Citrus Sinensis ID: 026517

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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-------
Protein Sequence
MSIGDGDDDHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQFEIADLERQ
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHcccEEEEcccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHccccccccccccHHHHHHccEEEEEEcccccccccccccccEEEEcccccccEEEEcccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccc
Coil and Loop (DISEMBL)
msigdgdddhknpyslNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLvnnrvthstetppppktgldptviaALPIFvykqtdggqddGLAAAIECAVCLsnleneemarvlpncnhtfhAECIDkwlgshstcpicrtgaeprpqpesregpvsiaptappllvsaegtssnsgnnngveansakvtagsssrlSSFRRILngdwdrssrRIQFEIADLERQ
Flexible Loop (DISEMBL)
msigdgdddhknPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVlrrqarrrsvirsldlvnnrvthstetppppktgldPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVSAEgtssnsgnnngveansakvtagsssrlssfrrilngdwdrssrrIQFEIADLERQ
Low Complexity Region (SEG)
MSIGDGDDDHKNPYSLNSKIMVTAiisltivivvvlllHIYarcvlrrqarrrsvirslDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVsaegtssnsgnnngveansaKVTAGsssrlssfrrILNGDWDRSSRRIQFEIADLERQ
Disordered region (IsUnstruct)
***************LNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNN****************DPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR*************************************************************************************
Disordered Region (DISOPRED)
******************KIMVTAIISLTIVIVVVLLLHIYARCVLRRQ*********************************TVIAALPIFVYK*************IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA**********************************************************************************
Disordered Region (DISEMBL)
********DHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTG*************VSIAPTAPPLLVSAEGTSSNSGNNNGVEAN************SSFRRILNGDWDRSSRRIQFEIADLERQ
Disordered Region (DISPRO)
*S*****DDHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQA***************************TGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP********************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSIGDGDDDHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQFEIADLERQ
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	237	2.2.26 [Sep-21-2011]
Q9SLC3	236	E3 ubiquitin-protein liga	yes	no	0.835	0.838	0.483	3e-45
Q9SLC4	217	RING-H2 finger protein AT	no	no	0.784	0.857	0.425	2e-30
Q8L9T5	304	RING-H2 finger protein AT	no	no	0.780	0.608	0.386	1e-27
Q9LZJ6	257	RING-H2 finger protein AT	no	no	0.666	0.614	0.387	4e-23
Q9XF63	324	RING-H2 finger protein AT	no	no	0.497	0.364	0.349	8e-22
Q9SL78	390	Putative RING-H2 finger p	no	no	0.767	0.466	0.316	4e-21
O22255	227	RING-H2 finger protein AT	no	no	0.578	0.603	0.380	8e-21
Q8LF65	235	RING-H2 finger protein AT	no	no	0.438	0.442	0.401	1e-19
Q8GW38	369	RING-H2 finger protein AT	no	no	0.535	0.344	0.331	7e-19
P0C035	310	RING-H2 finger protein AT	no	no	0.594	0.454	0.364	2e-18

>sp|Q9SLC3|ATL41_ARATH E3 ubiquitin-protein ligase ATL41 OS=Arabidopsis thaliana GN=ATL41 PE=1 SV=1

 Score =  182 bits (461), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 115/238 (48%), Positives = 142/238 (59%), Gaps = 40/238 (16%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           Y LNSKIM+ A+ SL+ VI++V  LH+YAR VLRR   RR   R L ++     H  E P
Sbjct: 25  YDLNSKIMLAAVASLSGVILIVFALHLYARFVLRR---RREAFRGLPVI---FRHPFEMP 78

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
              K GL+PTVIA+LP F    TDG      A+A ECAVCLS L+ ++ AR LPNC H F
Sbjct: 79  ---KRGLNPTVIASLPTFTVGATDGVA----ASATECAVCLSVLKEQDKARELPNCKHIF 131

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRP--QPESREGPVSIAPTAPPLLV------SAEGTS 185
           H +C+D WL + STCP+CRT  EPRP  +PE REGPV    TAP LLV      + E  S
Sbjct: 132 HVDCVDTWLTTCSTCPVCRTEVEPRPRLEPEPREGPVG---TAPQLLVETRLNLTVEAAS 188

Query: 186 SNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRI------QFEIADLERQ 237
           S+S +N        K     +SRL+SFR+IL    +RSS RI      Q  +ADLER 
Sbjct: 189 SSSSDN--------KTVVSPASRLNSFRKILTR--ERSSNRINHSCPDQDRVADLERH 236

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28, UBC29, UBC30, UBC35 and UBC36 in vitro.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9SLC4|ATL40_ARATH RING-H2 finger protein ATL40 OS=Arabidopsis thaliana GN=ATL40 PE=2 SV=1

 Score =  132 bits (331), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 97/228 (42%), Positives = 125/228 (54%), Gaps = 42/228 (18%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           Y  +SKI +   +S +I+I++V + ++YA+ VL R    RS  + L          +   
Sbjct: 22  YDASSKIFLVTTVSFSIIIIIVFVYYLYAKFVLHR----RSAFQDLSF--------SVVS 69

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
            PPK GLD  VIA+LP FV     G ++D   A  ECAVCLS LE ++ AR+LPNC H F
Sbjct: 70  QPPKRGLDSLVIASLPTFVV----GIKND--VAGTECAVCLSLLEEKDNARMLPNCKHVF 123

Query: 134 HAECIDKWLGSHSTCPICRTGAE---PRPQPESREGPVSIAPTAPPLLVSAEGTSSNSGN 190
           H  C+D WL + STCP+CRT AE   PR +PE REGPV     APPL  +          
Sbjct: 124 HVSCVDTWLTTQSTCPVCRTEAEPSHPRLEPEPREGPV--GDFAPPLDFA---------- 171

Query: 191 NNGVEANSAKVTAGSS-SRLSSFRRILNGDWDRSSRRIQFEIADLERQ 237
             GV+      T GSS SRL SFRRIL    +RSS R      D +R+
Sbjct: 172 --GVDNK----TGGSSVSRLDSFRRILTR--ERSSNRRDHSRVDQDRE 211

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9T5|ATL2_ARATH RING-H2 finger protein ATL2 OS=Arabidopsis thaliana GN=ATL2 PE=2 SV=2

 Score =  123 bits (308), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 80/207 (38%), Positives = 110/207 (53%), Gaps = 22/207 (10%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTE-- 71
           Y+++ KIM++AI+ L  V+++++ LH+YAR  L R  RR    RS +     V  + +  
Sbjct: 24  YAMSGKIMLSAIVILFFVVILMVFLHLYARWYLLRARRRHLRRRSRNRRATMVFFTADPS 83

Query: 72  ---TPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPN 128
              T      GLDP VI +LP+F +       D+     IECAVCLS  E  E  RVLPN
Sbjct: 84  TAATSVVASRGLDPNVIKSLPVFTFS------DETHKDPIECAVCLSEFEESETGRVLPN 137

Query: 129 CNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPES----REGPVSIAPTAPPLLVSAEGT 184
           C HTFH +CID W  SHSTCP+CR+  E     ES    RE  V IA  + P+LV    +
Sbjct: 138 CQHTFHVDCIDMWFHSHSTCPLCRSLVESLAGIESTAAAREREVVIAVDSDPVLVIEPSS 197

Query: 185 SS-------NSGNNNGVEANSAKVTAG 204
           SS        SG++  +  +S +  A 
Sbjct: 198 SSGLTDEPHGSGSSQMLREDSGRKPAA 224

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZJ6|ATL5_ARATH RING-H2 finger protein ATL5 OS=Arabidopsis thaliana GN=ATL5 PE=2 SV=1

 Score =  108 bits (269), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 91/165 (55%), Gaps = 7/165 (4%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           YSLN KIM+ ++I L + ++++L  H YAR + RRQ RR     S  L +          
Sbjct: 22  YSLNGKIMLASVIILFVAVILILCFHSYARWLFRRQNRRIRRRISAHLRSLAAARDPTQS 81

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
               + LDPTV+  +PIFVY  +    +  L    EC+VCLS  E ++  RVLP C H F
Sbjct: 82  SSSLSPLDPTVLEKIPIFVY--SVKTHESPLE---ECSVCLSEFEEDDEGRVLPKCGHVF 136

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRPQPESREGPV-SIAPTAPPL 177
           H +CID W  S S+CP+CR   +P  QP +   PV ++ P+  P+
Sbjct: 137 HVDCIDTWFRSRSSCPLCRAPVQPA-QPVTEPEPVAAVFPSVKPI 180

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XF63|ATL3_ARATH RING-H2 finger protein ATL3 OS=Arabidopsis thaliana GN=ATL3 PE=2 SV=1

 Score =  103 bits (258), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 59/169 (34%), Positives = 82/169 (48%), Gaps = 51/169 (30%)

Query: 16  LNSKIMVTAIISLTIVIVVVLLLHIYAR-------------------------------- 43
           + SKI++TAII L + ++ VL+LH+YA+                                
Sbjct: 20  VTSKIILTAIIVLFMAVLFVLILHLYAKLYWWRIDQLQQQQQQQQQEQEQEEDQSSIAPP 79

Query: 44  CVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDG 103
            V RRQ RR   +   D ++N             TGL    +++LPI  ++Q      D 
Sbjct: 80  VVTRRQRRRFIFVPGQDALSN-------------TGLTSFELSSLPIVFFRQ------DS 120

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
               +EC++CLS L   + AR+LP CNH+FH ECID W  SHSTCPICR
Sbjct: 121 CKDGLECSICLSELVKGDKARLLPKCNHSFHVECIDMWFQSHSTCPICR 169

Arabidopsis thaliana (taxid: 3702)

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

 Score =  101 bits (252), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 62/196 (31%), Positives = 93/196 (47%), Gaps = 14/196 (7%)

Query: 21  MVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGL 80
           ++T + S+   +  VLL  +YA+C      R  +      + ++R+           +GL
Sbjct: 43  IITGVFSIVFTLTFVLL--VYAKC-FHNDLRSETDSDGERIRHDRLWQGLFNRSSRFSGL 99

Query: 81  DPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDK 140
           D   I +LP F +    G     L   +EC+VCLS  E+ E+ R+LP C H FH  CID+
Sbjct: 100 DKKAIESLPFFRFSALKG-----LKQGLECSVCLSKFEDVEILRLLPKCRHAFHIGCIDQ 154

Query: 141 WLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVSAEGTSSNSGNNNGVEANSAK 200
           WL  H+TCP+CR     R   E     +  + T+  +L  +E    +S     +E     
Sbjct: 155 WLEQHATCPLCRN----RVNIEDDLSVLGNSSTSLRILNQSETREEDSRLEIYIEREEG- 209

Query: 201 VTAGSSSRLSSFRRIL 216
            T   SSR SSFR+IL
Sbjct: 210 -TNDGSSRFSSFRKIL 224

Arabidopsis thaliana (taxid: 3702)

>sp|O22255|ATL64_ARATH RING-H2 finger protein ATL64 OS=Arabidopsis thaliana GN=ATL64 PE=2 SV=1

 Score =  100 bits (249), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 56/147 (38%), Positives = 78/147 (53%), Gaps = 10/147 (6%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           Y+LN KIM++++I L + ++++L  H YAR + RR  RR            R    T + 
Sbjct: 22  YALNGKIMLSSVIVLFVAVIMILCFHSYARWLFRRHNRRIRR-------RIRSHLRTLSA 74

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
            P    LD  V+  +PIFVY   +           EC+VCLS  E E+  R+LP C H+F
Sbjct: 75  SPRDQALDQAVLDKIPIFVYSSKNPPPP---EEKEECSVCLSEFEEEDEGRLLPKCGHSF 131

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRPQ 160
           H +CID W  S STCP+CR   +P  Q
Sbjct: 132 HVDCIDTWFRSRSTCPLCRAPVQPPFQ 158

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LF65|ATL17_ARATH RING-H2 finger protein ATL17 OS=Arabidopsis thaliana GN=ATL17 PE=2 SV=2

 Score = 96.7 bits (239), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 49/122 (40%), Positives = 64/122 (52%), Gaps = 18/122 (14%)

Query: 38  LHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKT--GLDPTVIAALPIFVYKQ 95
           LH+Y R  L R +            N     ST    P  T  GL+P++I +LPIF +  
Sbjct: 18  LHLYYRWYLLRSSP----------FNRTTAASTFFTDPSSTPGGLNPSIIKSLPIFTFSA 67

Query: 96  TDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA 155
                      A+EC+VCLS  ++ E  RV+PNC HTFH  CID W  SHS+CP+CR+  
Sbjct: 68  VTA------LFAMECSVCLSEFKDNESGRVMPNCKHTFHVHCIDMWFHSHSSCPLCRSQI 121

Query: 156 EP 157
           EP
Sbjct: 122 EP 123

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 94.0 bits (232), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 48/145 (33%), Positives = 82/145 (56%), Gaps = 18/145 (12%)

Query: 18  SKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPK 77
           S I++  I+ L+++  +  +LH+  R  L++   +RS + S    +N+    +++    +
Sbjct: 50  SPIILFIIVLLSVIFFICSILHLLVRYYLKK---KRSNLSSSPNESNQNPEFSDSDTYQR 106

Query: 78  ----------TGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLP 127
                     +GLD  +I ALP+F+YK+  G ++       +CAVCL     ++  R+LP
Sbjct: 107 QLQQLFHLHDSGLDQALIDALPVFLYKEIKGTKE-----PFDCAVCLCEFSEDDKLRLLP 161

Query: 128 NCNHTFHAECIDKWLGSHSTCPICR 152
           NC+H FH +CID WL S+STCP+CR
Sbjct: 162 NCSHAFHIDCIDTWLLSNSTCPLCR 186

Arabidopsis thaliana (taxid: 3702)

>sp|P0C035|ATL60_ARATH RING-H2 finger protein ATL60 OS=Arabidopsis thaliana GN=ATL60 PE=2 SV=1

 Score = 92.4 bits (228), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 62/170 (36%), Positives = 91/170 (53%), Gaps = 29/170 (17%)

Query: 19  KIMVTAIISLTIVIVVVLLLHIYARCVLRR--QARRRSVIRSLD---LVNNR-------V 66
           K+++ +I+S+   I+ +LLLH+YAR    R  Q    ++I+S D    V  R       V
Sbjct: 23  KVLLFSIVSIFTGILFLLLLHLYARLFWWRVEQHFNLNLIQSDDPGSTVIGRNPRRRRFV 82

Query: 67  THSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVL 126
              ++  P    GLD  ++ ++ + V+K TD          +ECAVCLS+L + + ARVL
Sbjct: 83  FAQSQEDPLHNAGLDSKILQSIHVVVFKCTD------FKDGLECAVCLSDLVDGDKARVL 136

Query: 127 PNCNHTFHAECIDKWLGSHSTCPICRT-----------GAEPRPQPESRE 165
           P CNH FH +CID W  SHSTCP+CR            G+E  PQ ++ E
Sbjct: 137 PRCNHGFHVDCIDMWFQSHSTCPLCRNTVGSVEDTTHGGSEGLPQNQNFE 186

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	237
255568331	254	ring finger protein, putative [Ricinus c	0.907	0.846	0.612	3e-62
225446541	247	PREDICTED: E3 ubiquitin-protein ligase A	0.945	0.906	0.524	1e-49
449444961	255	PREDICTED: E3 ubiquitin-protein ligase A	0.827	0.768	0.467	3e-48
449481159	229	PREDICTED: E3 ubiquitin-protein ligase A	0.827	0.855	0.467	4e-48
356515106	243	PREDICTED: E3 ubiquitin-protein ligase A	0.890	0.868	0.442	7e-46
347817472	205	putative ring zinc finger protein [Cucum	0.687	0.795	0.523	7e-46
297824199	236	zinc finger family protein [Arabidopsis	0.831	0.834	0.493	9e-45
358344018	239	RING finger family protein [Medicago tru	0.805	0.799	0.513	2e-44
356545043	255	PREDICTED: E3 ubiquitin-protein ligase A	0.936	0.870	0.436	5e-44
15227929	236	E3 ubiquitin-protein ligase ATL41 [Arabi	0.835	0.838	0.483	1e-43

>gi|255568331|ref|XP_002525140.1| ring finger protein, putative [Ricinus communis] gi|223535599|gb|EEF37267.1| ring finger protein, putative [Ricinus communis]

 Score =  243 bits (621), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 150/245 (61%), Positives = 175/245 (71%), Gaps = 30/245 (12%)

Query: 5   DGDDD----HKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLD 60
           +G+D     H++ Y LNSKIM+ AI SL+ V+V+V++LHIYARCVLRRQAR R+ IR L 
Sbjct: 28  EGEDSPLFVHRDTYDLNSKIMLAAITSLSFVVVLVIVLHIYARCVLRRQARERANIRRLG 87

Query: 61  LVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENE 120
           L       +T T  PPKTGLDP VIA+LPIFVYKQ++G Q+D      ECAVCLS L+++
Sbjct: 88  L-------ATATSEPPKTGLDPVVIASLPIFVYKQSNGDQEDN---DQECAVCLSVLQDQ 137

Query: 121 EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSI--APTAPPL- 177
           EMAR LPNC HTFHAECIDKWL SHSTCPICRT AEPR QPE REGPV    A TAPPL 
Sbjct: 138 EMARSLPNCKHTFHAECIDKWLTSHSTCPICRTEAEPRIQPEPREGPVPAGGAATAPPLE 197

Query: 178 LVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQFE-----IA 232
            V  EGT S SGN      +S+   +GS SRLSSFRRIL+   +RSSRRIQ E     + 
Sbjct: 198 QVGTEGT-SESGNQ-----SSSNKASGSISRLSSFRRILS--RERSSRRIQSETQEQGLE 249

Query: 233 DLERQ 237
           DLERQ
Sbjct: 250 DLERQ 254

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446541|ref|XP_002279296.1| PREDICTED: E3 ubiquitin-protein ligase ATL41-like [Vitis vinifera]

 Score =  201 bits (512), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 127/242 (52%), Positives = 164/242 (67%), Gaps = 18/242 (7%)

Query: 4   GDGDDDHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVN 63
           G     HK+   LNSKIM+TAI+SL++VI +V+ LHIYARCVLRR+ARRRS + S+ L  
Sbjct: 16  GSYTTSHKSSSDLNSKIMLTAIVSLSVVIALVITLHIYARCVLRRRARRRSALLSITL-- 73

Query: 64  NRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMA 123
           +RV HS E   PPKTGLD +VI +LP+F + + D  ++ G     +CAVCLS LE  E+A
Sbjct: 74  SRV-HSDE---PPKTGLDQSVIDSLPMFKFSENDTQEEGG---TTDCAVCLSVLEEGEIA 126

Query: 124 RVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVSAEG 183
           R+LPNC HTFHAECIDKWLG+HSTCPICRT AEPR QPE RE  V I    P     ++G
Sbjct: 127 RLLPNCKHTFHAECIDKWLGTHSTCPICRTEAEPRLQPEPREAMVMIRTVPPAPAPPSDG 186

Query: 184 TSSNS-----GNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRI---QFEIADLE 235
           T+S+S     G + G    SAK +  S+SRLSSFRR+L+    R+++     +  I D+E
Sbjct: 187 TNSSSLACSEGTSEGAAQCSAK-SGASTSRLSSFRRMLSRGSSRTTQSCGAPEDGIEDVE 245

Query: 236 RQ 237
           R+
Sbjct: 246 RR 247

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444961|ref|XP_004140242.1| PREDICTED: E3 ubiquitin-protein ligase ATL41-like, partial [Cucumis sativus]

 Score =  197 bits (502), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 108/231 (46%), Positives = 139/231 (60%), Gaps = 35/231 (15%)

Query: 5   DGDD-------DHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIR 57
           DGDD        H+NPY LN+KIM+TAI+SL++V+++V+ LHIYAR  LRR ARR++V+R
Sbjct: 36  DGDDIYFGPAHPHRNPYDLNNKIMLTAIVSLSLVVILVIALHIYARYALRRHARRQAVLR 95

Query: 58  SLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNL 117
            L ++   +      PPP ++GLDP V+A++P+ V+K      D      +ECAVCLS +
Sbjct: 96  RLGILAF-IDSGDHHPPPSRSGLDPLVMASMPVVVFKHQSESPDPS-GGGVECAVCLSAI 153

Query: 118 ENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPL 177
            + E AR+LPNC H FH ECIDKW GSHSTCPICRT A P   PE REGP +        
Sbjct: 154 VDGETARILPNCKHVFHVECIDKWFGSHSTCPICRTEAAPMMLPEPREGPAAEV------ 207

Query: 178 LVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQ 228
                                     GS+SRLSSFRRIL+   +RSS RIQ
Sbjct: 208 ------------------GEGGGGGGGSTSRLSSFRRILS--RERSSLRIQ 238

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449481159|ref|XP_004156099.1| PREDICTED: E3 ubiquitin-protein ligase ATL41-like [Cucumis sativus]

 Score =  197 bits (500), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 108/231 (46%), Positives = 139/231 (60%), Gaps = 35/231 (15%)

Query: 5   DGDD-------DHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIR 57
           DGDD        H+NPY LN+KIM+TAI+SL++V+++V+ LHIYAR  LRR ARR++V+R
Sbjct: 10  DGDDIYFGPAHPHRNPYDLNNKIMLTAIVSLSLVVILVIALHIYARYALRRHARRQAVLR 69

Query: 58  SLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNL 117
            L ++   +      PPP ++GLDP V+A++P+ V+K      D      +ECAVCLS +
Sbjct: 70  RLGILAF-IDSGDHHPPPSRSGLDPLVMASMPVVVFKHQSESPDPS-GGGVECAVCLSAI 127

Query: 118 ENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPL 177
            + E AR+LPNC H FH ECIDKW GSHSTCPICRT A P   PE REGP +        
Sbjct: 128 VDGETARILPNCKHVFHVECIDKWFGSHSTCPICRTEAAPMMLPEPREGPAAEV------ 181

Query: 178 LVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQ 228
                                     GS+SRLSSFRRIL+   +RSS RIQ
Sbjct: 182 ------------------GEGGGGGGGSTSRLSSFRRILS--RERSSLRIQ 212

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515106|ref|XP_003526242.1| PREDICTED: E3 ubiquitin-protein ligase ATL41-like [Glycine max]

 Score =  189 bits (481), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 107/242 (44%), Positives = 148/242 (61%), Gaps = 31/242 (12%)

Query: 1   MSIGDGDDDHKNPY-----SLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSV 55
           M++ D D D + P+     ++N  I+  +++S  +V+ +V +L++YARCVLR ++R R+ 
Sbjct: 1   MNVFDNDHD-EEPFGQYHSNVNRTILYVSMVSFAMVLFLVFVLYLYARCVLRGRSRHRAA 59

Query: 56  IRSLDLVN------NRVTHSTETPPPPKTGLDPTVIAALPIFVYKQT--DGGQDDGLAAA 107
           IR L +        + V  +     PP +GLDP +IA+LP F  K    +GG     A  
Sbjct: 60  IRRLTIAALHVSDLDAVAATHRHAEPPNSGLDPAIIASLPTFAVKAKVLEGGCSG--ATV 117

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGP 167
           +ECAVCLS LE EE A++LPNCNH FH +CID WL SHSTCP+CR   +PR +P+ REGP
Sbjct: 118 VECAVCLSALEGEEKAKLLPNCNHFFHVDCIDTWLDSHSTCPLCRAEVKPRLEPQDREGP 177

Query: 168 VSIA-PTAPPLLVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRR 226
           V +A   APPL V  +G   +S  N            GS+SR+SSFRRIL+   +RSSRR
Sbjct: 178 VGLAIDGAPPLGVGVDGGGESSKIN------------GSNSRISSFRRILS--RERSSRR 223

Query: 227 IQ 228
           IQ
Sbjct: 224 IQ 225

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|347817472|gb|AEP25855.1| putative ring zinc finger protein [Cucumis sativus]

 Score =  189 bits (480), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 90/172 (52%), Positives = 118/172 (68%), Gaps = 9/172 (5%)

Query: 5   DGDD-------DHKNPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIR 57
           DGDD        H+NPY LN+KIM+TAI+SL++V+++V+ LHIYAR  LRR ARR++V+R
Sbjct: 36  DGDDIYFGPAHPHRNPYDLNNKIMLTAIVSLSLVVILVIALHIYARYALRRHARRQAVLR 95

Query: 58  SLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNL 117
            L ++   +      PPP ++GLDP V+A++P+ V+K      D      +ECAVCLS +
Sbjct: 96  RLGILA-FIDSGDHHPPPSRSGLDPLVMASMPVVVFKHQSESPDPS-GGGVECAVCLSAI 153

Query: 118 ENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVS 169
            + E AR+LPNC H FH ECIDKW GSHSTCPICRT A P   PE REGP +
Sbjct: 154 VDGETARILPNCKHVFHVECIDKWFGSHSTCPICRTEAAPMMLPEPREGPAA 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297824199|ref|XP_002879982.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297325821|gb|EFH56241.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  186 bits (471), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 118/239 (49%), Positives = 142/239 (59%), Gaps = 42/239 (17%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           Y LNSKIM+ A+ SL+ VI++V  LH+YAR VLRR   RR   R L +V     HS E P
Sbjct: 25  YDLNSKIMLAAVASLSGVILIVFALHLYARFVLRR---RREAFRGLPVV---FRHSFEMP 78

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
              K GL+P VIA+LP F  + TDG       +A ECAVCLS LE ++ AR LPNC H F
Sbjct: 79  ---KRGLNPAVIASLPTFTVRTTDGVA----TSATECAVCLSVLEEQDTARELPNCKHIF 131

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRP--QPESREGPVSIAPTAPPLLVSAE-------GT 184
           H +C+D WL +  TCP+CRT  EPRP  +PE REGPV    TAPPLL           GT
Sbjct: 132 HVDCVDTWLTTCPTCPVCRTEVEPRPRLEPEPREGPVG---TAPPLLEETRLNLTVEAGT 188

Query: 185 SSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRI------QFEIADLERQ 237
           SS+S N         K  A S+SRL+SFR+IL    +RSS RI      Q  +ADLER 
Sbjct: 189 SSSSDN---------KTVASSASRLNSFRKILTR--ERSSNRINHSCVDQDRVADLERH 236

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344018|ref|XP_003636091.1| RING finger family protein [Medicago truncatula] gi|355502026|gb|AES83229.1| RING finger family protein [Medicago truncatula] gi|388522379|gb|AFK49251.1| unknown [Medicago truncatula]

 Score =  184 bits (468), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 111/216 (51%), Positives = 143/216 (66%), Gaps = 25/216 (11%)

Query: 15  SLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPP 74
           + N KI++TAI+SL +V+++VL LH+YAR VL+RQARRR+ I+ L L   +    T+   
Sbjct: 29  NFNKKILLTAIVSLALVLILVLALHLYARYVLKRQARRRAAIQQLSLTVAQA--HTQFAE 86

Query: 75  PPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAI-ECAVCLSNLENEEMARVLPNCNHTF 133
           P  TG+DPT+IAALP F++KQ    ++  ++  I ECAVCLS +E+EEM R+LPNC H+F
Sbjct: 87  PANTGVDPTIIAALPTFLFKQKQQEENKNVSKNIVECAVCLSVVEDEEMMRLLPNCKHSF 146

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVSIAPTAPPLLVS-AEGTSSNSGNNN 192
           H  CIDKWL SHSTCP CRT  EPRP+ E REGP         L +S +EGTS       
Sbjct: 147 HVGCIDKWLASHSTCPNCRTKVEPRPEAEPREGPT--------LFISPSEGTS------- 191

Query: 193 GVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRIQ 228
               +   V+  + SRLSSFRRIL    DRSSRRIQ
Sbjct: 192 ----DGGSVSPKNISRLSSFRRILTR--DRSSRRIQ 221

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545043|ref|XP_003540955.1| PREDICTED: E3 ubiquitin-protein ligase ATL41-like [Glycine max]

 Score =  183 bits (464), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 106/243 (43%), Positives = 146/243 (60%), Gaps = 21/243 (8%)

Query: 1   MSIGDGDDDHKNPY-----SLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSV 55
           M + D D DH  P+     ++N  I+  +++S   V+ +V  L++YARCVLR ++R R+ 
Sbjct: 1   MDVFDNDHDHDEPFVRYHSNVNRTILYVSMVSFITVLFLVFALYLYARCVLRGRSRNRAA 60

Query: 56  IRSLDLVNNRVT------HSTETPPPPKTGLDPTVIAALPIFVYK----QTDGGQDDGLA 105
           IR L +    V+       +     PP  GLDP +IA+LP F  +    +  G    G A
Sbjct: 61  IRRLTIAALHVSDLDAAAAAHRHAEPPNAGLDPAIIASLPTFASRTKVLENGGDGGGGGA 120

Query: 106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESRE 165
             +ECAVCLS LE EE A++LPNCNH FH +CIDKWLGSHSTCPICR   +P+ QP+ RE
Sbjct: 121 TVVECAVCLSALEGEEKAKLLPNCNHFFHVDCIDKWLGSHSTCPICRAEVKPQLQPQHRE 180

Query: 166 GPVSIAPTAPPLLVSAEGTSSNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSR 225
           GPV ++  +   L+S         +NN  +  S+K+   S+SRLSSFRRIL+    RSSR
Sbjct: 181 GPVGLSLHSARTLLS---RVDGDDDNNNNDNESSKIN-DSNSRLSSFRRILSR--QRSSR 234

Query: 226 RIQ 228
           R+Q
Sbjct: 235 RVQ 237

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227929|ref|NP_181765.1| E3 ubiquitin-protein ligase ATL41 [Arabidopsis thaliana] gi|68565335|sp|Q9SLC3.1|ATL41_ARATH RecName: Full=E3 ubiquitin-protein ligase ATL41; AltName: Full=RING-H2 finger protein ATL41 gi|4567308|gb|AAD23719.1| putative RING zinc finger protein [Arabidopsis thaliana] gi|18491287|gb|AAL69468.1| At2g42360/MHK10.8 [Arabidopsis thaliana] gi|70905063|gb|AAZ14057.1| At2g42360 [Arabidopsis thaliana] gi|110736438|dbj|BAF00187.1| putative RING zinc finger protein [Arabidopsis thaliana] gi|330255017|gb|AEC10111.1| E3 ubiquitin-protein ligase ATL41 [Arabidopsis thaliana]

 Score =  182 bits (461), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 115/238 (48%), Positives = 142/238 (59%), Gaps = 40/238 (16%)

Query: 14  YSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETP 73
           Y LNSKIM+ A+ SL+ VI++V  LH+YAR VLRR   RR   R L ++     H  E P
Sbjct: 25  YDLNSKIMLAAVASLSGVILIVFALHLYARFVLRR---RREAFRGLPVI---FRHPFEMP 78

Query: 74  PPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTF 133
              K GL+PTVIA+LP F    TDG      A+A ECAVCLS L+ ++ AR LPNC H F
Sbjct: 79  ---KRGLNPTVIASLPTFTVGATDGVA----ASATECAVCLSVLKEQDKARELPNCKHIF 131

Query: 134 HAECIDKWLGSHSTCPICRTGAEPRP--QPESREGPVSIAPTAPPLLV------SAEGTS 185
           H +C+D WL + STCP+CRT  EPRP  +PE REGPV    TAP LLV      + E  S
Sbjct: 132 HVDCVDTWLTTCSTCPVCRTEVEPRPRLEPEPREGPVG---TAPQLLVETRLNLTVEAAS 188

Query: 186 SNSGNNNGVEANSAKVTAGSSSRLSSFRRILNGDWDRSSRRI------QFEIADLERQ 237
           S+S +N        K     +SRL+SFR+IL    +RSS RI      Q  +ADLER 
Sbjct: 189 SSSSDN--------KTVVSPASRLNSFRKILTR--ERSSNRINHSCPDQDRVADLERH 236

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	237
TAIR|locus:2053791	236	AT2G42360 [Arabidopsis thalian	0.632	0.635	0.449	2.3e-31
TAIR|locus:2053776	217	AT2G42350 [Arabidopsis thalian	0.400	0.437	0.566	5.9e-25
TAIR|locus:2089398	304	ATL2 "TOXICOS EN LEVADURA 2" [	0.400	0.312	0.514	3.9e-21
UNIPROTKB|Q9LRB7	325	EL5.1 "E3 ubiquitin-protein li	0.392	0.286	0.477	3.5e-20
TAIR|locus:2081740	257	ATL5 "AtL5" [Arabidopsis thali	0.700	0.645	0.316	3.1e-19
TAIR|locus:2146330	368	CNI1 "carbon/nitrogen insensit	0.383	0.247	0.454	7.4e-18
TAIR|locus:2206722	327	AT1G35330 [Arabidopsis thalian	0.333	0.241	0.469	7.5e-18
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.371	0.272	0.422	1.2e-17
TAIR|locus:2197026	310	AT1G53820 [Arabidopsis thalian	0.324	0.248	0.493	2e-17
TAIR|locus:2176436	375	AT5G43420 [Arabidopsis thalian	0.443	0.28	0.406	2.3e-17

TAIR|locus:2053791 AT2G42360 [Arabidopsis thaliana (taxid:3702)]

 Score = 311 (114.5 bits), Expect = 2.3e-31, Sum P(2) = 2.3e-31
 Identities = 76/169 (44%), Positives = 89/169 (52%)

Query:    76 PKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHA 135
             PK GL+PTVIA+LP F    TDG      A+A ECAVCLS L+ ++ AR LPNC H FH 
Sbjct:    78 PKRGLNPTVIASLPTFTVGATDGVA----ASATECAVCLSVLKEQDKARELPNCKHIFHV 133

Query:   136 ECIDKWLGSHSTCPICRTGAEPRP--QPESREGPVSIAPTAPPLLVXXXXXXXXXXXXXX 193
             +C+D WL + STCP+CRT  EPRP  +PE REGPV    TAP LLV              
Sbjct:   134 DCVDTWLTTCSTCPVCRTEVEPRPRLEPEPREGPVG---TAPQLLVETRLNLTVEAASSS 190

Query:   194 XXXXXXKVTAGXXXXXXXXXXILNGDWDRSSRRI------QFEIADLER 236
                   K              IL  +  RSS RI      Q  +ADLER
Sbjct:   191 SSDN--KTVVSPASRLNSFRKILTRE--RSSNRINHSCPDQDRVADLER 235

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

GO:0006865 "amino acid transport" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0015824 "proline transport" evidence=RCA

GO:0043090 "amino acid import" evidence=RCA

TAIR|locus:2053776 AT2G42350 [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 60/106 (56%), Positives = 70/106 (66%)

Query:    75 PPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFH 134
             PPK GLD  VIA+LP FV     G ++D   A  ECAVCLS LE ++ AR+LPNC H FH
Sbjct:    71 PPKRGLDSLVIASLPTFVV----GIKND--VAGTECAVCLSLLEEKDNARMLPNCKHVFH 124

Query:   135 AECIDKWLGSHSTCPICRTGAEP---RPQPESREGPVSIAPTAPPL 177
               C+D WL + STCP+CRT AEP   R +PE REGPV     APPL
Sbjct:   125 VSCVDTWLTTQSTCPVCRTEAEPSHPRLEPEPREGPVG--DFAPPL 168

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2089398 ATL2 "TOXICOS EN LEVADURA 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 54/105 (51%), Positives = 63/105 (60%)

Query:    79 GLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECI 138
             GLDP VI +LP+F +  +D    D     IECAVCLS  E  E  RVLPNC HTFH +CI
Sbjct:    94 GLDPNVIKSLPVFTF--SDETHKD----PIECAVCLSEFEESETGRVLPNCQHTFHVDCI 147

Query:   139 DKWLGSHSTCPICRTGAEPRPQPES----REGPVSIAPTAPPLLV 179
             D W  SHSTCP+CR+  E     ES    RE  V IA  + P+LV
Sbjct:   148 DMWFHSHSTCPLCRSLVESLAGIESTAAAREREVVIAVDSDPVLV 192

GO:0005634 "nucleus" evidence=ISM

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

GO:0006952 "defense response" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

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

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042742 "defense response to bacterium" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

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

UNIPROTKB|Q9LRB7 EL5.1 "E3 ubiquitin-protein ligase EL5" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 52/109 (47%), Positives = 64/109 (58%)

Query:    79 GLDPTVIAALPIFVY---------KQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNC 129
             G+DP V+ +LP+ VY         K+ +   DDG    +ECAVCL+ LE+ E AR LP C
Sbjct:    98 GVDPEVLRSLPVTVYSRSTAAAAAKEEEEEDDDG----VECAVCLAELEDGEEARFLPRC 153

Query:   130 NHTFHAECIDKWLGSHSTCPICR-TGAEPRPQ--PESREGPVSIAPTAP 175
              H FHAEC+D WLGSHSTCP+CR T   P P   P   E P S   + P
Sbjct:   154 GHGFHAECVDMWLGSHSTCPLCRLTVVVPPPPLPPVPPEPPASYTVSLP 202

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0048364 "root development" evidence=IMP

GO:0051301 "cell division" evidence=IMP

TAIR|locus:2081740 ATL5 "AtL5" [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 55/174 (31%), Positives = 77/174 (44%)

Query:     6 GDDDH-KNPYSLNSKIMVTAXXXXXXXXXXXXXXHIYXXXXXXXXXXXXXXXXXXDLVNN 64
             G+ +H  + YSLN KIM+ +              H Y                   L + 
Sbjct:    13 GNMNHGSSRYSLNGKIMLASVIILFVAVILILCFHSYARWLFRRQNRRIRRRISAHLRSL 72

Query:    65 RVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMAR 124
                          + LDPTV+  +PIFVY       +  L    EC+VCLS  E ++  R
Sbjct:    73 AAARDPTQSSSSLSPLDPTVLEKIPIFVYSVKT--HESPLE---ECSVCLSEFEEDDEGR 127

Query:   125 VLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVS-IAPTAPPL 177
             VLP C H FH +CID W  S S+CP+CR   +P  QP +   PV+ + P+  P+
Sbjct:   128 VLPKCGHVFHVDCIDTWFRSRSSCPLCRAPVQPA-QPVTEPEPVAAVFPSVKPI 180

GO:0005634 "nucleus" evidence=ISM

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

GO:0006461 "protein complex assembly" evidence=TAS

GO:0016020 "membrane" evidence=ISS

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

 Score = 220 (82.5 bits), Expect = 7.4e-18, P = 7.4e-18
 Identities = 45/99 (45%), Positives = 57/99 (57%)

Query:    65 RVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMAR 124
             RVT++T        GLD   I   P FVY +    Q  G   A+ECA+CL+  E++E  R
Sbjct:    86 RVTNATVA-----RGLDAETIETFPTFVYSEVKT-QKIG-KGALECAICLNEFEDDETLR 138

Query:   125 VLPNCNHTFHAECIDKWLGSHSTCPICRTG-AEPRPQPE 162
             +LP C+H FH  CI  WL  H TCP+CRT  AE  P+PE
Sbjct:   139 LLPKCDHVFHPHCIGAWLQGHVTCPVCRTNLAEQTPEPE 177

GO:0005576 "extracellular region" evidence=ISM

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

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

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

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

GO:0016020 "membrane" evidence=IDA

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

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

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

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

GO:0007165 "signal transduction" evidence=RCA

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

GO:0009611 "response to wounding" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

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

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

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

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

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

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

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

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 38/81 (46%), Positives = 50/81 (61%)

Query:    79 GLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECI 138
             GL   VI + P F+Y Q  G +       +ECA+CL+  E+EE  R++P C+H FHA CI
Sbjct:    99 GLGKDVINSFPSFLYSQVKGLKIG--KGGVECAICLNEFEDEETLRLMPPCSHAFHASCI 156

Query:   139 DKWLGSHSTCPICRTGAEPRP 159
             D WL S STCP+CR    P+P
Sbjct:   157 DVWLSSRSTCPVCRASLPPKP 177

GO:0005576 "extracellular region" evidence=ISM

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

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

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 41/97 (42%), Positives = 59/97 (60%)

Query:    79 GLDPTVIAALPIFVY---KQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHA 135
             GLD  V+ + P+F Y   K++  G  D     +ECA+CL+ LE+ E  R+LP CNH FH 
Sbjct:    95 GLDNAVVESFPVFAYSSVKESKIGSKD-----LECAICLNELEDHETVRLLPICNHLFHI 149

Query:   136 ECIDKWLGSHSTCPICRTGAEPRP-QPESREGPVSIA 171
             +CID WL SH+TCP+CR+    +  +P   +  V +A
Sbjct:   150 DCIDTWLYSHATCPVCRSNLTAKSNKPGDEDDGVPLA 186

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2197026 AT1G53820 [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 41/83 (49%), Positives = 54/83 (65%)

Query:    70 TETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNC 129
             ++  P    GLD  ++ ++ + V+K TD    DGL    ECAVCLS+L + + ARVLP C
Sbjct:    86 SQEDPLHNAGLDSKILQSIHVVVFKCTDF--KDGL----ECAVCLSDLVDGDKARVLPRC 139

Query:   130 NHTFHAECIDKWLGSHSTCPICR 152
             NH FH +CID W  SHSTCP+CR
Sbjct:   140 NHGFHVDCIDMWFQSHSTCPLCR 162

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2176436 AT5G43420 [Arabidopsis thaliana (taxid:3702)]

 Score = 216 (81.1 bits), Expect = 2.3e-17, P = 2.3e-17
 Identities = 48/118 (40%), Positives = 68/118 (57%)

Query:    72 TPPPPKTGLDPTVIAALPIFVYK----QTDG-----GQDDGLAAAIECAVCLSNLENEEM 122
             +P     GLD +VI A+PIF +K    Q DG     G+++    + EC+VCLS  ++EE 
Sbjct:    91 SPELRSRGLDESVIRAIPIFKFKKRYDQNDGVFTGEGEEEEEKRSQECSVCLSEFQDEEK 150

Query:   123 ARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQ-PESREGPVSIAPTAPPLLV 179
              R++PNC+H FH +CID WL +++ CP+CRT        P  R   VS   T+P  LV
Sbjct:   151 LRIIPNCSHLFHIDCIDVWLQNNANCPLCRTRVSCDTSFPPDR---VSAPSTSPENLV 205

GO:0005634 "nucleus" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9SLC3	ATL41_ARATH	6, ., 3, ., 2, ., -	0.4831	0.8354	0.8389	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: GSVIVG00018698001 SubName- Full=Chromosome chr12 scaffold_18, whole genome shotgun sequence; (254 aa) (Vitis vinifera)

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	237
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-17
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-14
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-10
smart00184	40	smart00184, RING, Ring finger	1e-09
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-07
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	1e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	4e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	2e-05
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	5e-04
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	6e-04
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.002

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

 Score = 72.8 bits (179), Expect = 2e-17
 Identities = 25/45 (55%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           EC +CL   E  E   VLP C H FH EC+DKWL S +TCP+CR 
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 64.4 bits (157), Expect = 3e-14
 Identities = 22/46 (47%), Positives = 25/46 (54%), Gaps = 4/46 (8%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRT 153
           EC +CL          VL  C H F   CIDKWL S  +TCP+CRT
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43

Length = 45

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

 Score = 64.8 bits (158), Expect = 1e-12
 Identities = 22/49 (44%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 109 ECAVCLSNLENEEMAR----VLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           ECA+C+  + ++E+      +L NCNH F  ECID W    +TCP+CRT
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

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

 Score = 65.8 bits (160), Expect = 1e-12
 Identities = 36/135 (26%), Positives = 54/135 (40%), Gaps = 12/135 (8%)

Query: 25  IISLTIVIVV-VLLLHIYARCVLRRQARRRSVIRSLDLVNNRVTHSTETPPPPKTGLDPT 83
           + S    +V   +         L +    R  I     +N  V   + +   P T    +
Sbjct: 249 VGSRGFRVVFPRIPSQELRFLFLTQSKGSRFNIILEIQINFDVGFYSSSEAIPTTTTKGS 308

Query: 84  VIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG 143
           +         +   G         +ECA+C+SN    +  RVLP C+H FH  C+DKWL 
Sbjct: 309 LKPLSIERAVEADKG---------VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLL 358

Query: 144 SHS-TCPICRTGAEP 157
            +S  CP+CRT   P
Sbjct: 359 GYSNKCPVCRTAIPP 373

Length = 374

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

 Score = 57.8 bits (140), Expect = 2e-11
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 9/52 (17%)

Query: 110 CAVCLSNLEN---------EEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           CA+C ++ +          ++   V   C H FH  CI +WL + +TCP+CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 54.8 bits (132), Expect = 1e-10
 Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           +EC +CL  L +     VL  C H F  ECI ++L   S CPICRT
Sbjct: 3   LECPICLDLLRD---PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 52.1 bits (125), Expect = 1e-09
 Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPIC 151
           C +CL      +   +LP C HTF   CI KWL S + TCPIC
Sbjct: 1   CPICLEEYL--KDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 51.6 bits (123), Expect = 1e-07
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 9/52 (17%)

Query: 109  ECAVCLSNLENEEMARVLPN-----CNHTFHAECIDKWL--GSHSTCPICRT 153
            ECA+C S L+  +  R LP+     C + FH  C+ KW    + S CP+CR+
Sbjct: 1471 ECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRS 1520

Length = 1525

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

 Score = 47.7 bits (113), Expect = 1e-06
 Identities = 37/113 (32%), Positives = 54/113 (47%), Gaps = 19/113 (16%)

Query: 53  RSVIRSLDLVNNRVTHSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQD-DGLAAAIECA 111
           +S++R L  VN  + ++T TP  P    + T I+ L I   K  D  +D   ++   EC 
Sbjct: 122 QSILRGL--VNWYIANNTYTPNTPN---NTTTISELDII--KILDKYEDVYRVSKEKECG 174

Query: 112 VCLS-----NLENEEMARVLPNCNHTFHAECIDKW------LGSHSTCPICRT 153
           +C        LEN+    +L +CNH F   CI+ W       G+   CPICRT
Sbjct: 175 ICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227

Length = 242

>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 = 44.8 bits (106), Expect = 2e-06
 Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 110 CAVCLSNLE-NEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           C  C   +   +E   V   CNH FH  CI +WL +   CP+ R
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 42.5 bits (100), Expect = 4e-06
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPIC 151
           C +CL   ++     +LP C H F ++CI  WL S + TCP+C
Sbjct: 1   CPICLEEPKDP--VTILP-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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 45.0 bits (106), Expect = 2e-05
 Identities = 26/117 (22%), Positives = 40/117 (34%), Gaps = 17/117 (14%)

Query: 99  GQDDGLAAAIECAVCLSNL---ENEEMARVLPN------CNHTFHAECIDKWLGSHSTCP 149
              D       C +C+  +   ++E + R L        C H  H  C+  WL    TCP
Sbjct: 284 TNSDRT-----CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP 338

Query: 150 ICRT---GAEPRPQPESREGPVSIAPTAPPLLVSAEGTSSNSGNNNGVEANSAKVTA 203
           ICR      +  P P S     +   T  P   +   T++  G  N       + + 
Sbjct: 339 ICRRPVIFDQSSPTPASPNVRNTQIATQVPNPDNTPTTTAVPGITNSSNQGDPQAST 395

Length = 491

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 3/31 (9%)

Query: 125 VLPNCNHTFHAECIDKWL---GSHSTCPICR 152
           V   C H FH  CI KWL    S   CP+CR
Sbjct: 48  VWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 40.1 bits (93), Expect = 5e-04
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 9/63 (14%)

Query: 103 GLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPE 162
           GL + + C +C   +           C HTF + CI + LG+   CP+CR   +P    E
Sbjct: 21  GLDSMLRCRICDCRIS----IPCETTCGHTFCSLCIRRHLGTQPFCPVCR--EDPC---E 71

Query: 163 SRE 165
           SR 
Sbjct: 72  SRL 74

Length = 391

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

 Score = 40.0 bits (93), Expect = 6e-04
 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 4/50 (8%)

Query: 103 GLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
            L  ++ C +C    +      VL +C+HTF + CI + L +   CP+CR
Sbjct: 22  PLDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCR 67

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

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 16/46 (34%), Positives = 18/46 (39%), Gaps = 6/46 (13%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRT 153
            C +CL    N      LP C H     EC  +   S   CPICR 
Sbjct: 4   LCVICLERPRN---VVFLP-CGHLCLCEECAKRLR-SKKKCPICRQ 44

Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	237
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.79
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.57
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.54
PHA02929	238	N1R/p28-like protein; Provisional	99.4
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.31
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.27
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.14
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.04
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.02
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.02
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.01
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.98
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.95
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.95
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.94
PHA02926	242	zinc finger-like protein; Provisional	98.93
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.88
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.87
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.87
PF14634	44	zf-RING_5: zinc-RING finger domain	98.83
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.81
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.76
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.74
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.5
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.48
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.47
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.47
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.46
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.46
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.39
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.38
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.37
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.26
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.24
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.2
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.17
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.17
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.16
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.14
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.11
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.1
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.08
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.69
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.66
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.63
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.61
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.58
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.25
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.23
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.18
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.17
KOG2660	331	consensus Locus-specific chromosome binding protei	96.91
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.87
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.78
COG5152	259	Uncharacterized conserved protein, contains RING a	96.7
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.68
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.66
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.64
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.63
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.6
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.54
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.47
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.33
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.26
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.18
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.1
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.09
PF04641	260	Rtf2: Rtf2 RING-finger	96.08
PHA02862	156	5L protein; Provisional	95.98
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.8
KOG4739	233	consensus Uncharacterized protein involved in syna	95.64
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.64
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.48
PHA03096	284	p28-like protein; Provisional	95.43
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	95.35
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.18
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.97
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.75
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.32
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	93.72
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.62
KOG1940	276	consensus Zn-finger protein [General function pred	93.35
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	93.31
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.1
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.8
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.74
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	92.73
KOG3002	299	consensus Zn finger protein [General function pred	92.34
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.33
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	91.28
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.11
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.95
KOG0298	1394	consensus DEAD box-containing helicase-like transc	90.79
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	90.12
PHA02650	81	hypothetical protein; Provisional	89.74
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.34
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.08
KOG3053	293	consensus Uncharacterized conserved protein [Funct	87.89
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	87.62
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	87.52
KOG4367	699	consensus Predicted Zn-finger protein [Function un	87.01
PF08114	43	PMP1_2: ATPase proteolipid family; InterPro: IPR01	86.98
KOG3899	381	consensus Uncharacterized conserved protein [Funct	86.82
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	86.18
PHA02844	75	putative transmembrane protein; Provisional	86.03
PF02009	299	Rifin_STEVOR: Rifin/stevor family; InterPro: IPR00	85.95
KOG3113	293	consensus Uncharacterized conserved protein [Funct	83.75
PF15102	146	TMEM154: TMEM154 protein family	83.41
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	82.43
KOG1829	580	consensus Uncharacterized conserved protein, conta	81.82
PF13908	179	Shisa: Wnt and FGF inhibitory regulator	81.48
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	81.14
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	80.96
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	80.46
KOG1609	323	consensus Protein involved in mRNA turnover and st	80.32

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

Probab=99.79  E-value=8.1e-19  Score=153.94  Aligned_cols=75  Identities=33%  Similarity=0.827  Sum_probs=62.8

Q ss_pred             CCCHHHHhhCCceeeecCCCCCCCCCCCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCC-CccccccCCC
Q 026517           79 GLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHST-CPICRTGAEP  157 (237)
Q Consensus        79 ~~~~~~i~~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~-CP~CR~~~~~  157 (237)
                      .+.+..++++|...|+..+....     ...|+||+|+|..++.++.|| |+|.||..||++||.++.+ ||+|++.+..
T Consensus       206 r~~k~~l~~~p~~~f~~~~~~~~-----~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  206 RLIKRLLKKLPVRTFTKGDDEDA-----TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             hhHHHHHhhCCcEEeccccccCC-----CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            34578899999999977654422     258999999999999999999 9999999999999987755 9999997755


Q ss_pred             CC
Q 026517          158 RP  159 (237)
Q Consensus       158 ~~  159 (237)
                      ..
T Consensus       280 ~~  281 (348)
T KOG4628|consen  280 DS  281 (348)
T ss_pred             CC
Confidence            43

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

Probab=99.57  E-value=2.3e-14  Score=125.01  Aligned_cols=66  Identities=29%  Similarity=0.741  Sum_probs=49.5

Q ss_pred             HHHHhhCCceeeecCCCCCCCCCCCCCccccccccccCCc----------ceeecCCCCCCCchhHHHHHhcCCCCCccc
Q 026517           82 PTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEE----------MARVLPNCNHTFHAECIDKWLGSHSTCPIC  151 (237)
Q Consensus        82 ~~~i~~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C  151 (237)
                      ++.-+-+|+.+..+..+.       +..|.||++++-.+.          ..+.|| |||+||.+|++.|++++++||+|
T Consensus       269 kdl~~~~~t~t~eql~n~-------D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPIC  340 (491)
T COG5243         269 KDLNAMYPTATEEQLTNS-------DRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPIC  340 (491)
T ss_pred             hHHHhhcchhhhhhhcCC-------CCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcc
Confidence            334445566555444222       458999999954332          346888 99999999999999999999999


Q ss_pred             cccC
Q 026517          152 RTGA  155 (237)
Q Consensus       152 R~~~  155 (237)
                      |.++
T Consensus       341 r~p~  344 (491)
T COG5243         341 RRPV  344 (491)
T ss_pred             cCcc
Confidence            9995

>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=99.54  E-value=1.2e-15  Score=96.13  Aligned_cols=43  Identities=47%  Similarity=1.230  Sum_probs=40.1

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCcccc
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR  152 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR  152 (237)
                      +|+||++.|..++.+..++ |||.||.+||..|++.+.+||+||
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            6999999999889999998 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.40  E-value=2.2e-13  Score=114.96  Aligned_cols=76  Identities=30%  Similarity=0.621  Sum_probs=56.0

Q ss_pred             CCCCHHHHhhCCceeeecCCCCCCCCCCCCCccccccccccCCcc----eeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517           78 TGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEM----ARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus        78 ~~~~~~~i~~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~----~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      .+.....++.+|.....-.....   ...+.+|+||++.+..+..    +.+++.|+|.||..||..|+..+.+||+||.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~---~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~  224 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYN---RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT  224 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhc---CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence            44577888899988754322111   1235689999999876431    2345459999999999999999999999999


Q ss_pred             cCC
Q 026517          154 GAE  156 (237)
Q Consensus       154 ~~~  156 (237)
                      ++.
T Consensus       225 ~~~  227 (238)
T PHA02929        225 PFI  227 (238)
T ss_pred             Eee
Confidence            875

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

Probab=99.31  E-value=9.8e-13  Score=91.77  Aligned_cols=43  Identities=44%  Similarity=1.038  Sum_probs=34.5

Q ss_pred             ccccccccccCC----------cceeecCCCCCCCchhHHHHHhcCCCCCcccc
Q 026517          109 ECAVCLSNLENE----------EMARVLPNCNHTFHAECIDKWLGSHSTCPICR  152 (237)
Q Consensus       109 ~C~IC~~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR  152 (237)
                      .|+||++.|..+          -.+...+ |||.||..||.+||+.+.+||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            599999999332          2344445 999999999999999999999998

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

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

Probab=99.27  E-value=1.8e-12  Score=110.66  Aligned_cols=50  Identities=50%  Similarity=1.196  Sum_probs=45.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc-CCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~  157 (237)
                      .-+|+|||+.|...+.++++| |.|.||..|++.|+. -...||+||.++.+
T Consensus       323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            468999999999999999999 999999999999997 56679999998854

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.14  E-value=7.1e-11  Score=96.07  Aligned_cols=49  Identities=29%  Similarity=0.817  Sum_probs=40.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC----------------CCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS----------------HSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----------------~~~CP~CR~~~~~~~  159 (237)
                      ..+|+||++.+..+   .+++ |||.||..||..|+..                ...||+||.++....
T Consensus        18 ~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         18 DFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             ccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            57899999999877   5666 9999999999999842                247999999986543

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

Probab=99.04  E-value=8.9e-11  Score=75.80  Aligned_cols=46  Identities=39%  Similarity=0.942  Sum_probs=38.5

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      +..|.||++....   +..+| |||. ||..|+..|+.....||+||+++.
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            3579999998654   47788 9998 999999999999999999999875

...

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

Probab=99.02  E-value=9.9e-11  Score=71.62  Aligned_cols=39  Identities=44%  Similarity=1.180  Sum_probs=32.5

Q ss_pred             cccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C  151 (237)
                      |+||++.+..+  +..++ |||.||..|+..|++.+..||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998874  44666 99999999999999888899998

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

Probab=99.02  E-value=1.8e-10  Score=98.07  Aligned_cols=49  Identities=37%  Similarity=0.912  Sum_probs=43.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|.+||+....+   ..+| |||+||..||..|......||+||..+.+.
T Consensus       238 a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            356899999998887   7787 999999999999999888999999988654

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

Probab=99.01  E-value=2.5e-10  Score=70.97  Aligned_cols=44  Identities=50%  Similarity=1.177  Sum_probs=35.8

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccC
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGA  155 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~  155 (237)
                      .|+||++.+..  .+...+ |||.||..|++.|+.. +..||.||..+
T Consensus         1 ~C~iC~~~~~~--~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE--PVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC--ceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            49999999843  344444 9999999999999987 67899998754

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

Probab=98.98  E-value=2.6e-10  Score=90.70  Aligned_cols=51  Identities=25%  Similarity=0.724  Sum_probs=42.9

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|+|||+.+.....+. + +|||+||..||+.-+.....||+||+.|..+
T Consensus       130 ~~~~CPiCl~~~sek~~vs-T-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVS-T-KCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             cccCCCceecchhhccccc-c-ccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            3578999999999774432 3 5999999999999999999999999877554

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

Probab=98.95  E-value=1e-09  Score=103.88  Aligned_cols=51  Identities=35%  Similarity=0.855  Sum_probs=44.0

Q ss_pred             CCccccccccccCCcc--eeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEM--ARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~--~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      +..|+||++.+..+..  ...+| |+|+||..|++.|+++..+||+||..+...
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~  343 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY  343 (543)
T ss_pred             CCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence            5689999999988544  57888 999999999999999999999999955443

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

Probab=98.95  E-value=4.6e-10  Score=79.42  Aligned_cols=51  Identities=31%  Similarity=0.754  Sum_probs=37.4

Q ss_pred             CCccccccccccCC--------cc-eeecCCCCCCCchhHHHHHhcC---CCCCccccccCCC
Q 026517          107 AIECAVCLSNLENE--------EM-ARVLPNCNHTFHAECIDKWLGS---HSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~--------~~-~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~~~~  157 (237)
                      +..|.||...|...        +. ..+...|+|.||..||..||.+   +..||+||++...
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            34799999888632        11 1233359999999999999975   4579999997643

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

Probab=98.94  E-value=3.9e-10  Score=70.06  Aligned_cols=38  Identities=32%  Similarity=0.955  Sum_probs=29.8

Q ss_pred             cccccccccCCcceeecCCCCCCCchhHHHHHhcCC----CCCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH----STCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~C  151 (237)
                      |+||++.|..|   ..|+ |||.||..||..|.+..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999   7787 99999999999998654    359987

>PHA02926 zinc finger-like protein; Provisional

Probab=98.93  E-value=5e-10  Score=92.28  Aligned_cols=51  Identities=33%  Similarity=0.808  Sum_probs=38.6

Q ss_pred             CCccccccccccCC-----cceeecCCCCCCCchhHHHHHhcCC------CCCccccccCCC
Q 026517          107 AIECAVCLSNLENE-----EMARVLPNCNHTFHAECIDKWLGSH------STCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-----~~~~~l~~C~H~fh~~Ci~~wl~~~------~~CP~CR~~~~~  157 (237)
                      +.+|+||++....+     ...-+|++|+|.||..||..|...+      .+||+||..+..
T Consensus       170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            46899999986432     1223566699999999999999643      359999997753

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

Probab=98.88  E-value=9.1e-10  Score=94.25  Aligned_cols=53  Identities=26%  Similarity=0.478  Sum_probs=43.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCCCCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPRPQPES  163 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~~~~~~~  163 (237)
                      ..+|+||+....-+   ..|+ |+|.||+.||+.-.... .+|++||.+|......++
T Consensus         7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~p   60 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEP   60 (324)
T ss_pred             CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcch
Confidence            45799999998877   5666 99999999999987554 469999999987665544

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

Probab=98.87  E-value=1.3e-09  Score=90.41  Aligned_cols=50  Identities=26%  Similarity=0.757  Sum_probs=41.2

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC---CCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS---TCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~CR~~~~~~  158 (237)
                      ....+|.|||+.-+++   +++. |||+||..||-+||+.+.   .||+|+..+...
T Consensus        45 ~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            3478999999998877   5555 999999999999996544   599999988553

>smart00504 Ubox Modified RING finger domain

Probab=98.87  E-value=1.8e-09  Score=72.69  Aligned_cols=46  Identities=28%  Similarity=0.583  Sum_probs=40.9

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ..|+||++.|..+   ..++ |||+|++.||..|+..+.+||+|+.++..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4699999999988   6677 99999999999999888899999988744

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.83  E-value=2.6e-09  Score=67.03  Aligned_cols=44  Identities=34%  Similarity=0.930  Sum_probs=37.1

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      .|.||++.|.......+++ |||+||..|+..+......||+||+
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            4999999995555667776 9999999999999866678999984

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.81  E-value=1.7e-09  Score=66.67  Aligned_cols=39  Identities=41%  Similarity=1.200  Sum_probs=33.3

Q ss_pred             cccccccccCCcceeecCCCCCCCchhHHHHHhc--CCCCCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG--SHSTCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~C  151 (237)
                      |+||++.+..+.  ..++ |||.||..||..|+.  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999998872  3666 999999999999998  45579998

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=98.76  E-value=5.3e-09  Score=94.43  Aligned_cols=48  Identities=27%  Similarity=0.786  Sum_probs=42.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   .+++ |||.||..||..|+.....||+||..+...
T Consensus        26 ~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        26 SLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            56899999999887   4666 999999999999998888899999987543

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

>smart00184 RING Ring finger

Probab=98.74  E-value=6.7e-09  Score=62.17  Aligned_cols=38  Identities=55%  Similarity=1.340  Sum_probs=31.7

Q ss_pred             cccccccccCCcceeecCCCCCCCchhHHHHHhc-CCCCCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~C  151 (237)
                      |+||++....   ...++ |||.||..|++.|+. .+..||+|
T Consensus         1 C~iC~~~~~~---~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD---PVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC---cEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899998443   46777 999999999999997 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)

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

Probab=98.62  E-value=4.5e-08  Score=88.81  Aligned_cols=51  Identities=27%  Similarity=0.879  Sum_probs=38.9

Q ss_pred             CCCccccccccccCCc--------------ceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCC
Q 026517          106 AAIECAVCLSNLENEE--------------MARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~--------------~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~  157 (237)
                      ....|+||+.++..-.              ....+| |.|+||..|+.+|...- ..||.||.++.+
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            3568999998864321              122446 99999999999999844 489999998854

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

Probab=98.50  E-value=6.7e-08  Score=66.87  Aligned_cols=30  Identities=40%  Similarity=0.927  Sum_probs=27.2

Q ss_pred             CCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          128 NCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       128 ~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      .|.|.||..||.+||..+..||++|+....
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            399999999999999999999999987643

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

Probab=98.48  E-value=3.5e-08  Score=85.84  Aligned_cols=49  Identities=29%  Similarity=0.764  Sum_probs=43.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      -..|.||.+.|..+   ..+| |+|.||.-||+..|..+..||.|+.++....
T Consensus        23 lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             HHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            45899999999998   6777 9999999999999999999999999886543

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

Probab=98.47  E-value=6.4e-08  Score=81.71  Aligned_cols=48  Identities=31%  Similarity=0.818  Sum_probs=40.4

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHH-HhcCCCC-CccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDK-WLGSHST-CPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~-CP~CR~~~~~~  158 (237)
                      +..|+||++....+   ..++ |||+||-.||.. |-.++.- ||+||+.+.++
T Consensus       215 d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         215 DYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            56899999998877   7777 999999999999 8665555 99999977554

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

Probab=98.47  E-value=3.4e-08  Score=83.42  Aligned_cols=51  Identities=35%  Similarity=0.810  Sum_probs=42.3

Q ss_pred             CCccccccccccCCc-------ceeecCCCCCCCchhHHHHHh--cCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEE-------MARVLPNCNHTFHAECIDKWL--GSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~-------~~~~l~~C~H~fh~~Ci~~wl--~~~~~CP~CR~~~~~~  158 (237)
                      +..|+||-..+....       ....|. |+|+||..||+.|.  .+.++||.|+..++.+
T Consensus       224 d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  224 DSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             cchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            457999998876554       667887 99999999999995  5677999999988654

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

Probab=98.46  E-value=5.9e-08  Score=60.39  Aligned_cols=38  Identities=37%  Similarity=0.897  Sum_probs=21.9

Q ss_pred             cccccccccCCc-ceeecCCCCCCCchhHHHHHhcCC----CCCc
Q 026517          110 CAVCLSNLENEE-MARVLPNCNHTFHAECIDKWLGSH----STCP  149 (237)
Q Consensus       110 C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP  149 (237)
                      |+||.+ |...+ ...+|+ |||+|+.+||..++..+    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 76633 347788 99999999999999643    3576

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

Probab=98.46  E-value=6.5e-08  Score=82.58  Aligned_cols=47  Identities=30%  Similarity=0.759  Sum_probs=41.6

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|-||-+.|..+   ..++ |||.||.-||+..|..+..||+||.+...
T Consensus        25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence            45799999999988   5565 99999999999999999999999987643

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

Probab=98.39  E-value=8e-08  Score=65.93  Aligned_cols=49  Identities=35%  Similarity=0.837  Sum_probs=34.9

Q ss_pred             CccccccccccCC---------cceeecCCCCCCCchhHHHHHhcC---CCCCccccccCC
Q 026517          108 IECAVCLSNLENE---------EMARVLPNCNHTFHAECIDKWLGS---HSTCPICRTGAE  156 (237)
Q Consensus       108 ~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~~~  156 (237)
                      +.|-||.-.|..-         +...++-.|.|.||..||..|+..   +..||+||+...
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3788888877532         111223249999999999999954   346999998753

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

Probab=98.38  E-value=1.7e-07  Score=85.80  Aligned_cols=49  Identities=27%  Similarity=0.683  Sum_probs=39.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-----CCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-----STCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-----~~CP~CR~~~~~~~  159 (237)
                      +..|+||++....+   ..+. |||+||..||.+.+...     ..||+||..|..+.
T Consensus       186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            45799999997766   4444 99999999999988544     36999999887643

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

Probab=98.37  E-value=1.5e-07  Score=65.61  Aligned_cols=48  Identities=23%  Similarity=0.504  Sum_probs=38.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~  158 (237)
                      ...|+|+.+.|.++   .++| |||.|.+.||..|+.. +.+||+|+.++...
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            56899999999999   6777 9999999999999988 77899999888654

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 ....

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

Probab=98.26  E-value=5.3e-07  Score=57.79  Aligned_cols=42  Identities=33%  Similarity=0.929  Sum_probs=32.3

Q ss_pred             ccccccccccCCcceeecCCCC-----CCCchhHHHHHhcC--CCCCcccc
Q 026517          109 ECAVCLSNLENEEMARVLPNCN-----HTFHAECIDKWLGS--HSTCPICR  152 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~CR  152 (237)
                      .|-||++ ...++.....| |.     |.+|..||.+|+..  +.+||+|+
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            3899998 33445556777 85     89999999999954  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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.24  E-value=9.8e-07  Score=77.00  Aligned_cols=52  Identities=25%  Similarity=0.565  Sum_probs=37.7

Q ss_pred             CCcccccccc-ccCCcc-eeecCCCCCCCchhHHHHHh-cCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSN-LENEEM-ARVLPNCNHTFHAECIDKWL-GSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~-~~~~~~-~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~~~  159 (237)
                      +..||+|... +..+.. +.+.+ |||.||..|++..+ .....||.|+.++....
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            3479999996 334432 23334 99999999999966 44557999998886554

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).

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

Probab=98.20  E-value=2.4e-07  Score=64.00  Aligned_cols=50  Identities=28%  Similarity=0.745  Sum_probs=24.2

Q ss_pred             CccccccccccCCc----ceeecCCCCCCCchhHHHHHhcC---C--------CCCccccccCCC
Q 026517          108 IECAVCLSNLENEE----MARVLPNCNHTFHAECIDKWLGS---H--------STCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl~~---~--------~~CP~CR~~~~~  157 (237)
                      .+|.||+..+....    .+.-.+.|++.||..||..||..   .        ..||.|+.+|..
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            47999999865222    22222359999999999999842   1        159999998753

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

Probab=98.17  E-value=5.2e-07  Score=87.42  Aligned_cols=54  Identities=33%  Similarity=0.838  Sum_probs=38.3

Q ss_pred             CCCCCCccccccccccC-C--cceeecCCCCCCCchhHHHHHhcCC--CCCccccccCC
Q 026517          103 GLAAAIECAVCLSNLEN-E--EMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGAE  156 (237)
Q Consensus       103 ~~~~~~~C~IC~~~~~~-~--~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~CR~~~~  156 (237)
                      .++...+|+||+..+.. .  -.-..-++|+|.||..|+-.|+.+.  .+||+||..+.
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34457899999977641 1  0011223599999999999999654  47999997764

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

Probab=98.17  E-value=7.2e-07  Score=76.74  Aligned_cols=42  Identities=31%  Similarity=0.943  Sum_probs=38.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCcccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR  152 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR  152 (237)
                      ...|+||++.|..+   .++| |+|.||..||..++.....||.||
T Consensus        13 ~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   13 ELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            56899999999999   7887 999999999999988555799999

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

Probab=98.16  E-value=9.4e-07  Score=77.75  Aligned_cols=50  Identities=34%  Similarity=0.749  Sum_probs=42.2

Q ss_pred             CCCCccccccccccCCcceeecCCCCC-CCchhHHHHHhcCCCCCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNH-TFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      +...+|.||+.+-.+   +.+|| |.| ..|..|-+..-.+++.||+||+++..-
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            346799999998554   48999 999 899999998877888999999998553

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

Probab=98.14  E-value=1.2e-06  Score=78.91  Aligned_cols=54  Identities=35%  Similarity=0.889  Sum_probs=41.7

Q ss_pred             CCCCCCCCCccccccccccCCcc-eeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          100 QDDGLAAAIECAVCLSNLENEEM-ARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       100 ~~~~~~~~~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...+...-++|+|||+.|..... ++... |.|.||..|+..|.  ..+||+||.-..
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            34455567899999999987643 34444 99999999999996  478999997554

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

Probab=98.11  E-value=6.7e-07  Score=57.48  Aligned_cols=46  Identities=26%  Similarity=0.630  Sum_probs=35.3

Q ss_pred             CCccccccccccCCcceeecCCCCC-CCchhHHHHHhc-CCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNH-TFHAECIDKWLG-SHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~-~~~~CP~CR~~~~  156 (237)
                      ..+|.||++.-.+.   .... ||| .+|+.|-.+.++ .+..||+||+++.
T Consensus         7 ~dECTICye~pvds---VlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH---HHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            35899999985544   3443 999 789999766554 6778999999874

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

Probab=98.10  E-value=9.5e-07  Score=59.06  Aligned_cols=48  Identities=33%  Similarity=0.818  Sum_probs=24.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      -..|++|.+.+..+   ..+..|.|+||..||..-+.  ..||+|+.|....+
T Consensus         7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            35799999999988   44556999999999988654  34999998875543

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

Probab=98.08  E-value=1.4e-06  Score=63.25  Aligned_cols=49  Identities=33%  Similarity=0.777  Sum_probs=35.3

Q ss_pred             CCcccccccccc-------------CCcceeecCCCCCCCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLE-------------NEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~-------------~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      ...|+||...+-             ..+.+..-..|.|.||..||.+||++++.||+|.++.
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            346999976541             1122222224999999999999999999999997654

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

Probab=97.95  E-value=3.4e-06  Score=74.81  Aligned_cols=45  Identities=31%  Similarity=0.957  Sum_probs=35.4

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCC---CCCcccc
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH---STCPICR  152 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~CR  152 (237)
                      ..|.||.+-+.....+--+..|||+||..|+..|++..   .+||.|+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            37999966665555555555699999999999999753   4699998

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

Probab=97.91  E-value=1.3e-06  Score=76.58  Aligned_cols=50  Identities=32%  Similarity=0.677  Sum_probs=40.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc-CCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~~~  159 (237)
                      +..|+|||+.+...   +..+.|.|-||.+||..-+. .++.||.||+.+..+.
T Consensus        43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            56899999998876   55557999999999988884 4668999999886543

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

Probab=97.69  E-value=1.5e-05  Score=71.15  Aligned_cols=46  Identities=30%  Similarity=0.842  Sum_probs=37.0

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcC--CCCCccccccCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS--HSTCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~~~~  157 (237)
                      .-|-||-+.   ...|+.-| |||..|..|+..|-..  .++||.||..|..
T Consensus       370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            359999886   44567777 9999999999999844  4589999987743

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

Probab=97.66  E-value=8.6e-06  Score=77.84  Aligned_cols=51  Identities=24%  Similarity=0.490  Sum_probs=42.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|++|+..+.........+ |+|.||..||..|-+...+||+||..+...
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            346888888877665555666 999999999999999999999999877543

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

Probab=97.63  E-value=1.4e-05  Score=76.49  Aligned_cols=48  Identities=25%  Similarity=0.747  Sum_probs=37.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc-CCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~~  158 (237)
                      -..|+.|-.....-    +++.|+|+||..|+..-+. ++..||.|.+++-+.
T Consensus       643 ~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan  691 (698)
T KOG0978|consen  643 LLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN  691 (698)
T ss_pred             ceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            35799999665543    3445999999999999984 566899998887543

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

Probab=97.63  E-value=2.5e-05  Score=69.54  Aligned_cols=51  Identities=35%  Similarity=0.929  Sum_probs=39.3

Q ss_pred             CCccccccccccCCc----ceeecCCCCCCCchhHHHHHh--cC-----CCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEE----MARVLPNCNHTFHAECIDKWL--GS-----HSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl--~~-----~~~CP~CR~~~~~  157 (237)
                      +..|.||++......    ....+|+|.|.||..||+.|-  .+     .+.||.||.....
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            568999999877653    122456799999999999997  33     4679999986643

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

Probab=97.61  E-value=3.6e-05  Score=68.86  Aligned_cols=49  Identities=35%  Similarity=0.899  Sum_probs=37.6

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhcC--CCCCccccccC
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGS--HSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~~  155 (237)
                      ...|+||++.+..+ ++....+.|||.|...||+.||.+  ...||.|....
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            56899999998653 455555569999999999999952  22599998533

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

Probab=97.58  E-value=1.2e-05  Score=69.09  Aligned_cols=49  Identities=27%  Similarity=0.757  Sum_probs=41.0

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcC-----------------------CCCCccccccCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-----------------------HSTCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----------------------~~~CP~CR~~~~~  157 (237)
                      ..|.|||.-|..++...+++ |.|.||..|+.+.|.-                       ...||+||..|..
T Consensus       116 gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  116 GQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            47999999999999888998 9999999999887631                       1259999998843

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

Probab=97.48  E-value=5.8e-05  Score=68.52  Aligned_cols=49  Identities=37%  Similarity=0.834  Sum_probs=42.8

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ..+.+|.||+..+..+   ..+| |||.||..||.+-+....-||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            4578999999999988   6777 99999999999988877789999998854

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

Probab=97.30  E-value=0.0002  Score=61.91  Aligned_cols=48  Identities=25%  Similarity=0.544  Sum_probs=39.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|.||...+..+.   ...+|.|-|++.|...|......||.|+..+.+
T Consensus       105 ~~~~~~~~g~l~vpt---~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p  152 (324)
T KOG0824|consen  105 HDICYICYGKLTVPT---RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP  152 (324)
T ss_pred             ccceeeeeeeEEecc---cccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence            457999999887762   333599999999999999999999999976543

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

Probab=97.29  E-value=0.0002  Score=61.15  Aligned_cols=49  Identities=29%  Similarity=0.552  Sum_probs=37.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCccccccCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGAE  156 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~CR~~~~  156 (237)
                      ..+.+|++|-+.-..|   .+..+|+|+||+.||..=+...  .+||.|-.++.
T Consensus       237 t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3477999999997777   3332499999999998876543  68999977654

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

Probab=97.25  E-value=0.00013  Score=48.22  Aligned_cols=41  Identities=27%  Similarity=0.753  Sum_probs=27.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCcc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPI  150 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~  150 (237)
                      ...|+|.+..|..|  ++-. .|||+|-+..|..|+.++  ..||.
T Consensus        11 ~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            46899999999988  3333 499999999999999443  35998

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

Probab=97.23  E-value=0.00053  Score=59.95  Aligned_cols=46  Identities=28%  Similarity=0.487  Sum_probs=37.3

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      ...|++|+.....+   .++..-|-+||+.|+...+...+.||+=..++
T Consensus       300 ~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  300 REVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             cccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            45799999998877   33333799999999999999999999765544

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

Probab=97.18  E-value=0.00022  Score=72.35  Aligned_cols=66  Identities=29%  Similarity=0.614  Sum_probs=47.8

Q ss_pred             hCCceeeecCCCCCCCCCCCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----------CCccccccCC
Q 026517           87 ALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----------TCPICRTGAE  156 (237)
Q Consensus        87 ~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----------~CP~CR~~~~  156 (237)
                      -||-+...+....+ |   .+..|.||+.+--.......|. |+|+||..|.++.|++.-          +||+|..+|.
T Consensus      3470 CLPCl~Cdks~tkQ-D---~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQ-D---ADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cccccccChhhhhc-c---cCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            35655544433322 2   2678999999877667777886 999999999998876531          6999999885


Q ss_pred             C
Q 026517          157 P  157 (237)
Q Consensus       157 ~  157 (237)
                      .
T Consensus      3545 H 3545 (3738)
T KOG1428|consen 3545 H 3545 (3738)
T ss_pred             h
Confidence            3

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

Probab=97.17  E-value=0.00021  Score=65.21  Aligned_cols=49  Identities=31%  Similarity=0.756  Sum_probs=41.3

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|++|...+..+   .....|||.||..|+..|+..+..||.|+..+...
T Consensus        21 ~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   21 NLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             cccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            56899999999988   22124999999999999999999999998877554

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

Probab=96.91  E-value=0.00016  Score=63.17  Aligned_cols=46  Identities=33%  Similarity=0.679  Sum_probs=39.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      ...|.+|-..|.+...+   +.|-|.||+.||...|.....||.|...+
T Consensus        15 ~itC~LC~GYliDATTI---~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   15 HITCRLCGGYLIDATTI---TECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             ceehhhccceeecchhH---HHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            45899999999887333   35999999999999999999999998766

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

Probab=96.87  E-value=0.00052  Score=63.49  Aligned_cols=54  Identities=28%  Similarity=0.675  Sum_probs=39.7

Q ss_pred             CCCCCCCCccccccccccCCcceeecCCCCCCCchhHHHHHhc-----CCCCCccccccCCCC
Q 026517          101 DDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-----SHSTCPICRTGAEPR  158 (237)
Q Consensus       101 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-----~~~~CP~CR~~~~~~  158 (237)
                      .+......+|-+|-+.-+..   .... |.|.||+.||..++.     .+.+||.|...+.-+
T Consensus       530 ~~enk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             CccccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            33334567899999986665   4454 999999999988873     245899998766443

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

Probab=96.82  E-value=0.00034  Score=55.24  Aligned_cols=28  Identities=36%  Similarity=0.778  Sum_probs=25.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCch
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHA  135 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~  135 (237)
                      .-+|.||||++..++.+..|| |-.+||+
T Consensus       177 kGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  177 KGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             CCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            458999999999999999999 9999986

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

Probab=96.78  E-value=0.00035  Score=62.34  Aligned_cols=46  Identities=33%  Similarity=0.873  Sum_probs=37.9

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhcCCC--CCccccc
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGSHS--TCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~CR~  153 (237)
                      +..|-.|-+.+-.+ +.+--|| |.|+||..|+...|.++.  +||.||.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            46799999988654 4566787 999999999999997665  6999994

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

Probab=96.70  E-value=0.0008  Score=54.89  Aligned_cols=46  Identities=22%  Similarity=0.569  Sum_probs=39.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|.||-.+|..+   ++.. |||.||..|...-++....|-.|.....
T Consensus       196 PF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         196 PFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             ceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhhc
Confidence            45799999999998   5554 9999999999998888889999977543

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

Probab=96.68  E-value=0.00041  Score=61.39  Aligned_cols=44  Identities=30%  Similarity=0.716  Sum_probs=30.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCc-hhHHHHHhcCCCCCccccccCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFH-AECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh-~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      .....|.||+++...   ...+| |||+-| ..|-+    ....||+||+.+.
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvp-cGh~ccct~cs~----~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVP-CGHVCCCTLCSK----HLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccc---eeeec-CCcEEEchHHHh----hCCCCchhHHHHH
Confidence            345679999999665   47888 999644 33322    2345999998774

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

Probab=96.66  E-value=0.00031  Score=60.46  Aligned_cols=41  Identities=29%  Similarity=0.694  Sum_probs=33.7

Q ss_pred             CCccccccccccCCcceeecCCCCC-CCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNH-TFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      ...|+||++.   +..+..|+ ||| +-|.+|-+..    +.||+||+.+
T Consensus       300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHH
Confidence            5679999987   66678998 999 7899997553    4899999865

>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=96.64  E-value=0.00062  Score=52.42  Aligned_cols=43  Identities=21%  Similarity=0.629  Sum_probs=32.4

Q ss_pred             CCccccccccccCCcceeecCCCC------CCCchhHHHHHhcCCCCCcc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCN------HTFHAECIDKWLGSHSTCPI  150 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~------H~fh~~Ci~~wl~~~~~CP~  150 (237)
                      ..+|.||++.+.....+..++ ||      |.||.+|+++|-..+..=|.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~~rDPf   74 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRERNRDPF   74 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhccCCCc
Confidence            458999999999855666776 76      89999999999543333343

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.

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

Probab=96.63  E-value=0.002  Score=40.79  Aligned_cols=45  Identities=24%  Similarity=0.632  Sum_probs=22.4

Q ss_pred             cccccccccCCcceeecC-CCCCCCchhHHHHHhc-CCCCCccccccC
Q 026517          110 CAVCLSNLENEEMARVLP-NCNHTFHAECIDKWLG-SHSTCPICRTGA  155 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~  155 (237)
                      |++|.+++...+. ...| .||+.+|..|....+. .+..||-||.+.
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999843322 2333 3889999999999886 477899999864

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

Probab=96.60  E-value=0.0025  Score=56.42  Aligned_cols=49  Identities=24%  Similarity=0.497  Sum_probs=41.3

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      +++..|+||.-.   +......| |+|.-|+.||.+-+.+.+.|=.|+..+..
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            346789999876   44446777 99999999999999999999999987764

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

Probab=96.54  E-value=0.0019  Score=53.69  Aligned_cols=50  Identities=26%  Similarity=0.692  Sum_probs=41.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC--------CCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS--------HSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~~~~~~  158 (237)
                      ...|..|-..+..++.++..  |-|+||.+|+..|-..        ...||.|..+|++.
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            34699999999999988764  9999999999999632        23699999988653

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=96.47  E-value=0.00088  Score=49.47  Aligned_cols=31  Identities=39%  Similarity=0.854  Sum_probs=26.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHH
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECID  139 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~  139 (237)
                      ...|++|-..+.. ....+.| |||+||..|++
T Consensus        78 ~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   78 STKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            4579999999987 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 [].

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

Probab=96.33  E-value=0.0015  Score=56.44  Aligned_cols=47  Identities=21%  Similarity=0.464  Sum_probs=39.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|-||...|..+   ++.. |+|.||..|-..=++....|++|.+.+..
T Consensus       241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccc
Confidence            45699999999998   5554 99999999998888888899999876643

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.26  E-value=0.0043  Score=52.33  Aligned_cols=56  Identities=21%  Similarity=0.320  Sum_probs=48.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPE  162 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  162 (237)
                      ...|++|.+.+.....+..|.+|||+|+.+|....+.....||+|-.++...+...
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence            46799999999988888888779999999999999998999999998887765543

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

Probab=96.18  E-value=0.0024  Score=55.24  Aligned_cols=43  Identities=40%  Similarity=0.821  Sum_probs=36.6

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHh-cCCCCCccccc
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL-GSHSTCPICRT  153 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~CR~  153 (237)
                      ..|+.|-..+..+   ..+|.|+|.||.+||..-| .....||.|.+
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            6799999998877   5567799999999999776 66778999976

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

Probab=96.12  E-value=0.0021  Score=57.87  Aligned_cols=46  Identities=22%  Similarity=0.694  Sum_probs=37.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC--------CCCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS--------HSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~  153 (237)
                      -..|.||++...-.+....+| |+|+||+.|++..+..        .-.||-|..
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            457999999988778888998 9999999999999742        125877654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.10  E-value=0.0031  Score=40.91  Aligned_cols=45  Identities=29%  Similarity=0.527  Sum_probs=33.4

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ..|..|...-..+   .++| |||+.+..|...+  +-+-||+|.+++...
T Consensus         8 ~~~~~~~~~~~~~---~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFVGTKG---TVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccccccc---cccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence            3576776654444   6787 9999999998764  446799999988654

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

Probab=96.09  E-value=0.0031  Score=39.89  Aligned_cols=40  Identities=33%  Similarity=1.038  Sum_probs=26.0

Q ss_pred             cccccccccCCcceeecCCCC-----CCCchhHHHHHhc--CCCCCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCN-----HTFHAECIDKWLG--SHSTCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~C  151 (237)
                      |-||++.-.... ....| |+     -..|..||..|+.  .+.+|++|
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            668888876654 23455 65     3789999999996  44579887

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.08  E-value=0.009  Score=51.58  Aligned_cols=53  Identities=15%  Similarity=0.375  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      .....|||...+|........+-+|||+|...+|+..- ....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence            34789999999997666666664599999999999973 356799999988654

>PHA02862 5L protein; Provisional

Probab=95.98  E-value=0.0047  Score=48.00  Aligned_cols=45  Identities=20%  Similarity=0.577  Sum_probs=33.5

Q ss_pred             CccccccccccCCcceeecCCCC-----CCCchhHHHHHhcC--CCCCccccccCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCN-----HTFHAECIDKWLGS--HSTCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~CR~~~~~  157 (237)
                      ..|=||.++-.+.    .-| |+     ..-|..|+.+|+..  +..|++|+.+...
T Consensus         3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            4799999985443    344 64     47899999999954  3469999987744

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

Probab=95.80  E-value=0.0068  Score=53.55  Aligned_cols=48  Identities=27%  Similarity=0.703  Sum_probs=38.2

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHH--hcCCCCCccccccCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKW--LGSHSTCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w--l~~~~~CP~CR~~~~~  157 (237)
                      ....|.||.+.+.--   .++| |+|..|--|-.+.  |..++.||+||.....
T Consensus        60 en~~C~ICA~~~TYs---~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~  109 (493)
T COG5236          60 ENMNCQICAGSTTYS---ARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA  109 (493)
T ss_pred             ccceeEEecCCceEE---Eecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence            467899999987654   6788 9999999997654  6778899999986543

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

Probab=95.64  E-value=0.0041  Score=52.37  Aligned_cols=45  Identities=20%  Similarity=0.592  Sum_probs=32.1

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      .|--|..--. ++...++. |+|+||..|...-..  ..||+|+.++..
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~~--~~C~lCkk~ir~   49 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASSP--DVCPLCKKSIRI   49 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccCCc--cccccccceeee
Confidence            4666655444 66677765 999999999865322  289999998743

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.64  E-value=0.014  Score=46.20  Aligned_cols=48  Identities=23%  Similarity=0.658  Sum_probs=34.3

Q ss_pred             CCCccccccccccCCcceeecCCCC--C---CCchhHHHHHhcCC--CCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCN--H---TFHAECIDKWLGSH--STCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~--H---~fh~~Ci~~wl~~~--~~CP~CR~~~~~~  158 (237)
                      .+..|=||.++....    ..| |.  .   .-|.+|+..|+...  ..|++|+.+....
T Consensus         7 ~~~~CRIC~~~~~~~----~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          7 MDKCCWICKDEYDVV----TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCeeEecCCCCCCc----cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            356899999885421    235 54  4   55999999999544  4699999877443

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

Probab=95.48  E-value=0.01  Score=52.00  Aligned_cols=48  Identities=38%  Similarity=0.850  Sum_probs=37.2

Q ss_pred             CCccccccccccCC--cce-eecCCCCCCCchhHHHHHhcCCC-CCccccccC
Q 026517          107 AIECAVCLSNLENE--EMA-RVLPNCNHTFHAECIDKWLGSHS-TCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~--~~~-~~l~~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~  155 (237)
                      ...|-||-++|...  +.+ +.| .|||.||..|+...+.... .||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            35799999999876  333 444 4999999999988775444 699999985

>PHA03096 p28-like protein; Provisional

Probab=95.43  E-value=0.0069  Score=52.86  Aligned_cols=45  Identities=29%  Similarity=0.667  Sum_probs=32.0

Q ss_pred             ccccccccccCC----cceeecCCCCCCCchhHHHHHhcC---CCCCccccc
Q 026517          109 ECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGS---HSTCPICRT  153 (237)
Q Consensus       109 ~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~  153 (237)
                      .|.||++.....    ..--.|+.|.|.||..|+..|-..   ..+||.||.
T Consensus       180 ~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        180 ICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            699999986543    123367789999999999999743   224555544

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

Probab=95.35  E-value=0.0068  Score=52.78  Aligned_cols=44  Identities=30%  Similarity=0.680  Sum_probs=31.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      .-.|.-|--.  ...--+++| |+|+||.+|-..  ...+.||.|-..+
T Consensus        90 VHfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            3467777433  333457888 999999999754  4567899997654

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=95.23  E-value=0.011  Score=36.64  Aligned_cols=41  Identities=27%  Similarity=0.759  Sum_probs=24.1

Q ss_pred             cccccccccCCcceeecCCCCCCCchhHHHHHhcCCC--CCccc
Q 026517          110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS--TCPIC  151 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~C  151 (237)
                      |.+|.+....+...... .|+=.+|..|+..++....  .||.|
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            67888887777544433 3888999999999997655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.18  E-value=0.0084  Score=58.50  Aligned_cols=43  Identities=23%  Similarity=0.711  Sum_probs=33.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~  155 (237)
                      ...|.+|-..+..|  ..... |||.||.+|+.   .....||-|+...
T Consensus       840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            35799999998877  34444 99999999997   4556799998733

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

Probab=94.97  E-value=0.011  Score=57.69  Aligned_cols=49  Identities=31%  Similarity=0.777  Sum_probs=36.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-------CCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-------STCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-------~~CP~CR~~~  155 (237)
                      ..+|.||.+.+.....+---..|=|+||..||..|-.+.       -.||.|....
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            578999999987665544333477999999999997432       1599998433

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

Probab=94.75  E-value=0.0021  Score=57.48  Aligned_cols=49  Identities=22%  Similarity=0.615  Sum_probs=42.2

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|+||.+.+... +.+..+- |||.+|.+||..||.....||.||+.++
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            45799999999876 5666675 9999999999999998888999998774

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

Probab=94.32  E-value=0.018  Score=56.11  Aligned_cols=49  Identities=24%  Similarity=0.605  Sum_probs=37.4

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC--CCccccccCCCCCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS--TCPICRTGAEPRPQP  161 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~CR~~~~~~~~~  161 (237)
                      ..|.||++    .+.+...+ |+|.||..|+..-+....  .||+||..+......
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~  505 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL  505 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence            57999999    33445665 999999999999885433  599999988665443

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

Probab=93.72  E-value=0.15  Score=30.44  Aligned_cols=29  Identities=10%  Similarity=0.371  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026517           20 IMVTAIISLTIVIVVVLLLHIYARCVLRR   48 (237)
Q Consensus        20 ~~ii~i~~l~~vi~~i~~~~~~~~~~~r~   48 (237)
                      .+.+++.+++++.++++.+++|..|++|.
T Consensus         5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~   33 (38)
T PF02439_consen    5 TIAIIVAVVVGMAIIIICMFYYACCYKKH   33 (38)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence            34444444445555555555555555443

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

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

Probab=93.62  E-value=0.042  Score=44.32  Aligned_cols=31  Identities=29%  Similarity=0.913  Sum_probs=24.6

Q ss_pred             CCCCCCchhHHHHHhcC-----C------CCCccccccCCCC
Q 026517          128 NCNHTFHAECIDKWLGS-----H------STCPICRTGAEPR  158 (237)
Q Consensus       128 ~C~H~fh~~Ci~~wl~~-----~------~~CP~CR~~~~~~  158 (237)
                      .||.-||.-|+..||+.     +      ..||+|-.++..+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            49999999999999953     1      2599998887544

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

Probab=93.35  E-value=0.049  Score=47.23  Aligned_cols=45  Identities=33%  Similarity=0.739  Sum_probs=36.4

Q ss_pred             CccccccccccCCcc-eeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517          108 IECAVCLSNLENEEM-ARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      ..|+||.+.+..... +..++ |||..|..|+......+.+||+|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            349999998765543 34565 9999999999998877789999988

>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=93.31  E-value=0.056  Score=42.80  Aligned_cols=52  Identities=23%  Similarity=0.676  Sum_probs=33.4

Q ss_pred             CCccccccccccCCcceeecC------C-----CCC-CCchhHHHHHhcC------------------------------
Q 026517          107 AIECAVCLSNLENEEMARVLP------N-----CNH-TFHAECIDKWLGS------------------------------  144 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~------~-----C~H-~fh~~Ci~~wl~~------------------------------  144 (237)
                      +..|+|||+.-...   ++|.      +     |+. .-|..||++..+.                              
T Consensus         2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            45799999974332   3332      1     443 3468899988521                              


Q ss_pred             -CCCCccccccCCCCCCC
Q 026517          145 -HSTCPICRTGAEPRPQP  161 (237)
Q Consensus       145 -~~~CP~CR~~~~~~~~~  161 (237)
                       +..||+||..|..+...
T Consensus        79 ~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccccCccccCceeceEEc
Confidence             12599999999776544

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.

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

Probab=93.10  E-value=0.039  Score=54.29  Aligned_cols=34  Identities=29%  Similarity=0.630  Sum_probs=27.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHh
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL  142 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl  142 (237)
                      ...|.+|...+... .-.+.| |||.||.+||..-.
T Consensus       817 ~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  817 QDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             ccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            45799999887754 445667 99999999998764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.80  E-value=0.076  Score=46.98  Aligned_cols=50  Identities=16%  Similarity=0.434  Sum_probs=34.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~  156 (237)
                      +..|+.|+++|...+.-..--.||.-.|.-|....-+. +..||-||+...
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            34599999999876654332238887788887665432 557999998654

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

Probab=92.74  E-value=0.047  Score=45.57  Aligned_cols=41  Identities=32%  Similarity=0.761  Sum_probs=30.9

Q ss_pred             cccccccccCCcceeecCCCCC-CCchhHHHHHhcCCCCCccccccCCCC
Q 026517          110 CAVCLSNLENEEMARVLPNCNH-TFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       110 C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      |-.|.+.   ...|..+| |.| ++|..|=..    -..||+|+.+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~  202 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSS  202 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhce
Confidence            7777665   66688998 998 899999643    35699998876543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=92.73  E-value=0.14  Score=33.23  Aligned_cols=40  Identities=25%  Similarity=0.669  Sum_probs=33.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCcc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPI  150 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~  150 (237)
                      ...|++|-+.|..++.+.+-|.||-.+|+.|...    ...|-+
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            4579999999998888888888999999999755    456655

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

Probab=92.34  E-value=0.082  Score=46.54  Aligned_cols=42  Identities=29%  Similarity=0.772  Sum_probs=33.5

Q ss_pred             CCccccccccccCCcceeecCCC--CCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNC--NHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C--~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      -.+||||.+.+..+    ... |  ||+.|..|-..   ....||.||.++.
T Consensus        48 lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~~---~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   48 LLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRTK---VSNKCPTCRLPIG   91 (299)
T ss_pred             hccCchhhccCccc----cee-cCCCcEehhhhhhh---hcccCCccccccc
Confidence            56899999999988    333 6  69999999753   3567999998874

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

Probab=92.33  E-value=0.45  Score=43.05  Aligned_cols=44  Identities=20%  Similarity=0.514  Sum_probs=37.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC---CCCccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH---STCPIC  151 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~C  151 (237)
                      ...|||=.+.-.+......|. |||+..++-|.+.-+..   ..||+|
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            678999988888777778998 99999999999976543   369999

>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=91.28  E-value=0.16  Score=44.02  Aligned_cols=47  Identities=21%  Similarity=0.643  Sum_probs=34.1

Q ss_pred             cccccccc-ccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccC
Q 026517          109 ECAVCLSN-LENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGA  155 (237)
Q Consensus       109 ~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~  155 (237)
                      .|++|..+ |..++...+...|+|..|..|.+..+.. ...||-|-..+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            48888865 3444443333349999999999999854 45799997755

>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=91.11  E-value=0.076  Score=33.36  Aligned_cols=30  Identities=27%  Similarity=0.729  Sum_probs=21.8

Q ss_pred             CC-CCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          129 CN-HTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       129 C~-H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      |. |..|..|+...|.+...||+|..+++..
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            76 9999999999999999999999888543

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.

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

Probab=90.95  E-value=0.13  Score=50.07  Aligned_cols=25  Identities=28%  Similarity=0.806  Sum_probs=22.1

Q ss_pred             ecCCCCCCCchhHHHHHhcCCCCCcc
Q 026517          125 VLPNCNHTFHAECIDKWLGSHSTCPI  150 (237)
Q Consensus       125 ~l~~C~H~fh~~Ci~~wl~~~~~CP~  150 (237)
                      ... |+|+.|..|...|+.....||.
T Consensus      1045 Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             hcc-ccccccHHHHHHHHhcCCcCCC
Confidence            444 9999999999999999999985

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

Probab=90.79  E-value=0.065  Score=54.76  Aligned_cols=44  Identities=34%  Similarity=0.847  Sum_probs=36.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      ...|.||++.+...-.  .. .|||.+|..|...|+..+..||.|..
T Consensus      1153 ~~~c~ic~dil~~~~~--I~-~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGG--IA-GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             ccchHHHHHHHHhcCC--ee-eechhHhhhHHHHHHHHhccCcchhh
Confidence            4579999999884322  23 39999999999999999999999984

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

Probab=90.12  E-value=0.15  Score=45.91  Aligned_cols=29  Identities=34%  Similarity=0.897  Sum_probs=21.4

Q ss_pred             CCCCCchhHHHHHhcC-------------CCCCccccccCCC
Q 026517          129 CNHTFHAECIDKWLGS-------------HSTCPICRTGAEP  157 (237)
Q Consensus       129 C~H~fh~~Ci~~wl~~-------------~~~CP~CR~~~~~  157 (237)
                      |....|.+|+-+|+-.             +-.||+||+.+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4456678999999832             2269999998754

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

>PHA02650 hypothetical protein; Provisional

Probab=89.74  E-value=0.98  Score=31.47  Aligned_cols=30  Identities=17%  Similarity=0.028  Sum_probs=17.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026517           18 SKIMVTAIISLTIVIVVVLLLHIYARCVLR   47 (237)
Q Consensus        18 ~~~~ii~i~~l~~vi~~i~~~~~~~~~~~r   47 (237)
                      +..+.++++++++++++++++++|.+...|
T Consensus        46 ~~~~~~~ii~i~~v~i~~l~~flYLK~~~r   75 (81)
T PHA02650         46 WFNGQNFIFLIFSLIIVALFSFFVFKGYTR   75 (81)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            334444444466666667777777766554

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

Probab=89.34  E-value=0.1  Score=50.47  Aligned_cols=49  Identities=31%  Similarity=0.870  Sum_probs=38.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC---CCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS---TCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~CR~~~~~~~  159 (237)
                      ..+|+||+..+..+   ..+ .|.|.|+..|+..-|...+   .||+|+..+.-..
T Consensus        21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s   72 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS   72 (684)
T ss_pred             hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence            45899999999988   445 4999999999988775544   5999997665443

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

Probab=88.08  E-value=0.21  Score=45.55  Aligned_cols=38  Identities=26%  Similarity=0.712  Sum_probs=27.8

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhcCC
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGSH  145 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~  145 (237)
                      ..+|.||+.+.... ...... .|+|.||.+|+++.++.+
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhhh
Confidence            45899999554444 444444 499999999999888643

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.89  E-value=0.19  Score=42.88  Aligned_cols=49  Identities=29%  Similarity=0.788  Sum_probs=33.8

Q ss_pred             CCCccccccccccCCcce-eecCCCC-----CCCchhHHHHHhcCC--------CCCccccccC
Q 026517          106 AAIECAVCLSNLENEEMA-RVLPNCN-----HTFHAECIDKWLGSH--------STCPICRTGA  155 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~-~~l~~C~-----H~fh~~Ci~~wl~~~--------~~CP~CR~~~  155 (237)
                      .+..|=||+..-++.... -+-| |.     |-.|..||..|+..+        .+||-|++..
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            356899999876554322 2333 53     789999999998321        2599999755

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

Probab=87.62  E-value=0.37  Score=37.10  Aligned_cols=52  Identities=19%  Similarity=0.506  Sum_probs=36.6

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc---CCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG---SHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~~~~  158 (237)
                      -.+|.||.+...+..-+.--..||-..|..|....++   ....||.|+.++...
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            4689999998766522222224999999998876553   345799999988654

>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=87.52  E-value=1  Score=34.43  Aligned_cols=27  Identities=22%  Similarity=0.256  Sum_probs=9.9

Q ss_pred             CCCCCCchhHHHHHHHHHHHHHHHHHHH
Q 026517           11 KNPYSLNSKIMVTAIISLTIVIVVVLLL   38 (237)
Q Consensus        11 ~~~~~~~~~~~ii~i~~l~~vi~~i~~~   38 (237)
                      ...|+..- +..|++.+++.++++++++
T Consensus        58 ~h~fs~~~-i~~Ii~gv~aGvIg~Illi   84 (122)
T PF01102_consen   58 VHRFSEPA-IIGIIFGVMAGVIGIILLI   84 (122)
T ss_dssp             SSSSS-TC-HHHHHHHHHHHHHHHHHHH
T ss_pred             ccCccccc-eeehhHHHHHHHHHHHHHH
Confidence            34444332 2333333344444444333

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.

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

Probab=87.01  E-value=0.32  Score=44.59  Aligned_cols=33  Identities=30%  Similarity=0.687  Sum_probs=28.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG  143 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~  143 (237)
                      +..|+||..-|.++   +.|| |+|..|..|...-+.
T Consensus         4 elkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    4 ELKCPVCGSFYREP---IILP-CSHNLCQACARNILV   36 (699)
T ss_pred             cccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence            56799999999998   8888 999999999876553

>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase

Probab=86.98  E-value=0.74  Score=27.92  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 026517           28 LTIVIVVVLLLHIYARCVLRRQ   49 (237)
Q Consensus        28 l~~vi~~i~~~~~~~~~~~r~~   49 (237)
                      +.++.+.++..++|.+|..|++
T Consensus        17 Vglv~i~iva~~iYRKw~aRkr   38 (43)
T PF08114_consen   17 VGLVGIGIVALFIYRKWQARKR   38 (43)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555667777766554

Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.82  E-value=0.27  Score=42.77  Aligned_cols=30  Identities=23%  Similarity=0.620  Sum_probs=23.1

Q ss_pred             CCCCCchhHHHHHhc-------------CCCCCccccccCCCC
Q 026517          129 CNHTFHAECIDKWLG-------------SHSTCPICRTGAEPR  158 (237)
Q Consensus       129 C~H~fh~~Ci~~wl~-------------~~~~CP~CR~~~~~~  158 (237)
                      |....|.+|+.+|+.             ++-+||+||+.+.-.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            667888999999973             234799999987543

>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=86.18  E-value=0.24  Score=41.91  Aligned_cols=47  Identities=28%  Similarity=0.673  Sum_probs=34.3

Q ss_pred             CCccccccccc-cCCc-ceeecCCCCCCCchhHHHHHhcCCC-CCc--cccc
Q 026517          107 AIECAVCLSNL-ENEE-MARVLPNCNHTFHAECIDKWLGSHS-TCP--ICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~-~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP--~CR~  153 (237)
                      +..||||..+- -.|+ .+.+-|.|-|.+|..|+++.+.... .||  -|-.
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            44799999763 3333 4445556999999999999996655 699  6754

>PHA02844 putative transmembrane protein; Provisional

Probab=86.03  E-value=1.7  Score=29.96  Aligned_cols=26  Identities=19%  Similarity=0.392  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026517           20 IMVTAIISLTIVIVVVLLLHIYARCV   45 (237)
Q Consensus        20 ~~ii~i~~l~~vi~~i~~~~~~~~~~   45 (237)
                      .+..+++.+++++++++++++|.+..
T Consensus        47 ~~~~~ii~i~~v~~~~~~~flYLK~~   72 (75)
T PHA02844         47 STKIWILTIIFVVFATFLTFLYLKAV   72 (75)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhee
Confidence            33333344555556666666666543

>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world

Probab=85.95  E-value=1.3  Score=38.99  Aligned_cols=13  Identities=8%  Similarity=0.511  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 026517           32 IVVVLLLHIYARC   44 (237)
Q Consensus        32 i~~i~~~~~~~~~   44 (237)
                      ++++++++++.|+
T Consensus       269 VLIMvIIYLILRY  281 (299)
T PF02009_consen  269 VLIMVIIYLILRY  281 (299)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333343

Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.75  E-value=1.3  Score=37.77  Aligned_cols=52  Identities=17%  Similarity=0.325  Sum_probs=41.2

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      .....|+|---+|........+-.|||+|-..-++..-  ..+|++|.+.+...
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~  160 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQED  160 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCccccc
Confidence            44678999988888776666666699999999888754  56899999987654

>PF15102 TMEM154: TMEM154 protein family

Probab=83.41  E-value=0.23  Score=38.89  Aligned_cols=8  Identities=50%  Similarity=1.194  Sum_probs=4.0

Q ss_pred             hHHHHHhc
Q 026517          136 ECIDKWLG  143 (237)
Q Consensus       136 ~Ci~~wl~  143 (237)
                      .=|++|..
T Consensus       128 eeldkwm~  135 (146)
T PF15102_consen  128 EELDKWMN  135 (146)
T ss_pred             HHHHhHHH
Confidence            34555653

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=82.43  E-value=2.5  Score=27.56  Aligned_cols=47  Identities=28%  Similarity=0.661  Sum_probs=33.8

Q ss_pred             CccccccccccCCcceeecCCCCC--CCchhHHHHHhcCCCCCccccccCCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNH--TFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H--~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ..|-.|-.++.....-..+  |.+  .||..|.+..|  +..||.|-..+...
T Consensus         6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~R   54 (57)
T PF06906_consen    6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRR   54 (57)
T ss_pred             CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence            4588888887765422222  664  89999999987  57899998877544

This family contains a number of conserved cysteine residues and its function is unknown.

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

Probab=81.82  E-value=0.46  Score=45.42  Aligned_cols=43  Identities=28%  Similarity=0.782  Sum_probs=26.9

Q ss_pred             CCcccccccc-----ccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517          107 AIECAVCLSN-----LENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      ...|.+|...     |......+... |+++||..|+..   .+..||.|-+
T Consensus       511 gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             eeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCchHH
Confidence            4678888322     32222334444 999999999765   3344999943

>PF13908 Shisa: Wnt and FGF inhibitory regulator

Probab=81.48  E-value=0.96  Score=36.62  Aligned_cols=6  Identities=33%  Similarity=0.788  Sum_probs=2.7

Q ss_pred             HHHHHh
Q 026517           43 RCVLRR   48 (237)
Q Consensus        43 ~~~~r~   48 (237)
                      ++++.+
T Consensus       102 ~c~~~K  107 (179)
T PF13908_consen  102 CCCLYK  107 (179)
T ss_pred             cccccc
Confidence            444444

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.14  E-value=1.3  Score=28.15  Aligned_cols=43  Identities=26%  Similarity=0.636  Sum_probs=20.7

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-----CCCcccccc
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-----STCPICRTG  154 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-----~~CP~CR~~  154 (237)
                      ..|+|....+..|  ++.. .|.|.-|++ +..||..+     -.||+|.++
T Consensus         3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            4699999888877  4444 499976654 34555322     259999764

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 entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=80.96  E-value=1  Score=43.10  Aligned_cols=47  Identities=36%  Similarity=0.836  Sum_probs=37.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQP  161 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~  161 (237)
                      ...|.||+.++    ..+..+ |.   |..|+..|+..+..||+|+..+......
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            45799999998    235555 88   8999999999999999999887665433

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

Probab=80.46  E-value=0.56  Score=45.02  Aligned_cols=44  Identities=23%  Similarity=0.657  Sum_probs=31.4

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~  153 (237)
                      ...|.||+..|......-+-+.|||..|..|+..-.  +.+|| |..
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence            347999988886654333334599999999997754  56788 543

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

Probab=80.32  E-value=1  Score=39.39  Aligned_cols=50  Identities=26%  Similarity=0.649  Sum_probs=35.2

Q ss_pred             CCccccccccccCCcc-eeecCCCC-----CCCchhHHHHHhc--CCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEM-ARVLPNCN-----HTFHAECIDKWLG--SHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~-~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~CR~~~~~  157 (237)
                      ...|=||..+...... ....| |.     +..|..|+..|+.  .+..|..|......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            4679999997654321 23444 54     5779999999996  45579999876543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	237
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-16
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		3e-11
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		3e-07
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-04
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		2e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		8e-04

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 35/52 (67%), Positives = 40/52 (76%), Gaps = 4/52 (7%)
Query: 101 DDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           DDG    +ECAVCL+ LE+ E AR LP C H FHAEC+D WLGSHSTCP+CR
Sbjct: 3   DDG----VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 65.5 bits (158), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 26/48 (54%), Positives = 36/48 (75%), Gaps = 1/48 (2%)
Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP 157
           C VC+ + E+ ++ RVLP CNH FHA+C+DKWL ++ TCPICR  + P
Sbjct: 26  CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGP 72

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/55 (47%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPES 163
           +C +CLS LE  E  R LP C H FH  C+D+WL ++  CPICR   E +   ES
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

>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 = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 99  GQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           G ++ + + +EC VC  +    E  R LP CNH FH  CI  WL  H +CP+CR
Sbjct: 7   GTEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGPVS 169
           CAVCL + +  +   + P C H FH +C+ KWL     CP+C     P  Q     GP S
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNM---PVLQLAQLSGPSS 73

>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 = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 10/85 (11%)
Query: 73  PPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHT 132
           PP  K  +D     ALP  +  +  G     +     C +C S     ++A  LP C+H 
Sbjct: 15  PPASKESID-----ALPEILVTEDHGAVGQEMC----CPICCSEYVKGDVATELP-CHHY 64
Query: 133 FHAECIDKWLGSHSTCPICRTGAEP 157
           FH  C+  WL    TCP+CR    P
Sbjct: 65  FHKPCVSIWLQKSGTCPVCRCMFPP 89

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 30/58 (51%), Gaps = 8/58 (13%)
Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR---TGAEPRPQPES 163
           EC +C+    +     +LP C H+F  +CIDKW   H  CPICR   TGA     P S
Sbjct: 17  ECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPSS 69

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 101 DDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR 158
           +D L   ++C +C        +  V  NC H+F + CI++W+     CPICR   + +
Sbjct: 47  NDVLENELQCIICSEYF----IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	237
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	6e-31
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-29
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-28
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-27
2ect_A	78	Ring finger protein 126; metal binding protein, st	7e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	6e-22
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-19
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	7e-18
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	6e-16
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	6e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	5e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	6e-13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-10
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-10
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	7e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	8e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	5e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	5e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	4e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-04
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	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 =  108 bits (271), Expect = 6e-31
 Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 6/76 (7%)

Query: 84  VIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG 143
               LP + +   +   +        C VC+ + E+ ++ RVLP CNH FHA+C+DKWL 
Sbjct: 5   SSGQLPSYRFNPNNHQSEQT-----LCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLK 58

Query: 144 SHSTCPICRTGAEPRP 159
           ++ TCPICR  + P  
Sbjct: 59  ANRTCPICRADSGPSS 74

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

 Score =  105 bits (263), Expect = 2e-29
 Identities = 27/86 (31%), Positives = 36/86 (41%), Gaps = 8/86 (9%)

Query: 68  HSTETPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLP 127
           HS     PP        I ALP  +  +  G     +     C +C S     ++A  LP
Sbjct: 8   HSHMVANPP---ASKESIDALPEILVTEDHGAVGQEM----CCPICCSEYVKGDVATELP 60

Query: 128 NCNHTFHAECIDKWLGSHSTCPICRT 153
            C+H FH  C+  WL    TCP+CR 
Sbjct: 61  -CHHYFHKPCVSIWLQKSGTCPVCRC 85

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

 Score =  101 bits (253), Expect = 2e-28
 Identities = 32/51 (62%), Positives = 38/51 (74%)

Query: 103 GLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
            +   +ECAVCL+ LE+ E AR LP C H FHAEC+D WLGSHSTCP+CR 
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRL 51

>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 = 98.6 bits (246), Expect = 3e-27
 Identities = 28/67 (41%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 97  DGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE 156
           DG +        +C +CLS LE  E  R LP C H FH  C+D+WL ++  CPICR   E
Sbjct: 4   DGEEGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62

Query: 157 PRPQPES 163
            +   ES
Sbjct: 63  AQLPSES 69

>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 = 90.2 bits (224), Expect = 7e-24
 Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 99  GQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR 158
           G ++ + + +EC VC  +    E  R LP CNH FH  CI  WL  H +CP+CR     +
Sbjct: 7   GTEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65

Query: 159 PQPESREGP 167
               +  G 
Sbjct: 66  NTATNPPGL 74

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

 Score = 84.8 bits (210), Expect = 6e-22
 Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 4/58 (6%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR---TGAEPRPQPES 163
            CAVCL + +  +   + P C H FH +C+ KWL     CP+C            P S
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPSS 73

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

 Score = 79.2 bits (195), Expect = 1e-19
 Identities = 14/43 (32%), Positives = 24/43 (55%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           C  C +  + E+   V   CNH+FH  C+  W+  ++ CP+C+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 78.1 bits (193), Expect = 1e-19
 Identities = 11/44 (25%), Positives = 19/44 (43%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
            C +CL ++    +   +  C H  H  C ++ L     CP+C 
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

>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 = 7e-18
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 5/54 (9%)

Query: 99  GQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           G+   L    EC +C+    +     +LP C H+F  +CIDKW   H  CPICR
Sbjct: 7   GRVKQLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICR 55

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

 Score = 69.0 bits (169), Expect = 6e-16
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
            C +CL +  N   +  LP C H F   CI +W+  + TCP+C+ 
Sbjct: 7   RCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKV 48

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

 Score = 63.8 bits (155), Expect = 6e-14
 Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 3/66 (4%)

Query: 96  TDGGQDDGLAAAIECAVCLSNLENEEMAR---VLPNCNHTFHAECIDKWLGSHSTCPICR 152
              G     +  + C +C+             V   C H F ++C+   L + +TCP CR
Sbjct: 4   GSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

Query: 153 TGAEPR 158
                +
Sbjct: 64  KKINHK 69

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

 Score = 62.1 bits (151), Expect = 2e-13
 Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 105 AAAIECAVCLSNLENEEMAR---VLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR 158
            A + C +C+             V   C H F ++C+   L + +TCP CR     +
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57

>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 = 62.2 bits (151), Expect = 5e-13
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 102 DGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEPR 158
           + +A    C +C+  L +   AR+ P+C+      CI +WL    + CP CR   + R
Sbjct: 17  ESIAEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

>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 = 61.0 bits (148), Expect = 6e-13
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 3/64 (4%)

Query: 98  GGQDDGLAAAIECAVCLSNLENEEMARVLP---NCNHTFHAECIDKWLGSHSTCPICRTG 154
           G      +  + C +C+           L     C H F ++C+   L + +TCP CR  
Sbjct: 1   GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

Query: 155 AEPR 158
              +
Sbjct: 61  INHK 64

>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 = 61.0 bits (147), Expect = 2e-12
 Identities = 14/43 (32%), Positives = 20/43 (46%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           C    ++  +EE       CNH FH  CI +WL +   CP+  
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 59.4 bits (144), Expect = 3e-12
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 4/64 (6%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTG-AEPRPQPE 162
           L   I C++C   L +   A  +  C HTF   CI +     + CP C     + +P   
Sbjct: 12  LTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSG 68

Query: 163 SREG 166
              G
Sbjct: 69  PSSG 72

>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 = 60.6 bits (146), Expect = 4e-12
 Identities = 14/43 (32%), Positives = 20/43 (46%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           C    ++  +EE       CNH FH  CI +WL +   CP+  
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 56.4 bits (136), Expect = 1e-10
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           L   + C +C     +   A  +  C H+F   CI ++L +   CPIC  
Sbjct: 12  LNPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDV 58

>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 = 54.9 bits (132), Expect = 1e-10
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRT 153
            C +C S L      +    C    H  C+ K+  S+    CP C  
Sbjct: 17  ICNICHSLLIQ---GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

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

 Score = 53.2 bits (128), Expect = 1e-09
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           +   + C +C         A ++P C+H + + CI K+L   + CP C  
Sbjct: 19  IDDLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCV 65

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

 Score = 53.9 bits (129), Expect = 2e-09
 Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP 159
           +C +C           V  NC H+F + CI++W+     CPICR   + + 
Sbjct: 66  QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

 Score = 51.0 bits (122), Expect = 4e-09
 Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTG 154
            C +C    +N     V+  C H F   C  +   +   C IC   
Sbjct: 17  RCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 51.7 bits (123), Expect = 9e-09
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 3/57 (5%)

Query: 108 IECAVCLSNLENEEMARVLP---NCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQP 161
           + C +C+           L     C H F ++C+   L + +TCP CR     +   
Sbjct: 8   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

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

 Score = 41.7 bits (97), Expect = 3e-05
 Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 3/49 (6%)

Query: 108 IECAVCLSNLEN---EEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           + C +C+             V   C H F ++C+   L + +TCP CR 
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121

>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 = 51.0 bits (121), Expect = 1e-08
 Identities = 17/85 (20%), Positives = 26/85 (30%), Gaps = 21/85 (24%)

Query: 109 ECAVCLSNLE--------------NEEMARVLPNCNHTFHAECIDKWL-----GSHSTCP 149
           +C +C+  L                  +   L  C+H FH  C+              CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 150 ICRT--GAEPRPQPESREGPVSIAP 172
            C+T  G +   QP  +       P
Sbjct: 87  SCKTIYGEKTGTQPWGKMEVFRSGP 111

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

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           ECA+CL    +     V   C H F   C+         C +CR 
Sbjct: 17  ECAICLQTCVHP----VSLPCKHVFCYLCVKGASWLGKRCALCRQ 57

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

 Score = 53.3 bits (127), Expect = 1e-08
 Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 15/62 (24%)

Query: 107 AIECAVCLS-NLENEEMARVL---PNCNHTFHAECIDKWL-----------GSHSTCPIC 151
            + C +C +  L+  E+  V      C    HA C+++W             S   CP C
Sbjct: 308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFC 367

Query: 152 RT 153
           + 
Sbjct: 368 KA 369

>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 = 53.2 bits (127), Expect = 2e-08
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTG 154
            C +C  N ++      +  C H     C+  W  S    CP CR  
Sbjct: 334 LCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

>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 = 46.3 bits (110), Expect = 2e-07
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS--HSTCPICRTGAEPRPQ 160
           C +C   + +   A V+P C +++  ECI   L      TCP C         
Sbjct: 18  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 67

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

 Score = 47.2 bits (112), Expect = 3e-07
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 5/55 (9%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR 158
           L   + C+ C + L        L  C H F + C+   +G  + CP+C T A  +
Sbjct: 19  LEKLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ 68

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

 Score = 45.1 bits (107), Expect = 7e-07
 Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 5/50 (10%)

Query: 108 IECAVCLSNLENEEMA-RVLPNCNHTFHAECIDKWLGSHS---TCPICRT 153
           +EC +C+ +   E++  ++L  C HT   +C++K L S      CP C  
Sbjct: 16  LECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSK 64

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

 Score = 45.1 bits (107), Expect = 8e-07
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGAEPRPQ 160
           C +C   + +   A V+P C +++  ECI   L      TCP C         
Sbjct: 16  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 65

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 5/54 (9%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEPRPQP 161
           +C  C   +       +   C H    +C+D+   +   +CP CR         
Sbjct: 54  QCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAM 103

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

 Score = 47.0 bits (111), Expect = 1e-06
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRT 153
            C +C S L      +    C    H  C+ K+  S+    CP C  
Sbjct: 182 ICNICHSLLIQ---GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 225

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

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 12/59 (20%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPESREGP 167
            C  C +  +     ++LP C HT  + C++    S   CPIC+      P P   + P
Sbjct: 8   RCQQCQAEAKC---PKLLP-CLHTLCSGCLEA---SGMQCPICQ-----APWPLGADTP 54

>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 = 44.2 bits (104), Expect = 5e-06
 Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 4/57 (7%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPRP 159
           L + + C +CL  L+N         C H F A+CI   L S    CP CR     + 
Sbjct: 51  LHSELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKR 104

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 5/45 (11%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICR 152
           +C  C   L +         C H F   C+   L S S  C  C+
Sbjct: 17  KCEKCHLVLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQ 57

>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 = 41.8 bits (98), Expect = 2e-05
 Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR 158
           I C +C   L +     V  +C H F   CI + L    S CP CR    P 
Sbjct: 24  ISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>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 = 41.4 bits (97), Expect = 3e-05
 Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 5/57 (8%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEPRPQPESR 164
           +C +C+  L        LP CNHT    C    +   S  CP CR       +  +R
Sbjct: 17  QCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTR 69

>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 = 40.2 bits (94), Expect = 5e-05
 Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 9/68 (13%)

Query: 103 GLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS--------TCPICRTG 154
           G + +  C +CL     E+M   +  C   F   C+ +++            +CP     
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 155 AEPRPQPE 162
            +   Q  
Sbjct: 60  KQGHLQEN 67

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

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 4/61 (6%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPRP---QPESR 164
           EC +C+  LE +++      C +     C  +     +  CP CR      P   +P S+
Sbjct: 13  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQ 72

Query: 165 E 165
           E
Sbjct: 73  E 73

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

 Score = 39.6 bits (92), Expect = 2e-04
 Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 5/54 (9%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEPRPQP 161
            C  C   +       V   C H    +C+ +   +   +CP CR         
Sbjct: 80  MCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIM 129

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 2e-04
 Identities = 23/142 (16%), Positives = 45/142 (31%), Gaps = 31/142 (21%)

Query: 7   DD--DHK--NPYSLNSKIMVTAIISLTIVIVVVLLLHIYARCVLRRQARRRSVIR--SLD 60
            +  + K  N ++L+ KI++T     T    V   L       +       ++       
Sbjct: 251 LNVQNAKAWNAFNLSCKILLT-----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 61  LVNNRVTHSTETPPPPKTGLDPTVIAALPIFV---------YKQTDGGQDDGLAAAIECA 111
           L+   +    +  P      +P  ++ +   +         +K  +    D L   IE  
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN---CDKLTTIIE-- 360

Query: 112 VCLSNLENEEMAR------VLP 127
             L+ LE  E  +      V P
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFP 382

>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 = 37.6 bits (87), Expect = 2e-04
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 2/47 (4%)

Query: 109 ECAVCLSN-LENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRT 153
            C  C +    N  +  ++  C HT    C+D      +  CP C T
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGT 51

>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 = 37.9 bits (88), Expect = 4e-04
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 5/54 (9%)

Query: 101 DDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRT 153
           D  L +  EC +CL  L       V   C H F   CI K +      CP+   
Sbjct: 12  DPPLESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

>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 = 38.9 bits (90), Expect = 5e-04
 Identities = 14/53 (26%), Positives = 17/53 (32%), Gaps = 5/53 (9%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPRP 159
            EC +CL  L       V   C H F   CI K +      CP+         
Sbjct: 19  YECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 Length = 968

 Score = 39.4 bits (91), Expect = 8e-04
 Identities = 12/44 (27%), Positives = 15/44 (34%), Gaps = 3/44 (6%)

Query: 125 VLPNCNHTFHAECIDKWLGSHSTCPICR---TGAEPRPQPESRE 165
           +LP          I   L S ST P  R      +  P  E R+
Sbjct: 906 ILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQ 949

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	237
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.73
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.64
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.58
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.58
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.56
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.46
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.45
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.44
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.43
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.43
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.42
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.42
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.4
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.4
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.38
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.37
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.36
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.36
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.35
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.35
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.33
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.33
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.33
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.3
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.29
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.27
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.27
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.26
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.25
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.24
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.24
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.24
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.22
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.21
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.21
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.2
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.2
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.17
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.14
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.12
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.11
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.1
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.1
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.1
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.02
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.01
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.0
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.99
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.98
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.92
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.86
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.84
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.83
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.81
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.8
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.78
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.74
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.71
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.67
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.64
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.56
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.51
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.49
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.28
3nw0_A	238	Non-structural maintenance of chromosomes element	98.07
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.48
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.29
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.95
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.22
1ujr_A	110	Hypothetical protein AK012080; WWE domain, structu	91.87
3v3l_A	85	E3 ubiquitin-protein ligase RNF146; HET: V3L; 1.65	91.61
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	88.43
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.67
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	87.6
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	87.24
2knc_A	54	Integrin alpha-IIB; transmembrane signaling, prote	87.13
1we9_A	64	PHD finger family protein; structural genomics, PH	86.74
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	86.45
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	86.4
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	86.36
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	86.33
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	86.29
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	85.65
2l8s_A	54	Integrin alpha-1; transmembrane region, detergent	85.26
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	85.14
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	84.51
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	84.14
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	83.8
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	83.6
1wem_A	76	Death associated transcription factor 1; structura	83.01
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	82.94
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	82.4
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	81.47
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	81.05
2k1a_A	42	Integrin alpha-IIB; single-PASS transmembrane segm	80.39

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

Probab=99.73  E-value=6.7e-18  Score=121.90  Aligned_cols=81  Identities=30%  Similarity=0.663  Sum_probs=68.6

Q ss_pred             CCCCCCCCCCHHHHhhCCceeeecCCCCCCCCCCCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccc
Q 026517           72 TPPPPKTGLDPTVIAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPIC  151 (237)
Q Consensus        72 ~~~~~~~~~~~~~i~~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C  151 (237)
                      .......+++++.++.||.+.+.......    .....|+||++.|..++.+..+| |||.||..||..|+..+.+||+|
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~~~----~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~C   83 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHGAV----GQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVC   83 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCSSS----SSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTT
T ss_pred             CCCcCCCCCCHHHHHhCCCeeeccccccc----CCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCc
Confidence            34566778999999999999987654332    23678999999999988888998 99999999999999999999999


Q ss_pred             cccCCC
Q 026517          152 RTGAEP  157 (237)
Q Consensus       152 R~~~~~  157 (237)
                      |.++..
T Consensus        84 r~~~~~   89 (91)
T 2l0b_A           84 RCMFPP   89 (91)
T ss_dssp             CCBSSC
T ss_pred             CccCCC
Confidence            998854

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

Probab=99.64  E-value=5.9e-17  Score=112.52  Aligned_cols=68  Identities=41%  Similarity=1.009  Sum_probs=56.8

Q ss_pred             HhhCCceeeecCCCCCCCCCCCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517           85 IAALPIFVYKQTDGGQDDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus        85 i~~lp~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ++.||.+.+......     .....|+||++.|..++.++.+| |+|.||..||..|+..+.+||+||+++...
T Consensus         6 i~~lp~~~~~~~~~~-----~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNNHQ-----SEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSSCS-----SSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCcccc-----CCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            567888888654322     22568999999999999899998 999999999999999999999999988553

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

Probab=99.59  E-value=1.8e-15  Score=105.67  Aligned_cols=55  Identities=40%  Similarity=0.943  Sum_probs=48.7

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQP  161 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~  161 (237)
                      ....|+||++.|..+..+..++ |+|.||..||..|+..+.+||+||..+......
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   68 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA   68 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSC
T ss_pred             CCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccC
Confidence            4678999999999988888898 999999999999999999999999998765433

>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=99.58  E-value=2e-15  Score=102.89  Aligned_cols=53  Identities=45%  Similarity=0.980  Sum_probs=47.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      ....|+||++.|..+..+..++ |||.||..||..|+..+.+||+||..+....
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            3568999999998888888898 9999999999999999999999999986653

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

Probab=99.58  E-value=1.2e-15  Score=99.38  Aligned_cols=50  Identities=64%  Similarity=1.311  Sum_probs=45.3

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|+||++.|..++.+..++.|||.||..||..|+..+.+||+||+++.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            56899999999998888888679999999999999999999999999774

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

Probab=99.56  E-value=4e-15  Score=102.82  Aligned_cols=51  Identities=33%  Similarity=0.843  Sum_probs=46.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+..+..++ |+|.||..||..|+..+.+||+||.++...
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           15 HELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             SCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            568999999999998888888 999999999999999889999999988654

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

Probab=99.46  E-value=1.2e-14  Score=102.56  Aligned_cols=50  Identities=30%  Similarity=0.794  Sum_probs=40.9

Q ss_pred             CccccccccccC-----------CcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          108 IECAVCLSNLEN-----------EEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       108 ~~C~IC~~~~~~-----------~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ..|+||++.|..           .+.++.++.|+|.||..||..||..+.+||+||+++..
T Consensus        16 ~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           16 DTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             SCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            468888888854           34455665699999999999999999999999998753

>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=99.45  E-value=3.8e-14  Score=92.08  Aligned_cols=49  Identities=31%  Similarity=0.829  Sum_probs=42.0

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|+||++.|... ..+..++ |||.||..||..|+..+.+||+||.++.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            5 SSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            56899999999654 3456777 9999999999999998899999999774

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

Probab=99.44  E-value=5e-14  Score=95.59  Aligned_cols=51  Identities=24%  Similarity=0.701  Sum_probs=43.0

Q ss_pred             CCCccccccccccCC----cceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          106 AAIECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ....|+||++.|..+    ..+..++ |||.||..||..|+..+.+||+||.++..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           14 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            356899999999864    3346677 99999999999999989999999998753

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

Probab=99.43  E-value=3.9e-14  Score=96.77  Aligned_cols=52  Identities=23%  Similarity=0.696  Sum_probs=44.3

Q ss_pred             CCccccccccccCC----cceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      ...|+||++.|..+    ..+..++ |||.||..||..|+..+.+||+||.++....
T Consensus        10 ~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A           10 TVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            56899999998764    4446776 9999999999999999999999999987543

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

Probab=99.43  E-value=8.8e-14  Score=103.93  Aligned_cols=51  Identities=25%  Similarity=0.664  Sum_probs=41.3

Q ss_pred             CCccccccccccCCc---------------ceeecCCCCCCCchhHHHHHh-----cCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEE---------------MARVLPNCNHTFHAECIDKWL-----GSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~---------------~~~~l~~C~H~fh~~Ci~~wl-----~~~~~CP~CR~~~~~~  158 (237)
                      +..|+||++.|..+.               .+..++ |+|.||..||..|+     ..+.+||+||..+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            347999999997653               333666 99999999999999     4567899999988654

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

Probab=99.42  E-value=2.2e-13  Score=93.54  Aligned_cols=51  Identities=25%  Similarity=0.570  Sum_probs=43.7

Q ss_pred             CCCccccccccccCCcceeec-CCCCCCCchhHHHHHhcCCCCCccccccCCCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVL-PNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQ  160 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~  160 (237)
                      ....|+||++.+..+   ..+ + |||.||..||..|+..+..||+||.++.....
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           14 PYILCSICKGYLIDA---TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             GGGSCTTTSSCCSSC---EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCChHHHCc---CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            467899999999876   454 6 99999999999999888999999999866533

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

Probab=99.42  E-value=4.8e-14  Score=96.68  Aligned_cols=50  Identities=28%  Similarity=0.565  Sum_probs=43.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+..+..||+||..+....
T Consensus        14 ~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   63 (71)
T 2d8t_A           14 TVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPEDF   63 (71)
T ss_dssp             SCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHHH
T ss_pred             CCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHhh
Confidence            356899999999876   6677 9999999999999999999999999986543

>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=99.40  E-value=1.3e-13  Score=102.11  Aligned_cols=49  Identities=31%  Similarity=0.694  Sum_probs=41.3

Q ss_pred             CCccccccccccCCc---------------ceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEE---------------MARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~---------------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      +..|+||++.|..+-               .+..++ |+|.||..||..||..+.+||+||+++.
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            347999999998651               255566 9999999999999999999999999864

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

Probab=99.40  E-value=6.9e-14  Score=93.45  Aligned_cols=51  Identities=24%  Similarity=0.707  Sum_probs=43.5

Q ss_pred             CCccccccccccCC----cceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+    ..+..++ |||.||..||..|+..+.+||+||.++...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            46899999999764    3446676 999999999999999999999999988654

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

Probab=99.38  E-value=3.2e-13  Score=92.11  Aligned_cols=47  Identities=40%  Similarity=1.026  Sum_probs=41.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..    ..++ |||.||..||..|+..+.+||+||.++...
T Consensus        15 ~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           15 EEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            5689999999876    5677 999999999999999999999999988654

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

Probab=99.37  E-value=3.4e-13  Score=94.69  Aligned_cols=48  Identities=23%  Similarity=0.567  Sum_probs=42.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      .....|+||++.|..+   .+++ |||.||..||..|+.....||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3467899999999876   5677 9999999999999998889999999885

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

Probab=99.36  E-value=7.3e-13  Score=89.35  Aligned_cols=49  Identities=22%  Similarity=0.540  Sum_probs=41.6

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHh-cCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL-GSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+ ..+..||+||.++...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSP---KQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCEECTTTCCEESSC---CCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCCCCCCChHhcCe---eECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            357899999999887   4466 99999999999999 4566899999988654

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

Probab=99.36  E-value=2.8e-13  Score=91.82  Aligned_cols=48  Identities=38%  Similarity=0.949  Sum_probs=41.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.+..+  +..++ |||.||..||..|+..+.+||+||.++..
T Consensus         5 ~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            5 AERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            45799999998764  46677 99999999999999988999999998853

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

Probab=99.35  E-value=7.4e-13  Score=91.49  Aligned_cols=49  Identities=27%  Similarity=0.678  Sum_probs=41.2

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCccccccCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~CR~~~~~  157 (237)
                      ....|+||++.|..+   ..++.|||.||..||..|+..+  ..||+||.++..
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           14 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             GGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            467899999999987   5565599999999999999765  689999997543

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

Probab=99.35  E-value=9.9e-13  Score=90.24  Aligned_cols=49  Identities=27%  Similarity=0.718  Sum_probs=41.5

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhc---CCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG---SHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+.   ....||+||.++...
T Consensus        19 ~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           19 EEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             cCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            356899999999876   5667 999999999999996   455899999988654

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

Probab=99.33  E-value=1.3e-12  Score=91.77  Aligned_cols=51  Identities=24%  Similarity=0.671  Sum_probs=42.6

Q ss_pred             CCccccccccccCCcceeecCCCC-----CCCchhHHHHHhcCC--CCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCN-----HTFHAECIDKWLGSH--STCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~--~~CP~CR~~~~~~~  159 (237)
                      ...|.||++++..++.+ ++| |+     |.||..||++||..+  .+||+||..+....
T Consensus        15 ~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           15 QDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             SCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            56899999999876665 578 96     999999999999765  48999999886543

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

Probab=99.33  E-value=1.3e-12  Score=92.72  Aligned_cols=52  Identities=29%  Similarity=0.811  Sum_probs=43.5

Q ss_pred             CCCccccccccccCCcc-eeecCCCCCCCchhHHHHHhcCC---CCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEM-ARVLPNCNHTFHAECIDKWLGSH---STCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|...+. ...++ |||.||..||..|+..+   ..||+||.++...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             CCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            35789999999988543 46777 99999999999999765   6899999987654

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

Probab=99.33  E-value=4.1e-13  Score=103.87  Aligned_cols=47  Identities=30%  Similarity=0.880  Sum_probs=41.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      +..|+||++.|..+   ..+| |||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            35799999999876   6777 99999999999999999999999998854

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

Probab=99.30  E-value=1.5e-12  Score=90.62  Aligned_cols=49  Identities=22%  Similarity=0.552  Sum_probs=42.7

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   ..++ |||.||..||..|+.. +.+||+||.++...
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            467899999999987   5677 9999999999999986 77899999988654

>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=99.29  E-value=2.8e-13  Score=101.80  Aligned_cols=48  Identities=31%  Similarity=0.708  Sum_probs=0.0

Q ss_pred             CccccccccccCCc---------------ceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          108 IECAVCLSNLENEE---------------MARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       108 ~~C~IC~~~~~~~~---------------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ..|+||++.|..+.               .+..++ |+|.||..||..||..+.+||+||+++.
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             ----------------------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            47999999997532               222345 9999999999999999999999999864

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

Probab=99.27  E-value=1.6e-12  Score=90.48  Aligned_cols=49  Identities=27%  Similarity=0.630  Sum_probs=42.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-------CCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-------HSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-------~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   ..++ |||.||..||..|+..       ...||+||.++...
T Consensus        11 ~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           11 EEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            357899999999887   5677 9999999999999976       56899999988653

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

Probab=99.27  E-value=4.9e-12  Score=88.97  Aligned_cols=49  Identities=31%  Similarity=0.689  Sum_probs=42.2

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcC------CCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS------HSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~------~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   ..++ |||.||..||..|+..      ...||+||.++...
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            356899999999887   5677 9999999999999976      66899999988654

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

Probab=99.26  E-value=6.9e-12  Score=88.17  Aligned_cols=48  Identities=31%  Similarity=0.812  Sum_probs=41.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC------CCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS------HSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~------~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+   ..++ |||.||..||..|+..      ...||+||..+...
T Consensus        19 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           19 EVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            56899999999877   5677 9999999999999976      67899999988654

>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=99.25  E-value=1.7e-12  Score=94.92  Aligned_cols=48  Identities=29%  Similarity=0.825  Sum_probs=41.3

Q ss_pred             CCccccccccccCCcceee-cCCCCCCCchhHHHHHhcCC-CCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARV-LPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~-l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   .. ++ |||.||..||..|+... ..||+||.++...
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           22 VFRCFICMEKLRDA---RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HTBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCccCCccccCc---cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            45799999999876   45 66 99999999999999877 6899999998543

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

Probab=99.24  E-value=8.7e-12  Score=81.52  Aligned_cols=42  Identities=33%  Similarity=0.988  Sum_probs=35.9

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHh---cCCCCCccc
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL---GSHSTCPIC  151 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl---~~~~~CP~C  151 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+   ..+..||+|
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            356899999999987   5677 99999999999995   456689998

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

Probab=99.24  E-value=7.7e-12  Score=86.28  Aligned_cols=49  Identities=24%  Similarity=0.564  Sum_probs=41.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~CR~~~~~~  158 (237)
                      ..+|+||.+.+..++.+.   .|+|.||..||.+||+.+  .+||+||.++...
T Consensus        15 i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            568999999998774443   499999999999999877  7899999887544

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

Probab=99.24  E-value=7.1e-12  Score=83.59  Aligned_cols=42  Identities=29%  Similarity=0.791  Sum_probs=36.4

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhc---CCCCCccc
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG---SHSTCPIC  151 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~---~~~~CP~C  151 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+.   ....||+|
T Consensus        19 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            356899999999987   6677 999999999999997   45589998

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

Probab=99.22  E-value=3.8e-12  Score=92.67  Aligned_cols=47  Identities=23%  Similarity=0.761  Sum_probs=41.3

Q ss_pred             CCccccccccccCCcceeec-CCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVL-PNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   ..+ + |||.||..||..|+..+..||+||.++..
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA---MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc---CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            45799999999876   455 6 99999999999999988999999998864

>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=99.21  E-value=4.7e-12  Score=93.70  Aligned_cols=47  Identities=26%  Similarity=0.706  Sum_probs=41.4

Q ss_pred             CCccccccccccCCcceeec-CCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVL-PNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   ..+ + |||.||..||..|+..+..||+||..+..
T Consensus        15 ~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           15 HLMCVLCGGYFIDA---TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GTBCTTTSSBCSSE---EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             cCCCccCChHHhCc---CEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            56899999999876   454 6 99999999999999988999999998754

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

Probab=99.21  E-value=6.7e-12  Score=90.05  Aligned_cols=48  Identities=27%  Similarity=0.704  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCccccccC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPICRTGA  155 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~CR~~~  155 (237)
                      .....|+||++.|..+   ..++.|||.||..||..|+...  ..||+||.++
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            3467899999999987   5665599999999999999643  5899999986

>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=99.21  E-value=7.6e-12  Score=94.84  Aligned_cols=47  Identities=21%  Similarity=0.604  Sum_probs=40.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC-CCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   ..++ |||.||..||..|+..+. .||+||.++..
T Consensus        52 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            45799999999987   6677 999999999999997544 89999998865

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

Probab=99.20  E-value=9.4e-12  Score=83.57  Aligned_cols=52  Identities=25%  Similarity=0.532  Sum_probs=41.1

Q ss_pred             CCccccccc-cccCCccee-ecCCCCCCCchhHHHHHhcC-CCCCccccccCCCCC
Q 026517          107 AIECAVCLS-NLENEEMAR-VLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~-~~~~~~~~~-~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~~  159 (237)
                      +..|+||++ .+..+.... .++ |||.||..||..|+.. ...||+||.++....
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            457999999 787775433 456 9999999999999754 467999999886543

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

Probab=99.20  E-value=5.2e-12  Score=96.09  Aligned_cols=52  Identities=23%  Similarity=0.696  Sum_probs=44.4

Q ss_pred             CCccccccccccCC----cceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      ...|+||++.|..+    ..+..++ |||.||..||..|+..+.+||+||..+....
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            56899999999765    4446777 9999999999999999999999999886543

>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=99.17  E-value=1.7e-11  Score=90.88  Aligned_cols=48  Identities=29%  Similarity=0.770  Sum_probs=40.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC---CCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS---TCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+   ..++ |||.||..||..|+..+.   .||+||.++...
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            35799999999877   5577 999999999999997654   899999988654

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

Probab=99.14  E-value=1.5e-11  Score=97.76  Aligned_cols=49  Identities=35%  Similarity=0.726  Sum_probs=41.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~  157 (237)
                      ....|+||++.|..+  +..++ |||.||..||..|+.. +..||+||.++..
T Consensus        53 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNT--MTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCc--CEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            356899999999976  33346 9999999999999986 7789999998854

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

Probab=99.12  E-value=3.4e-11  Score=85.46  Aligned_cols=49  Identities=14%  Similarity=0.099  Sum_probs=43.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   .+++ |||.|++.||..|+..+.+||+||.++...
T Consensus        13 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             hheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            467899999999998   7787 999999999999999888999999987543

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

Probab=99.11  E-value=3.2e-11  Score=94.61  Aligned_cols=48  Identities=19%  Similarity=0.563  Sum_probs=41.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC-CCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++...
T Consensus        78 ~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            46899999999887   5677 999999999999997654 899999998665

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.10  E-value=5.7e-11  Score=86.86  Aligned_cols=50  Identities=14%  Similarity=0.111  Sum_probs=44.5

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      .....|+||++.|..|   .+++ |||.|++.||..|+..+.+||+||.++...
T Consensus        27 p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             STTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             cHhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            3467899999999999   7787 999999999999999888999999988653

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.10  E-value=7.8e-11  Score=85.82  Aligned_cols=49  Identities=20%  Similarity=0.164  Sum_probs=43.8

Q ss_pred             CCCccccccccccCCcceeecCCCC-CCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCN-HTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|.+|   ++++ || |.|++.||..|+..+.+||+||.++...
T Consensus        21 ~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            367899999999998   6777 99 9999999999999888999999988654

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

Probab=99.10  E-value=1.6e-11  Score=91.84  Aligned_cols=47  Identities=30%  Similarity=0.760  Sum_probs=41.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   ..++ |||.||..||..|+.. ...||+||..+..
T Consensus        15 ~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            56899999999987   6677 9999999999999976 5689999998853

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

Probab=99.10  E-value=2.3e-10  Score=79.79  Aligned_cols=54  Identities=22%  Similarity=0.556  Sum_probs=41.2

Q ss_pred             CCCccccccccccCCcce-eecCCCCCCCchhHHHHHhc-CCCCCccccccCCCCCC
Q 026517          106 AAIECAVCLSNLENEEMA-RVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEPRPQ  160 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~-~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~~~~  160 (237)
                      .+..|+||++.+...+.. ..++ |||.||..|+..++. ....||.||+++.....
T Consensus        10 ~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             cCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            356899999998654322 2234 999999999999884 45689999999876544

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

Probab=99.09  E-value=2.5e-11  Score=91.27  Aligned_cols=49  Identities=29%  Similarity=0.596  Sum_probs=42.0

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC-CCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~~~~  158 (237)
                      ....|+||++.+..+   ..++ |||.||..||..|+.... .||+||.++...
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            367899999999887   5677 999999999999997665 899999988553

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

Probab=99.07  E-value=2.6e-11  Score=92.14  Aligned_cols=51  Identities=24%  Similarity=0.715  Sum_probs=42.9

Q ss_pred             CCccccccccccCC----cceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENE----EMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+    .....++ |||.||..||..|+..+.+||+||.++...
T Consensus        72 ~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           72 TVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            56899999998764    2335666 999999999999999999999999988654

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

Probab=99.05  E-value=5.1e-11  Score=89.14  Aligned_cols=48  Identities=33%  Similarity=0.651  Sum_probs=41.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+   ..++ |||.||..||..|+.. ..+||+||.++...
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            45799999999877   5577 9999999999999976 67899999988654

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

Probab=99.05  E-value=7.9e-11  Score=76.84  Aligned_cols=45  Identities=27%  Similarity=0.686  Sum_probs=38.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   ..++ |||.||..||..|   ...||+||..+...
T Consensus         6 ~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            6 FLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            56899999999987   6787 9999999999774   56899999988653

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

Probab=99.02  E-value=1e-10  Score=87.72  Aligned_cols=45  Identities=31%  Similarity=0.772  Sum_probs=39.4

Q ss_pred             CCccccccccccCCcceeec-CCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVL-PNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   ..+ + |||.||..||..|+.  ..||+||.++..
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            45799999999887   566 6 999999999999997  789999998743

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=99.01  E-value=7.9e-11  Score=79.02  Aligned_cols=46  Identities=22%  Similarity=0.532  Sum_probs=39.2

Q ss_pred             CCccccccccccCCcceeec--CCCCCC-CchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVL--PNCNHT-FHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l--~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|.||++.+...   ..+  | |||. ||..|+..|+..+..||+||+++.
T Consensus         8 ~~~C~IC~~~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            8 IEPCVICQGRPKNG---CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GSCCTTTSSSCSCE---EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             cCCCCcCCCCCCCE---EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            45799999987655   444  8 9998 899999999988889999999884

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

Probab=99.00  E-value=8.2e-11  Score=78.70  Aligned_cols=48  Identities=17%  Similarity=0.403  Sum_probs=39.1

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ...|.||++...... +..+| |||. ||..|+..|...+..||+||.++.
T Consensus         7 ~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            568999999866541 12237 9997 999999999988889999999884

>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=98.99  E-value=8.1e-11  Score=91.34  Aligned_cols=48  Identities=23%  Similarity=0.477  Sum_probs=41.3

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC-CCccccccCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS-TCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~~~  157 (237)
                      ....|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++..
T Consensus        30 ~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           30 AKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            467899999999988   5566 999999999999997654 89999998743

>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=98.98  E-value=2e-10  Score=102.39  Aligned_cols=48  Identities=25%  Similarity=0.729  Sum_probs=41.7

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhc-CCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLG-SHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+   ..+| |||.||..|+..|+. ...+||+||.++...
T Consensus       332 ~~~C~ICle~~~~p---v~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCCe---EEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            35899999998765   6777 999999999999998 678999999988653

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

Probab=98.92  E-value=3.6e-10  Score=77.92  Aligned_cols=43  Identities=23%  Similarity=0.577  Sum_probs=37.1

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.+..+   ..+| |||. ||..|+..|    ..||+||.++..
T Consensus        24 ~~~C~iC~~~~~~~---~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCCE---EEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            35799999998765   6777 9999 999999998    889999998854

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

Probab=98.86  E-value=4.5e-10  Score=97.86  Aligned_cols=52  Identities=19%  Similarity=0.639  Sum_probs=40.1

Q ss_pred             CCCccccccccccC----CcceeecCCCCCCCchhHHHHHhcCC-----------CCCccccccCCC
Q 026517          106 AAIECAVCLSNLEN----EEMARVLPNCNHTFHAECIDKWLGSH-----------STCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~----~~~~~~l~~C~H~fh~~Ci~~wl~~~-----------~~CP~CR~~~~~  157 (237)
                      ...+|+||++.+..    ++.....+.|+|.||..||..||++.           .+||+||.++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            46789999999886    22323334599999999999999642           469999998853

>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=98.84  E-value=9.9e-10  Score=93.50  Aligned_cols=48  Identities=13%  Similarity=0.202  Sum_probs=41.8

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEP  157 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~  157 (237)
                      ....|+||++.|..|   +++| |||.||+.||..|+..+ .+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            467899999999998   6787 99999999999999754 459999998854

>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=98.83  E-value=1.3e-09  Score=78.68  Aligned_cols=45  Identities=20%  Similarity=0.538  Sum_probs=38.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC------CCCcc--cccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH------STCPI--CRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~------~~CP~--CR~~  154 (237)
                      ...|+||++.|..|   ++++.|||.|++.||..|+..+      .+||+  |+..
T Consensus         7 ~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            7 GFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             EeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            57899999999988   5563499999999999999754      48999  9865

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

Probab=98.81  E-value=1.1e-09  Score=87.11  Aligned_cols=49  Identities=29%  Similarity=0.592  Sum_probs=41.7

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   ..++ |||.||..||..|+... ..||+||.++...
T Consensus        17 ~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            467899999999987   5577 99999999999999654 4899999988553

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

Probab=98.80  E-value=5.6e-09  Score=70.78  Aligned_cols=45  Identities=31%  Similarity=0.755  Sum_probs=37.3

Q ss_pred             CCCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|.||++.....   ..+| |||. ||..|+..    ...||+||.++...
T Consensus        14 ~~~~C~IC~~~~~~~---v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNW---VLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CSSCCSSSSSSCCCC---EETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCcCcCCCCE---EEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            356899999987654   7788 9998 99999984    47899999988653

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

Probab=98.78  E-value=3.1e-09  Score=73.31  Aligned_cols=44  Identities=23%  Similarity=0.589  Sum_probs=36.4

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.+..+   ..+| |||. ||..|+..    ...||+||.++...
T Consensus        25 ~~~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            34799999998776   6677 9999 99999965    37899999988653

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

Probab=98.74  E-value=3.6e-09  Score=85.00  Aligned_cols=50  Identities=12%  Similarity=0.185  Sum_probs=42.7

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~~  158 (237)
                      .....|+||++.|..|   .++| |||.|++.||..|+..+ .+||+||.++...
T Consensus       104 p~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            3478999999999998   6777 99999999999999764 4699999988543

>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=98.71  E-value=4.6e-09  Score=75.52  Aligned_cols=47  Identities=23%  Similarity=0.668  Sum_probs=39.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC--------CCCCcc--cccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS--------HSTCPI--CRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~--CR~~  154 (237)
                      ...|+||++.+..++.+...+ |||.||..|+..++..        ...||.  |+..
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            568999999998876666666 9999999999999853        236999  9987

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

Probab=98.67  E-value=1.7e-08  Score=66.66  Aligned_cols=46  Identities=28%  Similarity=0.692  Sum_probs=36.0

Q ss_pred             CCccccccccccCCcceeecCCCC--C---CCchhHHHHHhcC--CCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCN--H---TFHAECIDKWLGS--HSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~--H---~fh~~Ci~~wl~~--~~~CP~CR~~~~  156 (237)
                      ...|.||+++...  . ..+| |.  |   .||..||.+|+..  +.+||+||..+.
T Consensus         6 ~~~CrIC~~~~~~--~-l~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            6 VPVCWICNEELGN--E-RFRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSC--C-CCCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCEeEEeecCCCC--c-eecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            5689999998433  2 3577 65  4   9999999999954  568999998774

>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=98.64  E-value=6.8e-09  Score=72.43  Aligned_cols=44  Identities=34%  Similarity=0.779  Sum_probs=36.6

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|.||++.+...   ..+| |||. ||..|+..|    ..||+||.++...
T Consensus        18 ~~~C~IC~~~~~~~---v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEINS---TFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCCE---EEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCcE---EEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            34799999987765   7788 9998 999999877    4899999988653

>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=98.56  E-value=1.2e-08  Score=67.64  Aligned_cols=52  Identities=12%  Similarity=0.199  Sum_probs=43.3

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQP  161 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~  161 (237)
                      ...|+||++.|.++   .+++.|||+|.+.||..|+..+.+||+++.++......
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Li   54 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV   54 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCE
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcE
Confidence            35799999999987   55523999999999999998888999999998765443

>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=98.51  E-value=5.4e-08  Score=82.11  Aligned_cols=51  Identities=24%  Similarity=0.500  Sum_probs=41.0

Q ss_pred             CCCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--CCCcc--ccccCCCC
Q 026517          105 AAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--STCPI--CRTGAEPR  158 (237)
Q Consensus       105 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~--CR~~~~~~  158 (237)
                      .....|+||++.|..|  |..+. |||.||+.||..|+..+  ..||+  ||..+...
T Consensus       179 ~~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             ceeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            3467899999999988  32235 99999999999999764  46999  99977543

>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=98.49  E-value=2.3e-08  Score=88.26  Aligned_cols=43  Identities=30%  Similarity=0.706  Sum_probs=37.3

Q ss_pred             CCccccccccccCCcceeecCCCCCC-CchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHT-FHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.+..+   ..+| |||. ||..|+..|    ..||+||.++..
T Consensus       295 ~~~C~IC~~~~~~~---v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVSV---VFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCCE---EEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCce---EEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            45799999998876   6778 9999 999999988    789999998854

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

Probab=98.28  E-value=3.4e-07  Score=65.72  Aligned_cols=46  Identities=24%  Similarity=0.572  Sum_probs=37.4

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHh-cCCCCCccccccCCC
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL-GSHSTCPICRTGAEP  157 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~  157 (237)
                      .|++|--.+.  ...+++| |+|+||++|+..|. +..++||.|+.++..
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            5888866655  3468888 99999999999997 556789999998843

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

Probab=98.07  E-value=4.4e-06  Score=69.96  Aligned_cols=49  Identities=24%  Similarity=0.562  Sum_probs=39.6

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC--CCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS--TCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~CR~~~~~~  158 (237)
                      ...|.||.+....+..+   +.|+|.||..|+..|++.+.  .||.|+......
T Consensus       180 i~~C~iC~~iv~~g~~C---~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            56899999999877332   34999999999999997654  899999876444

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

Probab=95.29  E-value=0.02  Score=37.87  Aligned_cols=44  Identities=25%  Similarity=0.524  Sum_probs=32.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      ...|.||.+.   ++.+.-- .|...||..|+.+.|....    .||.|...
T Consensus        12 ~~~C~vC~~~---~~ll~Cd-~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           12 GARCGVCGDG---TDVLRCT-HCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TCCCTTTSCC---TTCEECS-SSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCcCCCCCC---CeEEECC-CCCCceecccCCCccCcCCCCCEECccccCC
Confidence            4579999854   4444443 4889999999998886543    69999654

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.95  E-value=0.016  Score=41.20  Aligned_cols=34  Identities=15%  Similarity=0.541  Sum_probs=25.8

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHH
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKW  141 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w  141 (237)
                      +..|.||.+.+..+....-+. |+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            457999998754443344476 9999999999983

>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=94.22  E-value=0.096  Score=36.12  Aligned_cols=33  Identities=24%  Similarity=0.564  Sum_probs=22.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHH
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKW  141 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w  141 (237)
                      +..|.||-. +...+....-- |+-+||..|+.+.
T Consensus        15 D~~C~VC~~-~t~~~l~pCRv-C~RvfH~~CL~r~   47 (89)
T 1wil_A           15 DEMCDVCEV-WTAESLFPCRV-CTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCTTTCC-CCSSCCSSCSS-SSSCCCHHHHHHH
T ss_pred             CcccCcccc-ccccceecccc-ccccccHhhcccc
Confidence            568999953 33332222222 8899999999997

>1ujr_A Hypothetical protein AK012080; WWE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.289.1.1

Probab=91.87  E-value=0.026  Score=41.30  Aligned_cols=28  Identities=18%  Similarity=0.194  Sum_probs=23.0

Q ss_pred             cccCcccccccCCcccCCcccccchhhhh
Q 026517          207 SRLSSFRRILNGDWDRSSRRIQFEIADLE  235 (237)
Q Consensus       207 ~~~~~~~~~~~~~w~r~~~r~~~~~~~~~  235 (237)
                      ....|+|.+.+ |||+|+++++.+||+.-
T Consensus        28 ~~~~W~w~gd~-GW~~Yd~~~s~~IE~Ay   55 (110)
T 1ujr_A           28 GEYAWYYEGRN-GWWQYDERTSRELEDAF   55 (110)
T ss_dssp             HEEEEEEECSS-SEEECCSHHHHHHHHHH
T ss_pred             CCeEEEEeCCC-CCccCCHHHHHHHHHHH
Confidence            35679999886 69999999998888753

>3v3l_A E3 ubiquitin-protein ligase RNF146; HET: V3L; 1.65A {Homo sapiens}

Probab=91.61  E-value=0.024  Score=39.48  Aligned_cols=27  Identities=19%  Similarity=0.196  Sum_probs=22.0

Q ss_pred             ccCcccccccCCcccCCcccccchhhhh
Q 026517          208 RLSSFRRILNGDWDRSSRRIQFEIADLE  235 (237)
Q Consensus       208 ~~~~~~~~~~~~w~r~~~r~~~~~~~~~  235 (237)
                      ...|+|.+.+ |||+|+++++.+||+..
T Consensus         4 ~~~W~w~~~~-GW~~Yd~~~s~~IE~af   30 (85)
T 3v3l_A            4 EYAWYYEGRN-GWWQYDERTSRELEDAF   30 (85)
T ss_dssp             CEEEEEECSS-SEEECCHHHHHHHHHHH
T ss_pred             ceEEEEeCCC-CceeCCHHHHHHHHHHH
Confidence            4569999886 69999999988887653

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=88.43  E-value=0.24  Score=30.51  Aligned_cols=44  Identities=30%  Similarity=0.692  Sum_probs=29.1

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccc
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRT  153 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~  153 (237)
                      .|.||...-..++.+.-- .|...||..|+.+=+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd-~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCD-ECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECT-TTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECC-CCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488888654333344433 4889999999976553322    5999964

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=87.67  E-value=0.37  Score=31.01  Aligned_cols=43  Identities=26%  Similarity=0.616  Sum_probs=30.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC----CCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH----STCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~CR~  153 (237)
                      ...|.+|...   ++.+..- .|...||..|+.+-+...    -.||.|+.
T Consensus        11 ~~~C~vC~~~---g~ll~CD-~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A           11 QDYCEVCQQG---GEIILCD-TCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CSSCTTTSCC---SSEEECS-SSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCccCCCC---CcEEECC-CCChhhhhhccCCCCCCCCCCceECccccc
Confidence            5679999874   3333333 488899999999865432    25999965

>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=87.60  E-value=0.21  Score=32.20  Aligned_cols=44  Identities=25%  Similarity=0.568  Sum_probs=29.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      ...|.+|...   ++.+.-- .|...||..|+.+-+....    .||.|+..
T Consensus         9 ~~~C~vC~~~---g~ll~Cd-~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            9 MEFCRVCKDG---GELLCCD-TCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCTTTCCC---SSCBCCS-SSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCcCCCCCCC---CCEEEcC-CCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            5679999863   3333333 4888999999987554322    59999654

>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=87.24  E-value=0.13  Score=41.52  Aligned_cols=45  Identities=29%  Similarity=0.550  Sum_probs=31.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~~  155 (237)
                      ...|.+|...   ++.+ .-..|...||..|+.+-+....    .||.|+..-
T Consensus         7 ~~~C~~C~~~---g~ll-~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            7 EDWCAVCQNG---GDLL-CCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSBTTTCCC---EEEE-ECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCC---CceE-EcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            4579999854   3333 3334889999999988775432    599997643

>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}

Probab=87.13  E-value=1.1  Score=28.11  Aligned_cols=30  Identities=10%  Similarity=0.017  Sum_probs=16.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026517           18 SKIMVTAIISLTIVIVVVLLLHIYARCVLR   47 (237)
Q Consensus        18 ~~~~ii~i~~l~~vi~~i~~~~~~~~~~~r   47 (237)
                      ..++++++.++..++++.+++++++++=..
T Consensus        10 vp~wiIi~svl~GLllL~li~~~LwK~GFF   39 (54)
T 2knc_A           10 IPIWWVLVGVLGGLLLLTILVLAMWKVGFF   39 (54)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence            345555566566666666655555555333

>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=86.74  E-value=0.21  Score=32.35  Aligned_cols=46  Identities=20%  Similarity=0.470  Sum_probs=31.5

Q ss_pred             CCccccccccccCC-cceeecCCCCCCCchhHHHHHhc-----CCCCCccccc
Q 026517          107 AIECAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLG-----SHSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~-----~~~~CP~CR~  153 (237)
                      ...|+||...+... ..|..- .|..-||..|+.--..     ....||.|+.
T Consensus         6 ~~~C~~C~~~~~~~~~mI~Cd-~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            6 SGQCGACGESYAADEFWICCD-LCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             CCCCSSSCCCCCSSSCEEECS-SSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCccCCCCCEEEcc-CCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            56799999887533 334444 4888999999854321     3446999975

>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=86.45  E-value=0.2  Score=39.65  Aligned_cols=45  Identities=29%  Similarity=0.557  Sum_probs=31.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~~  155 (237)
                      +..|.+|...   ++.+..- .|.-.||..|+.+-+....    .||.|+..-
T Consensus         4 ~~~C~~C~~~---g~ll~Cd-~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            4 EDWCAVCQNG---GELLCCE-KCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             CSSCTTTCCC---SSCEECS-SSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCccccCCCC---CeeeecC-CCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            4579999865   4444333 4889999999988775432    599998643

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=86.40  E-value=0.36  Score=31.59  Aligned_cols=14  Identities=21%  Similarity=0.166  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHHH
Q 026517           34 VVLLLHIYARCVLR   47 (237)
Q Consensus        34 ~i~~~~~~~~~~~r   47 (237)
                      ..+.++++++|+.|
T Consensus        24 ~glcI~ccvkcrhR   37 (70)
T 2klu_A           24 IGLGIFFSVRSRHR   37 (70)
T ss_dssp             HHHHHHHHHHSSCC
T ss_pred             HHHHHHHhhHHHHH
Confidence            33444445655433

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=86.36  E-value=0.78  Score=31.94  Aligned_cols=44  Identities=25%  Similarity=0.580  Sum_probs=31.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      ...|.+|...   ++.+..- .|.-.||..|+.+=|....    .||.|+..
T Consensus        25 ~~~C~vC~~~---g~LL~CD-~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           25 ATICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSCCSSSCSS---SCCEECT-TSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCcCcCcCCC---CCEEECC-CCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            5579999875   4333333 4778999999988664433    59999753

>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=86.33  E-value=0.23  Score=39.49  Aligned_cols=46  Identities=22%  Similarity=0.505  Sum_probs=32.5

Q ss_pred             CccccccccccCCc----ceeecCCCCCCCchhHHHHH------hc-----CCCCCcccccc
Q 026517          108 IECAVCLSNLENEE----MARVLPNCNHTFHAECIDKW------LG-----SHSTCPICRTG  154 (237)
Q Consensus       108 ~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w------l~-----~~~~CP~CR~~  154 (237)
                      ..|+||...|..++    .+..- .|..-||..|..-=      +.     ....||.|+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd-~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCG-KCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECT-TTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             CcCCCCcCccCCcccCCCeEECC-CCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            46999999988775    34444 48899999997421      11     14689999864

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=86.29  E-value=0.17  Score=33.89  Aligned_cols=48  Identities=19%  Similarity=0.428  Sum_probs=32.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC----CCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS----HSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~CP~CR~~~  155 (237)
                      ...|.||.........+..- .|.-.||..|+..-+..    .-.||.|+..+
T Consensus        18 ~~~C~~C~~~~~~~~mi~CD-~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           18 IWICPGCNKPDDGSPMIGCD-DCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             EECBTTTTBCCSSCCEEECS-SSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CcCCCCCCCCCCCCCEEEcC-CCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            45799998775433334333 48889999999765532    33699998755

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=85.65  E-value=1.3  Score=26.56  Aligned_cols=20  Identities=20%  Similarity=0.617  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 026517           21 MVTAIISLTIVIVVVLLLHI   40 (237)
Q Consensus        21 ~ii~i~~l~~vi~~i~~~~~   40 (237)
                      ++.+++.+++++++.+.+++
T Consensus        14 Ia~~vVGvll~vi~~l~~~~   33 (44)
T 2jwa_A           14 IISAVVGILLVVVLGVVFGI   33 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHh
Confidence            44444433333333333333

>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}

Probab=85.26  E-value=1.2  Score=27.97  Aligned_cols=28  Identities=11%  Similarity=0.180  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026517           20 IMVTAIISLTIVIVVVLLLHIYARCVLR   47 (237)
Q Consensus        20 ~~ii~i~~l~~vi~~i~~~~~~~~~~~r   47 (237)
                      ++++++.++..++++++++++++++=..
T Consensus         9 ~WiIi~svl~GLLLL~Lii~~LwK~GFF   36 (54)
T 2l8s_A            9 LWVILLSAFAGLLLLMLLILALWKIGFF   36 (54)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence            4455555555555555555555555333

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.14  E-value=0.18  Score=31.94  Aligned_cols=43  Identities=26%  Similarity=0.672  Sum_probs=29.6

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~  153 (237)
                      +..|.+|...   ++.+.-- .|...||..|+.+-|....    .||.|..
T Consensus         9 ~~~C~vC~~~---g~ll~Cd-~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            9 EDFCSVCRKS---GQLLMCD-TCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CCSCSSSCCS---SCCEECS-SSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCccCCCC---CeEEEcC-CCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            5679999875   4444433 4888999999987554322    4888853

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=84.51  E-value=0.36  Score=31.59  Aligned_cols=44  Identities=30%  Similarity=0.608  Sum_probs=30.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      +..|.||...   ++.+..- .|...||..|+.+-+....    .||.|...
T Consensus         8 ~~~C~vC~~~---g~ll~CD-~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            8 EDECAVCRDG---GELICCD-GCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CCSBSSSSCC---SSCEECS-SCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCccCCCC---CCEEEcC-CCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            4579999864   4444433 4888999999986554322    59999653

>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=84.14  E-value=0.66  Score=45.68  Aligned_cols=49  Identities=18%  Similarity=0.196  Sum_probs=42.7

Q ss_pred             CCCccccccccccCCcceeecCCCC-CCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCN-HTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|+|-++.|.+|   .++| .| +.|-+.+|..||..+.+||+=|.++...
T Consensus       890 ~~F~cPIs~~lM~DP---Vilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          890 DEFLDPLMYTIMKDP---VILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             HHhCCcchhhHHhCC---eEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            467899999999999   7787 77 6899999999999899999999888643

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=83.80  E-value=0.87  Score=31.58  Aligned_cols=51  Identities=20%  Similarity=0.412  Sum_probs=32.3

Q ss_pred             CCccccccccc-cCCcceeecCCCCCCCchhHHHHHhc--CCCCCccccccCCC
Q 026517          107 AIECAVCLSNL-ENEEMARVLPNCNHTFHAECIDKWLG--SHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~-~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~CR~~~~~  157 (237)
                      ...|.||...- ...+.+..-..|.-.||..|+..-+.  ..-.||.|......
T Consensus        25 ~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           25 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             CCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            56899998753 22223333335888999999976432  12259999765433

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.60  E-value=0.27  Score=34.50  Aligned_cols=47  Identities=23%  Similarity=0.526  Sum_probs=31.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      ...|.||...-.....+..- .|...||..|+.+=|....    .||.|+..
T Consensus        16 ~~~C~vC~~~~~~~~ll~CD-~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           16 SYICQVCSRGDEDDKLLFCD-GCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCSSSCCSGGGGGCEECT-TTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             CCCCccCCCcCCCCCEEEcC-CCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            45799998765433333333 4889999999986554322    59999764

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=83.01  E-value=0.69  Score=30.98  Aligned_cols=47  Identities=28%  Similarity=0.581  Sum_probs=32.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHh---------cCCCCCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL---------GSHSTCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl---------~~~~~CP~CR~~~  155 (237)
                      ...| ||...+.....|..-. |..-||..|+.--.         .....||.|+..-
T Consensus        16 ~~~C-~C~~~~~~~~MI~Cd~-C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           16 ALYC-ICRQPHNNRFMICCDR-CEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSS-SCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCEE-ECCCccCCCCEEEeCC-CCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            4567 8988876544555444 88999999984221         2456799997643

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=82.94  E-value=0.4  Score=38.19  Aligned_cols=43  Identities=23%  Similarity=0.575  Sum_probs=30.0

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCcccccc
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTG  154 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~  154 (237)
                      ..|.+|...   ++.+..- .|...||..|+.+=+....    .||.|+..
T Consensus         3 ~~C~~C~~~---g~ll~Cd-~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~   49 (189)
T 2ro1_A            3 TICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   49 (189)
T ss_dssp             CCBTTTCCC---SSCCCCT-TTCCBCCSTTSTTCCSSCCCTTCCTTTTSCS
T ss_pred             CcCccCCCC---CceeECC-CCCchhccccCCCCcccCCCCCCCCcCccCC
Confidence            469999865   4434443 4888999999987554322    59999764

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.40  E-value=0.28  Score=34.11  Aligned_cols=51  Identities=16%  Similarity=0.400  Sum_probs=34.0

Q ss_pred             CCccccccccccC-CcceeecCCCCCCCchhHHHHHhcC--------CCCCccccccCCC
Q 026517          107 AIECAVCLSNLEN-EEMARVLPNCNHTFHAECIDKWLGS--------HSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~~~~~  157 (237)
                      ...|.||...-.. ...+..--.|...||..|+.+-|..        .-.|+.|+.....
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~~   75 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKR   75 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCC
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhhh
Confidence            4579999976432 1233333358899999999876542        2269999876543

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=81.47  E-value=0.63  Score=32.97  Aligned_cols=45  Identities=18%  Similarity=0.366  Sum_probs=31.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC---CCCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS---HSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~  153 (237)
                      ...| ||......+..|..-. |.-.||..|+..=+..   ...||.|+.
T Consensus        28 ~vrC-iC~~~~~~~~mi~Cd~-C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           28 VTRC-ICGFTHDDGYMICCDK-CSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             BCCC-TTSCCSCSSCEEEBTT-TCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CEEe-ECCCccCCCcEEEcCC-CCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            4568 8987766665555554 8899999998653322   246999963

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=81.05  E-value=0.33  Score=31.07  Aligned_cols=45  Identities=24%  Similarity=0.629  Sum_probs=31.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~~  155 (237)
                      +..|.+|...   ++.+..- .|...||..|+.+=+....    .||.|....
T Consensus         5 ~~~C~vC~~~---g~ll~Cd-~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            5 EDFCSVCRKS---GQLLMCD-TCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             CSSCTTTCCC---SSCEECS-SSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCCCcCCCCC---CcEEEcC-CCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            4579999874   4444443 4889999999987554322    599997644

>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A

Probab=80.39  E-value=2.1  Score=25.44  Aligned_cols=27  Identities=11%  Similarity=0.074  Sum_probs=15.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026517           18 SKIMVTAIISLTIVIVVVLLLHIYARC   44 (237)
Q Consensus        18 ~~~~ii~i~~l~~vi~~i~~~~~~~~~   44 (237)
                      ..++++++.++..++++.+++++++++
T Consensus         8 vp~wiIi~s~l~GLllL~li~~~LwK~   34 (42)
T 2k1a_A            8 IPIWWVLVGVLGGLLLLTILVLAMWKV   34 (42)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            345566666566666666655555554

---

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	237
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-20
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	7e-15
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-12
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-12
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	7e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-11
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-10
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-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 = 80.3 bits (198), Expect = 1e-20
 Identities = 35/53 (66%), Positives = 40/53 (75%), Gaps = 4/53 (7%)

Query: 101 DDGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
           DDG+    ECAVCL+ LE+ E AR LP C H FHAEC+D WLGSHSTCP+CR 
Sbjct: 3   DDGV----ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRL 51

>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 = 65.0 bits (158), Expect = 7e-15
 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 3/45 (6%)

Query: 109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
            C +CL +  N     +   C H F   CI +W+  + TCP+C+ 
Sbjct: 7   RCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKV 48

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.8 bits (144), Expect = 1e-12
 Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 14/59 (23%)

Query: 109 ECAVCLSNLENEEM--------------ARVLPNCNHTFHAECIDKWLGSHSTCPICRT 153
            CA+C +++ +  +                    CNH FH  CI +WL +   CP+   
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.4 bits (138), Expect = 3e-12
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHST-CPICRT 153
           +EC +C+  LE +++      C +     C  +     +  CP CR 
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

>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 = 56.8 bits (137), Expect = 7e-12
 Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 7/56 (12%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQPES 163
           + C  C +  +     ++LP C HT  + C++        CPIC+          +
Sbjct: 7   LRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADTPA 55

>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 = 56.5 bits (136), Expect = 1e-11
 Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 5/45 (11%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRT 153
           C +C  N ++    ++ P C H     C+  W  S    CP CR 
Sbjct: 26  CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRC 66

>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 = 4e-11
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 2/47 (4%)

Query: 109 ECAVCLSNLENEEMARVLPN-CNHTFHAECIDKWL-GSHSTCPICRT 153
            C  C +        +++ N C HT    C+D         CP C T
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGT 51

>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 = 54.7 bits (130), Expect = 2e-10
 Identities = 18/74 (24%), Positives = 24/74 (32%), Gaps = 12/74 (16%)

Query: 108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL-----GSHSTCPICRT--GAEPRPQ 160
               +  S      +   L  C+H FH  C+              CP C+T  G +   Q
Sbjct: 40  GYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQ 99

Query: 161 PE-----SREGPVS 169
           P       R GP S
Sbjct: 100 PWGKMEVFRSGPSS 113

>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 = 50.6 bits (120), Expect = 1e-09
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 3/47 (6%)

Query: 110 CAVCLSNLENE-EMARVLPNCNHTFHAECIDKWLGSH--STCPICRT 153
           C +C   L NE   A          H  C+  WL     + C IC  
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 49.9 bits (119), Expect = 4e-09
 Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR 158
           +I C +C   L +     V  +C H F   CI + L    S CP CR    P 
Sbjct: 23  SISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>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 = 48.1 bits (114), Expect = 3e-08
 Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 7/60 (11%)

Query: 102 DGLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS---TCPICRTGAEPR 158
           + +   +EC +CL  ++          C+H F   C+ K L        CP+C+     R
Sbjct: 16  NAMQKILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>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 = 43.5 bits (102), Expect = 1e-06
 Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 9/68 (13%)

Query: 103 GLAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS--------TCPICRTG 154
           G + +  C +CL     E+M   +  C   F   C+ +++            +CP     
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 155 AEPRPQPE 162
            +   Q  
Sbjct: 60  KQGHLQEN 67

>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 = 43.2 bits (101), Expect = 1e-06
 Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 104 LAAAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR 158
           L   + C+ C + L        L  C H F + C+   +   + CP+C T A  +
Sbjct: 19  LEKLLRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQ 68

>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 = 35.9 bits (82), Expect = 3e-04
 Identities = 6/43 (13%), Positives = 14/43 (32%), Gaps = 3/43 (6%)

Query: 110 CAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICR 152
           CA+         ++   P     F    +++++      PI  
Sbjct: 3   CAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITN 42

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	237
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.71
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.51
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.51
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.45
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.42
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.41
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.38
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.37
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.31
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.29
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.27
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.13
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.12
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.08
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.99
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.58
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.94
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.36
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	89.96
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	89.68
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	89.07
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.49
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	85.1
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	84.81
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	81.58

>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=99.71  E-value=1.9e-18  Score=111.57  Aligned_cols=50  Identities=64%  Similarity=1.311  Sum_probs=45.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      +.+|+||+++|..++.+..++.|+|.||..||..|++.+.+||+||+++.
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45799999999999999888779999999999999999999999999873

>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=99.51  E-value=3.5e-15  Score=94.85  Aligned_cols=48  Identities=23%  Similarity=0.551  Sum_probs=40.0

Q ss_pred             ccccccccccCCccee-ecCCCCCCCchhHHHHHhcCC-CCCccccccCCC
Q 026517          109 ECAVCLSNLENEEMAR-VLPNCNHTFHAECIDKWLGSH-STCPICRTGAEP  157 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~-~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~  157 (237)
                      +|+||+++|..++.+. .++ |||.||..||..|+... .+||+||+++..
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            6999999998776544 445 99999999999999754 479999998854

>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=99.51  E-value=2.6e-15  Score=100.85  Aligned_cols=48  Identities=38%  Similarity=0.949  Sum_probs=41.4

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~  157 (237)
                      ...|+||++.+..+  ++.+| |||.||..||..|++.+.+||+||+++..
T Consensus         5 ~d~C~IC~~~~~~~--~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCccCC--cEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            34799999999754  45677 99999999999999999999999998743

>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=99.45  E-value=1.9e-14  Score=101.32  Aligned_cols=48  Identities=31%  Similarity=0.708  Sum_probs=40.3

Q ss_pred             CccccccccccCCc---------------ceeecCCCCCCCchhHHHHHhcCCCCCccccccCC
Q 026517          108 IECAVCLSNLENEE---------------MARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAE  156 (237)
Q Consensus       108 ~~C~IC~~~~~~~~---------------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~  156 (237)
                      ..|+||++.+..+.               .+..++ |||.||..||.+||+.+.+||+||+++.
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            36999999886542               245666 9999999999999999999999999874

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=7.2e-14  Score=102.88  Aligned_cols=50  Identities=26%  Similarity=0.645  Sum_probs=39.1

Q ss_pred             CccccccccccCC---------------cceeecCCCCCCCchhHHHHHhcCC-----CCCccccccCCCC
Q 026517          108 IECAVCLSNLENE---------------EMARVLPNCNHTFHAECIDKWLGSH-----STCPICRTGAEPR  158 (237)
Q Consensus       108 ~~C~IC~~~~~~~---------------~~~~~l~~C~H~fh~~Ci~~wl~~~-----~~CP~CR~~~~~~  158 (237)
                      ..|+||++.|..+               ..+.+++ |||.||..||..||...     .+||+||+.+...
T Consensus        26 ~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4799999998642               2345566 99999999999999643     4799999987554

>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=99.41  E-value=7e-14  Score=96.42  Aligned_cols=47  Identities=28%  Similarity=0.775  Sum_probs=40.4

Q ss_pred             CccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCC
Q 026517          108 IECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPR  158 (237)
Q Consensus       108 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~  158 (237)
                      ..|+||++.+..+   +++| |||.||..||..||.. .++||+||..+...
T Consensus        24 ~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          24 QLCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TBCTTTSSSBCCE---ECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCccCCCcCCCe---EEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            4699999998765   7787 9999999999999974 56799999998654

>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=99.38  E-value=1.2e-13  Score=91.68  Aligned_cols=51  Identities=24%  Similarity=0.497  Sum_probs=39.5

Q ss_pred             CCccccccccccCC-cc-eeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENE-EM-ARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~-~~-~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~  158 (237)
                      +..|+||++.+..+ +. +..++ |||.||..||..|+.. +..||+||.++...
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            45899999986433 32 34555 9999999999999954 55799999988554

>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=99.37  E-value=4.2e-14  Score=91.13  Aligned_cols=49  Identities=12%  Similarity=0.211  Sum_probs=43.1

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCCC
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRPQ  160 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~  160 (237)
                      .|+||++.|..+   ..++.|||+||+.||.+||+++.+||+||.++.....
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            599999999987   5565699999999999999999999999999876543

>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=99.31  E-value=3.2e-13  Score=86.79  Aligned_cols=46  Identities=26%  Similarity=0.673  Sum_probs=38.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~  159 (237)
                      ..+|+||++.|..+   +++| |||.||..||..|   +.+||+||.++....
T Consensus         6 ~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            45899999999887   6788 9999999999765   568999999986553

>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=99.29  E-value=4.5e-13  Score=93.57  Aligned_cols=49  Identities=33%  Similarity=0.633  Sum_probs=41.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEPRP  159 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~~~  159 (237)
                      ...|+||++.|..+   .+++ |||.||..||..|++. +..||.||.++....
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            45799999999887   6777 9999999999999964 457999999886543

>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=99.27  E-value=1.2e-12  Score=94.57  Aligned_cols=48  Identities=29%  Similarity=0.770  Sum_probs=40.4

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC---CCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS---TCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   ..++ |||.||..||..|+....   .||+||.++...
T Consensus        21 ~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            35799999999987   5677 999999999999996543   799999988543

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=7.6e-12  Score=89.26  Aligned_cols=47  Identities=30%  Similarity=0.753  Sum_probs=38.2

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ...|+||++.|..+   ..++.|||.||..||..|+.  ..||.||.++...
T Consensus        22 ~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             cCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            34799999999887   44434999999999999985  4599999887543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.12  E-value=1.8e-11  Score=79.58  Aligned_cols=47  Identities=28%  Similarity=0.617  Sum_probs=36.7

Q ss_pred             CCccccccccccCCcceeecC----CCCCCCchhHHHHHhc--CCCCCccccccCC
Q 026517          107 AIECAVCLSNLENEEMARVLP----NCNHTFHAECIDKWLG--SHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~----~C~H~fh~~Ci~~wl~--~~~~CP~CR~~~~  156 (237)
                      ...|.||++.+..+   ...|    +|+|.||..||..|+.  .+.+||+||+++.
T Consensus         6 ~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           6 VPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            56899999998765   2233    2469999999999994  4558999999874

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.08  E-value=3.5e-11  Score=82.26  Aligned_cols=49  Identities=20%  Similarity=0.502  Sum_probs=42.3

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC-CCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH-STCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~~~~~  158 (237)
                      ++..|+||++.|.++   ++++ |||.||+.||..|+..+ ..||.|+.++...
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            467899999999998   6677 99999999999999765 5699999987654

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.08  E-value=2.5e-11  Score=83.45  Aligned_cols=47  Identities=13%  Similarity=0.212  Sum_probs=40.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC-CCCCccccccCCC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS-HSTCPICRTGAEP  157 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~  157 (237)
                      ...|+||++.|..+   .+++ |||.||..||..|+.. +.+||.||.++..
T Consensus         7 ~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           7 YLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             TTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            67899999999998   5677 9999999999999965 4579999998754

>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=98.99  E-value=2e-10  Score=81.82  Aligned_cols=50  Identities=20%  Similarity=0.163  Sum_probs=43.4

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccccccCCCC
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPICRTGAEPR  158 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~  158 (237)
                      ....|+||++.|..+   ++++.|||.|++.||..||..+..||+||.++...
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            368999999999999   67773456899999999999999999999988654

>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=98.58  E-value=9.6e-09  Score=72.12  Aligned_cols=47  Identities=21%  Similarity=0.591  Sum_probs=36.9

Q ss_pred             CCCccccccccccCCcceeecCCCCCCCchhHHHHHhcCC--------CCCccccc
Q 026517          106 AAIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSH--------STCPICRT  153 (237)
Q Consensus       106 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--------~~CP~CR~  153 (237)
                      ...+|+||++++...+.+..++ |+|.||..||..|+..+        ..||.|+.
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            3568999999998766666666 99999999999998421        25998654

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.94  E-value=0.013  Score=35.06  Aligned_cols=44  Identities=30%  Similarity=0.692  Sum_probs=30.7

Q ss_pred             ccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccc
Q 026517          109 ECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRT  153 (237)
Q Consensus       109 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~  153 (237)
                      .|.||...-.....+.-- .|...||..|+.+-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd-~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCD-ECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECT-TTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcC-CCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            488887665444444333 4889999999998764432    5999974

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.36  E-value=0.074  Score=34.79  Aligned_cols=33  Identities=24%  Similarity=0.582  Sum_probs=24.1

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHH
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKW  141 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w  141 (237)
                      +..|.|| +.+........-- |+-+||..|+.+.
T Consensus        15 D~mC~vC-~v~t~~~l~pCRv-CtRv~H~~CL~r~   47 (89)
T d1wila_          15 DEMCDVC-EVWTAESLFPCRV-CTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCTTT-CCCCSSCCSSCSS-SSSCCCHHHHHHH
T ss_pred             Ccccccc-Ccccccceeccee-ecchhhHHHHHHh
Confidence            5589999 6776653332222 7889999999997

>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=89.96  E-value=0.11  Score=32.97  Aligned_cols=45  Identities=24%  Similarity=0.569  Sum_probs=30.5

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCC----CCccccccC
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHS----TCPICRTGA  155 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~CR~~~  155 (237)
                      ...|.+|...   ++.+.-- .|...||..|+.+.+....    .||.|+..-
T Consensus         7 c~~C~~C~~~---~~ll~Cd-~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           7 ATICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSCCSSSCSS---SCCEECT-TSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCc---CEEEECC-CCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            3457777643   4444443 4899999999998875433    599996533

>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=89.68  E-value=0.055  Score=33.64  Aligned_cols=47  Identities=21%  Similarity=0.487  Sum_probs=32.4

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHh-----cCCCCCccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWL-----GSHSTCPICRT  153 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-----~~~~~CP~CR~  153 (237)
                      ...|.+|..........+.=..|+..||..|+..=.     .....||.|+.
T Consensus         6 ~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           6 SGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             CCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            457999998876665433333599999999985321     12347999975

>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=89.07  E-value=0.062  Score=33.15  Aligned_cols=44  Identities=25%  Similarity=0.560  Sum_probs=30.0

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcC----CCCCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGS----HSTCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~CP~CR~~  154 (237)
                      ...|.+|.+.   ++.+.-- .|.-.||..|+..-+..    .-.||.|+..
T Consensus         9 ~~~C~~C~~~---g~lv~Cd-~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           9 MEFCRVCKDG---GELLCCD-TCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCTTTCCC---SSCBCCS-SSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCCcCCCCC---CeEEEeC-CCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            4479999863   4434333 48889999999766643    2269999754

>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=88.49  E-value=0.063  Score=35.58  Aligned_cols=50  Identities=16%  Similarity=0.397  Sum_probs=31.7

Q ss_pred             CCccccccccccC-CcceeecCCCCCCCchhHHHHHhc--------CCCCCccccccCC
Q 026517          107 AIECAVCLSNLEN-EEMARVLPNCNHTFHAECIDKWLG--------SHSTCPICRTGAE  156 (237)
Q Consensus       107 ~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~--------~~~~CP~CR~~~~  156 (237)
                      ...|.||...... ...++.=-.|+..||..|+.+.+.        ..-.||.|.....
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            4579999875432 222332234889999999875431        1336999976543

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.10  E-value=1.2  Score=28.43  Aligned_cols=45  Identities=22%  Similarity=0.450  Sum_probs=29.0

Q ss_pred             ccccccccccCCc-ceeecCCCCCCCchhHHHHH---hc--CCCCCccccccC
Q 026517          109 ECAVCLSNLENEE-MARVLPNCNHTFHAECIDKW---LG--SHSTCPICRTGA  155 (237)
Q Consensus       109 ~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~w---l~--~~~~CP~CR~~~  155 (237)
                      .| ||...+.... .|.-- .|.--||..|+..-   ..  ....||.|+...
T Consensus        14 ~C-iC~~~~~~~~~mI~Cd-~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          14 YC-LCRQPYNVNHFMIECG-LCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBT-TTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             Ee-ECCCccCCCCcEEECC-CCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            45 9988765443 33333 48899999998421   11  235799998644

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.81  E-value=0.31  Score=29.69  Aligned_cols=44  Identities=25%  Similarity=0.483  Sum_probs=30.6

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHHHHhcCCCCCccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECIDKWLGSHSTCPIC  151 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C  151 (237)
                      ...|.-|...+... .+..-+.|++.||.+|=.=.-+.-.+||-|
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            34799999888654 344455699999999943222444579988

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.58  E-value=0.88  Score=28.60  Aligned_cols=46  Identities=28%  Similarity=0.639  Sum_probs=29.9

Q ss_pred             CCccccccccccCCcceeecCCCCCCCchhHHH----H-----HhcCCCCCcccccc
Q 026517          107 AIECAVCLSNLENEEMARVLPNCNHTFHAECID----K-----WLGSHSTCPICRTG  154 (237)
Q Consensus       107 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~----~-----wl~~~~~CP~CR~~  154 (237)
                      ...| ||......+..|.-- .|.-.||..|+.    .     .......||.|+..
T Consensus        16 ~~~C-iC~~~~~~~~mi~Cd-~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          16 ALYC-ICRQPHNNRFMICCD-RCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECS-SSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             cCEE-ECCCccCCCeEEEEC-CCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            4468 898776555444444 488899999982    1     11334689999653