 14/89 (15%)

Query: 93  IVGLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS---TCPLCRGTLSS 149
           I  +++  +C +CL    E         C H F   C+   L        CPLC+  ++ 
Sbjct: 15  INAMQKILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70

Query: 150 SD----NSLENPVSSFDVSREISTGFTTD 174
                       V       +I   F  D
Sbjct: 71  RSLQESTRFSQLVEEL---LKIICAFQLD 96

>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 = 43.5 bits (101), Expect = 3e-06
 Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 19/74 (25%)

Query: 90  YKDIVGLKEPFDCAVCLCEFSEH--------------DNLRLLPSCSHAFHITCIDTWLL 135
           Y + + +    DC +C+ + +                  +  L  CSHAFH+ C+     
Sbjct: 16  YTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYC 75

Query: 136 S-----NSTCPLCR 144
           +     +  CP C+
Sbjct: 76  NGNKDGSLQCPSCK 89

>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 = 42.5 bits (99), Expect = 4e-06
 Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 9/76 (11%)

Query: 96  LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD---- 151
           L++   C+ C     E      L  C H F   C+   +   + CP+C       D    
Sbjct: 19  LEKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQDLKIN 73

Query: 152 NSLENPVSSFDVSREI 167
             L++ +      R +
Sbjct: 74  RQLDSMIQLCSKLRNL 89

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 2e-05
 Identities = 15/81 (18%), Positives = 28/81 (34%), Gaps = 11/81 (13%)

Query: 95  GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL--------LSNSTCPL--CR 144
           G      C +CL E+       +   C   F   C+  ++         +  +CP   C 
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 145 GTLSSSDNSLENPVSSFDVSR 165
                 +N +E  V++  + R
Sbjct: 60  KQGHLQENEIECMVAAEIMQR 80

>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 = 36.3 bits (83), Expect = 2e-04
 Identities = 7/50 (14%), Positives = 15/50 (30%), Gaps = 3/50 (6%)

Query: 102 CAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD 151
           CA+              P     F  + ++ ++      P+    LS  +
Sbjct: 3   CAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 49

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	325
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.38
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.35
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.33
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.28
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.21
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.1
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.09
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.06
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.94
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.92
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.91
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.89
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.83
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.44
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.72
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.81
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	85.68
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	85.44
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	84.56
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	83.32
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	82.06

>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=99.64  E-value=4.7e-17  Score=115.48  Aligned_cols=52  Identities=50%  Similarity=1.118  Sum_probs=47.2

Q ss_pred             CCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      +++.+|+|||++|..++.++.++.|+|.||..||.+|+..+.+||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4556799999999999999888669999999999999999999999999874

>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=99.38  E-value=1.1e-13  Score=101.58  Aligned_cols=47  Identities=40%  Similarity=0.897  Sum_probs=41.1

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ...|+||++.|..  .++.+| |+|.||..||.+|++.+.+||+||+++.
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            3469999999854  466788 9999999999999999999999999874

>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=99.35  E-value=2.4e-13  Score=104.65  Aligned_cols=50  Identities=30%  Similarity=0.653  Sum_probs=41.3

Q ss_pred             CCCcCceecccccCCC---------------ceeecCCCCceecHHHHHHHHhcCCCCCccccccc
Q 039646           98 EPFDCAVCLCEFSEHD---------------NLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLS  148 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~---------------~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~  148 (325)
                      ....|+||++.+....               .+..++ |+|.||..||.+||+.+.+||+||++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3456999999885432               255677 9999999999999999999999999764

>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=99.35  E-value=1e-13  Score=96.76  Aligned_cols=48  Identities=21%  Similarity=0.454  Sum_probs=40.2

Q ss_pred             cCceecccccCCCce-eecCCCCceecHHHHHHHHhc-CCCCCcccccccC
Q 039646          101 DCAVCLCEFSEHDNL-RLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSS  149 (325)
Q Consensus       101 ~C~ICle~~~~~~~~-~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~  149 (325)
                      +|+||+++|..++.. ..++ |||.||..||.+|++. +..||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999999876554 4556 9999999999999986 4469999998764

>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=99.33  E-value=6e-13  Score=106.52  Aligned_cols=52  Identities=29%  Similarity=0.630  Sum_probs=40.8

Q ss_pred             CCCcCceecccccCC---------------CceeecCCCCceecHHHHHHHHhcC-----CCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEH---------------DNLRLLPSCSHAFHITCIDTWLLSN-----STCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~---------------~~~~~lp~C~H~FH~~CI~~Wl~~~-----~tCPlCR~~l~~~  150 (325)
                      .+..|+||+++|...               ..+.+++ |+|.||..||..||...     .+||+||+.+..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            456799999988532               2355677 99999999999999753     4799999987654

>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=9.8e-13  Score=99.30  Aligned_cols=48  Identities=25%  Similarity=0.792  Sum_probs=41.3

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ..|+||++.+..   ++++| |||.||..||..||.. +++||+||..|....
T Consensus        24 ~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          24 QLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            469999998765   77888 9999999999999985 567999999997644

>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=99.28  E-value=1.2e-12  Score=95.29  Aligned_cols=52  Identities=23%  Similarity=0.555  Sum_probs=40.6

Q ss_pred             CCCcCceecccccCC-C-ceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCC
Q 039646           98 EPFDCAVCLCEFSEH-D-NLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSS  150 (325)
Q Consensus        98 ~~~~C~ICle~~~~~-~-~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~  150 (325)
                      ++..|+||++.+..+ + .+.+++ |+|.||..||.+|+.. +..||+||+.+...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            456899999986443 2 345566 9999999999999975 55799999987543

>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=1.9e-12  Score=91.41  Aligned_cols=48  Identities=17%  Similarity=0.242  Sum_probs=41.8

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      .|+||++.+++   ++.++.|||.||..||.+||+.+.+||+||+++...+
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            59999999865   5566569999999999999999999999999887654

>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=99.10  E-value=2.3e-11  Score=93.30  Aligned_cols=49  Identities=29%  Similarity=0.554  Sum_probs=41.3

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ...|+||++.|.+   +++++ |||.||..||.+|++. +.+||+||.++...+
T Consensus        23 ~l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            3579999999866   67888 9999999999999974 567999999886543

>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=99.09  E-value=2.3e-11  Score=95.69  Aligned_cols=50  Identities=28%  Similarity=0.632  Sum_probs=41.2

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC---CCCCcccccccCCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN---STCPLCRGTLSSSDN  152 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~---~tCPlCR~~l~~~~~  152 (325)
                      ...|+||++.|..   ++.++ |||.||..||..|+...   ..||+||.++.....
T Consensus        21 ~l~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CcCCCccCchhCC---eEEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            4579999999876   55678 99999999999999764   369999998865543

>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=1.4e-11  Score=87.06  Aligned_cols=46  Identities=26%  Similarity=0.673  Sum_probs=38.7

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCC
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSD  151 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~  151 (325)
                      ...|+||++.|.+   ++++| |||.||..||..|   +.+||+||+++....
T Consensus         6 ~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            3589999999876   56788 9999999999876   667999999987543

>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=98.94  E-value=3.6e-10  Score=84.33  Aligned_cols=53  Identities=23%  Similarity=0.484  Sum_probs=44.6

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcC-CCCCcccccccCCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSN-STCPLCRGTLSSSDN  152 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~tCPlCR~~l~~~~~  152 (325)
                      ..+++.|+||++.|.+   +++++ |||.||..||..|+..+ ..||.|+.++.....
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l   58 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             CCccCCCcCcCchhhC---ceEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcccc
Confidence            3467899999999977   56788 99999999999999864 569999998876544

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.92  E-value=2.6e-10  Score=85.53  Aligned_cols=52  Identities=13%  Similarity=0.202  Sum_probs=43.6

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-CCCCCcccccccCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-NSTCPLCRGTLSSSD  151 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~tCPlCR~~l~~~~  151 (325)
                      ..+++.|+||++.|.+   +++++ |||.|+..||..|+.. +.+||+||.++....
T Consensus         4 iP~~l~CpIc~~l~~d---Pv~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           4 IPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CCSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCccccCcCcCchhhh---hcccC-CcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            3567889999999977   56788 9999999999999975 557999999876543

>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=98.91  E-value=2.9e-10  Score=80.84  Aligned_cols=49  Identities=22%  Similarity=0.546  Sum_probs=37.2

Q ss_pred             CCCCcCceecccccCCCceeecC----CCCceecHHHHHHHHhc--CCCCCccccccc
Q 039646           97 KEPFDCAVCLCEFSEHDNLRLLP----SCSHAFHITCIDTWLLS--NSTCPLCRGTLS  148 (325)
Q Consensus        97 ~~~~~C~ICle~~~~~~~~~~lp----~C~H~FH~~CI~~Wl~~--~~tCPlCR~~l~  148 (325)
                      .+...|.||++++....   ..|    .|+|.||..||..|+..  +.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~---~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNER---FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCC---CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCce---eEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45567999999876532   233    24599999999999963  567999999864

>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=98.89  E-value=1.8e-10  Score=89.44  Aligned_cols=50  Identities=24%  Similarity=0.522  Sum_probs=39.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      +...|+||++.|..+  +...+ |||.||..||..|+.  ..||.||.++...+.
T Consensus        21 ~~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l   70 (97)
T d1jm7b_          21 KLLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL   70 (97)
T ss_dssp             HTTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSC
T ss_pred             hcCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhC
Confidence            446799999999663  33446 999999999999985  459999998765443

>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=98.83  E-value=1.3e-09  Score=84.98  Aligned_cols=54  Identities=22%  Similarity=0.241  Sum_probs=45.4

Q ss_pred             CCCCCcCceecccccCCCceeecCCCCceecHHHHHHHHhcCCCCCcccccccCCCC
Q 039646           96 LKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNSTCPLCRGTLSSSDN  152 (325)
Q Consensus        96 ~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~tCPlCR~~l~~~~~  152 (325)
                      ..+.+.|+||++.|.+   +++++.|+|.|+..||..||..+.+||+||.++.....
T Consensus        19 ~P~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             CcHHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchhh
Confidence            4467899999999987   77888345689999999999999999999998876543

>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=98.44  E-value=3.8e-08  Score=75.25  Aligned_cols=47  Identities=19%  Similarity=0.486  Sum_probs=37.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHHhc-----C---CCCCcccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS-----N---STCPLCRG  145 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-----~---~tCPlCR~  145 (325)
                      ....|+||++++...+.+..++ |+|.||..|+..|+..     .   -.||.|+-
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            4567999999998767677666 9999999999999963     1   24998653

>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=92.72  E-value=0.027  Score=37.05  Aligned_cols=44  Identities=34%  Similarity=0.757  Sum_probs=31.0

Q ss_pred             cCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccc
Q 039646          101 DCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRG  145 (325)
Q Consensus       101 ~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~  145 (325)
                      .|.||...-.. +.+..-..|...||..|+..-+...+    .||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            48888765433 34445556999999999998765432    3999975

>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=90.81  E-value=0.034  Score=38.23  Aligned_cols=49  Identities=18%  Similarity=0.403  Sum_probs=35.4

Q ss_pred             CCCcCceecccccCCCceeecCCCCceecHHHHHHHH---h--cCCCCCccccc
Q 039646           98 EPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWL---L--SNSTCPLCRGT  146 (325)
Q Consensus        98 ~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl---~--~~~tCPlCR~~  146 (325)
                      ....|.||...+..++..+....|+..||..|+..-.   .  ..-.||.|+..
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            4567999998877766666666799999999986321   1  23469999753

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.68  E-value=0.25  Score=35.98  Aligned_cols=37  Identities=19%  Similarity=0.424  Sum_probs=26.3

Q ss_pred             CCCCCCcCceecccccCCCceeecCCCCceecHHHHHHH
Q 039646           95 GLKEPFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTW  133 (325)
Q Consensus        95 ~~~~~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~W  133 (325)
                      ....+..|.|| +.|...+.. ...-|+-+||..|+.+-
T Consensus        11 ~v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            34567789999 666655443 22238899999999986

>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=85.44  E-value=0.21  Score=34.85  Aligned_cols=44  Identities=30%  Similarity=0.563  Sum_probs=30.2

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHHHHhcCC----CCCcccccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLSNS----TCPLCRGTL  147 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----tCPlCR~~l  147 (325)
                      ..|.||.+.   ++ +...-.|...||..|+.+.+...+    .||.|+...
T Consensus         8 ~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           8 TICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            457777643   33 444456999999999998775433    399996543

>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=84.56  E-value=0.88  Score=32.11  Aligned_cols=47  Identities=19%  Similarity=0.456  Sum_probs=32.0

Q ss_pred             CcCceecccccCCCceeecCCCCceecHHHHHH--HH-h--cCCCCCcccccc
Q 039646          100 FDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDT--WL-L--SNSTCPLCRGTL  147 (325)
Q Consensus       100 ~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~--Wl-~--~~~tCPlCR~~l  147 (325)
                      ..| ||...+..++..+..-.|.--||..|+..  .. .  .+-.||.|+...
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            346 89987765555555666999999999842  11 1  235699998643

>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=83.32  E-value=0.12  Score=37.43  Aligned_cols=50  Identities=18%  Similarity=0.402  Sum_probs=33.2

Q ss_pred             CCcCceecccccC-CCceeecCCCCceecHHHHHHHHh-----c---CCCCCccccccc
Q 039646           99 PFDCAVCLCEFSE-HDNLRLLPSCSHAFHITCIDTWLL-----S---NSTCPLCRGTLS  148 (325)
Q Consensus        99 ~~~C~ICle~~~~-~~~~~~lp~C~H~FH~~CI~~Wl~-----~---~~tCPlCR~~l~  148 (325)
                      ...|.||...... ...++..-.|...||..|+.+.+.     .   .-.||.|.....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            3469999875433 334555556999999999875432     1   235999976544

>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=82.06  E-value=0.13  Score=34.92  Aligned_cols=44  Identities=27%  Similarity=0.544  Sum_probs=30.1

Q ss_pred             CCcCceecccccCCCceeecCCCCceecHHHHHHHHhc----CCCCCccccc
Q 039646           99 PFDCAVCLCEFSEHDNLRLLPSCSHAFHITCIDTWLLS----NSTCPLCRGT  146 (325)
Q Consensus        99 ~~~C~ICle~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~----~~tCPlCR~~  146 (325)
                      ...|.||.+.   + .++..-.|.-.||..|+...+..    .-.||.|+..
T Consensus         9 ~~~C~~C~~~---g-~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           9 MEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCCcCCCCC---C-eEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            3469999753   3 34444458999999999766553    2249999754