Citrus Sinensis ID: 017252

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-----
Protein Sequence
MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFSSSSSHSGGNNSTSTSQSGSTSQMNEN
Secondary Structure (PSIPRED)
cccccccccEEEccccccEEccccccccccccccccEEEcccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHcccccHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHcccccHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccccHHHHHccccccccccccccccccccccccEEEEcccccccccccHHHHHccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEcccEEEccccccccEccccccccEEEccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHccccccccccHHHHccccccccccccccccccccccccccccccccccccccccHEEEcccccccEcccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccHHHHHccccEEEcccccccccHHHcccccHHcccccccccccccEcHHHHHccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDDGVAASRYWCHMCSQIVDPIMEVeikcpfcqsgfveemgsgsnnnnhqvpdsefgsdralSLWAPILlgmmgnqrphgrrfrrtdyeeddnddenhdEYEGELESIITRRRRRNSAAILQLLQGLRAglqsesedndndrerdrdrgdrdrdrdresERERVILinpfnqtiivqggsydgqhqnhnhtpigslgdyfvgpgLDLLLQHLaendpnrygtppaqkeaveampsvkieetlqcsvclddfeigteakempckhkfhsqcilpwlelhsscpvcrcqlpadefkpesersrnssnhqrehehhssdhgthasseegdgegrnesgsrfsipwpfnglfssssshsggnnststsqsgstsqmnen
Flexible Loop (DISEMBL)
mddgvaasrYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLgmmgnqrphgrrfrrtdyeeddnddenhdeYEGELESIITRRRRRNSAAILQLLQGlraglqsesedndndrerdrdrgdrdrdrdreserervilinpfnqtIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSsnhqrehehhssdhgthasseegDGEGRNESGSRFSIPWPFNGLFSsssshsggnnststsqsgstsqmnen
Low Complexity Region (SEG)
MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLGMMGNQRPHGRRFRRTdyeeddnddenhdeyegeLESIITRRRRRNSaailqllqglraglqSesedndndrerdrdrgdrdrdrdresererVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFssssshsggnnststsqsgstsqMNEN
Disordered region (IsUnstruct)
*****AASRYWCHMCSQIVDPIMEVEIKCPFCQSGFV***********************ALSLWAPILLGMM*********************************************AILQLL***************************************VILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLA**********************VKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL***************************************************************************************
Disordered Region (DISOPRED)
*****AA**YWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSG***************************************************************************************************************************INPFNQTIIVQGG************PIGSLGDYFVGPGLDLLLQ******************AVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP**************************************************************************************
Disordered Region (DISEMBL)
********RYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLRAGLQ***************************ERERVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE*******************************************SRFSIPWPFNGLFS**************************
Disordered Region (DISPRO)
******ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGS********************SLWAPILLGMMG***********************************************************************************ESERERVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL***************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFSSSSSHSGGNNSTSTSQSGSTSQMNEN
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	375	2.2.26 [Sep-21-2011]
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.381	0.423	0.531	2e-40
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.322	0.368	0.534	2e-37
Q0II22	313	RING finger protein 126 O	no	no	0.661	0.792	0.301	2e-20
Q6IRP0	312	RING finger protein 126-B	N/A	no	0.645	0.775	0.275	7e-20
Q6DIP3	311	RING finger protein 126 O	yes	no	0.642	0.774	0.278	8e-20
Q9D0C1	305	E3 ubiquitin-protein liga	yes	no	0.685	0.842	0.264	8e-20
Q7T0Q3	312	RING finger protein 126-A	N/A	no	0.645	0.775	0.278	9e-20
Q9BV68	326	RING finger protein 126 O	yes	no	0.64	0.736	0.292	1e-19
Q9Y4L5	304	E3 ubiquitin-protein liga	no	no	0.325	0.401	0.364	2e-17
Q91YL2	313	RING finger protein 126 O	no	no	0.24	0.287	0.443	5e-17

>sp|P0CH30|RING1_GOSHI E3 ubiquitin-protein ligase RING1 OS=Gossypium hirsutum GN=RING1 PE=2 SV=1

 Score =  167 bits (422), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 84/158 (53%), Positives = 105/158 (66%), Gaps = 15/158 (9%)

Query: 194 GSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKI------EETLQCSVC 247
            ++GDYF+GPGL+ L+Q LAENDPNRYGTPPA K A+EA+P V I       E  QC+VC
Sbjct: 168 ANIGDYFIGPGLEQLIQQLAENDPNRYGTPPASKSAIEALPLVNITKSNLNSEFNQCAVC 227

Query: 248 LDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQ 307
           +DDFE GTEAK+MPCKH +H  C+LPWLELH+SCPVCR +LP D+  P+ ER        
Sbjct: 228 MDDFEEGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCRHELPTDD--PDYER------RV 279

Query: 308 REHEHHSSDHGTHASSEEGDGEGRN-ESGSRFSIPWPF 344
           R  +  S  +    S +  DG+ R  E   R S+PWPF
Sbjct: 280 RGAQGTSGGNDGDNSGQRSDGDNRTVERSFRISLPWPF 317

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.
Gossypium hirsutum (taxid: 3635)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana GN=At3g19950 PE=2 SV=1

 Score =  156 bits (395), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 70/131 (53%), Positives = 94/131 (71%), Gaps = 10/131 (7%)

Query: 172 QTIIVQGGSYDGQHQNHNHTP----IGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQK 227
           QT+   G  ++   +NH   P     G+ GDYF GPGL+ L+Q LAENDPNRYGTPPA K
Sbjct: 134 QTLRSSGTHFEFVIENHPSDPGNRMPGNFGDYFFGPGLEQLIQQLAENDPNRYGTPPASK 193

Query: 228 EAVEAMPSVKIEETL------QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSC 281
            A++A+P+VK+ + +      QC+VC+D+FE G++ K+MPCKH FH  C+LPWLELH+SC
Sbjct: 194 SAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSC 253

Query: 282 PVCRCQLPADE 292
           PVCR +LP D+
Sbjct: 254 PVCRFELPTDD 264

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q0II22|RN126_BOVIN RING finger protein 126 OS=Bos taurus GN=RNF126 PE=2 SV=1

 Score =  100 bits (249), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 90/299 (30%), Positives = 129/299 (43%), Gaps = 51/299 (17%)

Query: 9   RYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPI 68
           RY+CH CS  + P +   I CP C+SGF+EE+   + +  +    S   +D++       
Sbjct: 10  RYFCHCCSVEIVPRLPDYI-CPRCESGFIEELPEETRSAENGSAPSTASADQS------- 61

Query: 69  LLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLR 128
                          R+  +E  D       +  G     I      +S  I     G +
Sbjct: 62  ---------------RQQPFENVDQPLFTLPQGYGHFAFGIFD----DSFEIPTFPPGAQ 102

Query: 129 AGLQSESEDNDNDRERD---RDRGDRDRDRDRESER------ERVILINPFNQTIIVQGG 179
           A    +S D ++ RER+   R R    + R R + R      E V  +    Q + V G 
Sbjct: 103 A---DDSRDPESRREREQHSRHRYGARQPRARLTARRATGRHEGVPTLEGIIQQL-VNGI 158

Query: 180 SYDGQHQNHNHTPIGSL----GDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKEAVEAMP 234
                  N    P G L     DY  G  GLD ++  L  N     G PPA KE ++A+P
Sbjct: 159 ITPATIPNLGLGPWGVLHSNPMDYAWGANGLDAIITQLL-NQFENTGPPPADKEKIQALP 217

Query: 235 SVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
           +V + E      L+C VC DD+ +G   +++PC H FH  CI+PWLE H SCPVCR  L
Sbjct: 218 TVPVTEEHVGSGLECPVCKDDYGLGEHVRQLPCNHLFHDGCIVPWLEQHDSCPVCRKSL 276

Bos taurus (taxid: 9913)

>sp|Q6IRP0|R126B_XENLA RING finger protein 126-B OS=Xenopus laevis GN=rnf126-b PE=2 SV=1

 Score = 98.6 bits (244), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 84/305 (27%), Positives = 124/305 (40%), Gaps = 63/305 (20%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWA 66
           A RY+CH C+  + P +  E  CP C SGF+EE+                          
Sbjct: 8   AGRYFCHSCTAEITPRLP-EYTCPRCDSGFIEEL-------------------------- 40

Query: 67  PILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQG 126
                      P   R   ++   +   D+N   +E    +  T              +G
Sbjct: 41  -----------PETSRNSESNSSNNSGTDQNRPSFENIESAQFTLPSGYGQVTFGIFNEG 89

Query: 127 L------RAGLQSESEDNDNDRE-RDRDRGDRDRDRDRESER------ERVILINPFNQT 173
           L       +G   E+ D ++ RE + R R    + R R S R      E V  +    Q 
Sbjct: 90  LDFPMFGTSGPVEETRDGESRREHQSRQRYGARQPRARMSTRRGAGRNEGVPTLEGIIQQ 149

Query: 174 IIVQGGSYDGQHQNHNHTPIGSL----GDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKE 228
           + V G        N    P G L     DY  G  GLD ++  L  N     G PPA  +
Sbjct: 150 L-VNGIIAPTAMSNLGVGPWGVLHSNPMDYAWGANGLDTIITQLL-NQFENTGPPPADTD 207

Query: 229 AVEAMPSVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPV 283
            ++A+P+++I E      L+C VC +D+ +G   +++PC H FH+ CI+PWLE H +CPV
Sbjct: 208 KIQALPTIQITEEHVGFGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQHDTCPV 267

Query: 284 CRCQL 288
           CR  L
Sbjct: 268 CRKSL 272

Xenopus laevis (taxid: 8355)

>sp|Q6DIP3|RN126_XENTR RING finger protein 126 OS=Xenopus tropicalis GN=rnf126 PE=2 SV=1

 Score = 98.2 bits (243), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 85/305 (27%), Positives = 124/305 (40%), Gaps = 64/305 (20%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWA 66
           A RY+CH C+  + P +  E  CP C SGF+EE+           P++            
Sbjct: 8   AGRYFCHSCTAEIIPRLP-EYTCPRCDSGFIEEL-----------PET------------ 43

Query: 67  PILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQG 126
                          R    +   +   D+N   +E    +  T              +G
Sbjct: 44  ---------------RNSENNSSNNSGTDQNRPSFENLESAQFTLPSGYGQVTFGIFNEG 88

Query: 127 L------RAGLQSESEDNDNDRE-RDRDRGDRDRDRDRESER------ERVILINPFNQT 173
           L       +G   E  D ++ RE + R R    + R R S R      E V  +    Q 
Sbjct: 89  LDFPIFGTSGPVEEPRDGESRREHQSRQRYGARQPRARLSTRRAAGRNEGVPTLEGIIQQ 148

Query: 174 IIVQGGSYDGQHQNHNHTPIGSL----GDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKE 228
           + V G        N    P G L     DY  G  GLD ++  L  N     G PPA  E
Sbjct: 149 L-VNGIIAPTAMSNLGVGPWGVLHSNPMDYAWGANGLDTIITQLL-NQFENTGPPPADTE 206

Query: 229 AVEAMPSVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPV 283
            ++A+P+++I E      L+C VC +D+ +G   +++PC H FH+ CI+PWLE H +CPV
Sbjct: 207 KIQALPTIQITEEHVGSGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQHDTCPV 266

Query: 284 CRCQL 288
           CR  L
Sbjct: 267 CRKSL 271

Xenopus tropicalis (taxid: 8364)

>sp|Q9D0C1|RN115_MOUSE E3 ubiquitin-protein ligase RNF115 OS=Mus musculus GN=Rnf115 PE=1 SV=1

 Score = 98.2 bits (243), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 90/340 (26%), Positives = 134/340 (39%), Gaps = 83/340 (24%)

Query: 9   RYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPI 68
           R++CH C   V+P +  E  CP C SGF+EE+            DS F            
Sbjct: 19  RFFCHFCKGEVNPKLP-EYICPRCDSGFIEEVTD----------DSSF------------ 55

Query: 69  LLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLR 128
            LG  G+         RTD     +  E  D  +  +                  LQ  R
Sbjct: 56  -LGGGGS---------RTDNSTATHFAELWDHLDHTM-----------------FLQDFR 88

Query: 129 AGLQSESEDNDND-----------------------RERDRDRGDRDRDRDRESERERVI 165
             L S   D DN                          R R RG    DR    E     
Sbjct: 89  PFLSSNPLDQDNRANERGHQTHTDFWGPSRPPRLPMTRRYRSRGSTRPDRSPAIEGIIQQ 148

Query: 166 LINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVG-PGLDLLLQHLAENDPNRYGTPP 224
           +   F     + G  +        H+   + GDY  G  GLD ++  L     N  G PP
Sbjct: 149 IFAGFFANSAIPGSPHPFSWSGMLHS---NPGDYAWGQTGLDAIVTQLLGQLENT-GPPP 204

Query: 225 AQKEAVEAMPSVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS 279
           A KE + ++P+V + +      L+C VC +D+ +  + +++PC H FHS CI+PWLELH 
Sbjct: 205 ADKEKITSLPTVTVTQEQVNTGLECPVCKEDYTVEEKVRQLPCNHFFHSSCIVPWLELHD 264

Query: 280 SCPVCRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGT 319
           +CPVCR  L  ++   +++ S  S++++  ++    D  T
Sbjct: 265 TCPVCRKSLNGEDSTRQTQSSEASASNRFSNDSQLHDRWT 304

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7T0Q3|R126A_XENLA RING finger protein 126-A OS=Xenopus laevis GN=rnf126-a PE=2 SV=1

 Score = 98.2 bits (243), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 85/305 (27%), Positives = 123/305 (40%), Gaps = 63/305 (20%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWA 66
           A RY+CH C+  + P +  E  CP C SGF+EE+                          
Sbjct: 8   AGRYFCHSCTAEITPRLP-EYTCPRCDSGFIEEL-------------------------- 40

Query: 67  PILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQG 126
                      P   R    +   +   D+N   +E    +  T              +G
Sbjct: 41  -----------PETSRNSENNSSNNSRTDQNRPSFENLESAQFTLPSGYGQVTFGIFNEG 89

Query: 127 L------RAGLQSESEDNDNDRE-RDRDRGDRDRDRDRESER------ERVILINPFNQT 173
           L       +G   E+ D ++ RE + R R    + R R S R      E V  +    Q 
Sbjct: 90  LDFPIFGTSGPVEETRDGESRREHQSRQRYGARQPRARLSTRRAAGRNEGVPTLEGIIQQ 149

Query: 174 IIVQGGSYDGQHQNHNHTPIGSL----GDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKE 228
           + V G        N    P G L     DY  G  GLD ++  L  N     G PPA  E
Sbjct: 150 L-VNGIIAPTAMSNLGVGPWGVLHSNPMDYAWGANGLDTIITQLL-NQFENTGPPPADNE 207

Query: 229 AVEAMPSVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPV 283
            ++A+P+++I E      L+C VC +D+ +G   +++PC H FH+ CI+PWLE H +CPV
Sbjct: 208 KIQALPTIQITEEHVGSGLECPVCKEDYTVGECVRQLPCNHLFHNDCIIPWLEQHDTCPV 267

Query: 284 CRCQL 288
           CR  L
Sbjct: 268 CRKSL 272

Xenopus laevis (taxid: 8355)

>sp|Q9BV68|RN126_HUMAN RING finger protein 126 OS=Homo sapiens GN=RNF126 PE=1 SV=1

 Score = 97.8 bits (242), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 89/304 (29%), Positives = 127/304 (41%), Gaps = 64/304 (21%)

Query: 9   RYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPI 68
           RY+CH CS  + P +   I CP C+SGF+EE+   + +  +    S   +D++       
Sbjct: 10  RYFCHCCSVEIVPRLPDYI-CPRCESGFIEELPEETRSTENGSAPSTAPTDQS------- 61

Query: 69  LLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLR 128
                           R   E  D       +  G+    I      +S  I     G +
Sbjct: 62  ----------------RPPLEHVDQHLFTLPQGYGQFAFGIFD----DSFEIPTFPPGAQ 101

Query: 129 AGLQSESEDNDNDRERD---RDRGDRDRDRDRESER------------ERVI--LIN-PF 170
           A    +  D ++ RERD   R R    + R R + R            E +I  L+N   
Sbjct: 102 A---DDGRDPESRRERDHPSRHRYGARQPRARLTTRRATGRHEGVPTLEGIIQQLVNGII 158

Query: 171 NQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKEA 229
               I   G +   H N          DY  G  GLD ++  L  N     G PPA KE 
Sbjct: 159 TPATIPSLGPWGVLHSNPM--------DYAWGANGLDAIITQLL-NQFENTGPPPADKEK 209

Query: 230 VEAMPSVKIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           ++A+P+V + E      L+C VC DD+ +G   +++PC H FH  CI+PWLE H SCPVC
Sbjct: 210 IQALPTVPVTEEHVGSGLECPVCKDDYALGERVRQLPCNHLFHDGCIVPWLEQHDSCPVC 269

Query: 285 RCQL 288
           R  L
Sbjct: 270 RKSL 273

Homo sapiens (taxid: 9606)

>sp|Q9Y4L5|RN115_HUMAN E3 ubiquitin-protein ligase RNF115 OS=Homo sapiens GN=RNF115 PE=1 SV=2

 Score = 90.5 bits (223), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/129 (36%), Positives = 75/129 (58%), Gaps = 7/129 (5%)

Query: 197 GDYFVG-PGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEET-----LQCSVCLDD 250
           GDY  G  GLD ++  L     N  G PPA KE + ++P+V + +      L+C VC +D
Sbjct: 176 GDYAWGQTGLDAIVTQLLGQLENT-GPPPADKEKITSLPTVTVTQEQVDMGLECPVCKED 234

Query: 251 FEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREH 310
           + +  E +++PC H FHS CI+PWLELH +CPVCR  L  ++   +S+ +  S++++  +
Sbjct: 235 YTVEEEVRQLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDSTRQSQSTEASASNRFSN 294

Query: 311 EHHSSDHGT 319
           +    D  T
Sbjct: 295 DSQLHDRWT 303

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q91YL2|RN126_MOUSE RING finger protein 126 OS=Mus musculus GN=Rnf126 PE=1 SV=1

 Score = 89.0 bits (219), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 43/97 (44%), Positives = 58/97 (59%), Gaps = 7/97 (7%)

Query: 198 DYFVGP-GLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEET-----LQCSVCLDDF 251
           DY  G  GLD ++  L  N     G PPA KE ++A+P+V + E      L+C VC +D+
Sbjct: 180 DYAWGANGLDTIITQLL-NQFENTGPPPADKEKIQALPTVPVTEEHVGSGLECPVCKEDY 238

Query: 252 EIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
            +G   +++PC H FH  CI+PWLE H SCPVCR  L
Sbjct: 239 ALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 275

Mus musculus (taxid: 10090)

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	375
356567978	344	PREDICTED: E3 ubiquitin-protein ligase R	0.869	0.947	0.641	1e-112
224073116	356	predicted protein [Populus trichocarpa]	0.885	0.932	0.648	1e-111
357462645	352	RING finger protein [Medicago truncatula	0.906	0.965	0.627	1e-108
449463838	362	PREDICTED: E3 ubiquitin-protein ligase R	0.882	0.914	0.574	1e-103
224052857	340	predicted protein [Populus trichocarpa]	0.837	0.923	0.664	1e-101
225435816	368	PREDICTED: uncharacterized protein LOC10	0.962	0.980	0.594	1e-94
297793133	395	zinc finger family protein [Arabidopsis	0.866	0.822	0.548	2e-94
255564802	394	zinc finger protein, putative [Ricinus c	0.8	0.761	0.654	4e-91
18405411	351	RING/U-box domain-containing protein [Ar	0.874	0.934	0.497	6e-91
297746512	349	unnamed protein product [Vitis vinifera]	0.8	0.859	0.563	2e-89

>gi|356567978|ref|XP_003552191.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Glycine max]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 225/351 (64%), Positives = 262/351 (74%), Gaps = 25/351 (7%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG-SGSNNNNHQVPDSEFGSDRALSLW 65
           A+RYWCHMCSQ+V+PIM++EI+CPFCQSGFVEEMG + S+++     +S+F SDRALSLW
Sbjct: 2   AARYWCHMCSQMVNPIMDMEIRCPFCQSGFVEEMGNTPSSSSIPNTSESDFESDRALSLW 61

Query: 66  APILLGMMGNQRPHGRRFRRT-------DYEEDDNDDENHDEYEGELESIITRRRRRNSA 118
           APILLGMMGN R H RR R+        DY +   D     EY+ E ESI+  RRRRNSA
Sbjct: 62  APILLGMMGNPR-HPRRLRQIANDNGNRDYVDGVADHGRETEYDQEFESIL--RRRRNSA 118

Query: 119 AILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQG 178
            ILQLLQG+R GL SES +N        D  D DR+R+RE ERE +ILINP NQTIIVQG
Sbjct: 119 TILQLLQGIRTGLASESYEN-------TDGHDHDREREREREREHMILINPLNQTIIVQG 171

Query: 179 GSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKI 238
                + Q+ NH+ +GSLGDYF GPG D+LLQHLAENDPNRYGTPPAQKEA+EA+P+V I
Sbjct: 172 SYESNRDQSDNHSSVGSLGDYFTGPGFDILLQHLAENDPNRYGTPPAQKEAIEALPTVII 231

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESE 298
            E  QCSVCLDDFE+G+EAKEMPCKH+FHS CILPWLELHSSCPVCR QLP DE K +S+
Sbjct: 232 NENSQCSVCLDDFEVGSEAKEMPCKHRFHSGCILPWLELHSSCPVCRLQLPLDESKQDSD 291

Query: 299 RSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGS-RFSIPWPFNGLF 348
            SR+S + QRE E        H + EE DGEGRN SG  RFS PWPFNGLF
Sbjct: 292 LSRDSRS-QREDESIE-----HDNDEERDGEGRNASGGRRFSFPWPFNGLF 336

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073116|ref|XP_002303979.1| predicted protein [Populus trichocarpa] gi|222841411|gb|EEE78958.1| predicted protein [Populus trichocarpa]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 229/353 (64%), Positives = 264/353 (74%), Gaps = 21/353 (5%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWA 66
           A+RYWCHMCSQ+V+PIM VEIKCPFCQ+GF+E+M   + +N  QVPDSEFGSDRALSLWA
Sbjct: 2   AARYWCHMCSQMVNPIMGVEIKCPFCQNGFIEDMIDSTGDN--QVPDSEFGSDRALSLWA 59

Query: 67  PILLGMMGNQRPHGRRFRRTDYEEDD--NDD--ENHD---EYEGELESIITRRRRR--NS 117
           PILLGM+GN     RR RR +YEED+  NDD   NH    E+E E+ES + RRRR   NS
Sbjct: 60  PILLGMVGNSH-RRRRLRRVEYEEDEDGNDDGEANHAGEPEFEREIESFMRRRRRSRRNS 118

Query: 118 AAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQ 177
           A ILQLLQG+RAG+     +N           D +R      ERERVILINPFNQ+IIVQ
Sbjct: 119 ATILQLLQGIRAGILVSESENLEGDRDRDRVRDMNR------ERERVILINPFNQSIIVQ 172

Query: 178 GGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVK 237
           G       QN N   IGSLGDY +GPGLDLLLQHLAENDPNRYGTPPAQKEA+EA+P+V 
Sbjct: 173 GSYDSNNVQNQNQNAIGSLGDYVIGPGLDLLLQHLAENDPNRYGTPPAQKEAIEALPTVT 232

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPES 297
           ++E LQCSVCLDDFEIG EA+EMPCKHKFHS CILPWLELHSSCPVCR QLPADE K +S
Sbjct: 233 VKEPLQCSVCLDDFEIGAEAREMPCKHKFHSGCILPWLELHSSCPVCRHQLPADESKLDS 292

Query: 298 ERSRNSSNHQREHEHHSSDHGTH--ASSEEGDGEGRNESGSRFSIPWPFNGLF 348
           ERSRN+ + QR+ E  +S+       + EEGDGEGR+ +G RFS PWPFN LF
Sbjct: 293 ERSRNTFD-QRDSESTNSESNISNGINVEEGDGEGRSGNGRRFSFPWPFNSLF 344

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462645|ref|XP_003601604.1| RING finger protein [Medicago truncatula] gi|355490652|gb|AES71855.1| RING finger protein [Medicago truncatula]

 Score =  398 bits (1023), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 231/368 (62%), Positives = 267/368 (72%), Gaps = 28/368 (7%)

Query: 7   ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQ-VPDSEFGSDRALSLW 65
           A+RYWCH CSQIV P+M +EIKCP CQSGF+EEM S +  ++ Q  P+++FG DR+ SLW
Sbjct: 2   AARYWCHACSQIVSPVMGMEIKCPLCQSGFIEEMSSATGISDLQNTPETDFGVDRSPSLW 61

Query: 66  APILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDE-------YEGELESIITRRRRRNSA 118
           APILLGMMGN  P  RR  R    EDD +  N D+       Y+ ELESI+ RRRR  SA
Sbjct: 62  APILLGMMGN--PRLRRRLRRIELEDDYESGNRDDDHGGVGHYDRELESILRRRRRS-SA 118

Query: 119 AILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQG 178
            I QLLQG+RAGL SES +N      D D      DR RE ERE VILINPFNQTIIVQG
Sbjct: 119 TIQQLLQGIRAGLTSESHEN-----TDSD------DRVREREREHVILINPFNQTIIVQG 167

Query: 179 GSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKI 238
                + Q+ NH PIG+LGDYFVGPGLDLLLQHL+ENDPNRYGTPPA KEAVE++P+VKI
Sbjct: 168 SYDSNRDQSDNHNPIGALGDYFVGPGLDLLLQHLSENDPNRYGTPPAPKEAVESLPTVKI 227

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESE 298
            E LQCSVCLDDFE+G+EAKEMPCKH+FHS CILPWLELHSSCPVCR QL  DE K +S+
Sbjct: 228 NENLQCSVCLDDFEVGSEAKEMPCKHRFHSACILPWLELHSSCPVCRSQLRVDEPKQDSD 287

Query: 299 RSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGS-RFSIPWPFNGLFSSSSSHSGG 357
            SRN  N QR+ E      G   ++ EGD EGR+ SG  RFS PWPFNGLFSSSSS S  
Sbjct: 288 VSRNHRN-QRDDEI----IGHANANAEGDSEGRSPSGGRRFSFPWPFNGLFSSSSSSSNA 342

Query: 358 NNSTSTSQ 365
           N + + S+
Sbjct: 343 NGNGTQSE 350

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463838|ref|XP_004149638.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus] gi|449519040|ref|XP_004166543.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score =  382 bits (981), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 220/383 (57%), Positives = 273/383 (71%), Gaps = 52/383 (13%)

Query: 3   DGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVP---------D 53
           D + A+RYWCHMCSQ+V+PI++VEIKCPFC+SGFVEE+G+G +++N+            +
Sbjct: 2   DELIATRYWCHMCSQMVNPIVDVEIKCPFCRSGFVEEIGNGISSDNNDNNNNNNNNNELE 61

Query: 54  SEFGSDRALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEG--------EL 105
           S+FGS+RALSLWAPILLGMMGN R   RRFR  ++++DD+D+E H++ EG        EL
Sbjct: 62  SDFGSERALSLWAPILLGMMGNPRGR-RRFRHLEFDDDDDDNE-HEDGEGNRVSSETTEL 119

Query: 106 ESIITRRRRRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVI 165
           +S+I  RRRR+SA ILQLLQG+RAG+ +   +N               + +R  ERERVI
Sbjct: 120 DSVI--RRRRSSATILQLLQGIRAGIATAESENS-------------YEGERSRERERVI 164

Query: 166 LINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPA 225
           LINPFNQTI+VQGG    ++QN N   IGSLGDYFVGPGLDLLLQH+AENDPNRYGTPPA
Sbjct: 165 LINPFNQTIVVQGG----ENQNQNQNSIGSLGDYFVGPGLDLLLQHIAENDPNRYGTPPA 220

Query: 226 QKEAVEAMPSVKIE----ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSC 281
           QKEAV+A+P+V++E      LQCSVCLD+FE+  EAKEMPCKHKFH+ CILPWLELHSSC
Sbjct: 221 QKEAVDALPTVRVELEEDSCLQCSVCLDEFEVDEEAKEMPCKHKFHTGCILPWLELHSSC 280

Query: 282 PVCRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRN--ESGSRFS 339
           PVCR QLP D    ES+R  +  +  R      SD      +  G+ EGRN  ESG RFS
Sbjct: 281 PVCRHQLPGD----ESKRDVDGGSAAR----FMSDLNNGNGNGSGEIEGRNSSESGRRFS 332

Query: 340 IPWPFNGLFSSSSSHSGGNNSTS 362
            PWPFNGLF+S  + S G+ S S
Sbjct: 333 FPWPFNGLFTSQGNSSAGSASDS 355

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224052857|ref|XP_002297615.1| predicted protein [Populus trichocarpa] gi|222844873|gb|EEE82420.1| predicted protein [Populus trichocarpa]

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 228/343 (66%), Positives = 266/343 (77%), Gaps = 29/343 (8%)

Query: 18  IVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDRALSLWAPILLGMMGNQR 77
           +V+P+MEVEIKCPFCQSGF+EEM S + +   QVPDSEFGSDRALSLWAPILLGMMGN R
Sbjct: 1   MVNPVMEVEIKCPFCQSGFIEEMSSSTGDT--QVPDSEFGSDRALSLWAPILLGMMGNSR 58

Query: 78  PHGRRFRRTDYEE--DDNDDENHD-----EYEGELESIITRRRRRNS--AAILQLLQGLR 128
              R  RR +YEE  DDNDD   +     E+E E+ES I RRRR     A ILQLLQG+R
Sbjct: 59  RRRRL-RRMEYEEGEDDNDDGEANLGGETEFEHEIESFIRRRRRSRRSSATILQLLQGIR 117

Query: 129 AG-LQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQGGSYDGQH-Q 186
           AG L SESE+++ DR+ +RDR       DR+ +RERVILINPFNQ IIVQG SYD  + +
Sbjct: 118 AGILASESENSEGDRDGERDR-------DRDRDRERVILINPFNQNIIVQG-SYDSNNDE 169

Query: 187 NHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSV 246
           N N  P+GS GDYF+GPGLDLLLQHLA+NDPNRYGT PAQKEAVEA+P+V I+E LQCSV
Sbjct: 170 NQNQNPVGSFGDYFIGPGLDLLLQHLADNDPNRYGTLPAQKEAVEALPTVIIKEPLQCSV 229

Query: 247 CLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNH 306
           CLDDFEIG++A+EMPCKHKFHS CILPWLELHSSCPVCR QLPADE K +SER+RNSS+ 
Sbjct: 230 CLDDFEIGSKAREMPCKHKFHSGCILPWLELHSSCPVCRHQLPADESKLDSERARNSSD- 288

Query: 307 QREHEHHSSD----HGTHASSEEGDGEGRNESGSRFSIPWPFN 345
           +RE E+ +S+    HG   S EEGD E R+ +G  FS PWPFN
Sbjct: 289 RREFENTNSESNISHGI--SVEEGDSEERSGNGRSFSFPWPFN 329

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435816|ref|XP_002285765.1| PREDICTED: uncharacterized protein LOC100250148 isoform 1 [Vitis vinifera] gi|225435818|ref|XP_002285766.1| PREDICTED: uncharacterized protein LOC100250148 isoform 2 [Vitis vinifera]

 Score =  352 bits (904), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 227/382 (59%), Positives = 276/382 (72%), Gaps = 21/382 (5%)

Query: 1   MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDR 60
           M+D +   RYWCH CSQ+V+PI E E KCP CQ GF+E++  G+ + +H   DS+  SDR
Sbjct: 1   MEDAMGG-RYWCHSCSQVVNPIAEAEPKCPLCQDGFIEDI-DGTASRDHNDSDSDLASDR 58

Query: 61  ALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELE-----SIITRRRRR 115
            LSLWAPILLGMMGN R   R  R    +E++++++      GE E       I RRRRR
Sbjct: 59  TLSLWAPILLGMMGNPRRRRRFRREDIEDEEEDNEDGEGRRGGETELDRELDSIIRRRRR 118

Query: 116 NSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTII 175
           +SA ILQLLQG+RAG+ SESE+++NDR+RDRDR       +RE ERER+ILINPFNQTII
Sbjct: 119 SSATILQLLQGIRAGMVSESENSENDRDRDRDR-------ERERERERLILINPFNQTII 171

Query: 176 VQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPS 235
           VQG     Q QN N   IGSLGDYF+GP LDLLLQHLAENDPNRYGTPPAQK+A+EAMP+
Sbjct: 172 VQGSFDSNQAQNQNQNTIGSLGDYFIGPSLDLLLQHLAENDPNRYGTPPAQKDAIEAMPT 231

Query: 236 VKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP 295
           VKI+E LQCSVCLDDFEIG EA+EMPCKHKFHS CILPWLELHSSCPVCR Q+ ADE K 
Sbjct: 232 VKIKENLQCSVCLDDFEIGAEAREMPCKHKFHSGCILPWLELHSSCPVCRFQIAADESKL 291

Query: 296 ESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFSSSSSHS 355
           +S+ S N S++  E  ++      H SSEEGDG+GR+ +G R +  WPF  LFSS  S +
Sbjct: 292 DSDASPNVSSNSSERSNNG-----HGSSEEGDGDGRSGNGRRSTFRWPFTSLFSSQGSQT 346

Query: 356 GGNNSTSTSQS--GSTSQMNEN 375
              NS+S+  +  GS S+ NEN
Sbjct: 347 SNGNSSSSGANAPGSASRANEN 368

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297793133|ref|XP_002864451.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297310286|gb|EFH40710.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  352 bits (902), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 209/381 (54%), Positives = 248/381 (65%), Gaps = 56/381 (14%)

Query: 5   VAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNN----HQVPDSE--FGS 58
             ASRYWCHMCSQ+V+PIME EIKCPFCQSGF+EEM   S          V DSE  FG+
Sbjct: 4   TMASRYWCHMCSQMVNPIMESEIKCPFCQSGFIEEMSGNSGGGGGRGIRDVQDSETDFGT 63

Query: 59  DRALSLWAPILLGMMGNQRPHGRRFRRTDYEE-DDNDDE--------------------- 96
           DRALSLWAPILLGMM + R   R  R    EE DDN DE                     
Sbjct: 64  DRALSLWAPILLGMMSSPRRRRRFRRSEFGEENDDNGDELSNADGNDNNNNSNVYYHHRA 123

Query: 97  ----NHDEYEGELESIITRRRRRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRD 152
                  + + E ESI+ RRRR +S  ILQLLQG+RAG+ SE E +DND +  R      
Sbjct: 124 RRHGGEIDLDREFESILRRRRR-SSGNILQLLQGIRAGIASEYESSDNDWDNSR------ 176

Query: 153 RDRDRESERERVILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHL 212
                  ER+RVI+INP+NQ+++VQG S     QN NH  + SLGDYF+GPGLDLLLQHL
Sbjct: 177 -------ERDRVIMINPYNQSLVVQGSS----DQNPNHPSLTSLGDYFIGPGLDLLLQHL 225

Query: 213 AENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCIL 272
           AENDPNR GTPPA+KEAVEA+P+VKI E LQCSVCLDDFE GTEAKE+PCKHKFH +CI+
Sbjct: 226 AENDPNRQGTPPARKEAVEALPTVKIMEPLQCSVCLDDFEKGTEAKELPCKHKFHIRCIV 285

Query: 273 PWLELHSSCPVCRCQLPA-----DEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGD 327
           PWLELHSSCPVCR +LP+     DE K +SER   + N    +  +  ++  +A     D
Sbjct: 286 PWLELHSSCPVCRFELPSSADDDDETKIDSERPPRTRNVGESNNRNIVENVGNAERGRQD 345

Query: 328 GEGRNESGSRFSIPWPFNGLF 348
            E R+ +G RFS PWPF+GLF
Sbjct: 346 -EARSGNGRRFSFPWPFSGLF 365

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564802|ref|XP_002523395.1| zinc finger protein, putative [Ricinus communis] gi|223537345|gb|EEF38974.1| zinc finger protein, putative [Ricinus communis]

 Score =  341 bits (874), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 208/318 (65%), Positives = 249/318 (78%), Gaps = 18/318 (5%)

Query: 1   MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDR 60
           M++ +AA RYWC++CSQ+V+PIME EIKCPFC  GFVEEM S  N  ++Q PDS+F SDR
Sbjct: 1   MEEALAA-RYWCYLCSQMVNPIMEAEIKCPFCLGGFVEEMSS--NTRDNQEPDSDFSSDR 57

Query: 61  ALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGE------LESIITRRRR 114
           ALSLWAP+LLGMMGN R   R  RR   E+DD++D+    + GE      LES + RRRR
Sbjct: 58  ALSLWAPVLLGMMGNPRRRRRLRRREFEEDDDDNDDGETRHGGEIDIDRELESFMRRRRR 117

Query: 115 RNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTI 174
             SA ILQLLQG+RAG+ SESE+++ DR+RD DR     DR+R+ ER+RVILINP N+TI
Sbjct: 118 S-SATILQLLQGIRAGMASESENSEGDRDRDGDR-----DRERDRERDRVILINPSNRTI 171

Query: 175 IVQGGSYDGQH-QNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAM 233
           I QG SYD  + Q  N+ PIGSLGDYF+GPGLDLLLQHLAENDPNRYGTPPAQKEA+EA+
Sbjct: 172 IFQG-SYDSSNGQGQNNAPIGSLGDYFIGPGLDLLLQHLAENDPNRYGTPPAQKEAIEAL 230

Query: 234 PSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF 293
           P+V I+ T QCSVCLDDFEIGTEAKEMPCKH+FH  CILPWLELHSSCPVCR QLPA+E 
Sbjct: 231 PTVTIKNTSQCSVCLDDFEIGTEAKEMPCKHRFHDVCILPWLELHSSCPVCRFQLPAEES 290

Query: 294 KPES-ERSRNSSNHQREH 310
           K +S ER +N S+ +  +
Sbjct: 291 KFDSAERLQNHSDQRGSY 308

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18405411|ref|NP_564693.1| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|15983408|gb|AAL11572.1|AF424578_1 At1g55530/T5A14_7 [Arabidopsis thaliana] gi|4204263|gb|AAD10644.1| Unknown protein [Arabidopsis thaliana] gi|14517546|gb|AAK62663.1| At1g55530/T5A14_7 [Arabidopsis thaliana] gi|23308203|gb|AAN18071.1| At1g55530/T5A14_7 [Arabidopsis thaliana] gi|332195138|gb|AEE33259.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  340 bits (872), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 191/384 (49%), Positives = 240/384 (62%), Gaps = 56/384 (14%)

Query: 1   MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDR 60
           M++ V  +RYWCHMCSQ V+P+ME EIKCPFCQSGFVEEM    ++++    D    +  
Sbjct: 1   MEEAVV-TRYWCHMCSQTVNPVMEAEIKCPFCQSGFVEEMEDDDDHDSSDPADVRANN-- 57

Query: 61  ALSLWAPILLGMMG-------NQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRR 113
             SLWAPIL+ +M        NQ        + + + ++N+D+  ++ + +L+ I+ RRR
Sbjct: 58  --SLWAPILMELMNDPVRRRRNQSVESVEDNQNEVQTENNEDDGENDLDWQLQEIL-RRR 114

Query: 114 RRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQT 173
           RR+SAA+LQLLQG+RAGL  ESE   N                  +   RVILIN  NQT
Sbjct: 115 RRHSAAVLQLLQGIRAGLSVESESTGNGG----------------NNPGRVILINTSNQT 158

Query: 174 IIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAM 233
           I VQ  +      + +  P GSLGDYF+GPG ++LLQ LAENDPNRYGTPPA+KEAVEA+
Sbjct: 159 ITVQNSA------DMDSVPAGSLGDYFIGPGFEMLLQRLAENDPNRYGTPPAKKEAVEAL 212

Query: 234 PSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF 293
            +VKIEETLQCSVCLDDFEIGTEAK MPC HKFHS C+LPWLELHSSCPVCR QLPADE 
Sbjct: 213 ATVKIEETLQCSVCLDDFEIGTEAKLMPCTHKFHSDCLLPWLELHSSCPVCRYQLPADEA 272

Query: 294 KPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNES----------------GSR 337
           K +S  +  S N+       ++ HG    +E  DG  R E                 GS 
Sbjct: 273 KTDS-VTTTSDNNGSSSASATTSHG----AENSDGNRRQEEEEEEEEEEEEENENNDGSG 327

Query: 338 FSIPWPFNGLFSSSSSHSGGNNST 361
           FSIPWPF+ LFSSS   +   +S+
Sbjct: 328 FSIPWPFSTLFSSSQDSNAPTDSS 351

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297746512|emb|CBI16568.3| unnamed protein product [Vitis vinifera]

 Score =  335 bits (860), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 200/355 (56%), Positives = 236/355 (66%), Gaps = 55/355 (15%)

Query: 1   MDDGVAASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSGSNNNNHQVPDSEFGSDR 60
           M+D +   RYWCH CSQ+V+PI E E KCP CQ GF+E++  G+ + +H   DS+  SDR
Sbjct: 1   MEDAMGG-RYWCHSCSQVVNPIAEAEPKCPLCQDGFIEDI-DGTASRDHNDSDSDLASDR 58

Query: 61  ALSLWAPILLGMMGNQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAI 120
            LSLWAPILLGMM  +   GRR   T             E + EL+SI  RRRRR+SA I
Sbjct: 59  TLSLWAPILLGMMDGE---GRRGGET-------------ELDRELDSI-IRRRRRSSATI 101

Query: 121 LQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERERVILINPFNQTIIVQGGS 180
           LQLLQG+RAG+                               R+ILINPFNQTIIVQG  
Sbjct: 102 LQLLQGIRAGM-------------------------------RLILINPFNQTIIVQGSF 130

Query: 181 YDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEE 240
              Q QN N   IGSLGDYF+GP LDLLLQHLAENDPNRYGTPPAQK+A+EAMP+VKI+E
Sbjct: 131 DSNQAQNQNQNTIGSLGDYFIGPSLDLLLQHLAENDPNRYGTPPAQKDAIEAMPTVKIKE 190

Query: 241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERS 300
            LQCSVCLDDFEIG EA+EMPCKHKFHS CILPWLELHSSCPVCR Q+ ADE K +S+ S
Sbjct: 191 NLQCSVCLDDFEIGAEAREMPCKHKFHSGCILPWLELHSSCPVCRFQIAADESKLDSDAS 250

Query: 301 RNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFSSSSSHS 355
            N S++  E  ++      H SSEEGDG+GR+ +G R +  WPF  LFSS  S +
Sbjct: 251 PNVSSNSSERSNNG-----HGSSEEGDGDGRSGNGRRSTFRWPFTSLFSSQGSQT 300

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	375
TAIR|locus:2161058	396	ATCRT1 [Arabidopsis thaliana (	0.474	0.449	0.610	4.4e-86
TAIR|locus:2193874	351	AT1G55530 [Arabidopsis thalian	0.474	0.507	0.604	1.1e-76
TAIR|locus:2131463	356	AT4G26400 [Arabidopsis thalian	0.442	0.466	0.541	3.7e-74
TAIR|locus:2092895	315	AT3G13430 [Arabidopsis thalian	0.424	0.504	0.597	2e-63
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.413	0.472	0.464	5.9e-44
TAIR|locus:2058465	328	RHC1A "RING-H2 finger C1A" [Ar	0.376	0.429	0.426	6.3e-35
TAIR|locus:2148318	407	RDUF2 "RING and Domain of Unkn	0.322	0.297	0.388	9.9e-34
TAIR|locus:2102569	320	RZF1 "AT3G56580" [Arabidopsis	0.301	0.353	0.458	7.9e-33
TAIR|locus:2075175	395	RDUF1 "RING and Domain of Unkn	0.309	0.293	0.401	1.8e-30
UNIPROTKB|F6RQU6	293	RNF115 "Uncharacterized protei	0.325	0.416	0.372	6.8e-30

TAIR|locus:2161058 ATCRT1 [Arabidopsis thaliana (taxid:3702)]

 Score = 590 (212.7 bits), Expect = 4.4e-86, Sum P(2) = 4.4e-86
 Identities = 116/190 (61%), Positives = 140/190 (73%)

Query:   164 VILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTP 223
             VI+INP+NQ+++V         QN NH  + SLGDYF+GPGLDLLLQHLAENDPNR GTP
Sbjct:   185 VIMINPYNQSLVVPSD------QNQNHPSLTSLGDYFIGPGLDLLLQHLAENDPNRQGTP 238

Query:   224 PAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPV 283
             PA+KEAVEA+P+VKI E LQCSVCLDDFE GTEAKEMPCKHKFH +CI+PWLELHSSCPV
Sbjct:   239 PARKEAVEALPTVKIMEPLQCSVCLDDFEKGTEAKEMPCKHKFHVRCIVPWLELHSSCPV 298

Query:   284 CRCQLPA-----DEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRF 338
             CR +LP+     DE K +SER   + N +     +  ++  +A     D E R+ +G RF
Sbjct:   299 CRFELPSSADDDDETKTDSERVLRTRNVRETSNGNVVENVGNADRGRED-EVRSGNGRRF 357

Query:   339 SIPWPFNGLF 348
             S PWPF+GLF
Sbjct:   358 SFPWPFSGLF 367

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

TAIR|locus:2193874 AT1G55530 [Arabidopsis thaliana (taxid:3702)]

 Score = 581 (209.6 bits), Expect = 1.1e-76, Sum P(2) = 1.1e-76
 Identities = 119/197 (60%), Positives = 136/197 (69%)

Query:   164 VILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTP 223
             VILIN  NQTI VQ  +      + +  P GSLGDYF+GPG ++LLQ LAENDPNRYGTP
Sbjct:   149 VILINTSNQTITVQNSA------DMDSVPAGSLGDYFIGPGFEMLLQRLAENDPNRYGTP 202

Query:   224 PAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPV 283
             PA+KEAVEA+ +VKIEETLQCSVCLDDFEIGTEAK MPC HKFHS C+LPWLELHSSCPV
Sbjct:   203 PAKKEAVEALATVKIEETLQCSVCLDDFEIGTEAKLMPCTHKFHSDCLLPWLELHSSCPV 262

Query:   284 CRCQLPADEFKPESERSRNSSNHQREHEHHSSDHGTHASS------------EEGDGEGR 331
             CR QLPADE K +S  +  S N+       ++ HG   S             EE + E  
Sbjct:   263 CRYQLPADEAKTDSVTT-TSDNNGSSSASATTSHGAENSDGNRRQEEEEEEEEEEEEENE 321

Query:   332 NESGSRFSIPWPFNGLF 348
             N  GS FSIPWPF+ LF
Sbjct:   322 NNDGSGFSIPWPFSTLF 338

GO:0005737 "cytoplasm" evidence=ISM

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

TAIR|locus:2131463 AT4G26400 [Arabidopsis thaliana (taxid:3702)]

 Score = 485 (175.8 bits), Expect = 3.7e-74, Sum P(2) = 3.7e-74
 Identities = 97/179 (54%), Positives = 123/179 (68%)

Query:   171 NQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAV 230
             NQ+ +VQG +    +QN N+T + ++GDYFVG  LD LL+HLA+ND  R+G+ PA+KE V
Sbjct:   170 NQSAVVQGST--SLNQNRNNTSLSAIGDYFVGSSLDHLLEHLADNDSIRHGSLPARKEVV 227

Query:   231 EAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA 290
             + +P+VKI E+LQCS+CLDDF+ G+EAKEMPCKHKFH +CI+PWLELHSSCPVCR +LP 
Sbjct:   228 DNLPTVKISESLQCSICLDDFDKGSEAKEMPCKHKFHIRCIVPWLELHSSCPVCRYELPP 287

Query:   291 D-EFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLF 348
             D E K    R R      R  E + S+        E D    N S  RFS PWPF+GLF
Sbjct:   288 DDETKVNPVRPRT-----RTLEINVSNENV-----EDDARNSNVSERRFSFPWPFSGLF 336

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

GO:0010200 "response to chitin" evidence=IEP

GO:0000303 "response to superoxide" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

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

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

GO:0009743 "response to carbohydrate stimulus" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

TAIR|locus:2092895 AT3G13430 [Arabidopsis thaliana (taxid:3702)]

 Score = 487 (176.5 bits), Expect = 2.0e-63, Sum P(2) = 2.0e-63
 Identities = 101/169 (59%), Positives = 116/169 (68%)

Query:   164 VILINPFNQTIIVQGGSYDGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAEND-PNRYGT 222
             V+LIN FNQ I V   S D         P GSLGDYF+GPG + LLQ LAEND  NRYGT
Sbjct:   148 VVLINSFNQRIRVHQDSVDT-----TSVPSGSLGDYFIGPGFETLLQRLAENDLNNRYGT 202

Query:   223 PPAQKEAVEAMPSVKIEETL-QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSC 281
             PPA KEAVEA+  VKIE++L QCSVCLDDFEIG EAKEMPCKHKFHS C+LPWLELHSSC
Sbjct:   203 PPATKEAVEALAMVKIEDSLLQCSVCLDDFEIGMEAKEMPCKHKFHSDCLLPWLELHSSC 262

Query:   282 PVCRCQLPA---DEFKPESERSRNSSNHQREHEHHSSDHGTHASSEEGD 327
             PVCR  LP    DE K ++E SRN  N++       + +G+   S   +
Sbjct:   263 PVCRYLLPTGDDDEPKTDAETSRNDDNNEDISNASMASNGSSPDSSSNN 311

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0006944 "cellular membrane fusion" evidence=RCA

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

TAIR|locus:2092231 AT3G19950 [Arabidopsis thaliana (taxid:3702)]

 Score = 409 (149.0 bits), Expect = 5.9e-44, Sum P(2) = 5.9e-44
 Identities = 86/185 (46%), Positives = 115/185 (62%)

Query:   172 QTIIVQGGSYDGQHQNH-----NHTPIGSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQ 226
             QT+   G  ++   +NH     N  P G+ GDYF GPGL+ L+Q LAENDPNRYGTPPA 
Sbjct:   134 QTLRSSGTHFEFVIENHPSDPGNRMP-GNFGDYFFGPGLEQLIQQLAENDPNRYGTPPAS 192

Query:   227 KEAVEAMPSVKIEETL------QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS 280
             K A++A+P+VK+ + +      QC+VC+D+FE G++ K+MPCKH FH  C+LPWLELH+S
Sbjct:   193 KSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNS 252

Query:   281 CPVCRCQLPADEFKPESE-RSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFS 339
             CPVCR +LP D+  P+ E RS+ S          S D G      +G  EG+        
Sbjct:   253 CPVCRFELPTDD--PDYENRSQGSQG--------SGD-G------QGSVEGQQTPRFSIQ 295

Query:   340 IPWPF 344
             +PWPF
Sbjct:   296 LPWPF 300

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2058465 RHC1A "RING-H2 finger C1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 323 (118.8 bits), Expect = 6.3e-35, Sum P(2) = 6.3e-35
 Identities = 67/157 (42%), Positives = 95/157 (60%)

Query:   194 GSLGDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEET-LQ-----CSVC 247
             G+ GDYF GPGL+ L + L+     R G PPA + A++A+P++KI +  L+     C VC
Sbjct:   135 GNTGDYFFGPGLEELFEQLSAGTTRR-GPPPAPRSAIDALPTIKIAQRHLRSSDSNCPVC 193

Query:   248 LDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQ 307
              D+FE+G+EAK+MPC H +HS CI+PWL  H+SCPVCR +LP+    P S ++R +    
Sbjct:   194 KDEFELGSEAKQMPCNHIYHSDCIVPWLVQHNSCPVCRQELPSAS-GPSSSQNRTTPTRN 252

Query:   308 REHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPF 344
                 + SS   + ++S E   E RN     FS  WPF
Sbjct:   253 ----YRSSSSSSSSNSRENGNERRNP----FSSFWPF 281

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

GO:0005618 "cell wall" evidence=IDA

TAIR|locus:2148318 RDUF2 "RING and Domain of Unknown Function 1117 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 9.9e-34, Sum P(4) = 9.9e-34
 Identities = 54/139 (38%), Positives = 81/139 (58%)

Query:   182 DGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAENDPN-----RYGTPPAQKEAVEAMPSV 236
             DG        P  S+ +  +G G + LL+ L++ + +     R G PPA K A+E++P V
Sbjct:   128 DGSGSGLRPLP-DSVSEILMGSGFERLLEQLSQIEASATGIGRSGNPPASKSAIESLPRV 186

Query:   237 KIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291
             +I +        C+VC + FE  TEA+EMPCKH FH  CI+PWL + +SCPVCR +LP  
Sbjct:   187 EISDCHIGSEANCAVCTEIFETETEAREMPCKHLFHDDCIVPWLSIRNSCPVCRFELP-- 244

Query:   292 EFKPESERSRNSSNHQREH 310
                  SE +R S+N++ ++
Sbjct:   245 -----SEPNRRSNNNEEDN 258

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

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

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2102569 RZF1 "AT3G56580" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 7.9e-33, Sum P(2) = 7.9e-33
 Identities = 55/120 (45%), Positives = 83/120 (69%)

Query:   197 GDYFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKI-EETLQ-----CSVCLDD 250
             GDYF GPGL+ L++ L+    +R G PPA K +++A+P++KI ++ L+     C VC D+
Sbjct:   134 GDYFFGPGLEELIEQLSSGTHHR-GPPPAPKSSIDALPTIKITQKHLKSSDSHCPVCKDE 192

Query:   251 FEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREH 310
             FE+ +EAK+MPC H +HS CI+PWL  H+SCPVCR +LP+      ++ S+N S + RE+
Sbjct:   193 FELKSEAKQMPCHHIYHSDCIVPWLVQHNSCPVCRKELPSRGSSSSTQSSQNRSTNGREN 252

GO:0005575 "cellular_component" evidence=ND

GO:0008270 "zinc ion binding" evidence=ISS

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

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

GO:1902006 "negative regulation of proline biosynthetic process" evidence=IMP

TAIR|locus:2075175 RDUF1 "RING and Domain of Unknown Function 1117 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 258 (95.9 bits), Expect = 1.8e-30, Sum P(2) = 1.8e-30
 Identities = 51/127 (40%), Positives = 73/127 (57%)

Query:   182 DGQHQNHNHTPIGSLGDYFVGPGLDLLLQHLAE-----NDPNRYGTPPAQKEAVEAMPSV 236
             DG        P  S+ +  +G G + LL+ L++     N   R G PPA K A+E++P V
Sbjct:   144 DGSGSGLRPLP-DSVSEILMGSGFERLLEQLSQIEASGNGIGRSGNPPASKSAIESLPRV 202

Query:   237 KIEET-----LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291
             +I +        C+VC + FE G E +EMPCKH FH  CI+PWL + +SCPVCR +LP+D
Sbjct:   203 EISDCHTKAEANCAVCTEVFEAGIEGREMPCKHIFHGDCIVPWLSIRNSCPVCRFELPSD 262

Query:   292 EFKPESE 298
               +  +E
Sbjct:   263 PIQRSNE 269

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009611 "response to wounding" evidence=RCA

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

UNIPROTKB|F6RQU6 RNF115 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 250 (93.1 bits), Expect = 6.8e-30, Sum P(2) = 6.8e-30
 Identities = 48/129 (37%), Positives = 77/129 (59%)

Query:   197 GDYFVGP-GLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSV-----KIEETLQCSVCLDD 250
             GDY  G  GLD ++  L     N  G PPA KE + ++P+V     ++++ L+C VC +D
Sbjct:   165 GDYAWGQTGLDAIVTQLLGQLENT-GPPPADKEKITSLPTVTVTQEQVDKGLECPVCKED 223

Query:   251 FEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERSRNSSNHQREH 310
             + +  E +++PC H FHS CI+PWLELH +CPVCR  L  ++   +++RS  S++++   
Sbjct:   224 YTVEEEVRQLPCNHYFHSSCIVPWLELHDACPVCRKSLNGEDSTQQTQRSGASASNRFSS 283

Query:   311 EHHSSDHGT 319
             +    D  T
Sbjct:   284 DSQLHDRWT 292

GO:0051865 "protein autoubiquitination" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.III.148.1 hypothetical protein (356 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	375
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-15
pfam14369	34	pfam14369, zf-RING_3, zinc-finger	3e-11
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	7e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-09
smart00184	40	smart00184, RING, Ring finger	4e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-08
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-07
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-06
PRK12678	672	PRK12678, PRK12678, transcription termination fact	9e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	8e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	2e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.002

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

 Score = 68.6 bits (168), Expect = 4e-15
 Identities = 20/43 (46%), Positives = 29/43 (67%)

Query: 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285
           +C +CLD+FE G E   +PC H FH +C+  WL   ++CP+CR
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

>gnl|CDD|222714 pfam14369, zf-RING_3, zinc-finger

 Score = 57.2 bits (139), Expect = 3e-11
 Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 8  SRYWCHMCSQIVDP-IMEVEIKCPFCQSGFVEEM 40
          SRYWC+ C + V          CP C  GFVEE+
Sbjct: 1  SRYWCYQCDRFVRIAPSGDSDVCPRCGGGFVEEI 34

Length = 34

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

 Score = 56.7 bits (137), Expect = 7e-11
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)

Query: 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRC 286
           +C +CL++F        +PC H F   CI  WL+   ++CP+CR 
Sbjct: 1   ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43

Length = 45

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

 Score = 52.1 bits (125), Expect = 3e-09
 Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285
           L+C +CLD           PC H F  +CIL +L+  S CP+CR
Sbjct: 3   LECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 51.4 bits (123), Expect = 4e-09
 Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVC 284
           C +CL+++    +   +PC H F   CI  WLE  + +CP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 55.8 bits (134), Expect = 1e-08
 Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 225 AQKEAVEAMPSVKIEET---LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-S 280
             K +++ +   +  E    ++C++C+ +F      + +PC H+FH  C+  WL  +S  
Sbjct: 304 TTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNK 363

Query: 281 CPVCRCQLP 289
           CPVCR  +P
Sbjct: 364 CPVCRTAIP 372

Length = 374

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

 Score = 51.1 bits (122), Expect = 5e-07
 Identities = 36/154 (23%), Positives = 58/154 (37%), Gaps = 35/154 (22%)

Query: 244 CSVCLDD-FEIGTEA---------KEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF 293
           C++C+D+ F    E          K +PC H  H  C+  WLE   +CP+CR  +  D+ 
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349

Query: 294 KPESERSRNSSNHQREHEHHSSDHGTHASSEEGDGEGRNESGSRFSIPWPFNGLFSSSSS 353
            P    S N  N Q   +  + D+    ++  G     N+   + S     NG+ +++SS
Sbjct: 350 SPTPA-SPNVRNTQIATQVPNPDNTPTTTAVPGITNSSNQGDPQASTF---NGVPNANSS 405

Query: 354 ---------------------HSGGNNSTSTSQS 366
                                      S STS +
Sbjct: 406 GFAAHTQDLSSVIPGWTMLPIPGTRRISQSTSTT 439

Length = 491

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

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 3/42 (7%)

Query: 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVC 284
           C +CL++ +       +PC H F S+CIL WLE  + +CP+C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 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|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 45.1 bits (107), Expect = 2e-06
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 262 CKHKFHSQCILPWLELHSSCPVCR 285
           C H FH  CI  WL+  ++CP+CR
Sbjct: 50  CGHAFHLHCISRWLKTRNTCPLCR 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|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 47.2 bits (113), Expect = 9e-06
 Identities = 25/89 (28%), Positives = 32/89 (35%), Gaps = 7/89 (7%)

Query: 75  NQRPHGRRFRRTDYEEDDNDDENHDEYEGELESIITRRRRRNSAAILQLLQGLRAGLQSE 134
             R    R RR   E+ D  +E      G+      RR RR++       +G        
Sbjct: 196 RGRDGDDRDRRDRREQGDRREERGRRDGGDRRGRRRRRDRRDA-------RGDDNREDRG 248

Query: 135 SEDNDNDRERDRDRGDRDRDRDRESERER 163
             D D+   R   RG R RDRDR   R  
Sbjct: 249 DRDGDDGEGRGGRRGRRFRDRDRRGRRGG 277

Length = 672

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

 Score = 44.7 bits (105), Expect = 8e-05
 Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 6/61 (9%)

Query: 235  SVKIEETLQCSVC---LDDFEIGTEAKEMP-CKHKFHSQCILPWLEL--HSSCPVCRCQL 288
              K     +C++C   LD  +    +K    CK+KFH++C+  W      S+CP+CR ++
Sbjct: 1463 DEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Query: 289  P 289
             
Sbjct: 1523 T 1523

Length = 1525

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

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 15/27 (55%), Positives = 17/27 (62%), Gaps = 3/27 (11%)

Query: 262 CKHKFHSQCILPWLELHSS---CPVCR 285
           CKH FH  CIL WL   +S   CP+CR
Sbjct: 52  CKHNFHMHCILKWLATETSKGLCPMCR 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|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 36.4 bits (84), Expect = 0.002
 Identities = 11/24 (45%), Positives = 13/24 (54%)

Query: 262 CKHKFHSQCILPWLELHSSCPVCR 285
           C H FH  CI  WL+    CP+ R
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	375
PF14369	35	zf-RING_3: zinc-finger	99.53
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.34
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.31
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.1
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.04
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.97
PHA02929	238	N1R/p28-like protein; Provisional	98.96
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.96
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.9
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.82
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.81
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.8
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.78
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.77
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.67
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.58
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.58
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.53
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.52
PF14634	44	zf-RING_5: zinc-RING finger domain	98.5
PHA02926	242	zinc finger-like protein; Provisional	98.46
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.41
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.41
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.31
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.27
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.25
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.2
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.12
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.97
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.94
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.9
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.89
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.81
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.71
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.7
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.7
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.63
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.63
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.52
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.37
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.25
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.24
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.21
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.11
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.09
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.02
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.01
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
KOG2660	331	consensus Locus-specific chromosome binding protei	96.74
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.56
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.51
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.47
COG5152	259	Uncharacterized conserved protein, contains RING a	96.18
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.13
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.93
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.9
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.76
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.22
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.11
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.96
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.93
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	94.87
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	94.78
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.61
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	94.47
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.23
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.22
KOG4739	233	consensus Uncharacterized protein involved in syna	94.15
PHA02862	156	5L protein; Provisional	94.02
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.92
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.8
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	93.69
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.56
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	93.55
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	93.4
PF04641	260	Rtf2: Rtf2 RING-finger	93.31
KOG4367	699	consensus Predicted Zn-finger protein [Function un	92.81
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.7
COG0375	115	HybF Zn finger protein HypA/HybF (possibly regulat	92.58
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.51
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.32
PHA02825	162	LAP/PHD finger-like protein; Provisional	92.31
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.12
PHA03096	284	p28-like protein; Provisional	91.81
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.08
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.81
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.61
KOG1940	276	consensus Zn-finger protein [General function pred	90.37
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	89.09
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	88.68
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	88.65
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	88.29
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	88.01
COG5175	480	MOT2 Transcriptional repressor [Transcription]	87.88
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	87.42
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	87.4
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	86.69
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.21
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	85.77
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	85.07
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	84.88
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	84.88
COG1996	49	RPC10 DNA-directed RNA polymerase, subunit RPC10 (	84.8
PF07754	24	DUF1610: Domain of unknown function (DUF1610); Int	84.56
smart00659	44	RPOLCX RNA polymerase subunit CX. present in RNA p	84.42
PF03604	32	DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa	83.83
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	81.22
KOG3002	299	consensus Zn finger protein [General function pred	81.0
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	80.61

>PF14369 zf-RING_3: zinc-finger

Probab=99.53  E-value=3.7e-15  Score=100.76  Aligned_cols=33  Identities=45%  Similarity=1.194  Sum_probs=28.1

Q ss_pred             CceeccccCcceeccC--CCCccCCCCCCCceeec
Q 017252            8 SRYWCHMCSQIVDPIM--EVEIKCPFCQSGFVEEM   40 (375)
Q Consensus         8 ~~ywCh~C~~~V~~~~--~~e~~CP~C~~gFvEEm   40 (375)
                      .+||||+|+++|++..  ..+++||+|++||||||
T Consensus         1 ~~ywCh~C~~~V~~~~~~~~~~~CP~C~~gFvEei   35 (35)
T PF14369_consen    1 QRYWCHQCNRFVRIAPSPDSDVACPRCHGGFVEEI   35 (35)
T ss_pred             CCEeCccCCCEeEeCcCCCCCcCCcCCCCcEeEeC
Confidence            4899999999998753  34466999999999998

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

Probab=99.34  E-value=1.9e-12  Score=128.06  Aligned_cols=75  Identities=32%  Similarity=0.775  Sum_probs=63.0

Q ss_pred             CCCCcccHHHHHcCCcccccc---C---cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCC-CCCcCcccCCCC
Q 017252          220 YGTPPAQKEAVEAMPSVKIEE---T---LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADE  292 (375)
Q Consensus       220 ~~~~~~~~~~v~~lp~~~~~~---~---~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~s-CP~CR~~l~~~~  292 (375)
                      .......+..+.++|...+..   +   ..|+||+|+|..|+..+.|||+|.||..||++||..+.+ ||+||..+....
T Consensus       202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            355667788999999877664   1   289999999999999999999999999999999988754 999999876554


Q ss_pred             CC
Q 017252          293 FK  294 (375)
Q Consensus       293 ~~  294 (375)
                      ..
T Consensus       282 ~~  283 (348)
T KOG4628|consen  282 GS  283 (348)
T ss_pred             CC
Confidence            43

>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=99.31  E-value=5.9e-13  Score=94.03  Aligned_cols=43  Identities=49%  Similarity=1.261  Sum_probs=40.3

Q ss_pred             ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252          243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR  285 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR  285 (375)
                      .|+||++.|..+..++.++|+|.||..||..|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999998889999999999999999999999999999997

...

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

Probab=99.10  E-value=2.5e-10  Score=112.52  Aligned_cols=55  Identities=33%  Similarity=0.885  Sum_probs=46.3

Q ss_pred             cCcccccccCC-ccCC---------CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          240 ETLQCSVCLDD-FEIG---------TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       240 ~~~~C~ICle~-~~~~---------~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      ++..|.||+++ |..+         ..+++|||||++|..|++.|++++.+||+||.++--+...
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~  350 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS  350 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence            47899999999 4333         3679999999999999999999999999999986555444

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.04  E-value=3.6e-10  Score=103.68  Aligned_cols=63  Identities=27%  Similarity=0.651  Sum_probs=51.4

Q ss_pred             cccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc----------------CCCCCCcCcccCCCCCCCchhc
Q 017252          236 VKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL----------------HSSCPVCRCQLPADEFKPESER  299 (375)
Q Consensus       236 ~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~----------------~~sCP~CR~~l~~~~~~~~~~~  299 (375)
                      +...+++.|+||++.+   ..++.++|+|.||..||..|+..                ...||+||..+....+.+...+
T Consensus        13 ~~~~~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr   89 (193)
T PLN03208         13 VDSGGDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR   89 (193)
T ss_pred             ccCCCccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence            3445578999999999   78889999999999999999852                2469999999988777766654


Q ss_pred             cc
Q 017252          300 SR  301 (375)
Q Consensus       300 ~~  301 (375)
                      ..
T Consensus        90 g~   91 (193)
T PLN03208         90 GQ   91 (193)
T ss_pred             CC
Confidence            43

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

Probab=98.97  E-value=2.5e-10  Score=106.59  Aligned_cols=59  Identities=29%  Similarity=0.709  Sum_probs=50.2

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhc---CCCCCCcCcccCCCCCCCchhccc
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL---HSSCPVCRCQLPADEFKPESERSR  301 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~~~~~~~~~~~~~  301 (375)
                      ..+.|.|||+.-   ++++++.|||.||..||.+||..   .+.||+||..+..+++.|.+++..
T Consensus        46 ~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~  107 (230)
T KOG0823|consen   46 GFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS  107 (230)
T ss_pred             Cceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence            478999999998   89999999999999999999974   446999999998877766665544

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.96  E-value=5e-10  Score=106.31  Aligned_cols=64  Identities=27%  Similarity=0.593  Sum_probs=48.1

Q ss_pred             cHHHHHcCCcccc--------ccCcccccccCCccCCC-----ceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          226 QKEAVEAMPSVKI--------EETLQCSVCLDDFEIGT-----EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       226 ~~~~v~~lp~~~~--------~~~~~C~ICle~~~~~~-----~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      .+..+..+|.+..        ..+.+|+||++.+....     .++.++|+|.||..||.+|++.+.+||+||..+.
T Consensus       151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            4455556665431        23689999999875332     1345579999999999999999999999998775

>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=98.96  E-value=3.9e-10  Score=88.50  Aligned_cols=45  Identities=36%  Similarity=0.877  Sum_probs=35.9

Q ss_pred             CcccccccCCccC----------CCceEEcCCCCccchhchHHHHhcCCCCCCcC
Q 017252          241 TLQCSVCLDDFEI----------GTEAKEMPCKHKFHSQCILPWLELHSSCPVCR  285 (375)
Q Consensus       241 ~~~C~ICle~~~~----------~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR  285 (375)
                      +..|+||++.|..          ...+...+|+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            4459999999922          23445567999999999999999999999997

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=98.90  E-value=6.1e-10  Score=107.31  Aligned_cols=50  Identities=34%  Similarity=1.030  Sum_probs=45.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPA  290 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~  290 (375)
                      ..+|+|||+.|-.++..+.|||.|.||..|+..|+. -+..||+||..+++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            678999999998888999999999999999999998 56679999999874

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

Probab=98.82  E-value=2.6e-09  Score=77.43  Aligned_cols=46  Identities=26%  Similarity=0.776  Sum_probs=40.8

Q ss_pred             CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +..|.||++..   ..+..+||+|. ||..|+..|++....||+||+++.
T Consensus         2 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            46899999998   78999999999 999999999999999999999874

...

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

Probab=98.81  E-value=1.7e-09  Score=103.79  Aligned_cols=49  Identities=35%  Similarity=0.895  Sum_probs=45.3

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE  292 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~  292 (375)
                      ..+|.|||+..   ..+..+||||+||..||..|...+..||+||..+.+.+
T Consensus       239 ~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  239 TRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            68999999998   89999999999999999999999999999999887654

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

Probab=98.80  E-value=3.1e-09  Score=74.75  Aligned_cols=38  Identities=37%  Similarity=0.938  Sum_probs=30.6

Q ss_pred             cccccCCccCCCceEEcCCCCccchhchHHHHhcC----CCCCCc
Q 017252          244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH----SSCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~----~sCP~C  284 (375)
                      |+||++.|   .+++.|+|||.||..||..|++..    ..||+|
T Consensus         1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999   999999999999999999999753    359987

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

Probab=98.78  E-value=3.5e-09  Score=72.90  Aligned_cols=38  Identities=42%  Similarity=1.117  Sum_probs=32.9

Q ss_pred             cccccCCccCCCce-EEcCCCCccchhchHHHHhcCCCCCCc
Q 017252          244 CSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWLELHSSCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~-~~lpCgH~Fh~~Ci~~WL~~~~sCP~C  284 (375)
                      |+||++.+   ..+ +.++|||.||..||..|++....||+|
T Consensus         1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999   667 688999999999999999998899998

>smart00504 Ubox Modified RING finger domain

Probab=98.77  E-value=4.9e-09  Score=78.75  Aligned_cols=52  Identities=21%  Similarity=0.515  Sum_probs=45.9

Q ss_pred             cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCCc
Q 017252          242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPE  296 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~  296 (375)
                      +.|+||++.+   ..++.++|||+|+..||..|++.+..||+|+..+....+.+.
T Consensus         2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~   53 (63)
T smart00504        2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN   53 (63)
T ss_pred             cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence            6799999999   778999999999999999999988899999998876655543

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

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

Probab=98.73  E-value=4.1e-09  Score=94.94  Aligned_cols=54  Identities=33%  Similarity=0.706  Sum_probs=44.5

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      ..+.|+|||+.+... .++.+.|||+||..||+..++....||+|++.|..+.+.
T Consensus       130 ~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~  183 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH  183 (187)
T ss_pred             cccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence            358999999999422 234577999999999999999999999999988766554

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

Probab=98.67  E-value=1.4e-08  Score=69.81  Aligned_cols=43  Identities=40%  Similarity=1.130  Sum_probs=35.7

Q ss_pred             ccccccCCccCCCceEEc-CCCCccchhchHHHHhc-CCCCCCcCccc
Q 017252          243 QCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL-HSSCPVCRCQL  288 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l  288 (375)
                      .|+||++.+   ..+..+ +|+|.||..|+..|++. ...||+|+..+
T Consensus         1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998   444444 49999999999999987 77899998754

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

Probab=98.58  E-value=3.3e-08  Score=68.32  Aligned_cols=38  Identities=39%  Similarity=1.151  Sum_probs=33.4

Q ss_pred             cccccCCccCCCceE-EcCCCCccchhchHHHHh--cCCCCCCc
Q 017252          244 CSVCLDDFEIGTEAK-EMPCKHKFHSQCILPWLE--LHSSCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~~-~lpCgH~Fh~~Ci~~WL~--~~~sCP~C  284 (375)
                      |+||++.+   ..+. .++|+|.||..||..|++  ....||+|
T Consensus         1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999999   6666 889999999999999998  45569988

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=98.58  E-value=3e-08  Score=100.54  Aligned_cols=52  Identities=31%  Similarity=0.708  Sum_probs=45.4

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .++..+.|+||++.|   ..++.++|+|.||..||..|+.....||+|+..+...
T Consensus        22 ~Le~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        22 PLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            345578999999999   7788899999999999999999888999999877644

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

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

Probab=98.53  E-value=2.5e-08  Score=105.41  Aligned_cols=48  Identities=38%  Similarity=1.039  Sum_probs=42.9

Q ss_pred             CcccccccCCccCCCc--eEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252          241 TLQCSVCLDDFEIGTE--AKEMPCKHKFHSQCILPWLELHSSCPVCRCQL  288 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~--~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l  288 (375)
                      +..|+||++.+..+..  +++|+|+|+||..|++.|+++..+||+||..+
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            7899999999954433  89999999999999999999999999999844

>smart00184 RING Ring finger

Probab=98.52  E-value=7e-08  Score=64.05  Aligned_cols=38  Identities=37%  Similarity=1.183  Sum_probs=34.1

Q ss_pred             cccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCc
Q 017252          244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~C  284 (375)
                      |+||++..   ..+..++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999996   7888999999999999999998 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)

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.50  E-value=7.9e-08  Score=67.98  Aligned_cols=44  Identities=23%  Similarity=0.739  Sum_probs=38.6

Q ss_pred             ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252          243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRC  286 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~  286 (375)
                      .|.||++.|.....+..++|+|+||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999966677899999999999999999866678999984

>PHA02926 zinc finger-like protein; Provisional

Probab=98.46  E-value=8.1e-08  Score=89.60  Aligned_cols=50  Identities=24%  Similarity=0.629  Sum_probs=38.1

Q ss_pred             cCcccccccCCccCCC------ceEEcCCCCccchhchHHHHhcC------CCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGT------EAKEMPCKHKFHSQCILPWLELH------SSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~------~~~~lpCgH~Fh~~Ci~~WL~~~------~sCP~CR~~l~  289 (375)
                      ++.+|+||++......      .....+|+|.||..||..|...+      .+||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4789999999863221      23344699999999999999753      35999998764

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

Probab=98.41  E-value=1.8e-07  Score=75.19  Aligned_cols=51  Identities=31%  Similarity=0.693  Sum_probs=38.4

Q ss_pred             cCcccccccCCccCCC----------ceEEcCCCCccchhchHHHHhc---CCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGT----------EAKEMPCKHKFHSQCILPWLEL---HSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~----------~~~~lpCgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~~  290 (375)
                      .+..|.||...|...-          .++.-.|+|.||..||.+||..   +..||+||+.+..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            4778999998884111          2233359999999999999975   4579999987643

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

Probab=98.41  E-value=9.9e-08  Score=97.94  Aligned_cols=55  Identities=29%  Similarity=0.726  Sum_probs=46.4

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhc-----CCCCCCcCcccCCCCCCCchh
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-----HSSCPVCRCQLPADEFKPESE  298 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-----~~sCP~CR~~l~~~~~~~~~~  298 (375)
                      +..|+|||+..   ..+..+.|||+||..||.++|..     ...||+|+..+....+.+...
T Consensus       186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~  245 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI  245 (513)
T ss_pred             CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence            78999999998   78888889999999999998864     346999999988877665543

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

Probab=98.31  E-value=2.4e-07  Score=72.51  Aligned_cols=55  Identities=20%  Similarity=0.463  Sum_probs=43.4

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCCCch
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFKPES  297 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~~~~  297 (375)
                      +.+.|+||.+.|   .++++++|||.|.+.||..|+.. ..+||+|+..+....+.+..
T Consensus         3 ~~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~   58 (73)
T PF04564_consen    3 DEFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR   58 (73)
T ss_dssp             GGGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred             cccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence            468899999999   99999999999999999999988 88999999988876665543

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 ....

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

Probab=98.27  E-value=1.7e-07  Score=91.85  Aligned_cols=50  Identities=30%  Similarity=0.816  Sum_probs=45.1

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      ..-+.|.||.++|   ..+.++||+|.||..||..+|..+..||.|++.+...
T Consensus        21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence            3457899999999   8899999999999999999999999999999877643

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

Probab=98.25  E-value=4.5e-07  Score=86.40  Aligned_cols=50  Identities=28%  Similarity=0.747  Sum_probs=42.9

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHH-HHhcCCC-CCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILP-WLELHSS-CPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~-WL~~~~s-CP~CR~~l~~~  291 (375)
                      ..+..|.||++..   ..+..++|||+||..||.. |-+.+.- ||+||+....+
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            3488999999999   8899999999999999999 8766665 99999876544

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

Probab=98.20  E-value=7.3e-07  Score=63.06  Aligned_cols=34  Identities=24%  Similarity=0.662  Sum_probs=22.2

Q ss_pred             cccccCCc-cCCCceEEcCCCCccchhchHHHHhcC
Q 017252          244 CSVCLDDF-EIGTEAKEMPCKHKFHSQCILPWLELH  278 (375)
Q Consensus       244 C~ICle~~-~~~~~~~~lpCgH~Fh~~Ci~~WL~~~  278 (375)
                      |+||++ | .....++.|+|||+||.+||..|++..
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 7 334458999999999999999999743

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

Probab=98.12  E-value=9.2e-07  Score=85.23  Aligned_cols=47  Identities=34%  Similarity=0.640  Sum_probs=42.9

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ..+.|-||-+.|   ..+..++|||.||..||+..|..+..||+||++..
T Consensus        24 s~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            357899999999   88889999999999999999999999999997654

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

Probab=98.01  E-value=1.7e-06  Score=80.81  Aligned_cols=46  Identities=41%  Similarity=0.894  Sum_probs=39.8

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRC  286 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~  286 (375)
                      +.+.+.|+||++.|   ..++.++|+|.||..||..++.....||.||.
T Consensus        10 ~~~~~~C~iC~~~~---~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYF---REPVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHh---hcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            34578999999999   66689999999999999999885557999993

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

Probab=97.97  E-value=4.7e-06  Score=65.91  Aligned_cols=29  Identities=38%  Similarity=0.948  Sum_probs=26.7

Q ss_pred             CCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          261 PCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       261 pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      -|.|.||..||.+||..+..||++|+...
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            39999999999999999999999998764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.94  E-value=6.2e-06  Score=80.98  Aligned_cols=54  Identities=20%  Similarity=0.429  Sum_probs=40.0

Q ss_pred             CcccccccCCccCCCce--EEcCCCCccchhchHHHH-hcCCCCCCcCcccCCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEA--KEMPCKHKFHSQCILPWL-ELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~--~~lpCgH~Fh~~Ci~~WL-~~~~sCP~CR~~l~~~~~~  294 (375)
                      +..|+||+..-......  .+.+|||.||..|+...+ .....||.|+..+....+.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr   59 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR   59 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence            46899999964333332  233799999999999966 4456799999988776643

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).

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

Probab=97.90  E-value=8.5e-06  Score=59.17  Aligned_cols=42  Identities=24%  Similarity=0.775  Sum_probs=33.7

Q ss_pred             ccccccCCccCCCceEEcCCC-----CccchhchHHHHhcC--CCCCCcC
Q 017252          243 QCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLELH--SSCPVCR  285 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~~--~sCP~CR  285 (375)
                      .|.||++ ...+..+.++||.     |.+|..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 4445677789985     889999999999644  4799995

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

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

Probab=97.89  E-value=2.9e-06  Score=81.11  Aligned_cols=51  Identities=25%  Similarity=0.748  Sum_probs=42.1

Q ss_pred             CcccccccCCccCCC-------ceEEcCCCCccchhchHHHH--hcCCCCCCcCcccCCC
Q 017252          241 TLQCSVCLDDFEIGT-------EAKEMPCKHKFHSQCILPWL--ELHSSCPVCRCQLPAD  291 (375)
Q Consensus       241 ~~~C~ICle~~~~~~-------~~~~lpCgH~Fh~~Ci~~WL--~~~~sCP~CR~~l~~~  291 (375)
                      +..|+||-..+....       ...+|.|+|+||..||+.|-  ..+.+||.|+..+..+
T Consensus       224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            678999999885554       67789999999999999995  4677999998876543

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

Probab=97.86  E-value=5.2e-06  Score=84.91  Aligned_cols=51  Identities=39%  Similarity=1.065  Sum_probs=39.6

Q ss_pred             cCcccccccCCccCCC--------------ceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGT--------------EAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~--------------~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~  290 (375)
                      ....|+|||..+..-.              .-..+||.|+||..|+.+|+.. +--||+||.+|+.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3678999999873211              1224589999999999999985 4489999999874

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

Probab=97.81  E-value=9.4e-06  Score=78.80  Aligned_cols=51  Identities=24%  Similarity=0.450  Sum_probs=43.4

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~  294 (375)
                      +.+|+||+...   ..++.|+|+|.||..||+.-..+ +.+|++||++++...+.
T Consensus         7 ~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~   58 (324)
T KOG0824|consen    7 KKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF   58 (324)
T ss_pred             CCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence            46899999998   88899999999999999987765 45699999999866443

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

Probab=97.71  E-value=9.9e-06  Score=63.09  Aligned_cols=49  Identities=27%  Similarity=0.713  Sum_probs=22.8

Q ss_pred             CcccccccCCcc-CCCceEEc----CCCCccchhchHHHHhc----C-------CCCCCcCcccC
Q 017252          241 TLQCSVCLDDFE-IGTEAKEM----PCKHKFHSQCILPWLEL----H-------SSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~-~~~~~~~l----pCgH~Fh~~Ci~~WL~~----~-------~sCP~CR~~l~  289 (375)
                      +..|.||+..+. .+..+.++    .|++.||..||..||..    +       ..||.|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999875 33333222    48999999999999962    1       13999998875

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

Probab=97.70  E-value=1.3e-05  Score=61.08  Aligned_cols=49  Identities=39%  Similarity=0.791  Sum_probs=25.7

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADE  292 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~  292 (375)
                      +.-+.|++|.+.+   ..++.| .|.|+||..||..-+.  .-||+|+.+.-..+
T Consensus         5 e~lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    5 EELLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             HHTTS-SSS-S-----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             HHhcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            3457899999999   777654 5999999999988654  34999987654443

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

Probab=97.70  E-value=9.4e-06  Score=88.24  Aligned_cols=61  Identities=26%  Similarity=0.751  Sum_probs=43.2

Q ss_pred             HHHcCCccccccCcccccccCCcc-CCC--ceEEcC-CCCccchhchHHHHhc--CCCCCCcCcccC
Q 017252          229 AVEAMPSVKIEETLQCSVCLDDFE-IGT--EAKEMP-CKHKFHSQCILPWLEL--HSSCPVCRCQLP  289 (375)
Q Consensus       229 ~v~~lp~~~~~~~~~C~ICle~~~-~~~--~~~~lp-CgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~  289 (375)
                      ...+--..++.+..+|+||+..+. .+.  .-+..+ |+|.||..|+..|+..  .++||+||..++
T Consensus      1457 l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1457 LWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             HHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            333434456677899999999884 111  112222 9999999999999974  557999998775

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

Probab=97.63  E-value=1.8e-05  Score=65.56  Aligned_cols=28  Identities=36%  Similarity=0.890  Sum_probs=25.8

Q ss_pred             CCCCccchhchHHHHhcCCCCCCcCccc
Q 017252          261 PCKHKFHSQCILPWLELHSSCPVCRCQL  288 (375)
Q Consensus       261 pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l  288 (375)
                      -|.|.||..||.+||+.+..||+|.++.
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            4999999999999999999999998754

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

Probab=97.63  E-value=9.8e-06  Score=63.64  Aligned_cols=49  Identities=33%  Similarity=0.776  Sum_probs=35.6

Q ss_pred             CcccccccCCccCC---------CceEEcC-CCCccchhchHHHHhc---CCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIG---------TEAKEMP-CKHKFHSQCILPWLEL---HSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~---------~~~~~lp-CgH~Fh~~Ci~~WL~~---~~sCP~CR~~l~  289 (375)
                      +..|-||.-.|...         .-+.++- |.|.||..||.+|+..   +..||+||+.+.
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            45888888887321         2233333 9999999999999964   345999998764

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

Probab=97.52  E-value=3.6e-05  Score=78.25  Aligned_cols=54  Identities=37%  Similarity=0.903  Sum_probs=41.1

Q ss_pred             CccccccCcccccccCCccCCCc-eEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          234 PSVKIEETLQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       234 p~~~~~~~~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +...+.+--+|+|||+.+..... .+.+.|.|.||..|+..|.  -.+||+||.-..
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            44445556799999999965443 3445599999999999996  468999997655

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

Probab=97.48  E-value=1.1e-05  Score=79.82  Aligned_cols=49  Identities=29%  Similarity=0.681  Sum_probs=39.6

Q ss_pred             cccCcccccccCCccCCCceEEcC-CCCccchhchHHHHh-cCCCCCCcCcccC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLE-LHSSCPVCRCQLP  289 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~  289 (375)
                      +..++.|+|||+.+   .....++ |.|.||..||..-+. ..+.||.||+.+.
T Consensus        40 ~~~~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   40 FDIQVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhhhhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            34478999999999   5555555 999999999988876 4668999998764

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

Probab=97.37  E-value=4.7e-05  Score=81.79  Aligned_cols=55  Identities=29%  Similarity=0.680  Sum_probs=45.5

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~~~  294 (375)
                      .+.+-+.|++|-.-+   ..++++.|+|+||..|+..-+. ++..||.|.+.+-..+..
T Consensus       639 ~yK~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  639 EYKELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             HHHhceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            344578999999888   7777888999999999999985 677899999888665543

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

Probab=97.30  E-value=0.00014  Score=72.72  Aligned_cols=62  Identities=24%  Similarity=0.563  Sum_probs=42.2

Q ss_pred             HHHHcCCccccccCcccccccCCccCCC-----ceEEcCCCCccchhchHHHH--hc-----CCCCCCcCcccC
Q 017252          228 EAVEAMPSVKIEETLQCSVCLDDFEIGT-----EAKEMPCKHKFHSQCILPWL--EL-----HSSCPVCRCQLP  289 (375)
Q Consensus       228 ~~v~~lp~~~~~~~~~C~ICle~~~~~~-----~~~~lpCgH~Fh~~Ci~~WL--~~-----~~sCP~CR~~l~  289 (375)
                      ..++..-......+..|.||++......     ..+..+|.|.||..||..|-  .+     .+.||.||....
T Consensus       148 ~~~e~~~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  148 SAMERSFALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             HhhhhccCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            3344333333356789999999884322     22224499999999999998  34     467999997543

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

Probab=97.25  E-value=0.00011  Score=73.50  Aligned_cols=51  Identities=29%  Similarity=0.824  Sum_probs=37.9

Q ss_pred             cccccccCCccCCCceEEcC-CCCccchhchHHHHhcC---CCCCCcCcccCCCC
Q 017252          242 LQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELH---SSCPVCRCQLPADE  292 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~---~sCP~CR~~l~~~~  292 (375)
                      ..|.||.+.+........+. |||+||..|+.+|+..-   ..||+|+-.++...
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~   59 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH   59 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence            57999977765455555555 99999999999999852   47999994444333

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

Probab=97.24  E-value=0.00016  Score=71.95  Aligned_cols=46  Identities=26%  Similarity=0.720  Sum_probs=40.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ..+|.|||.+.   ....+|||.|. .|..|.+....+++.||+||.++.
T Consensus       290 gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  290 GKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            57899999999   89999999996 688998887778999999999874

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

Probab=97.21  E-value=0.00017  Score=70.08  Aligned_cols=89  Identities=24%  Similarity=0.501  Sum_probs=58.5

Q ss_pred             ccHHHHHHHHHhcCCCCCCCCcccHHHHHcCC---ccccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh---
Q 017252          203 PGLDLLLQHLAENDPNRYGTPPAQKEAVEAMP---SVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE---  276 (375)
Q Consensus       203 ~~l~~li~~L~~~~~~~~~~~~~~~~~v~~lp---~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~---  276 (375)
                      +.|..|.+++.+......+. |.-.+.++...   +..--..-.|.|||--|..+....+++|-|.||..|+-++|.   
T Consensus        75 ~~~~~i~~~~~~iikq~~g~-pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~  153 (368)
T KOG4445|consen   75 PEFREIQRQIQEIIKQNSGM-PIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL  153 (368)
T ss_pred             HHHHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence            45666666665555444553 33333333211   111112678999999998888888999999999999998775   


Q ss_pred             --------------------cCCCCCCcCcccCCCC
Q 017252          277 --------------------LHSSCPVCRCQLPADE  292 (375)
Q Consensus       277 --------------------~~~sCP~CR~~l~~~~  292 (375)
                                          ....||+||..|..+.
T Consensus       154 ~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  154 TGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence                                1225999998886543

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

Probab=97.11  E-value=0.00024  Score=72.48  Aligned_cols=55  Identities=35%  Similarity=0.829  Sum_probs=47.0

Q ss_pred             cccCcccccccCCccCCCceEE-cCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKE-MPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~-lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~  295 (375)
                      +++++.|+||...+   ..+.. +.|+|.||..|+..|+..+..||.|+..+...+..+
T Consensus        18 ~~~~l~C~~C~~vl---~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   18 LDENLLCPICMSVL---RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             CcccccCccccccc---cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence            45679999999999   66766 589999999999999999999999988877665544

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

Probab=97.09  E-value=9.3e-05  Score=79.43  Aligned_cols=50  Identities=28%  Similarity=0.546  Sum_probs=43.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      ...|++|+..+..+......+|+|.||..||..|-+...+||+||..+..
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            56899999999766666677799999999999999999999999987753

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

Probab=97.02  E-value=0.00026  Score=72.21  Aligned_cols=49  Identities=29%  Similarity=0.709  Sum_probs=43.9

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      ..++.|.||+..+   ..++.+||||.||..||.+-+....-||+||..+..
T Consensus        82 ~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            4578999999999   888999999999999999988877789999998864

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

Probab=97.01  E-value=0.00024  Score=71.50  Aligned_cols=49  Identities=29%  Similarity=0.848  Sum_probs=41.3

Q ss_pred             cccccccCCccCCCceEEcCCCCccchhchHHHHhc--CCCCCCcCcccCCCCC
Q 017252          242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL--HSSCPVCRCQLPADEF  293 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~~~~~  293 (375)
                      ..|.||-+.-   ..+++-||||..|..|+..|-..  ..+||.||.+|...+.
T Consensus       370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            4599999886   77888899999999999999743  5689999999976543

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

Probab=96.94  E-value=0.00016  Score=53.43  Aligned_cols=46  Identities=26%  Similarity=0.713  Sum_probs=35.8

Q ss_pred             CcccccccCCccCCCceEEcCCCCc-cchhchHHHHh-cCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLE-LHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~-~~~sCP~CR~~l~  289 (375)
                      ..+|.||++..   ...+...|||. .|..|-.+.++ .+..||+||+++.
T Consensus         7 ~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            36899999987   55566679995 67888666555 7889999998774

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

Probab=96.74  E-value=0.00035  Score=68.81  Aligned_cols=50  Identities=26%  Similarity=0.709  Sum_probs=42.1

Q ss_pred             cccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +.....|.+|-.+|   .++..+. |-|.||..||...|...++||.|...+-.
T Consensus        12 ~n~~itC~LC~GYl---iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   12 LNPHITCRLCGGYL---IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             cccceehhhcccee---ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            34467899999999   6666665 99999999999999999999999876643

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

Probab=96.56  E-value=0.00065  Score=68.61  Aligned_cols=51  Identities=31%  Similarity=0.780  Sum_probs=37.6

Q ss_pred             CcccccccCCccCCC--ceEEcCCCCccchhchHHHHhc--CCCCCCcCcccCCC
Q 017252          241 TLQCSVCLDDFEIGT--EAKEMPCKHKFHSQCILPWLEL--HSSCPVCRCQLPAD  291 (375)
Q Consensus       241 ~~~C~ICle~~~~~~--~~~~lpCgH~Fh~~Ci~~WL~~--~~sCP~CR~~l~~~  291 (375)
                      ...|+||++.+....  ....+.|+|.|...||..||.+  ...||.|...-...
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr   58 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKR   58 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHH
Confidence            468999999985432  3445669999999999999952  23599997554433

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

Probab=96.51  E-value=0.0013  Score=49.27  Aligned_cols=40  Identities=30%  Similarity=0.797  Sum_probs=27.7

Q ss_pred             CcccccccCCccCCCceEEc-CCCCccchhchHHHHhc--CCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL--HSSCPV  283 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~--~~sCP~  283 (375)
                      .+.|+|.+..|   ..|+.- .|+|+|-+..|..||..  ...||+
T Consensus        11 ~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPF---EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChh---hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            68999999999   677664 69999999999999944  335998

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

Probab=96.47  E-value=0.002  Score=67.02  Aligned_cols=53  Identities=34%  Similarity=0.747  Sum_probs=43.4

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHh-----cCCCCCCcCcccCCCCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-----LHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-----~~~sCP~CR~~l~~~~~~~  295 (375)
                      +...|.+|-+.-   ++.....|.|.||..||..++.     ...+||+|...|..+...+
T Consensus       535 ~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~  592 (791)
T KOG1002|consen  535 GEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP  592 (791)
T ss_pred             CceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence            367899999998   7888889999999999999886     2457999998887664433

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

Probab=96.18  E-value=0.0018  Score=59.82  Aligned_cols=45  Identities=24%  Similarity=0.602  Sum_probs=40.3

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL  288 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l  288 (375)
                      .+.|.||..+|   ..++++.|||.||..|...-++....|-+|-+..
T Consensus       196 PF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            57899999999   8899999999999999988888888999997654

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

Probab=96.13  E-value=0.0015  Score=65.67  Aligned_cols=48  Identities=33%  Similarity=0.790  Sum_probs=39.2

Q ss_pred             CcccccccCCccC-CCceEEcCCCCccchhchHHHHhcCC--CCCCcCccc
Q 017252          241 TLQCSVCLDDFEI-GTEAKEMPCKHKFHSQCILPWLELHS--SCPVCRCQL  288 (375)
Q Consensus       241 ~~~C~ICle~~~~-~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~CR~~l  288 (375)
                      .+.|..|-+.+.. .+....|||.|+||..|+..+|.+..  +||.||+-.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            6889999998854 34567789999999999999997644  799999533

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

Probab=95.93  E-value=0.0055  Score=61.09  Aligned_cols=50  Identities=24%  Similarity=0.450  Sum_probs=44.0

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .++..|+||...-   ..++..||+|.-|..||.+-|.+.+.|=+|+..+...
T Consensus       420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence            4577899999877   7888899999999999999999999999999877643

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

Probab=95.90  E-value=0.0035  Score=61.14  Aligned_cols=56  Identities=27%  Similarity=0.665  Sum_probs=43.9

Q ss_pred             CcccccccCCccCCCceEEcC-CCCccchhchHHHH-hcCCCCCCcC-cccCCCCCCCchhc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWL-ELHSSCPVCR-CQLPADEFKPESER  299 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL-~~~~sCP~CR-~~l~~~~~~~~~~~  299 (375)
                      .+.|+.|...+   ..+..++ |+|.||.+||...| ..-..||.|. +.+..+.+.++..+
T Consensus       274 ~LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk  332 (427)
T COG5222         274 SLKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDK  332 (427)
T ss_pred             cccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHH
Confidence            48999999999   7888887 89999999999776 4567899994 45666666655443

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

Probab=95.76  E-value=0.0035  Score=61.11  Aligned_cols=46  Identities=26%  Similarity=0.513  Sum_probs=40.9

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      .+.|-||...|   ..++++.|+|.||..|-..-++....|.+|.+.+-
T Consensus       241 Pf~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Ccccccccccc---ccchhhcCCceeehhhhccccccCCcceecccccc
Confidence            46799999999   88999999999999999888888889999977653

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

Probab=95.71  E-value=0.0078  Score=58.21  Aligned_cols=47  Identities=23%  Similarity=0.492  Sum_probs=37.7

Q ss_pred             cCcccccccCCccCCCceEEcC-CCCccchhchHHHHh--cCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLE--LHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~--~~~sCP~CR~~l~  289 (375)
                      .+.+|++|-+..   ..|.++. |+|+||..||..-+.  ...+||.|-....
T Consensus       238 ~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  238 SDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CCceeeccCCCC---CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            478999999988   6666655 999999999988765  3568999976554

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

Probab=95.22  E-value=0.0097  Score=48.79  Aligned_cols=37  Identities=38%  Similarity=0.639  Sum_probs=30.1

Q ss_pred             ccccccCcccccccCCccCCCceEEcCCCCccchhchH
Q 017252          235 SVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCIL  272 (375)
Q Consensus       235 ~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~  272 (375)
                      .+.+.+...|+||-..+.. ......||+|+||..|+.
T Consensus        72 ~v~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   72 SVVITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             eEEECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            3455668889999999955 556788999999999985

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 [].

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

Probab=95.11  E-value=0.012  Score=59.84  Aligned_cols=36  Identities=22%  Similarity=0.635  Sum_probs=32.2

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHh
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE  276 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~  276 (375)
                      .+.|.||++........+.+||+|+||+.|++.++.
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence            578999999986657888999999999999999986

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

Probab=94.96  E-value=0.017  Score=41.55  Aligned_cols=40  Identities=28%  Similarity=0.834  Sum_probs=26.7

Q ss_pred             cccccCCccCCCceEEcCCC--C---ccchhchHHHHhc--CCCCCCc
Q 017252          244 CSVCLDDFEIGTEAKEMPCK--H---KFHSQCILPWLEL--HSSCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~~~lpCg--H---~Fh~~Ci~~WL~~--~~sCP~C  284 (375)
                      |-||++.-.... +.+.||.  -   ..|..|+.+|+..  ...|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679998875434 6678864  3   7899999999974  4569887

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

Probab=94.93  E-value=0.013  Score=42.49  Aligned_cols=44  Identities=27%  Similarity=0.658  Sum_probs=22.2

Q ss_pred             cccccCCccCCCceEEcC--CCCccchhchHHHHh-cCCCCCCcCccc
Q 017252          244 CSVCLDDFEIGTEAKEMP--CKHKFHSQCILPWLE-LHSSCPVCRCQL  288 (375)
Q Consensus       244 C~ICle~~~~~~~~~~lp--CgH~Fh~~Ci~~WL~-~~~sCP~CR~~l  288 (375)
                      |++|.+.+. ......+|  |++.+|..|....++ ....||-||.+.
T Consensus         1 cp~C~e~~d-~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELD-ETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B---CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccc-cCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999983 23334455  899999999888886 477899999764

>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=94.87  E-value=0.0096  Score=52.02  Aligned_cols=38  Identities=18%  Similarity=0.475  Sum_probs=31.3

Q ss_pred             CcccccccCCccCCCceEEcCCC------CccchhchHHHHhcC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCK------HKFHSQCILPWLELH  278 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCg------H~Fh~~Ci~~WL~~~  278 (375)
                      ..+|.||++.+.....++.++|+      |.||..|+.+|-..+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence            57899999999775667778886      999999999995433

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

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

Probab=94.78  E-value=0.017  Score=66.03  Aligned_cols=51  Identities=29%  Similarity=0.646  Sum_probs=41.4

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC----------CCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH----------SSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~----------~sCP~CR~~l~~  290 (375)
                      .+..|-||+.+-......++|.|+|+||..|....|++.          -+||+|+.++..
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            378899999987666778899999999999998766532          259999987753

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

Probab=94.61  E-value=0.036  Score=60.77  Aligned_cols=49  Identities=24%  Similarity=0.708  Sum_probs=34.9

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCC-------CCCCcCcc
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHS-------SCPVCRCQ  287 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~-------sCP~CR~~  287 (375)
                      ...++|.||.+.+.....+-.- .|-|+||..||..|-....       .||.|+..
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            4578999999999533322211 2789999999999986421       39999843

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

Probab=94.47  E-value=0.024  Score=56.80  Aligned_cols=44  Identities=36%  Similarity=0.689  Sum_probs=33.5

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ....|.||++..   ...+.+||||.-|  |+.-.. ....||+||..+.
T Consensus       304 ~p~lcVVcl~e~---~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEP---KSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCc---cceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence            367899999999   6689999999866  765433 3334999997653

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

Probab=94.23  E-value=0.01  Score=57.81  Aligned_cols=41  Identities=24%  Similarity=0.667  Sum_probs=32.8

Q ss_pred             CcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCccc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQL  288 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l  288 (375)
                      ...|+||++..   .+.+.|+|||. -|.+|-+..    +.||+||+.+
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence            56799999998   88999999995 466775443    4799999765

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

Probab=94.22  E-value=0.024  Score=51.76  Aligned_cols=51  Identities=25%  Similarity=0.617  Sum_probs=37.9

Q ss_pred             CcccccccCCccCCCceEE----cCCCCccchhchHHHHhcC-----------CCCCCcCcccCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKE----MPCKHKFHSQCILPWLELH-----------SSCPVCRCQLPAD  291 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~----lpCgH~Fh~~Ci~~WL~~~-----------~sCP~CR~~l~~~  291 (375)
                      .-.|.||+.+-..|..+-+    ..|+..||.-|+..||..-           ..||+|-.++..+
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            4569999988766654443    3599999999999999731           1499998877543

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

Probab=94.15  E-value=0.022  Score=54.23  Aligned_cols=46  Identities=20%  Similarity=0.481  Sum_probs=33.9

Q ss_pred             ccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .|..|.---. +....++.|.|+||..|...-.  ...||+|++.+...
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i   50 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRII   50 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeee
Confidence            5777776554 5666778899999999976532  22899999887644

>PHA02862 5L protein; Provisional

Probab=94.02  E-value=0.03  Score=49.50  Aligned_cols=44  Identities=20%  Similarity=0.603  Sum_probs=33.3

Q ss_pred             cccccccCCccCCCceEEcCCC-----CccchhchHHHHhc--CCCCCCcCcccC
Q 017252          242 LQCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLEL--HSSCPVCRCQLP  289 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~--~~sCP~CR~~l~  289 (375)
                      ..|=||++.-...    .-||.     ...|..|+.+|+..  +..|++|+.++.
T Consensus         3 diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            5799999985322    35765     57899999999964  457999998764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.92  E-value=0.042  Score=40.84  Aligned_cols=46  Identities=26%  Similarity=0.551  Sum_probs=33.5

Q ss_pred             cccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252          242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE  292 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~  292 (375)
                      ..|-.|...-   .....+||+|..|..|..-  ++-+.||+|.+.+...+
T Consensus         8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            3455555544   6677899999999999654  45678999988776443

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

Probab=93.80  E-value=0.043  Score=54.79  Aligned_cols=47  Identities=30%  Similarity=0.787  Sum_probs=39.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHH--HHhcCCCCCCcCccc
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILP--WLELHSSCPVCRCQL  288 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~--WL~~~~sCP~CR~~l  288 (375)
                      ++...|.||.+.+   .-..++||+|..|..|-.+  .|...+.||+||...
T Consensus        59 Een~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            4467899999998   7888999999999999765  467888999999754

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

Probab=93.69  E-value=0.017  Score=51.94  Aligned_cols=29  Identities=31%  Similarity=0.858  Sum_probs=26.9

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccch
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHS  268 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~  268 (375)
                      +.-+|.||||++..+.....|||-.+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccceEEEeec
Confidence            36789999999999999999999999996

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.56  E-value=0.055  Score=51.78  Aligned_cols=54  Identities=19%  Similarity=0.290  Sum_probs=44.5

Q ss_pred             CcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      .+.|+||.+.+........| ||||+|+.+|+...+..-..||+|-.++...+..
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII  275 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence            67899999999655544444 6999999999999999899999998888766543

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

Probab=93.55  E-value=0.055  Score=51.13  Aligned_cols=48  Identities=23%  Similarity=0.574  Sum_probs=37.5

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcC--------CCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH--------SSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~--------~sCP~CR~~l~  289 (375)
                      ..-|.+|-..+..++. +.|-|-|+||.+|+..|-.+-        -.||.|..+|.
T Consensus        50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            4579999988866654 467799999999999997531        24999988774

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

Probab=93.40  E-value=0.036  Score=54.93  Aligned_cols=48  Identities=21%  Similarity=0.443  Sum_probs=39.3

Q ss_pred             cCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +...|+||+...   ..+..+. -|-+||..||..++..++.||+-..++..
T Consensus       299 ~~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v  347 (357)
T KOG0826|consen  299 DREVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV  347 (357)
T ss_pred             ccccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence            467899999987   5555555 69999999999999999999997665543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.31  E-value=0.094  Score=50.68  Aligned_cols=52  Identities=19%  Similarity=0.410  Sum_probs=39.5

Q ss_pred             cCcccccccCCccCCCce-EEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE  292 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~-~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~  292 (375)
                      ..+.|||+...|...... ...+|||+|...+|...- ....||+|-.++...+
T Consensus       112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED  164 (260)
T ss_pred             ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence            368899999999443334 444799999999998873 3557999998887543

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

Probab=92.81  E-value=0.22  Score=51.23  Aligned_cols=35  Identities=34%  Similarity=0.690  Sum_probs=30.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHh
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE  276 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~  276 (375)
                      ++++.|+||...|   .++++|||+|..|..|....+.
T Consensus         2 eeelkc~vc~~f~---~epiil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFY---REPIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhc---cCceEeecccHHHHHHHHhhcc
Confidence            4678999999999   9999999999999999876553

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

Probab=92.70  E-value=0.043  Score=62.58  Aligned_cols=84  Identities=24%  Similarity=0.520  Sum_probs=55.3

Q ss_pred             cccCccHHHHHHHHHhcCCCCCCCCcccHHHHHcCCccccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC
Q 017252          199 YFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH  278 (375)
Q Consensus       199 ~~~g~~l~~li~~L~~~~~~~~~~~~~~~~~v~~lp~~~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~  278 (375)
                      +...+|+-.++..|++............+..+..+  ..+.+...|.||++.+.  ....+..|+|.+|..|+..|+..+
T Consensus      1113 ~ls~~G~~r~lk~l~e~~~~~~~~i~~~es~~~y~--~~~~~~~~c~ic~dil~--~~~~I~~cgh~~c~~c~~~~l~~~ 1188 (1394)
T KOG0298|consen 1113 FLSIPGLLRYLKGLKESKADTPCKIAQTESDVRYL--MNLSGHFVCEICLDILR--NQGGIAGCGHEPCCRCDELWLYAS 1188 (1394)
T ss_pred             hhccchHHHHHHHHHHHhccCccccCCccchHHHH--HHhhcccchHHHHHHHH--hcCCeeeechhHhhhHHHHHHHHh
Confidence            33445666777777665443333322222222221  12334569999999993  244566799999999999999999


Q ss_pred             CCCCCcCc
Q 017252          279 SSCPVCRC  286 (375)
Q Consensus       279 ~sCP~CR~  286 (375)
                      ..||.|+.
T Consensus      1189 s~~~~~ks 1196 (1394)
T KOG0298|consen 1189 SRCPICKS 1196 (1394)
T ss_pred             ccCcchhh
Confidence            99999974

>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]

Probab=92.58  E-value=0.076  Score=45.36  Aligned_cols=35  Identities=31%  Similarity=0.713  Sum_probs=28.4

Q ss_pred             CceeccccCcceeccCCCCccCCCCCCCceeeccCC
Q 017252            8 SRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMGSG   43 (375)
Q Consensus         8 ~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~~~   43 (375)
                      ...||..|.+.|.+. .-+.+||.|+|..+.=+.+.
T Consensus        69 ~~~~C~~C~~~~~~e-~~~~~CP~C~s~~~~i~~G~  103 (115)
T COG0375          69 AECWCLDCGQEVELE-ELDYRCPKCGSINLRIIGGD  103 (115)
T ss_pred             cEEEeccCCCeecch-hheeECCCCCCCceEEecCC
Confidence            468999999999887 35677999999998766543

>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=92.51  E-value=0.041  Score=38.83  Aligned_cols=41  Identities=24%  Similarity=0.751  Sum_probs=22.9

Q ss_pred             cccccCCccCCCceEEcCCCCccchhchHHHHhcCC--CCCCc
Q 017252          244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--SCPVC  284 (375)
Q Consensus       244 C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~C  284 (375)
                      |.+|.+....|..-....|.-.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            778998884443332223999999999999997655  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=92.32  E-value=0.087  Score=51.37  Aligned_cols=47  Identities=23%  Similarity=0.601  Sum_probs=38.1

Q ss_pred             cccccccCCccCC---CceEEcCCCCccchhchHHHHhcC-CCCCCcCccc
Q 017252          242 LQCSVCLDDFEIG---TEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQL  288 (375)
Q Consensus       242 ~~C~ICle~~~~~---~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l  288 (375)
                      ..|-||-++|...   ..|+.|.|||.||..|+...+... ..||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            5799999999554   367888899999999998777543 3699999874

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=92.31  E-value=0.089  Score=47.27  Aligned_cols=47  Identities=21%  Similarity=0.672  Sum_probs=34.2

Q ss_pred             cCcccccccCCccCCCceEEcCCC--C---ccchhchHHHHhc--CCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCK--H---KFHSQCILPWLEL--HSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCg--H---~Fh~~Ci~~WL~~--~~sCP~CR~~l~~  290 (375)
                      .+..|-||.+.-.    ....||.  .   ..|.+|+.+|+..  ...|++|++++..
T Consensus         7 ~~~~CRIC~~~~~----~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          7 MDKCCWICKDEYD----VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCeeEecCCCCC----CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3568999998852    2235755  3   5699999999964  4469999877643

>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=92.12  E-value=0.13  Score=46.15  Aligned_cols=51  Identities=22%  Similarity=0.569  Sum_probs=36.9

Q ss_pred             CcccccccCCccCCCceEEcCCC------------C-ccchhchHHHHhc------------------------------
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCK------------H-KFHSQCILPWLEL------------------------------  277 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCg------------H-~Fh~~Ci~~WL~~------------------------------  277 (375)
                      +..|+|||+..   ..++.|-|.            . .-|..||+++.+.                              
T Consensus         2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            57899999998   777777653            1 2367899987651                              


Q ss_pred             -CCCCCCcCcccCCCCCC
Q 017252          278 -HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       278 -~~sCP~CR~~l~~~~~~  294 (375)
                       .-.||+||..+..+...
T Consensus        79 ~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccccCccccCceeceEEc
Confidence             12499999999877654

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.

>PHA03096 p28-like protein; Provisional

Probab=91.81  E-value=0.082  Score=51.95  Aligned_cols=36  Identities=25%  Similarity=0.577  Sum_probs=27.4

Q ss_pred             cccccccCCccCCC----ceEEcC-CCCccchhchHHHHhc
Q 017252          242 LQCSVCLDDFEIGT----EAKEMP-CKHKFHSQCILPWLEL  277 (375)
Q Consensus       242 ~~C~ICle~~~~~~----~~~~lp-CgH~Fh~~Ci~~WL~~  277 (375)
                      ..|.||++......    .-..|+ |.|.||..|+..|...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            67999999875321    223455 9999999999999863

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

Probab=91.08  E-value=0.081  Score=57.77  Aligned_cols=47  Identities=26%  Similarity=0.644  Sum_probs=39.2

Q ss_pred             cccccccCCccCCCceEEcCCCCccchhchHHHHhcCC--CCCCcCcccCCCC
Q 017252          242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--SCPVCRCQLPADE  292 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~--sCP~CR~~l~~~~  292 (375)
                      ..|.||++ .   ..+...+|+|.||..|+...+....  .||+||..+....
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            79999999 4   7888999999999999999886433  5999998775443

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

Probab=90.81  E-value=0.11  Score=57.09  Aligned_cols=42  Identities=24%  Similarity=0.698  Sum_probs=33.1

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQ  287 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~  287 (375)
                      ...|.+|--.++  ...+...|+|.||..|+.   .....||.|+..
T Consensus       840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            568999998883  344666799999999987   445679999763

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

Probab=90.61  E-value=0.12  Score=51.11  Aligned_cols=44  Identities=25%  Similarity=0.618  Sum_probs=30.0

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCccc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL  288 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l  288 (375)
                      ...|.-|--.+.  ..-+.+||+|+||.+|-..  ..-+.||.|--.+
T Consensus        90 VHfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            345666755442  4456789999999999642  3456899996444

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

Probab=90.37  E-value=0.13  Score=50.34  Aligned_cols=46  Identities=24%  Similarity=0.668  Sum_probs=38.1

Q ss_pred             CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCc
Q 017252          241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRC  286 (375)
Q Consensus       241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~  286 (375)
                      ...|+||.+.+... ..+..++|+|..|..|+.......-+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            45599999987544 45678889999999999988877788999987

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

Probab=89.09  E-value=0.27  Score=42.98  Aligned_cols=49  Identities=20%  Similarity=0.602  Sum_probs=37.6

Q ss_pred             CcccccccCCccCCCceEEcC----CCCccchhchHHHHh---cCCCCCCcCcccCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMP----CKHKFHSQCILPWLE---LHSSCPVCRCQLPADE  292 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lp----CgH~Fh~~Ci~~WL~---~~~sCP~CR~~l~~~~  292 (375)
                      -.+|.||.|.-   .+.+-|.    ||-..|..|....|+   .+..||+|+..+....
T Consensus        80 lYeCnIC~etS---~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   80 LYECNICKETS---AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             ceeccCccccc---chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            57899999998   3333342    999999999888776   4567999998886543

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=88.68  E-value=0.32  Score=41.37  Aligned_cols=34  Identities=24%  Similarity=0.445  Sum_probs=26.4

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG   41 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~   41 (375)
                      ..+.||+.|...+.+. .....||.|++..++=+.
T Consensus        68 p~~~~C~~Cg~~~~~~-~~~~~CP~Cgs~~~~i~~  101 (115)
T TIGR00100        68 PVECECEDCSEEVSPE-IDLYRCPKCHGIMLQVRA  101 (115)
T ss_pred             CcEEEcccCCCEEecC-CcCccCcCCcCCCcEEec
Confidence            4689999999888776 346789999998765443

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

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

Probab=88.65  E-value=0.99  Score=45.79  Aligned_cols=29  Identities=24%  Similarity=0.815  Sum_probs=22.0

Q ss_pred             CCCccchhchHHHHh-------------cCCCCCCcCcccCC
Q 017252          262 CKHKFHSQCILPWLE-------------LHSSCPVCRCQLPA  290 (375)
Q Consensus       262 CgH~Fh~~Ci~~WL~-------------~~~sCP~CR~~l~~  290 (375)
                      |....|.+|+-+|+.             .+..||+||+.+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            556678899999875             23469999998764

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

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

Probab=88.29  E-value=0.029  Score=56.67  Aligned_cols=51  Identities=24%  Similarity=0.604  Sum_probs=42.1

Q ss_pred             CcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          241 TLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       241 ~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      ...|+||.+.++.. .....+-|+|.+|..||..||.....||.|+..|+..
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            45799999988544 4556677999999999999999888999999888643

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

Probab=88.01  E-value=0.34  Score=49.29  Aligned_cols=46  Identities=15%  Similarity=0.304  Sum_probs=38.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcC---CCCCCcCc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVCRC  286 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~---~sCP~CR~  286 (375)
                      .+.|||=.+.-.....|..|.|||+.+.+-|.+..+..   ..||+|-.
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            67899988887777899999999999999998877643   36999943

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=87.88  E-value=0.31  Score=48.72  Aligned_cols=53  Identities=23%  Similarity=0.573  Sum_probs=37.3

Q ss_pred             cCcccccccCCccCCCc-eEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCC
Q 017252          240 ETLQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADE  292 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~  292 (375)
                      ++..|++|++.+...+. ..-.|||-..|.-|....-+ ....||-||.......
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            34559999999965442 33456998889988766544 3557999998765443

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=87.42  E-value=0.42  Score=40.86  Aligned_cols=35  Identities=23%  Similarity=0.256  Sum_probs=25.5

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG   41 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~   41 (375)
                      ..++||..|...+.+......+||.|++-.++=+.
T Consensus        69 p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~~~i~~  103 (117)
T PRK00564         69 KVELECKDCSHVFKPNALDYGVCEKCHSKNVIITQ  103 (117)
T ss_pred             CCEEEhhhCCCccccCCccCCcCcCCCCCceEEec
Confidence            46899999998876652233569999988766443

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=87.40  E-value=0.43  Score=40.58  Aligned_cols=35  Identities=23%  Similarity=0.710  Sum_probs=25.2

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG   41 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~   41 (375)
                      -.++||..|...+......-..||.|++..++=+.
T Consensus        68 p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~~~i~~  102 (114)
T PRK03681         68 EAECWCETCQQYVTLLTQRVRRCPQCHGDMLRIVA  102 (114)
T ss_pred             CcEEEcccCCCeeecCCccCCcCcCcCCCCcEEcc
Confidence            46899999998876652222669999987765443

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=86.69  E-value=0.5  Score=40.09  Aligned_cols=34  Identities=26%  Similarity=0.694  Sum_probs=25.8

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCceeecc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEMG   41 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm~   41 (375)
                      ..++||..|...+.+. .....||.|++.-++=+.
T Consensus        68 p~~~~C~~Cg~~~~~~-~~~~~CP~Cgs~~~~i~~  101 (113)
T PRK12380         68 PAQAWCWDCSQVVEIH-QHDAQCPHCHGERLRVDT  101 (113)
T ss_pred             CcEEEcccCCCEEecC-CcCccCcCCCCCCcEEcc
Confidence            4689999999887775 345679999987665443

>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=86.21  E-value=0.24  Score=35.82  Aligned_cols=44  Identities=25%  Similarity=0.613  Sum_probs=25.7

Q ss_pred             ccccccCCccCCCceEEcCCC-CccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          243 QCSVCLDDFEIGTEAKEMPCK-HKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCg-H~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .|.-|+-..     ...+.|. |..|..|+...|.....||+|..+|+..
T Consensus         4 nCKsCWf~~-----k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFAN-----KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S-------SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcC-----CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            466666544     2344586 9999999999999999999999998754

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.

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=85.77  E-value=0.63  Score=32.93  Aligned_cols=31  Identities=23%  Similarity=0.574  Sum_probs=24.2

Q ss_pred             ceeccccCcceeccCCC-CccCCCCCCCceee
Q 017252            9 RYWCHMCSQIVDPIMEV-EIKCPFCQSGFVEE   39 (375)
Q Consensus         9 ~ywCh~C~~~V~~~~~~-e~~CP~C~~gFvEE   39 (375)
                      .|-|-.|...+...... .++||+|++-|+-.
T Consensus         3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~   34 (46)
T PRK00398          3 EYKCARCGREVELDEYGTGVRCPYCGYRILFK   34 (46)
T ss_pred             EEECCCCCCEEEECCCCCceECCCCCCeEEEc
Confidence            58899999988554333 69999999988743

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=85.07  E-value=0.62  Score=45.66  Aligned_cols=51  Identities=25%  Similarity=0.609  Sum_probs=36.8

Q ss_pred             ccccccCCccCCCceEE--cCCCCccchhchHHHHhc-CCCCCCcCcccCCCCC
Q 017252          243 QCSVCLDDFEIGTEAKE--MPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEF  293 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~--lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~  293 (375)
                      .|++|..........+.  -+|+|..|..|+...+.. ...||.|-..|.....
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf   55 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF   55 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence            58999876543333333  369999999999998754 5579999877765544

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=84.88  E-value=0.41  Score=40.57  Aligned_cols=33  Identities=30%  Similarity=0.603  Sum_probs=22.8

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCceeec
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVEEM   40 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvEEm   40 (375)
                      ..++||..|.....+.. ....||.|++..++=+
T Consensus        68 p~~~~C~~Cg~~~~~~~-~~~~CP~Cgs~~~~i~  100 (113)
T PF01155_consen   68 PARARCRDCGHEFEPDE-FDFSCPRCGSPDVEII  100 (113)
T ss_dssp             --EEEETTTS-EEECHH-CCHH-SSSSSS-EEEE
T ss_pred             CCcEECCCCCCEEecCC-CCCCCcCCcCCCcEEc
Confidence            36899999999998873 4488999999877543

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=84.88  E-value=0.67  Score=40.56  Aligned_cols=34  Identities=24%  Similarity=0.345  Sum_probs=24.7

Q ss_pred             CCceeccccCcceeccC--------------------CCCccCCCCCCCceeec
Q 017252            7 ASRYWCHMCSQIVDPIM--------------------EVEIKCPFCQSGFVEEM   40 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~--------------------~~e~~CP~C~~gFvEEm   40 (375)
                      -.+|||..|...+.+..                    ....+||.|++.-++=.
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~  121 (135)
T PRK03824         68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIV  121 (135)
T ss_pred             ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEe
Confidence            36899999998876541                    23477999998766533

>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]

Probab=84.80  E-value=0.56  Score=34.18  Aligned_cols=31  Identities=29%  Similarity=0.713  Sum_probs=24.6

Q ss_pred             CCceeccccCccee-ccCCCCccCCCCCCCce
Q 017252            7 ASRYWCHMCSQIVD-PIMEVEIKCPFCQSGFV   37 (375)
Q Consensus         7 ~~~ywCh~C~~~V~-~~~~~e~~CP~C~~gFv   37 (375)
                      ...|-|-.|.+.|. +.....|.||+|++--+
T Consensus         4 ~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl   35 (49)
T COG1996           4 MMEYKCARCGREVELDQETRGIRCPYCGSRIL   35 (49)
T ss_pred             eEEEEhhhcCCeeehhhccCceeCCCCCcEEE
Confidence            35799999999996 44466799999987543

>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species

Probab=84.56  E-value=0.55  Score=29.19  Aligned_cols=22  Identities=32%  Similarity=0.854  Sum_probs=18.8

Q ss_pred             ccccCcceeccC-CCCccCCCCC
Q 017252           12 CHMCSQIVDPIM-EVEIKCPFCQ   33 (375)
Q Consensus        12 Ch~C~~~V~~~~-~~e~~CP~C~   33 (375)
                      |..|.+.|.|.- ....+||.|+
T Consensus         1 C~sC~~~i~~r~~~v~f~CPnCG   23 (24)
T PF07754_consen    1 CTSCGRPIAPREQAVPFPCPNCG   23 (24)
T ss_pred             CccCCCcccCcccCceEeCCCCC
Confidence            789999998875 6779999996

It is likely to bind zinc via its four well-conserved cysteine residues.

>smart00659 RPOLCX RNA polymerase subunit CX

Probab=84.42  E-value=0.74  Score=32.69  Aligned_cols=29  Identities=17%  Similarity=0.416  Sum_probs=24.8

Q ss_pred             ceeccccCcceeccCCCCccCCCCCCCce
Q 017252            9 RYWCHMCSQIVDPIMEVEIKCPFCQSGFV   37 (375)
Q Consensus         9 ~ywCh~C~~~V~~~~~~e~~CP~C~~gFv   37 (375)
                      .|-|-.|...|.......|+||.|+.--+
T Consensus         2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rIl   30 (44)
T smart00659        2 IYICGECGRENEIKSKDVVRCRECGYRIL   30 (44)
T ss_pred             EEECCCCCCEeecCCCCceECCCCCceEE
Confidence            48999999999888777899999987544

present in RNA polymerase I, II and III

>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Probab=83.83  E-value=0.97  Score=29.98  Aligned_cols=26  Identities=31%  Similarity=0.634  Sum_probs=20.9

Q ss_pred             eeccccCcceeccCCCCccCCCCCCC
Q 017252           10 YWCHMCSQIVDPIMEVEIKCPFCQSG   35 (375)
Q Consensus        10 ywCh~C~~~V~~~~~~e~~CP~C~~g   35 (375)
                      |-|-.|...|.......|+||.|+.-
T Consensus         1 Y~C~~Cg~~~~~~~~~~irC~~CG~R   26 (32)
T PF03604_consen    1 YICGECGAEVELKPGDPIRCPECGHR   26 (32)
T ss_dssp             EBESSSSSSE-BSTSSTSSBSSSS-S
T ss_pred             CCCCcCCCeeEcCCCCcEECCcCCCe
Confidence            78999999998777777999999753

Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=81.22  E-value=1.3  Score=32.93  Aligned_cols=39  Identities=26%  Similarity=0.617  Sum_probs=31.4

Q ss_pred             CcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPV  283 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~  283 (375)
                      ...|.+|-+.|+.+.++++-| |+-.+|+.|...    ...|-+
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            457999999998888888888 999999999543    345544

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

Probab=81.00  E-value=1.2  Score=44.19  Aligned_cols=43  Identities=28%  Similarity=0.760  Sum_probs=33.2

Q ss_pred             cCcccccccCCccCCCceEEcCC--CCccchhchHHHHhcCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPC--KHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpC--gH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +-+.|+||.+.+   ..+ .+.|  ||.-|..|-.   +..+.||.||.++.
T Consensus        47 ~lleCPvC~~~l---~~P-i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPL---SPP-IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccC---ccc-ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            457899999998   333 4556  6999999864   45678999998886

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

Probab=80.61  E-value=0.41  Score=51.99  Aligned_cols=52  Identities=23%  Similarity=0.716  Sum_probs=40.0

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC---CCCCCcCcccCCCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVCRCQLPADEFK  294 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~---~sCP~CR~~l~~~~~~  294 (375)
                      ..++|+||+..+   ..+..+.|-|.||..|+..-+...   .-||+|+..+......
T Consensus        20 k~lEc~ic~~~~---~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~   74 (684)
T KOG4362|consen   20 KILECPICLEHV---KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR   74 (684)
T ss_pred             hhccCCceeEEe---eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence            368999999999   556788899999999987765443   3599999776654433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	375
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-11
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-10
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-08
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-07
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		6e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		9e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		9e-05
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		1e-04

>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 = 65.5 bits (158), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 24/44 (54%), Positives = 32/44 (72%)
Query: 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285
           L+C VC +D+ +G   +++PC H FH  CI+PWLE H SCPVCR
Sbjct: 16  LECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59

>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 = 63.9 bits (154), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 221 GTPPAQKEAVEAMPSVKIEET-------LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILP 273
             PPA KE+++A+P + + E        + C +C  ++  G  A E+PC H FH  C+  
Sbjct: 13  ANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSI 72
Query: 274 WLELHSSCPVCRCQLP 289
           WL+   +CPVCRC  P
Sbjct: 73  WLQKSGTCPVCRCMFP 88

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 36/49 (73%), Gaps = 1/49 (2%)
Query: 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCR 285
           +++ ++C+VCL + E G EA+ +P C H FH++C+  WL  HS+CP+CR
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 244 CSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           C+VCL+DF+   E    PCKH FH +C++ WLE+   CP+C
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 21/47 (44%), Positives = 33/47 (70%), Gaps = 1/47 (2%)
Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285
           E+TL C VC+ DFE     + +PC H+FH++C+  WL+ + +CP+CR
Sbjct: 22  EQTL-CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA 290
           +C++CL   E G + + +PC H FH  C+  WL  +  CP+CR  + A
Sbjct: 16  KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA 63

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 44.7 bits (104), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 225 AQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           AQKE V +  +  +E  LQC +C + F    EA  + C H F S CI  W++    CP+C
Sbjct: 48  AQKEEVLSHMNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPIC 104
Query: 285 RCQLPADEF 293
           R  + +  +
Sbjct: 105 RKDIKSKTY 113

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 225 AQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           AQKE V +  +  +E  LQC +C + F    EA  + C H F S CI  W++    CP+C
Sbjct: 37  AQKEEVLSHMNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPIC 93
Query: 285 RCQLPADEF 293
           R  + +  +
Sbjct: 94  RKDIKSKTY 102

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 225 AQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           AQKE V +  +  +E  LQC +C + F    EA  + C H F S CI  W++    CP+C
Sbjct: 37  AQKEEVLSHMNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPIC 93
Query: 285 R 285
           R
Sbjct: 94  R 94

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	375
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-42
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-26
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	9e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-22
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-21
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-17
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	8e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-14
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	5e-11
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-10
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-10
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-04
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-08
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	5e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	3e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	5e-07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	7e-07
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	7e-07
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	7e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	8e-07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-06
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	4e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	4e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	6e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	7e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	8e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	9e-05

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

 Score =  142 bits (360), Expect = 2e-42
 Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)

Query: 209 LQHLAENDPNRYGTPPAQKEAVEAMPSVKI-------EETLQCSVCLDDFEIGTEAKEMP 261
           + H   +  +    PPA KE+++A+P + +        + + C +C  ++  G  A E+P
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 262 CKHKFHSQCILPWLELHSSCPVCRCQLP 289
           C H FH  C+  WL+   +CPVCRC  P
Sbjct: 61  CHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

>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 =  100 bits (250), Expect = 1e-26
 Identities = 25/55 (45%), Positives = 34/55 (61%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292
           +   L+C VC +D+ +G   +++PC H FH  CI+PWLE H SCPVCR  L    
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

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

 Score = 92.4 bits (230), Expect = 9e-24
 Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 6/70 (8%)

Query: 225 AQKEAVEAMPSVKI------EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH 278
               +   +PS +        E   C VC+ DFE     + +PC H+FH++C+  WL+ +
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 279 SSCPVCRCQL 288
            +CP+CR   
Sbjct: 61  RTCPICRADS 70

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

 Score = 87.5 bits (217), Expect = 5e-22
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 5/68 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPE 296
           ++     C+VCL+DF+   E    PCKH FH +C++ WLE+   CP+C   +        
Sbjct: 11  ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL-----QL 65

Query: 297 SERSRNSS 304
           ++ S  SS
Sbjct: 66  AQLSGPSS 73

>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 = 85.9 bits (213), Expect = 2e-21
 Identities = 18/53 (33%), Positives = 29/53 (54%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291
           +   +C++CL   E G + + +PC H FH  C+  WL  +  CP+CR  + A 
Sbjct: 12  DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

 Score = 78.8 bits (195), Expect = 5e-19
 Identities = 22/52 (42%), Positives = 37/52 (71%), Gaps = 1/52 (1%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQL 288
           +++ ++C+VCL + E G EA+ +P C H FH++C+  WL  HS+CP+CR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 75.5 bits (186), Expect = 1e-17
 Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 18/85 (21%)

Query: 220 YGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS 279
            G+    K+         + +  +C +C+D          +PC H F  +CI  W + H 
Sbjct: 3   SGSSGRVKQ---------LTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHR 49

Query: 280 SCPVCRCQLPADEFKPESERSRNSS 304
           +CP+CR Q+        +E S  SS
Sbjct: 50  NCPICRLQM-----TGANESSGPSS 69

>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 = 74.2 bits (183), Expect = 3e-17
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 243 QCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLELHSSCPVCR 285
            C +CL+D       A  +PC H  H  C    L+    CP+C 
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

>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 = 67.9 bits (166), Expect = 8e-15
 Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 4/65 (6%)

Query: 235 SVKIEETLQCSVCLDDFEIGTEAKEM----PCKHKFHSQCILPWLELHSSCPVCRCQLPA 290
            ++   T+ C +C+D +    +   +     C H F SQC+   L+  ++CP CR ++  
Sbjct: 4   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

Query: 291 DEFKP 295
             + P
Sbjct: 64  KRYHP 68

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

 Score = 67.4 bits (165), Expect = 1e-14
 Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRC 286
           +C +CL+D      +  +PC H F   CI  W+  + +CP+C+ 
Sbjct: 7   RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKV 48

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

 Score = 66.3 bits (162), Expect = 2e-14
 Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 4/60 (6%)

Query: 240 ETLQCSVCLDDFEIGTEAKEM----PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP 295
             + C +C+D +    +   +     C H F SQC+   L+  ++CP CR ++    + P
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 61

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

 Score = 65.7 bits (160), Expect = 4e-14
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 235 SVKIEETLQCSVCLDDFE----IGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
            ++   T+ C +C+D +      G       C H F SQC+   L+  ++CP CR ++
Sbjct: 9   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 60.6 bits (147), Expect = 3e-12
 Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 3/64 (4%)

Query: 232 AMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD 291
           +  +       +C++CL           +PCKH F   C+     L   C +CR ++P D
Sbjct: 6   SGNTAPSLTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED 62

Query: 292 EFKP 295
               
Sbjct: 63  FLDS 66

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

 Score = 60.7 bits (147), Expect = 4e-12
 Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 244 CSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQL 288
           C  C  + +          C H FH+ C+  W++ ++ CP+C+   
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

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

 Score = 57.1 bits (138), Expect = 5e-11
 Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 2/52 (3%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
           ++   + CS+C       T      C H F   CI+      + CP C   +
Sbjct: 11  ELTPYILCSICKGYLIDATTI--TECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 56.0 bits (135), Expect = 2e-10
 Identities = 17/71 (23%), Positives = 24/71 (33%), Gaps = 8/71 (11%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL-----PADEF 293
           E   +C +C   F          C+H F   C L        C +C         PA E 
Sbjct: 13  EIPFRCFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKEL 69

Query: 294 KPESERSRNSS 304
             + ++S  SS
Sbjct: 70  MAKLQKSGPSS 80

>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 = 56.1 bits (135), Expect = 2e-10
 Identities = 15/71 (21%), Positives = 22/71 (30%), Gaps = 3/71 (4%)

Query: 226 QKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVC 284
               ++      I E  +C +C++            C       CI  WL    + CP C
Sbjct: 7   HHSHMDEQSVESIAEVFRCFICMEKLRDARLCP--HCSKLCCFSCIRRWLTEQRAQCPHC 64

Query: 285 RCQLPADEFKP 295
           R  L   E   
Sbjct: 65  RAPLQLRELVN 75

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

 Score = 55.2 bits (133), Expect = 5e-10
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 5/67 (7%)

Query: 231 EAMPSVK-IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQL 288
             +  +K I++ L+C +C + F     A  +P C H + S CI  +L   + CP C   +
Sbjct: 11  PGLAVMKTIDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

Query: 289 PADEFKP 295
              + K 
Sbjct: 68  TEPDLKN 74

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

 Score = 54.8 bits (132), Expect = 8e-10
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 2/52 (3%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
           ++   L C +C   F   T    + C H F   CI+ +LE    CP+C  Q+
Sbjct: 11  ELNPHLMCVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 5e-09
 Identities = 24/65 (36%), Positives = 34/65 (52%), Gaps = 3/65 (4%)

Query: 225 AQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVC 284
           AQKE V +  +  +E  LQC +C + F    EA  + C H F S CI  W++    CP+C
Sbjct: 48  AQKEEVLSHMNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPIC 104

Query: 285 RCQLP 289
           R  + 
Sbjct: 105 RKDIK 109

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

 Score = 53.2 bits (127), Expect = 5e-09
 Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 239 EETLQCSVCLDDFEIGTEAKE----MPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK 294
             T+ C +C+D +    +         C H F SQC+   L+  ++CP CR ++    + 
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 295 P 295
           P
Sbjct: 65  P 65

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

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)

Query: 242 LQCSVCLDDF----EIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCR 285
           + C +C+D +    + G       C H F SQC+   L+  ++CP CR
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120

>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 = 55.2 bits (132), Expect = 1e-08
 Identities = 20/95 (21%), Positives = 34/95 (35%), Gaps = 7/95 (7%)

Query: 199 YFVGPGLDLLLQHLAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAK 258
           +  G   +  L  L E  P  +     ++  +             C +C ++     + K
Sbjct: 293 FPDGRNQNPDLTGLCEPTPQDHIKVTQEQYELYCE---MGSTFQLCKICAEND---KDVK 346

Query: 259 EMPCKHKFHSQCILPWLELHS-SCPVCRCQLPADE 292
             PC H   + C+  W E     CP CRC++   E
Sbjct: 347 IEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 49.6 bits (119), Expect = 3e-08
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 10/71 (14%)

Query: 232 AMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-------SSCPVC 284
           +  S  ++E + C +CL+     TE   + C H     CI    +         SSCPVC
Sbjct: 3   SGSSGNVQEEVTCPICLELL---TEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

Query: 285 RCQLPADEFKP 295
                 +  + 
Sbjct: 60  GISYSFEHLQA 70

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

 Score = 48.2 bits (115), Expect = 5e-08
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPADE 292
            +E+  +C  C          K+  C H+F   C+   L   S  C  C+  +  D+
Sbjct: 11  TVEDKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK 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 = 48.7 bits (115), Expect = 1e-07
 Identities = 11/45 (24%), Positives = 14/45 (31%), Gaps = 1/45 (2%)

Query: 243 QCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRC 286
           +C                  C H FH  CI  WL+    CP+   
Sbjct: 53  ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97

>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 = 48.7 bits (116), Expect = 1e-07
 Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 7/75 (9%)

Query: 223 PPAQKEAVEAMPSV-KIEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSS 280
           P  +     +  ++ ++E+ L+CS C +      E   +  C+H F S C+   +   + 
Sbjct: 3   PDGRGAWAHSRAALDRLEKLLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TG 57

Query: 281 CPVCRCQLPADEFKP 295
           CPVC       + K 
Sbjct: 58  CPVCYTPAWIQDLKI 72

>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 = 48.8 bits (116), Expect = 1e-07
 Identities = 22/96 (22%), Positives = 34/96 (35%), Gaps = 19/96 (19%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADEFKPE 296
             +++ C +C        +  E  CKH F   CIL  L++  S CP CR      + +  
Sbjct: 20  FVKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

Query: 297 SERSRNSSNHQR---------------EHEHHSSDH 317
            +   N  N                  ++ HH S H
Sbjct: 77  VKSFLNILNSLMVKCPAQDCNEEVSLEKYNHHVSSH 112

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

 Score = 47.2 bits (112), Expect = 2e-07
 Identities = 12/64 (18%), Positives = 21/64 (32%), Gaps = 5/64 (7%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH--SSCPVCRCQLPADEFKPE 296
           +    C++C      G   +   C  + H  C+  + + +    CP C    P  E    
Sbjct: 13  DAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP-HEIPKS 69

Query: 297 SERS 300
              S
Sbjct: 70  GPSS 73

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

 Score = 47.0 bits (112), Expect = 2e-07
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 6/67 (8%)

Query: 231 EAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE---LHSSCPVCRCQ 287
                 K++E + C +CLD      +   + C H F  +CI    E       CP+C+  
Sbjct: 10  SGQFVNKLQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTS 66

Query: 288 LPADEFK 294
           +  +  +
Sbjct: 67  VRKNAIR 73

>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 = 48.0 bits (114), Expect = 2e-07
 Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 232 AMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLP 289
              ++      QC +C++      E   +PC H     C    +E  S  CP CR ++ 
Sbjct: 6   PKDAIPSLSECQCGICMEIL---VEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61

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

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 6/52 (11%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP 289
             + L+C  C  +       K +PC H   S C+         CP+C+   P
Sbjct: 3   EFQFLRCQQCQAEA---KCPKLLPCLHTLCSGCL---EASGMQCPICQAPWP 48

>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 = 47.5 bits (113), Expect = 3e-07
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 4/60 (6%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADEFKP 295
            +E   +C +CL       EA + PC H+F   CI+  +      CPV    L  ++  P
Sbjct: 14  PLESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP 70

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

 Score = 50.2 bits (119), Expect = 5e-07
 Identities = 15/80 (18%), Positives = 25/80 (31%), Gaps = 16/80 (20%)

Query: 222 TPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEM-----PCKHKFHSQCILPWLE 276
             P    +       +  E L+C++C      G E   +      C  K H+ C+  W +
Sbjct: 289 YFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFK 348

Query: 277 -----------LHSSCPVCR 285
                          CP C+
Sbjct: 349 TLMDGKTFLEVSFGQCPFCK 368

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 45.0 bits (107), Expect = 7e-07
 Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 6/56 (10%)

Query: 232 AMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVC 284
           +     ++    CSVCL+      E   + C H F   CI  W E       CPVC
Sbjct: 6   SGALENLQVEASCSVCLEYL---KEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 45.8 bits (109), Expect = 7e-07
 Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 9/65 (13%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH------SSCPVCRCQLPA 290
            I+E + C +CL+      E     C H F   CI    E +       +CPVCR   P 
Sbjct: 15  MIKEEVTCPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF 71

Query: 291 DEFKP 295
              KP
Sbjct: 72  GNLKP 76

>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 = 47.3 bits (112), Expect = 7e-07
 Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 4/56 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPAD 291
           K+E++  C  C +      +     C H     C+    +    SCP CR  L  +
Sbjct: 74  KLEQSFMCVCCQELV---YQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN 126

>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 = 46.8 bits (110), Expect = 7e-07
 Identities = 11/45 (24%), Positives = 14/45 (31%), Gaps = 1/45 (2%)

Query: 243 QCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRC 286
           +C                  C H FH  CI  WL+    CP+   
Sbjct: 64  ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108

>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 = 46.5 bits (110), Expect = 8e-07
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 4/54 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLP 289
           K+EET QC  C +            C+H     C+         SCP CR  L 
Sbjct: 48  KVEETFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

>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 = 44.7 bits (106), Expect = 1e-06
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 6/60 (10%)

Query: 229 AVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLEL--HSSCPVCR 285
           +  +     I + L C +C D     T+A  +P C + +  +CI   L      +CP C 
Sbjct: 3   SGSSGEDDPIPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

>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 = 46.2 bits (109), Expect = 2e-06
 Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 4/59 (6%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADEFKP 295
           +E   +C +CL       EA + PC H+F   CI+  +      CPV    L  ++  P
Sbjct: 15  LESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP 70

>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 = 45.2 bits (106), Expect = 2e-06
 Identities = 14/87 (16%), Positives = 28/87 (32%), Gaps = 21/87 (24%)

Query: 221 GTPPAQKEAVE-AMPSVKIEETLQCSVCLDDFEIGTEAKEM---------------PCKH 264
           G+    ++ +      +K+     C +C++   + +   +M                C H
Sbjct: 4   GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 265 KFHSQCILPWLE-----LHSSCPVCRC 286
            FH  C+L             CP C+ 
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 43.8 bits (104), Expect = 4e-06
 Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 12/76 (15%)

Query: 229 AVEAMPS---VKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH------S 279
               M S   V ++E + C +CL+     T+   + C H F   C+    +        S
Sbjct: 4   GSSGMASGILVNVKEEVTCPICLELL---TQPLSLDCGHSFCQACLTANHKKSMLDKGES 60

Query: 280 SCPVCRCQLPADEFKP 295
           SCPVCR     +  +P
Sbjct: 61  SCPVCRISYQPENIRP 76

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 6/62 (9%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH---SSCPVCRCQLPADEF 293
            +++ L+C +CL+      E     C H F   C+L  L      S CP+C+  +     
Sbjct: 17  AMQKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

Query: 294 KP 295
           + 
Sbjct: 74  QE 75

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 42.4 bits (100), Expect = 6e-06
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 6/57 (10%)

Query: 231 EAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL---HSSCPVC 284
                 K++E + C +CLD      +   + C H F  +CI    E       CP+C
Sbjct: 10  SGQFVNKLQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 43.2 bits (102), Expect = 7e-06
 Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 7/62 (11%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLE--LHSSCPVCR-CQLPADEF 293
           I + L C +C D     T+A  +P C + +  +CI   L      +CP C    +  D  
Sbjct: 10  IPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDAL 66

Query: 294 KP 295
             
Sbjct: 67  IA 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 = 42.8 bits (101), Expect = 8e-06
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 4/53 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWLELHS---SCPVCR 285
            + E L+C +C++ F       K + C H    QC+   L        CP C 
Sbjct: 11  ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

>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 = 46.8 bits (110), Expect = 1e-05
 Identities = 36/319 (11%), Positives = 82/319 (25%), Gaps = 98/319 (30%)

Query: 109 ITRRRRRNSAAILQLLQGLRAGLQSESEDNDNDRERDRDRGDRDRDRDRESERER----- 163
           +  +   +   +L++LQ L   +        +     + R    +   R   + +     
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 164 -VIL--------INPFN---QTIIV--------QGGSYDGQHQNHNHTPIGSLGDYFVGP 203
            ++L         N FN   + ++            +    H + +H  +    D     
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE---- 302

Query: 204 GLDLLLQHLAENDPNRYGTPPAQ--KEAVEAMPSV------------------------K 237
              LLL++L           P    +E +   P                          K
Sbjct: 303 VKSLLLKYL--------DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354

Query: 238 IEETLQCSV-CLDDFEIGTEAKEMPCKHKFHSQCILP-------------WLELHSSCPV 283
           +   ++ S+  L+  E          +  F    + P             W ++  S   
Sbjct: 355 LTTIIESSLNVLEPAEY---------RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV- 404

Query: 284 CRCQLPADEFKPES--ERSRNSSN------HQREHEHHSSDHGTHASSEEGDGEGRNESG 335
               +  ++    S  E+    S       +        +++  H S  +     +    
Sbjct: 405 ---MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461

Query: 336 SRFSIPWPFNGLFSSSSSH 354
                P+     +S    H
Sbjct: 462 DDLIPPYLDQYFYSHIGHH 480

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

 Score = 43.2 bits (101), Expect = 2e-05
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWL-ELHSSCPVCRCQLPADE 292
           K+E    CS C +         +  C H++ S C+   L     +C  C  +   +E
Sbjct: 27  KLEAKYLCSACRNVLR---RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE 80

>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 = 41.1 bits (96), Expect = 2e-05
 Identities = 12/59 (20%), Positives = 17/59 (28%), Gaps = 3/59 (5%)

Query: 240 ETLQCSVCLDDFEIGTEAKEM--PCKHKFHSQCILPWLELHS-SCPVCRCQLPADEFKP 295
           +   C  C          K M   C H     C+       + +CP C   L    F+ 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

>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 = 42.7 bits (100), Expect = 4e-05
 Identities = 19/87 (21%), Positives = 29/87 (33%), Gaps = 6/87 (6%)

Query: 212 LAENDPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQC 270
           L+  +  R             +    +   L C +CLD             C H+F + C
Sbjct: 25  LSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDML---KNTMTTKECLHRFCADC 81

Query: 271 ILPWLELH-SSCPVCRCQL-PADEFKP 295
           I+  L      CP CR +L      +P
Sbjct: 82  IITALRSGNKECPTCRKKLVSKRSLRP 108

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

 Score = 40.5 bits (94), Expect = 4e-05
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 239 EETLQCSVCLDDFEIGTEA-KEMPCKHKFHSQCILPWL-ELHSSCPVCRCQLPAD--EFK 294
           E+ ++C +C++  EI         C ++    C      + +  CP CR   P D   +K
Sbjct: 9   EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYK 68

Query: 295 PESE 298
           P S+
Sbjct: 69  PLSQ 72

>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 = 8e-05
 Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 8/56 (14%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--------SCPVCRC 286
             +  C +CL ++ +        C+  F + C+  ++EL          SCP   C
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC 58

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

 Score = 42.4 bits (99), Expect = 9e-05
 Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 7/74 (9%)

Query: 228 EAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS--CPVCR 285
           E  + +     +    C++C      G   +   C  + H  C+  + + ++   CP C 
Sbjct: 167 EMEQYIRETYPDAVKICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCN 224

Query: 286 CQLP---ADEFKPE 296
              P      F PE
Sbjct: 225 DYWPHEIPKVFDPE 238

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	375
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.5
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.39
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.38
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.37
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.35
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.34
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.28
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.27
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.26
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.25
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.23
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.23
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.22
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.22
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.21
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.19
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.19
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.18
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.18
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.17
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.17
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.15
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.15
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.15
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.14
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.12
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.1
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.09
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.08
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.07
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.06
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.04
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.03
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.03
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.02
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.02
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.0
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.98
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.98
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.98
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.97
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.96
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.95
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.94
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.91
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.89
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.84
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.84
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.83
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.82
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.77
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.75
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.75
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.72
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.71
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.67
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.64
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.53
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.45
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.43
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.42
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.41
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.4
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.37
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.28
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.24
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.65
3nw0_A	238	Non-structural maintenance of chromosomes element	97.53
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.31
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.28
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	91.04
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	90.49
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	85.87
4ayb_P	48	DNA-directed RNA polymerase; transferase, multi-su	84.55
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	84.54
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	83.1
3h0g_L	63	DNA-directed RNA polymerases I, II, and III subuni	80.44

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

Probab=99.50  E-value=1.1e-14  Score=116.91  Aligned_cols=73  Identities=37%  Similarity=0.994  Sum_probs=63.0

Q ss_pred             CCCCCCcccHHHHHcCCccccc-------cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          218 NRYGTPPAQKEAVEAMPSVKIE-------ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       218 ~~~~~~~~~~~~v~~lp~~~~~-------~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      ......+++++.++.+|...+.       +...|+||++.|..+..++.++|+|.||..||..|++.+.+||+||+.+..
T Consensus        10 ~~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           10 HMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             CSSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            3556788899999999976554       356799999999877779999999999999999999999999999998864

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

Probab=99.39  E-value=3.3e-13  Score=104.53  Aligned_cols=58  Identities=43%  Similarity=1.104  Sum_probs=50.7

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~  295 (375)
                      ..+...|+||++.|.....++.++|+|.||..||..|++.+.+||+||+.+......+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCC
Confidence            3457899999999987778888999999999999999999999999999987765543

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

Probab=99.38  E-value=2.9e-13  Score=97.84  Aligned_cols=51  Identities=43%  Similarity=1.078  Sum_probs=46.4

Q ss_pred             ccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ++...|+||++.|..+..+..++ |+|.||..||..|++.+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45679999999998878889998 9999999999999999999999998874

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

Probab=99.37  E-value=1.5e-13  Score=105.89  Aligned_cols=52  Identities=37%  Similarity=0.949  Sum_probs=46.9

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      +...|+||++.|..+..++.++|+|.||..||..|++.+.+||+||+.+...
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            4678999999998777789999999999999999999999999999987643

>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=99.35  E-value=8.7e-13  Score=99.77  Aligned_cols=53  Identities=34%  Similarity=0.954  Sum_probs=47.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .....|+||++.|..+..++.++|+|.||..||..|+..+.+||+||+.+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            44778999999998778889999999999999999999999999999988654

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

Probab=99.34  E-value=7.7e-13  Score=101.40  Aligned_cols=54  Identities=37%  Similarity=0.934  Sum_probs=48.0

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      .+.....|+||++.|......+.++|+|.||..||..|++.+.+||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            344578999999999888888888999999999999999999999999998854

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

Probab=99.28  E-value=1.4e-12  Score=98.74  Aligned_cols=57  Identities=28%  Similarity=0.685  Sum_probs=47.5

Q ss_pred             cccCcccccccCCccC----CCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          238 IEETLQCSVCLDDFEI----GTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~----~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      ..+...|+||++.+..    +..++.++|+|.||..||..|++.+.+||+||+.+......
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            3457899999999943    23348899999999999999999999999999998766554

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

Probab=99.27  E-value=3.7e-12  Score=97.37  Aligned_cols=55  Identities=22%  Similarity=0.573  Sum_probs=47.4

Q ss_pred             ccccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      .+.+.+.|+||++.+   ..++.+ +|+|.||..||..|++.+..||+||+.+....+.
T Consensus        11 ~~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           11 ELTPYILCSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             CCCGGGSCTTTSSCC---SSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSC
T ss_pred             hcCCCCCCCCCChHH---HCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccccc
Confidence            445678999999999   667776 8999999999999999999999999998765544

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

Probab=99.26  E-value=2.2e-12  Score=96.92  Aligned_cols=54  Identities=28%  Similarity=0.631  Sum_probs=45.0

Q ss_pred             ccccCcccccccCCccCC----CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          237 KIEETLQCSVCLDDFEIG----TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~----~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      .+.+...|+||++.|...    ..++.++|+|.||..||..|+..+..||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            345678999999999432    234889999999999999999999999999998753

>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=99.25  E-value=4.4e-12  Score=91.39  Aligned_cols=50  Identities=28%  Similarity=0.681  Sum_probs=43.3

Q ss_pred             cCcccccccCCccCC-CceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~-~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +...|+||++.|..+ ..++.++|+|.||..||..|+....+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            357899999999543 35788899999999999999999999999998874

>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=99.23  E-value=6.3e-12  Score=104.12  Aligned_cols=52  Identities=21%  Similarity=0.613  Sum_probs=42.0

Q ss_pred             cCcccccccCCccCCC---------------ceEEcCCCCccchhchHHHHh-----cCCCCCCcCcccCCC
Q 017252          240 ETLQCSVCLDDFEIGT---------------EAKEMPCKHKFHSQCILPWLE-----LHSSCPVCRCQLPAD  291 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~---------------~~~~lpCgH~Fh~~Ci~~WL~-----~~~sCP~CR~~l~~~  291 (375)
                      .+..|+||++.|....               ..+.++|+|.||..||..||.     .+.+||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4578999999995432               334788999999999999994     467899999988644

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

Probab=99.23  E-value=9.5e-12  Score=95.76  Aligned_cols=52  Identities=29%  Similarity=0.625  Sum_probs=44.8

Q ss_pred             ccccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcC--CCCCCcCcccCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELH--SSCPVCRCQLPAD  291 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~--~sCP~CR~~l~~~  291 (375)
                      .+.+.+.|+||++.|   ..++.++ |+|.||..||..|+..+  ..||+||+.+...
T Consensus        11 ~~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           11 PIPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             CSCGGGSCSSSCCCC---TTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             cCCCCCCCcCCChHH---hCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            445688999999999   7889999 99999999999999865  6899999975443

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

Probab=99.22  E-value=1e-11  Score=94.59  Aligned_cols=53  Identities=28%  Similarity=0.692  Sum_probs=45.6

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh---cCCCCCCcCcccCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE---LHSSCPVCRCQLPADE  292 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~---~~~sCP~CR~~l~~~~  292 (375)
                      .+.+...|+||++.+   ..++.++|+|.||..||..|++   ....||+||+.+....
T Consensus        16 ~~~~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           16 KLQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCBCTTTCSBC---SSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             hCccCCEeccCCccc---CCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            345678999999999   7889999999999999999997   4558999999887554

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

Probab=99.22  E-value=5.1e-12  Score=96.36  Aligned_cols=50  Identities=30%  Similarity=0.708  Sum_probs=45.0

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .+...|+||++.+   ..++.++|+|.||..||..|+.....||+||..+...
T Consensus        13 ~~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBC---SSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCccc---CCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            4578899999999   7789999999999999999999999999999988644

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

Probab=99.21  E-value=6.9e-12  Score=97.01  Aligned_cols=55  Identities=18%  Similarity=0.481  Sum_probs=47.9

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~  294 (375)
                      .+.+.+.|+||++.|   ..++.++|||.||..||..|+.. +.+||+||..+....+.
T Consensus         4 ~~~~~~~C~IC~~~~---~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~   59 (78)
T 1t1h_A            4 EFPEYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             CCSSSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             CCcccCCCCCccccc---cCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCc
Confidence            345688999999999   88999999999999999999986 77899999998765544

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

Probab=99.19  E-value=1.6e-11  Score=96.56  Aligned_cols=57  Identities=25%  Similarity=0.568  Sum_probs=47.2

Q ss_pred             cccccCcccccccCCccCCCc-eEEcCCCCccchhchHHHHhcC---CCCCCcCcccCCCC
Q 017252          236 VKIEETLQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLELH---SSCPVCRCQLPADE  292 (375)
Q Consensus       236 ~~~~~~~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~~~---~sCP~CR~~l~~~~  292 (375)
                      ..+.+...|+||++.|..... ++.++|+|.||..||..|+..+   ..||+||..+....
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            345567899999999954332 8899999999999999999876   68999999886553

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

Probab=99.19  E-value=3.9e-12  Score=94.09  Aligned_cols=54  Identities=26%  Similarity=0.651  Sum_probs=45.1

Q ss_pred             cCcccccccCCccCC----CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252          240 ETLQCSVCLDDFEIG----TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF  293 (375)
Q Consensus       240 ~~~~C~ICle~~~~~----~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~  293 (375)
                      +...|+||++.+...    ..++.++|+|.||..||..|++.+.+||+||+.+.....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            357899999999432    334788999999999999999999999999998876543

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

Probab=99.18  E-value=1e-11  Score=93.27  Aligned_cols=53  Identities=23%  Similarity=0.617  Sum_probs=45.0

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADE  292 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~  292 (375)
                      .+.+.+.|+||++.+   ..++.++|+|.||..||..|+. ....||+||+.+..+.
T Consensus        11 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVL---CSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             SCCCCEECTTTCCEE---SSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             cCCcCCCCCCCChHh---cCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            345678999999999   6677789999999999999994 5668999999887654

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

Probab=99.18  E-value=6.3e-12  Score=108.16  Aligned_cols=50  Identities=38%  Similarity=0.909  Sum_probs=45.0

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .+++.|+||++.|   ..++.++|||.||..||..|+..+.+||+||+.+...
T Consensus        51 ~~~~~C~iC~~~~---~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           51 ENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHSBCTTTCSBC---SSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cccCCCcccCccc---CCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            3467899999999   7889999999999999999999999999999988643

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

Probab=99.17  E-value=1.8e-11  Score=95.20  Aligned_cols=55  Identities=35%  Similarity=0.768  Sum_probs=47.0

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc------CCCCCCcCcccCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL------HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~------~~sCP~CR~~l~~~~~~  294 (375)
                      .+.+.+.|+||++.|   ..++.++|+|.||..||..|+..      ...||+||..+....+.
T Consensus        15 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecw_A           15 MIKEEVTCPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK   75 (85)
T ss_dssp             CCCTTTSCTTTCSCC---SSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCE
T ss_pred             hCccCCCCcCCChhh---CcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCC
Confidence            345678999999999   77889999999999999999987      66899999988765443

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

Probab=99.17  E-value=1.7e-11  Score=95.63  Aligned_cols=48  Identities=23%  Similarity=0.594  Sum_probs=44.1

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ...+.|+||++.|   ..++.++|+|.||..||..|+.....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBC---CSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchh---cCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4478999999999   77889999999999999999999999999999886

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

Probab=99.15  E-value=2.8e-11  Score=94.16  Aligned_cols=55  Identities=29%  Similarity=0.760  Sum_probs=47.1

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc------CCCCCCcCcccCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL------HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~------~~sCP~CR~~l~~~~~~  294 (375)
                      .+.+...|+||++.+   ..++.++|+|.||..||..|+..      ...||+||..+....+.
T Consensus        15 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecv_A           15 NVKEEVTCPICLELL---TQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCCTTTCSCC---SSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCC
T ss_pred             HccCCCCCCCCCccc---CCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcC
Confidence            345678999999999   67788999999999999999987      77899999998765544

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

Probab=99.15  E-value=8.4e-12  Score=98.07  Aligned_cols=50  Identities=22%  Similarity=0.600  Sum_probs=41.1

Q ss_pred             CcccccccCCccC-----------CCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          241 TLQCSVCLDDFEI-----------GTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       241 ~~~C~ICle~~~~-----------~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +..|+||++.|..           +..++.++ |+|.||..||.+||+.+.+||+||+.+..
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            5678888888843           33355665 99999999999999999999999998753

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

Probab=99.15  E-value=7.8e-12  Score=94.71  Aligned_cols=51  Identities=31%  Similarity=0.928  Sum_probs=44.6

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE  292 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~  292 (375)
                      +.+...|+||++.+   .. +.++|+|.||..||..|+..+..||+||+.+....
T Consensus        12 ~~~~~~C~IC~~~~---~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGR---AD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSC---CS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCCeeCCcCc---cC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            34578999999999   44 88999999999999999999999999999887544

>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=99.15  E-value=8.9e-12  Score=101.57  Aligned_cols=53  Identities=30%  Similarity=0.760  Sum_probs=46.1

Q ss_pred             cccCcccccccCCccCCCceEE-cCCCCccchhchHHHHhcC-CCCCCcCcccCCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKE-MPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEF  293 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~-lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~  293 (375)
                      +.+.+.|+||++.|   ..++. ++|||.||..||..|+... ..||+||..+....+
T Consensus        19 l~~~~~C~IC~~~~---~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l   73 (100)
T 3lrq_A           19 IAEVFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL   73 (100)
T ss_dssp             HHHHTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCccCCccc---cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHh
Confidence            34578999999999   77888 9999999999999999887 689999999865443

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

Probab=99.14  E-value=2.2e-11  Score=91.61  Aligned_cols=48  Identities=29%  Similarity=0.870  Sum_probs=42.1

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ....|+||++.+.  ..++.++|+|.||..||..|++.+.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            4678999999993  23588999999999999999999999999998875

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

Probab=99.13  E-value=8.9e-12  Score=96.24  Aligned_cols=53  Identities=30%  Similarity=0.681  Sum_probs=45.6

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-------CCCCCCcCcccCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-------HSSCPVCRCQLPADE  292 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-------~~sCP~CR~~l~~~~  292 (375)
                      .+.+.+.|+||++.|   ..++.++|||.||..||..|+..       ...||+||..+....
T Consensus         8 ~~~~~~~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            8 NVQEEVTCPICLELL---TEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCCEETTTTEEC---SSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             hcccCCCCcCCCccc---CCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            455688999999999   67788999999999999999986       568999999887543

>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=99.12  E-value=3.2e-11  Score=100.00  Aligned_cols=49  Identities=24%  Similarity=0.549  Sum_probs=42.0

Q ss_pred             CcccccccCCccCCC---------------ceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGT---------------EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~---------------~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +..|+||++.|....               .++.++|+|.||..||.+||..+.+||+||+.+.
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            678999999996431               2567889999999999999999999999999764

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

Probab=99.10  E-value=5.7e-11  Score=88.17  Aligned_cols=45  Identities=33%  Similarity=0.777  Sum_probs=39.7

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh---cCCCCCCc
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE---LHSSCPVC  284 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~---~~~sCP~C  284 (375)
                      .+.+.+.|+||++.|   ..++.++|+|.||..||..|++   ....||+|
T Consensus        16 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBC---SSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchh---CCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            455688999999999   7889999999999999999998   45589998

>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=99.09  E-value=3.9e-11  Score=101.05  Aligned_cols=49  Identities=31%  Similarity=0.637  Sum_probs=43.8

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC-CCCCcCcccCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPA  290 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~-sCP~CR~~l~~  290 (375)
                      .+.+.|+||++.|   ..++.++|||.||..||..|+.... .||+||..+..
T Consensus        50 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHH---cCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4578999999999   7899999999999999999998544 89999999876

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

Probab=99.08  E-value=2.5e-11  Score=98.23  Aligned_cols=52  Identities=27%  Similarity=0.790  Sum_probs=45.3

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEF  293 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~  293 (375)
                      .+.+.|+||++.|   ..++.+ +|||.||..||..|+..+..||+||..+....+
T Consensus        20 ~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l   72 (99)
T 2y43_A           20 DDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDL   72 (99)
T ss_dssp             HHHTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGC
T ss_pred             CCCCCcccCChhh---CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhC
Confidence            3468999999999   678887 899999999999999988999999998875443

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

Probab=99.07  E-value=6e-11  Score=94.49  Aligned_cols=50  Identities=30%  Similarity=0.648  Sum_probs=43.7

Q ss_pred             ccccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcC--CCCCCcCcccC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELH--SSCPVCRCQLP  289 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~--~sCP~CR~~l~  289 (375)
                      .+.+.+.|+||++.|   ..++.++ |||.||..||..|+...  ..||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEEC---SSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhh---cCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            345688999999999   7889999 99999999999999754  58999999873

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

Probab=99.06  E-value=6.2e-11  Score=94.11  Aligned_cols=56  Identities=16%  Similarity=0.185  Sum_probs=49.6

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCCc
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPE  296 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~  296 (375)
                      +.+.+.|+||++.|   ..++.++|||.||..||..||..+.+||+|+..+....+.+.
T Consensus        11 ~p~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn   66 (85)
T 2kr4_A           11 APDEFRDPLMDTLM---TDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPV   66 (85)
T ss_dssp             CCTTTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEEC
T ss_pred             CchheECcccCchh---cCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchH
Confidence            44689999999999   999999999999999999999988999999999876655543

>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=99.06  E-value=6.7e-11  Score=97.25  Aligned_cols=52  Identities=31%  Similarity=0.768  Sum_probs=45.9

Q ss_pred             ccccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .+.+.+.|+||++.|   ..++.+ +|||.||..||..|+.....||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HHGGGTBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             ccCCcCCCccCChHH---hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            345678999999999   778887 9999999999999999889999999988754

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

Probab=99.04  E-value=1.6e-10  Score=91.03  Aligned_cols=53  Identities=19%  Similarity=0.584  Sum_probs=43.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCC-----CccchhchHHHHhcC--CCCCCcCcccCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCK-----HKFHSQCILPWLELH--SSCPVCRCQLPADE  292 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCg-----H~Fh~~Ci~~WL~~~--~sCP~CR~~l~~~~  292 (375)
                      .+...|.||++.+..+.. .++||+     |.||..||.+||..+  .+||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            346789999999876554 579996     999999999999865  48999999987654

>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=99.03  E-value=1.3e-10  Score=94.87  Aligned_cols=58  Identities=16%  Similarity=0.222  Sum_probs=51.2

Q ss_pred             cccCcccccccCCccCCCceEEcCCC-CccchhchHHHHhcCCCCCCcCcccCCCCCCCchh
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCK-HKFHSQCILPWLELHSSCPVCRCQLPADEFKPESE  298 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCg-H~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~~~  298 (375)
                      +.+.+.|+||++.|   .+|+.++|| |.||..||..||..+.+||+|+..|....+.+...
T Consensus        19 ~p~~~~CpI~~~~m---~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~   77 (98)
T 1wgm_A           19 ACDEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTE   77 (98)
T ss_dssp             CCTTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHH
T ss_pred             CcHhcCCcCccccc---cCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHH
Confidence            44688999999999   999999999 99999999999998889999999998776665443

>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=99.03  E-value=1.2e-10  Score=95.31  Aligned_cols=58  Identities=16%  Similarity=0.187  Sum_probs=51.0

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCCCCch
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPES  297 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~~  297 (375)
                      .+.+.+.|+||++.|   ..|+.++|||.||..||..||..+.+||+|+..+....+.+..
T Consensus        25 ~~p~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~   82 (100)
T 2kre_A           25 DAPDEFRDPLMDTLM---TDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVP   82 (100)
T ss_dssp             SCSTTTBCTTTCSBC---SSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECH
T ss_pred             cCcHhhCCcCccCcc---cCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECH
Confidence            344589999999999   9999999999999999999999888999999999877665544

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

Probab=99.02  E-value=1.1e-10  Score=84.69  Aligned_cols=45  Identities=38%  Similarity=0.899  Sum_probs=38.4

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHh---cCCCCCCc
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE---LHSSCPVC  284 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~---~~~sCP~C  284 (375)
                      .+.+...|+||++.+   ..++.++|+|.||..||..|+.   ....||+|
T Consensus        11 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYL---KEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBC---SSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCccc---CccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            345678999999999   6678899999999999999954   56689998

>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=99.02  E-value=8.9e-11  Score=96.46  Aligned_cols=53  Identities=26%  Similarity=0.752  Sum_probs=45.0

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC---CCCCcCcccCCCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS---SCPVCRCQLPADEFK  294 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~---sCP~CR~~l~~~~~~  294 (375)
                      .+...|+||++.+   ..++.++|||.||..||..|+....   .||+||..+....+.
T Consensus        19 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~   74 (112)
T 1jm7_A           19 QKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQ   74 (112)
T ss_dssp             HHHTSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCB
T ss_pred             cCCCCCcccChhh---cCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcC
Confidence            3467899999999   6777899999999999999998654   899999988766543

>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=99.00  E-value=1.5e-10  Score=101.29  Aligned_cols=50  Identities=24%  Similarity=0.609  Sum_probs=44.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC-CCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~-sCP~CR~~l~~~  291 (375)
                      .+.+.|+||++.|   ..++.++|+|.||..||..|+.... .||+||..+...
T Consensus        76 ~~~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELV---YQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhh---cCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            3468999999999   8889999999999999999998655 799999998866

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

Probab=98.98  E-value=1.2e-10  Score=97.45  Aligned_cols=56  Identities=30%  Similarity=0.681  Sum_probs=47.6

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC-CCCCcCcccCCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPADEFKP  295 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~-sCP~CR~~l~~~~~~~  295 (375)
                      .+.+.+.|+||++.+   ..++.++|||.||..||..|+.... .||+||..+......+
T Consensus        14 ~~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (118)
T 3hct_A           14 PLESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (118)
T ss_dssp             CCCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCCCcCChhh---cCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhccc
Confidence            445678999999999   7889999999999999999998765 8999999987654433

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

Probab=98.98  E-value=1.5e-10  Score=97.16  Aligned_cols=55  Identities=27%  Similarity=0.655  Sum_probs=45.9

Q ss_pred             ccCcccccccCCccCC----CceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252          239 EETLQCSVCLDDFEIG----TEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF  293 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~----~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~  293 (375)
                      .+.+.|+||++.|...    ..++.++|||.||..||..|++.+.+||+||+.+.....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            3568999999999432    334899999999999999999999999999998876543

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

Probab=98.98  E-value=8.4e-11  Score=97.65  Aligned_cols=49  Identities=27%  Similarity=0.709  Sum_probs=43.4

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLP  289 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~  289 (375)
                      ..+++.|+||++.|   ..++.++|||.||..||..|+.. ...||+||..+.
T Consensus        12 ~~~~~~C~iC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           12 SLSECQCGICMEIL---VEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             CHHHHBCTTTCSBC---SSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCCccCCccc---CceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            34578999999999   78899999999999999999976 668999999875

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

Probab=98.97  E-value=1.8e-10  Score=86.10  Aligned_cols=55  Identities=18%  Similarity=0.459  Sum_probs=42.4

Q ss_pred             cCcccccccC-CccCCCc-eEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCC
Q 017252          240 ETLQCSVCLD-DFEIGTE-AKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       240 ~~~~C~ICle-~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~  294 (375)
                      ++..|+||++ .+..... .+.++|||.||..||..|+.. ...||+||+.+......
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            3578999999 7743332 256799999999999999764 46799999998765543

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

Probab=98.96  E-value=1.8e-10  Score=101.63  Aligned_cols=49  Identities=33%  Similarity=0.805  Sum_probs=42.7

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhc-CCCCCCcCcccCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLEL-HSSCPVCRCQLPA  290 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~  290 (375)
                      .+.+.|+||++.|   ..++.+ +|||.||..||..|+.. ...||+||..+..
T Consensus        52 ~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDML---KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHh---hCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            4567999999999   667776 89999999999999987 7789999998853

>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=98.95  E-value=8.2e-11  Score=99.26  Aligned_cols=49  Identities=24%  Similarity=0.549  Sum_probs=0.6

Q ss_pred             CcccccccCCccCCC---------------ceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGT---------------EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~---------------~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +..|+||++.|....               .+..++|+|.||..||.+||+.+.+||+||+.+.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             C---------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            578999999995421               2233589999999999999999999999998764

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

Probab=98.94  E-value=1.3e-10  Score=96.71  Aligned_cols=54  Identities=30%  Similarity=0.694  Sum_probs=46.5

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFK  294 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~  294 (375)
                      +.+.+.|+||++.+   ..++.++|||.||..||..|+.. ...||+||..+....+.
T Consensus        20 ~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   74 (116)
T 1rmd_A           20 FVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (116)
T ss_dssp             HHHHTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             ccCCCCCCCCCcHh---cCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhcc
Confidence            34468999999999   78889999999999999999987 67899999998765543

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

Probab=98.91  E-value=4.3e-10  Score=93.85  Aligned_cols=52  Identities=31%  Similarity=0.655  Sum_probs=45.1

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~  295 (375)
                      .+.+.|+||++.|   ..++.+ +|||.||..||..|+.  ..||+||..+....+.+
T Consensus        20 ~~~~~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~   72 (117)
T 1jm7_B           20 EKLLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (117)
T ss_dssp             HHTTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             hhCCCCCCCChHh---hCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccccc
Confidence            4578999999999   788888 8999999999999998  78999999986655544

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

Probab=98.89  E-value=2.3e-10  Score=95.93  Aligned_cols=55  Identities=29%  Similarity=0.722  Sum_probs=45.7

Q ss_pred             ccCcccccccCCccC----CCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252          239 EETLQCSVCLDDFEI----GTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF  293 (375)
Q Consensus       239 ~~~~~C~ICle~~~~----~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~  293 (375)
                      .+...|+||++.|..    +..++.++|+|.||..||.+|++.+++||+||..+..+++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~  128 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY  128 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGE
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcc
Confidence            346789999999843    2334788999999999999999999999999999876543

>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=98.86  E-value=5.8e-10  Score=96.65  Aligned_cols=52  Identities=23%  Similarity=0.526  Sum_probs=45.0

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC-CCCCcCcccCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS-SCPVCRCQLPAD  291 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~-sCP~CR~~l~~~  291 (375)
                      .+.+.+.|+||++.|   ..++.++|||.||..||..|+.... .||+||..+...
T Consensus        27 ~l~~~~~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           27 KLEAKYLCSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             GCCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             cCCcCcCCCCCChhh---cCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            445688999999999   8889999999999999999998665 899999976543

>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=98.84  E-value=4.9e-10  Score=90.41  Aligned_cols=57  Identities=14%  Similarity=0.501  Sum_probs=46.8

Q ss_pred             ccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcC------CCCCC--cCcc-cCCCCCCCchh
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELH------SSCPV--CRCQ-LPADEFKPESE  298 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~------~sCP~--CR~~-l~~~~~~~~~~  298 (375)
                      .+.+.|+||++.|   ..|+.++ |||.||..||..||...      .+||+  |+.. +....+.+...
T Consensus         5 ~~~~~CPI~~~~~---~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~   71 (94)
T 2yu4_A            5 SSGFTCPITKEEM---KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEA   71 (94)
T ss_dssp             SSCCBCTTTCSBC---SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHH
T ss_pred             CcEeECcCcCchh---cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHH
Confidence            4578999999999   8899996 99999999999999754      48999  9876 76666555443

>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=9.4e-10  Score=103.28  Aligned_cols=57  Identities=19%  Similarity=0.260  Sum_probs=48.3

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC-CCCCCcCcccCCCCCCCc
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEFKPE  296 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~~~~  296 (375)
                      .+.+.+.|+||++.|   ..|++++|||+||..||..||... .+||+|+.++....+.+.
T Consensus       204 ~~~~~~~c~i~~~~~---~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n  261 (281)
T 2c2l_A          204 DIPDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN  261 (281)
T ss_dssp             CCCSTTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEEC
T ss_pred             CCCcccCCcCcCCHh---cCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCccc
Confidence            444688999999999   999999999999999999999864 459999999876655543

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

Probab=98.83  E-value=1.8e-09  Score=83.98  Aligned_cols=51  Identities=20%  Similarity=0.567  Sum_probs=41.1

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC--CCCCCcCcccCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH--SSCPVCRCQLPADE  292 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~--~sCP~CR~~l~~~~  292 (375)
                      ....|+||++.+..+...  ..|+|.||..||.+||+.+  .+||+||..+....
T Consensus        14 ~i~~C~IC~~~i~~g~~C--~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSCBCSSSCCBCSSSEEC--SSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCcCcchhhHcccCCcc--CCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            357899999999644322  2699999999999999877  78999998876443

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

Probab=98.82  E-value=1.6e-09  Score=79.08  Aligned_cols=47  Identities=28%  Similarity=0.668  Sum_probs=40.3

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPAD  291 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~  291 (375)
                      .+.+.|+||++.|   ..++.++|+|.||..||..|   ...||+||+.+...
T Consensus         4 ~~~~~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSC---BCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCcc---CCeEEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            3578899999999   67889999999999999884   56899999987654

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

Probab=98.77  E-value=3.8e-09  Score=82.68  Aligned_cols=56  Identities=25%  Similarity=0.614  Sum_probs=42.8

Q ss_pred             ccccCcccccccCCccCCCceEEcC--CCCccchhchHHHHh-cCCCCCCcCcccCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMP--CKHKFHSQCILPWLE-LHSSCPVCRCQLPADEF  293 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lp--CgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~~  293 (375)
                      .++++..|+||++.+... .++.+|  |||.||..|+..|+. ....||+||+.+.....
T Consensus         7 ~~~~~~~CpICle~~~~~-d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTT-TTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccccCCcCCccCccCccc-cccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            356688999999988432 233444  999999999999885 35679999998876543

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.75  E-value=4.1e-09  Score=79.11  Aligned_cols=48  Identities=19%  Similarity=0.378  Sum_probs=41.9

Q ss_pred             ccCcccccccCCccCCCceEEc--CCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM--PCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l--pCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      .++..|.||++.+   ..++.+  ||||. ||..|+..|++.+..||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRP---KNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSC---SCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCC---CCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            3467899999998   667766  99999 899999999998889999999874

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

Probab=98.75  E-value=1.9e-09  Score=83.10  Aligned_cols=44  Identities=27%  Similarity=0.645  Sum_probs=39.7

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      .+...|+||++.+   ..++.+||||. ||..|+..|    ..||+||..+.
T Consensus        22 ~~~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           22 QEEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHHTBCTTTSSSB---CCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             ccCCCCCCCCCCC---CCEEEcCCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            3467899999999   88899999999 999999998    78999998875

>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=98.72  E-value=3.2e-09  Score=93.87  Aligned_cols=56  Identities=30%  Similarity=0.677  Sum_probs=47.4

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC-CCCCCcCcccCCCCCCC
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEFKP  295 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~~~  295 (375)
                      .+.+.+.|+||++.|   ..++.++|||.||..||..|+... ..||+||..+....+.+
T Consensus        14 ~~~~~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (170)
T 3hcs_A           14 PLESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (170)
T ss_dssp             CCCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCCCCCChhh---cCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhh
Confidence            345688999999999   788999999999999999999764 48999999887654443

>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=98.71  E-value=6.5e-09  Score=103.86  Aligned_cols=48  Identities=29%  Similarity=0.851  Sum_probs=43.2

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPAD  291 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~  291 (375)
                      ...|+||++.+   ..++.+||||.||..|+..|+. ....||+||..+...
T Consensus       332 ~~~C~ICle~~---~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSB---CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCC---CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            47899999999   7889999999999999999998 678999999987643

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

Probab=98.67  E-value=9.2e-09  Score=92.72  Aligned_cols=58  Identities=21%  Similarity=0.251  Sum_probs=49.1

Q ss_pred             ccccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC-CCCCCcCcccCCCCCCCch
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEFKPES  297 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~~~~~  297 (375)
                      .+.+.+.|+||++.|   ..|+.++|||.||..||..||... .+||+|+..+....+.+..
T Consensus       102 ~ip~~f~CPI~~elm---~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~  160 (179)
T 2f42_A          102 EIPDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNL  160 (179)
T ss_dssp             CCCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECH
T ss_pred             CCcHhhcccCccccC---CCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchH
Confidence            345689999999999   899999999999999999999764 4699999998766655443

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

Probab=98.64  E-value=1.2e-08  Score=76.22  Aligned_cols=46  Identities=20%  Similarity=0.447  Sum_probs=40.5

Q ss_pred             CcccccccCCccCCCceEEc--CCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEM--PCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~l--pCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ...|.||++.+   ..+..+  ||||. ||..|+..|++....||+||+.+.
T Consensus         7 ~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRP---RDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSB---SCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcC---CCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            56899999988   666666  99998 999999999988889999999874

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

Probab=98.53  E-value=1.6e-08  Score=77.93  Aligned_cols=44  Identities=27%  Similarity=0.619  Sum_probs=37.9

Q ss_pred             cCcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +...|+||++.+   ..++.+||+|. ||..|+..    ...||+||..+..
T Consensus        24 ~~~~C~IC~~~~---~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSC---CCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCC---CCEEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            356899999999   78888999999 99999954    4789999998864

>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=98.45  E-value=4.6e-08  Score=72.99  Aligned_cols=52  Identities=10%  Similarity=0.152  Sum_probs=45.6

Q ss_pred             CcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~  295 (375)
                      .+.|+||++.+   .+++.+ +|||+|.+.||.+||..+.+||+++..|...++.+
T Consensus         3 ~~~CpIs~~~m---~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             eEEecCCCCCC---CCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEE
Confidence            36899999999   788998 89999999999999998888999999987666543

>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=98.43  E-value=4.1e-08  Score=76.74  Aligned_cols=44  Identities=32%  Similarity=0.767  Sum_probs=38.8

Q ss_pred             cCcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +...|.||++.+   ..++.+||||. ||..|+..|    ..||+||..+..
T Consensus        17 ~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEE---INSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSB---CCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCccc---CcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            457899999999   88999999999 999999887    389999998764

>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=98.42  E-value=4.9e-08  Score=92.61  Aligned_cols=60  Identities=18%  Similarity=0.382  Sum_probs=48.9

Q ss_pred             ccccccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcC--CCCCC--cCcccCCCCCCCch
Q 017252          235 SVKIEETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELH--SSCPV--CRCQLPADEFKPES  297 (375)
Q Consensus       235 ~~~~~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~--~sCP~--CR~~l~~~~~~~~~  297 (375)
                      .......+.|+||++.|   ..|+.. .|||.||+.||..|+..+  ..||+  |+..+....+.+..
T Consensus       175 v~~~~~el~CPIcl~~f---~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~  239 (267)
T 3htk_C          175 IEGGKIELTCPITCKPY---EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDP  239 (267)
T ss_dssp             CCSSBCCSBCTTTSSBC---SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECH
T ss_pred             ecCCceeeECcCccCcc---cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCH
Confidence            33445589999999999   888875 899999999999999764  46999  99988877665543

>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=98.41  E-value=6.5e-08  Score=95.45  Aligned_cols=45  Identities=29%  Similarity=0.747  Sum_probs=40.4

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +++...|+||++.+   ..++.+||||. ||..|+..|    ..||+||..+.
T Consensus       292 l~~~~~C~IC~~~~---~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          292 LQEERTCKVCMDKE---VSVVFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HHTTCBCTTTSSSB---CCEEEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CcCCCCCCccCCcC---CceEEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            34578999999999   88999999999 999999988    78999999875

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

Probab=98.40  E-value=2.1e-07  Score=70.62  Aligned_cols=44  Identities=25%  Similarity=0.697  Sum_probs=38.4

Q ss_pred             cCcccccccCCccCCCceEEcCCCCc-cchhchHHHHhcCCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHK-FHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~-Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +...|.||++.+   ..++.+||+|. ||..|+..    ...||+||..+..
T Consensus        14 ~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGT---VNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSC---CCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCC---CCEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            467899999998   88999999999 99999873    4789999998754

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

Probab=98.37  E-value=9.6e-08  Score=93.69  Aligned_cols=51  Identities=27%  Similarity=0.716  Sum_probs=39.6

Q ss_pred             cCcccccccCCccC-CCceE----EcCCCCccchhchHHHHhcC-----------CCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEI-GTEAK----EMPCKHKFHSQCILPWLELH-----------SSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~-~~~~~----~lpCgH~Fh~~Ci~~WL~~~-----------~sCP~CR~~l~~  290 (375)
                      ....|+||++.+.. +..+.    ..+|+|.||..||.+||+..           ..||+||+++..
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            46789999999965 33332    24699999999999999742           359999998764

>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=98.28  E-value=2.6e-07  Score=73.92  Aligned_cols=48  Identities=27%  Similarity=0.683  Sum_probs=37.3

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhc--------CCCCCC--cCcc
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL--------HSSCPV--CRCQ  287 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~--------~~sCP~--CR~~  287 (375)
                      +...|+||++.+........++|+|.||..||..|+..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35789999999854433344579999999999999863        136999  9987

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

Probab=98.24  E-value=4.1e-07  Score=67.60  Aligned_cols=48  Identities=19%  Similarity=0.690  Sum_probs=37.6

Q ss_pred             cCcccccccCCccCCCceEEcCCC--C---ccchhchHHHHhc--CCCCCCcCcccCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCK--H---KFHSQCILPWLEL--HSSCPVCRCQLPA  290 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCg--H---~Fh~~Ci~~WL~~--~~sCP~CR~~l~~  290 (375)
                      +...|.||++..   .....+||.  +   .||..||.+|+..  +.+||+|++.+..
T Consensus         5 ~~~~CrIC~~~~---~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEEL---GNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEEC---SCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCC---CCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            467899999975   334468955  4   9999999999964  5689999988753

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

Probab=97.65  E-value=2.3e-05  Score=63.81  Aligned_cols=45  Identities=24%  Similarity=0.544  Sum_probs=37.8

Q ss_pred             ccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccC
Q 017252          243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLP  289 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~  289 (375)
                      .|.+|--.+.  ...+.+||+|+||.+|+..|.+ ..++||.|+..+.
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            5888887774  5678889999999999999985 4678999998775

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

Probab=97.53  E-value=9.9e-05  Score=69.11  Aligned_cols=49  Identities=20%  Similarity=0.604  Sum_probs=39.6

Q ss_pred             CcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCC--CCCCcCcccCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHS--SCPVCRCQLPADE  292 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~--sCP~CR~~l~~~~  292 (375)
                      ...|.||.+.+..+   +.-+ |+|.||..|+..|++.+.  .||.|+..++...
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            56899999999543   4444 999999999999997654  8999999876553

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=92.28  E-value=0.047  Score=43.36  Aligned_cols=33  Identities=21%  Similarity=0.577  Sum_probs=25.9

Q ss_pred             cCcccccccCCccCCCceEE--cCCCCccchhchHHH
Q 017252          240 ETLQCSVCLDDFEIGTEAKE--MPCKHKFHSQCILPW  274 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~--lpCgH~Fh~~Ci~~W  274 (375)
                      ++..|.||++.+.  ..++.  +.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~--~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPA--QDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSC--CBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCC--CCceEECCcCChHHhHHHCHHH
Confidence            3578999997642  44555  899999999999983

>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=91.04  E-value=0.14  Score=56.42  Aligned_cols=58  Identities=16%  Similarity=0.216  Sum_probs=50.2

Q ss_pred             ccCcccccccCCccCCCceEEcCCC-CccchhchHHHHhcCCCCCCcCcccCCCCCCCchhc
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCK-HKFHSQCILPWLELHSSCPVCRCQLPADEFKPESER  299 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCg-H~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~~~~  299 (375)
                      -+.+.|+|-++.+   .+|+.+|.| +.|-+.+|.+||..+.+||+=|.+|....+.|..+-
T Consensus       889 P~~F~cPIs~~lM---~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~L  947 (968)
T 3m62_A          889 PDEFLDPLMYTIM---KDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEEL  947 (968)
T ss_dssp             CGGGBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHH
T ss_pred             cHHhCCcchhhHH---hCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHH
Confidence            3478999999999   999999997 689999999999989999999999987766665443

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=90.49  E-value=0.17  Score=41.89  Aligned_cols=34  Identities=24%  Similarity=0.433  Sum_probs=27.3

Q ss_pred             CCceeccccCcceeccCCCCc-cCCCCCCCceeecc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEI-KCPFCQSGFVEEMG   41 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~-~CP~C~~gFvEEm~   41 (375)
                      ...|||..|...+... .... +||.|++..++-+.
T Consensus        71 p~~~~C~~CG~~~e~~-~~~~~~CP~Cgs~~~~i~~  105 (119)
T 2kdx_A           71 KVELECKDCSHVFKPN-ALDYGVCEKCHSKNVIITQ  105 (119)
T ss_dssp             CCEEECSSSSCEECSC-CSTTCCCSSSSSCCCEEEE
T ss_pred             cceEEcCCCCCEEeCC-CCCCCcCccccCCCcEEec
Confidence            4689999999998775 4567 99999999776444

>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=85.87  E-value=0.47  Score=37.30  Aligned_cols=33  Identities=24%  Similarity=0.524  Sum_probs=23.6

Q ss_pred             cccCcccccccCCccCCCceEEcC---CCCccchhchHHH
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMP---CKHKFHSQCILPW  274 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lp---CgH~Fh~~Ci~~W  274 (375)
                      +..+..|.||--.-    .-..+|   |+-+||..|+.+.
T Consensus        12 ~~~D~~C~VC~~~t----~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCEVWT----AESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTCCCC----SSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCCcccCcccccc----ccceeccccccccccHhhcccc
Confidence            34578999997432    122344   8899999999986

>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X

Probab=84.55  E-value=0.47  Score=33.18  Aligned_cols=32  Identities=19%  Similarity=0.539  Sum_probs=21.7

Q ss_pred             CceeccccCcceecc---CCCCccCCCCCCCceee
Q 017252            8 SRYWCHMCSQIVDPI---MEVEIKCPFCQSGFVEE   39 (375)
Q Consensus         8 ~~ywCh~C~~~V~~~---~~~e~~CP~C~~gFvEE   39 (375)
                      ..|-|-.|-+.++-.   .-.+|+||+|+=--+.-
T Consensus         2 ~iY~C~rCg~~fs~~el~~lP~IrCpyCGyrii~K   36 (48)
T 4ayb_P            2 AVYRCGKCWKTFTDEQLKVLPGVRCPYCGYKIIFM   36 (48)
T ss_dssp             ---CCCCTTTTCCCCCSCCCSSSCCTTTCCSCEEC
T ss_pred             cEEEeeccCCCccHHHHhhCCCcccCccCcEEEEE
Confidence            358999999998432   24789999998655543

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

Probab=84.54  E-value=0.69  Score=34.46  Aligned_cols=44  Identities=25%  Similarity=0.527  Sum_probs=31.0

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC----CCCCcCcc
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS----SCPVCRCQ  287 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~----sCP~CR~~  287 (375)
                      ...|.||.+.-   ..+.=-.|...||..|+.+.|....    .||.|...
T Consensus        12 ~~~C~vC~~~~---~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           12 GARCGVCGDGT---DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TCCCTTTSCCT---TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCcCCCCCCC---eEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            56799998542   3222223899999999998886433    59999754

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=83.10  E-value=0.62  Score=39.70  Aligned_cols=32  Identities=25%  Similarity=0.372  Sum_probs=25.0

Q ss_pred             CCceeccccCcceeccC----------CC----------CccCCCCCCCcee
Q 017252            7 ASRYWCHMCSQIVDPIM----------EV----------EIKCPFCQSGFVE   38 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~----------~~----------e~~CP~C~~gFvE   38 (375)
                      ..++||..|...+.+..          +.          ..+||.|++.-++
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~~  119 (139)
T 3a43_A           68 EAVFKCRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDFE  119 (139)
T ss_dssp             CCEEEETTTCCEEEGGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCEE
T ss_pred             CCcEECCCCCCEEecccccccccccccccccccccccccCCcCccccCCccE
Confidence            46899999999986642          03          5789999998776

>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=80.44  E-value=1  Score=33.47  Aligned_cols=32  Identities=19%  Similarity=0.341  Sum_probs=27.2

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCcee
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGFVE   38 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gFvE   38 (375)
                      ...|-|-.|...|.+.....|+||.|+.-.+-
T Consensus        19 ~v~Y~C~~Cg~~~~l~~~~~iRC~~CG~RILy   50 (63)
T 3h0g_L           19 TMIYLCADCGARNTIQAKEVIRCRECGHRVMY   50 (63)
T ss_dssp             CCCCBCSSSCCBCCCCSSSCCCCSSSCCCCCB
T ss_pred             CeEEECCCCCCeeecCCCCceECCCCCcEEEE
Confidence            35799999999998887788999999986653

---

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	375
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	8e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-09
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	6e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	6e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 74.9 bits (184), Expect = 5e-18
 Identities = 22/52 (42%), Positives = 37/52 (71%), Gaps = 1/52 (1%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQL 288
           +++ ++C+VCL + E G EA+ +P C H FH++C+  WL  HS+CP+CR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 62.3 bits (151), Expect = 2e-13
 Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 2/56 (3%)

Query: 243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKPESE 298
           +C +CL+D      +  +PC H F   CI  W+  + +CP+C+  + +     ES+
Sbjct: 7   RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESD 60

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.3 bits (133), Expect = 5e-11
 Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 6/54 (11%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADE 292
            + L+C  C  + +     K +PC H   S C+         CP+C+   P   
Sbjct: 4   FQFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA 51

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.4 bits (133), Expect = 8e-11
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADE 292
                C +C ++ +   + K  PC H   + C+  W E     CP CRC++   E
Sbjct: 21  STFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 72

>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 = 9e-11
 Identities = 12/60 (20%), Positives = 17/60 (28%), Gaps = 3/60 (5%)

Query: 240 ETLQCSVCLDDFEIGTEAKEM--PCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFKPE 296
           +   C  C          K M   C H     C+         +CP C   L    F+ +
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

>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 = 53.6 bits (128), Expect = 5e-10
 Identities = 12/65 (18%), Positives = 20/65 (30%), Gaps = 15/65 (23%)

Query: 244 CSVCLDDF---------------EIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQL 288
           C++C +                           C H FH  CI  WL+    CP+   + 
Sbjct: 24  CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW 83

Query: 289 PADEF 293
              ++
Sbjct: 84  EFQKY 88

>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 = 53.9 bits (129), Expect = 6e-10
 Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 6/62 (9%)

Query: 237 KIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS---SCPVCRCQLPADEF 293
            +++ L+C +CL+      E     C H F   C+L  L        CP+C+  +     
Sbjct: 17  AMQKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

Query: 294 KP 295
           + 
Sbjct: 74  QE 75

>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 = 50.9 bits (121), Expect = 2e-09
 Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 2/52 (3%)

Query: 242 LQCSVCLDDFEIG-TEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPAD 291
           ++C +C++  EI         C ++    C        +  CP CR   P D
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 51.1 bits (122), Expect = 3e-09
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSS-CPVCRCQLPADEFKP 295
             +++ C +C        +  E  CKH F   CIL  L++  S CP CR      + + 
Sbjct: 20  FVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES 75

>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 = 50.6 bits (120), Expect = 6e-09
 Identities = 20/102 (19%), Positives = 38/102 (37%), Gaps = 15/102 (14%)

Query: 216 DPNRYGTPPAQKEAVEAMPSVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWL 275
           +P+  G     + A++     ++E+ L+CS C +            C+H F S C+    
Sbjct: 2   EPDGRGAWAHSRAALD-----RLEKLLRCSRCTNILREPV--CLGGCEHIFCSNCVSDC- 53

Query: 276 ELHSSCPVCRCQLPADEFKPES------ERSRNSSNHQREHE 311
            + + CPVC       + K         +      N   ++E
Sbjct: 54  -IGTGCPVCYTPAWIQDLKINRQLDSMIQLCSKLRNLLHDNE 94

>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 = 46.8 bits (110), Expect = 6e-08
 Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMP--CKHKFHSQCILPWLELH--SSCPVCR 285
           E+   C +C ++                  H  C+  WL +   ++C +C 
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>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 = 43.9 bits (103), Expect = 1e-06
 Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 8/56 (14%)

Query: 239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS--------SCPVCRC 286
             +  C +CL ++ +        C+  F + C+  ++EL          SCP   C
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC 58

>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 = 40.9 bits (95), Expect = 6e-06
 Identities = 5/54 (9%), Positives = 16/54 (29%), Gaps = 2/54 (3%)

Query: 242 LQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP 295
           + C++                +  F    +  +++   + P+    L  +E   
Sbjct: 1   MLCAISGKVPRRPV--LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE 52

>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 = 38.5 bits (88), Expect = 2e-04
 Identities = 9/30 (30%), Positives = 11/30 (36%), Gaps = 5/30 (16%)

Query: 261 PCKHKFHSQCILPWLE-----LHSSCPVCR 285
            C H FH  C+L             CP C+
Sbjct: 60  KCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 37.4 bits (86), Expect = 2e-04
 Identities = 12/62 (19%), Positives = 22/62 (35%), Gaps = 4/62 (6%)

Query: 235 SVKIEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEF 293
           S +  E  +C + L+      +   +     +    I  WL+  H +CP  +  L     
Sbjct: 2   SPEFPEYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL 58

Query: 294 KP 295
            P
Sbjct: 59  TP 60

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	375
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.49
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.29
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.2
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.2
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.17
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.16
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.15
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.15
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.14
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.13
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.07
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.04
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.01
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.01
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.82
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.79
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.13
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	86.66
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	84.91
d2dkta1	74	RING finger and CHY zinc finger domain-containing	81.85

>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=99.49  E-value=7.1e-15  Score=106.37  Aligned_cols=52  Identities=42%  Similarity=1.073  Sum_probs=46.8

Q ss_pred             cccCcccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      +++..+|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||+.|.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            356678999999999888888886 9999999999999999999999999874

>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=99.29  E-value=7e-13  Score=99.40  Aligned_cols=47  Identities=30%  Similarity=0.902  Sum_probs=41.2

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLP  289 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~  289 (375)
                      ...|+||++.|.  ..++.++|+|.||..||.+|++.+.+||+||+.+.
T Consensus         5 ~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            457999999994  34567899999999999999999999999998764

>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=99.20  E-value=4.3e-12  Score=97.85  Aligned_cols=49  Identities=31%  Similarity=0.858  Sum_probs=42.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHh-cCCCCCCcCcccCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLE-LHSSCPVCRCQLPADE  292 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~-~~~sCP~CR~~l~~~~  292 (375)
                      ...|+||++.+   ..++.++|||.||..||..||. +++.||+||..|....
T Consensus        23 ~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSB---CCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcC---CCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            35699999999   7889999999999999999997 4568999999987543

>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=99.20  E-value=7.2e-12  Score=102.38  Aligned_cols=53  Identities=21%  Similarity=0.568  Sum_probs=41.4

Q ss_pred             cCcccccccCCccC---------------CCceEEcCCCCccchhchHHHHhcC-----CCCCCcCcccCCCC
Q 017252          240 ETLQCSVCLDDFEI---------------GTEAKEMPCKHKFHSQCILPWLELH-----SSCPVCRCQLPADE  292 (375)
Q Consensus       240 ~~~~C~ICle~~~~---------------~~~~~~lpCgH~Fh~~Ci~~WL~~~-----~sCP~CR~~l~~~~  292 (375)
                      .+..|+||++.|..               ......++|+|.||..||..||+..     .+||+||+.+....
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            36789999998743               2235678899999999999999753     47999998875443

>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=99.17  E-value=2.7e-12  Score=91.36  Aligned_cols=49  Identities=22%  Similarity=0.529  Sum_probs=40.1

Q ss_pred             cccccccCCccCCCc-eEEcCCCCccchhchHHHHhcC-CCCCCcCcccCC
Q 017252          242 LQCSVCLDDFEIGTE-AKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPA  290 (375)
Q Consensus       242 ~~C~ICle~~~~~~~-~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~  290 (375)
                      .+|+||++.|..+.. ++.++|+|.||..||.+|++.. ..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            479999999965543 4556899999999999999864 469999998864

>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=99.16  E-value=4e-12  Score=91.78  Aligned_cols=50  Identities=12%  Similarity=0.218  Sum_probs=44.6

Q ss_pred             cccccccCCccCCCceEEcC-CCCccchhchHHHHhcCCCCCCcCcccCCCCCC
Q 017252          242 LQCSVCLDDFEIGTEAKEMP-CKHKFHSQCILPWLELHSSCPVCRCQLPADEFK  294 (375)
Q Consensus       242 ~~C~ICle~~~~~~~~~~lp-CgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~  294 (375)
                      +.|+||++.+   ..++.++ |||+||..||.+||+.+.+||+||.++..+++.
T Consensus         1 l~C~Ic~~~~---~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLi   51 (56)
T d2baya1           1 MLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV   51 (56)
T ss_dssp             CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCE
T ss_pred             CCCccCCchH---HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhce
Confidence            4699999999   8888875 999999999999999999999999998766553

>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=99.15  E-value=9.4e-12  Score=92.41  Aligned_cols=54  Identities=19%  Similarity=0.399  Sum_probs=42.1

Q ss_pred             cCcccccccCCccCC--CceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCC
Q 017252          240 ETLQCSVCLDDFEIG--TEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEF  293 (375)
Q Consensus       240 ~~~~C~ICle~~~~~--~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~  293 (375)
                      ++..|+||++.+...  .....++|+|.||..||..|++. +..||+||+.|.....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            467899999976432  23456789999999999999964 5579999998865443

>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=99.15  E-value=4.9e-12  Score=101.94  Aligned_cols=54  Identities=26%  Similarity=0.735  Sum_probs=45.3

Q ss_pred             ccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcCC---CCCCcCcccCCCCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS---SCPVCRCQLPADEFKP  295 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~---sCP~CR~~l~~~~~~~  295 (375)
                      ++.+.|+||++.|   ..++.++|||.||..||..|+....   .||+||..+....+.+
T Consensus        19 ~~~l~CpIC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~   75 (103)
T d1jm7a_          19 QKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE   75 (103)
T ss_dssp             HHHTSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBC
T ss_pred             ccCcCCCccCchh---CCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCc
Confidence            3467899999999   7788899999999999999997653   7999999987665443

>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=99.14  E-value=1.2e-11  Score=96.99  Aligned_cols=50  Identities=24%  Similarity=0.523  Sum_probs=41.7

Q ss_pred             CcccccccCCccCCC---------------ceEEcCCCCccchhchHHHHhcCCCCCCcCcccCC
Q 017252          241 TLQCSVCLDDFEIGT---------------EAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPA  290 (375)
Q Consensus       241 ~~~C~ICle~~~~~~---------------~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~  290 (375)
                      +..|+||++.+....               .+..++|+|.||..||.+||+.+.+||+||+++..
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            557999998884322               35778899999999999999999999999998753

>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=99.13  E-value=5.8e-12  Score=98.89  Aligned_cols=52  Identities=31%  Similarity=0.727  Sum_probs=44.8

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC-CCCCCcCcccCCCCCC
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEFK  294 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~~  294 (375)
                      +.+.|+||++.+   ..++.++|||.||..||..|++.+ ..||+||.++....+.
T Consensus        22 ~~l~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcch---hcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            357899999999   889999999999999999999754 5799999988755544

>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=99.07  E-value=1.9e-11  Score=88.33  Aligned_cols=47  Identities=28%  Similarity=0.651  Sum_probs=40.7

Q ss_pred             CcccccccCCccCCCceEEcCCCCccchhchHHHHhcCCCCCCcCcccCCCCC
Q 017252          241 TLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHSSCPVCRCQLPADEF  293 (375)
Q Consensus       241 ~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~  293 (375)
                      .+.|+||++.|   ..++.++|+|.||..||..|   +..||+||..+.....
T Consensus         6 ~l~C~IC~~~~---~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           6 FLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CSSCSSSCSSC---BCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCcccCccc---CCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            57999999999   77889999999999999876   5679999999875543

>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=99.04  E-value=4.8e-11  Score=91.75  Aligned_cols=56  Identities=20%  Similarity=0.265  Sum_probs=47.9

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhc-CCCCCCcCcccCCCCCCCc
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLEL-HSSCPVCRCQLPADEFKPE  296 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~-~~sCP~CR~~l~~~~~~~~  296 (375)
                      +.+++.|+||++.|   ..++.++|||.||..||..||.. +.+||+|+..+....+.+.
T Consensus         4 iP~~l~CpIc~~l~---~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN   60 (80)
T d2c2la2           4 IPDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN   60 (80)
T ss_dssp             CCSTTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEEC
T ss_pred             CCccccCcCcCchh---hhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccH
Confidence            44689999999999   88999999999999999999975 5579999998876655543

>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=99.01  E-value=8.9e-11  Score=89.71  Aligned_cols=55  Identities=18%  Similarity=0.475  Sum_probs=47.7

Q ss_pred             cccCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC-CCCCCcCcccCCCCCCC
Q 017252          238 IEETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH-SSCPVCRCQLPADEFKP  295 (375)
Q Consensus       238 ~~~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~-~sCP~CR~~l~~~~~~~  295 (375)
                      +.+++.|+||++.|   .+++.++|||.||+.||..|+... ..||.|+..+....+.+
T Consensus         5 iP~~l~CpIc~~~m---~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~p   60 (78)
T d1t1ha_           5 FPEYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTP   60 (78)
T ss_dssp             CSSSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEE
T ss_pred             CCccCCCcCcCchh---hCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccc
Confidence            44689999999999   889999999999999999999764 57999999987665544

>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=99.01  E-value=6.1e-11  Score=94.31  Aligned_cols=52  Identities=31%  Similarity=0.655  Sum_probs=43.1

Q ss_pred             ccCcccccccCCccCCCceEEc-CCCCccchhchHHHHhcCCCCCCcCcccCCCCCCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEM-PCKHKFHSQCILPWLELHSSCPVCRCQLPADEFKP  295 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~l-pCgH~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~  295 (375)
                      .+.+.|+||++.|   ..++.+ +|||.||..||..|+.  ..||+||..+....+.+
T Consensus        20 ~~~l~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~   72 (97)
T d1jm7b_          20 EKLLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (97)
T ss_dssp             HHTTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             hhcCCCccCCchh---hcCceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCcc
Confidence            3568999999999   667665 7999999999999985  45999999887666554

>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=98.82  E-value=1.1e-09  Score=87.45  Aligned_cols=58  Identities=16%  Similarity=0.232  Sum_probs=50.8

Q ss_pred             cCcccccccCCccCCCceEEcCCC-CccchhchHHHHhcCCCCCCcCcccCCCCCCCchhcc
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCK-HKFHSQCILPWLELHSSCPVCRCQLPADEFKPESERS  300 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCg-H~Fh~~Ci~~WL~~~~sCP~CR~~l~~~~~~~~~~~~  300 (375)
                      +++.|+||++.|   .+|++++|+ |.|++.||..||..+..||+|+..|....+.+.....
T Consensus        21 ~~f~CPI~~~lm---~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr   79 (98)
T d1wgma_          21 DEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELK   79 (98)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHH
T ss_pred             HHhCCcCchhHH---HHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHH
Confidence            479999999999   999999966 5899999999999999999999999888777655443

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.79  E-value=9.2e-10  Score=79.94  Aligned_cols=49  Identities=20%  Similarity=0.672  Sum_probs=38.1

Q ss_pred             ccCcccccccCCccCCCceEEcCC-----CCccchhchHHHHh--cCCCCCCcCcccCC
Q 017252          239 EETLQCSVCLDDFEIGTEAKEMPC-----KHKFHSQCILPWLE--LHSSCPVCRCQLPA  290 (375)
Q Consensus       239 ~~~~~C~ICle~~~~~~~~~~lpC-----gH~Fh~~Ci~~WL~--~~~sCP~CR~~l~~  290 (375)
                      ++...|.||++.+   ......+|     +|.||..||..|+.  .+.+||+||+.+..
T Consensus         4 ed~~~C~IC~~~~---~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEEL---GNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC---SCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccC---CCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            4567899999988   33444454     59999999999995  45589999998753

>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=98.13  E-value=3.6e-07  Score=71.23  Aligned_cols=47  Identities=26%  Similarity=0.696  Sum_probs=36.9

Q ss_pred             cCcccccccCCccCCCceEEcCCCCccchhchHHHHhcC--------CCCCCcCc
Q 017252          240 ETLQCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELH--------SSCPVCRC  286 (375)
Q Consensus       240 ~~~~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~--------~sCP~CR~  286 (375)
                      ....|+||++.+.....+..++|+|.||..||..|++.+        -.||.|..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            356899999999665666677899999999999999621        14998653

>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=86.66  E-value=0.15  Score=38.00  Aligned_cols=34  Identities=24%  Similarity=0.663  Sum_probs=25.8

Q ss_pred             ccccCcccccccCCccCCCceEEcC---CCCccchhchHHH
Q 017252          237 KIEETLQCSVCLDDFEIGTEAKEMP---CKHKFHSQCILPW  274 (375)
Q Consensus       237 ~~~~~~~C~ICle~~~~~~~~~~lp---CgH~Fh~~Ci~~W  274 (375)
                      .+..+..|.|| +.|.   .-.++|   |+.+||..|+.+.
T Consensus        11 ~v~~D~mC~vC-~v~t---~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWT---AESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCC---SSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-Cccc---ccceecceeecchhhHHHHHHh
Confidence            34557899999 7773   333456   7899999999986

>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=84.91  E-value=0.2  Score=33.29  Aligned_cols=44  Identities=30%  Similarity=0.550  Sum_probs=28.7

Q ss_pred             ccccccCCccCCCceEEcCCCCccchhchHHHHhcCC----CCCCcCc
Q 017252          243 QCSVCLDDFEIGTEAKEMPCKHKFHSQCILPWLELHS----SCPVCRC  286 (375)
Q Consensus       243 ~C~ICle~~~~~~~~~~lpCgH~Fh~~Ci~~WL~~~~----sCP~CR~  286 (375)
                      .|.||...-..+..+.=-.|...||..|+.+-+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5888976543222222223899999999988765322    4999964

>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CHY zinc finger-like
superfamily: CHY zinc finger-like
family: CHY zinc finger
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.85  E-value=0.46  Score=34.24  Aligned_cols=26  Identities=19%  Similarity=0.497  Sum_probs=20.9

Q ss_pred             CCceeccccCcceeccCCCCccCCCCCCCc
Q 017252            7 ASRYWCHMCSQIVDPIMEVEIKCPFCQSGF   36 (375)
Q Consensus         7 ~~~ywCh~C~~~V~~~~~~e~~CP~C~~gF   36 (375)
                      +.+.+||.|.... +.   ...||.|++.|
T Consensus        49 ~~~l~CH~Cg~~~-~~---~~~C~~Cgs~F   74 (74)
T d2dkta1          49 VKEVQCINCEKLQ-HA---QQTCEDCSTLF   74 (74)
T ss_dssp             CCCEEESSSCCEE-CS---CSBCSSSCCBS
T ss_pred             CCEEEeccCCCcc-cC---CCcCCCCCCCC
Confidence            6889999999864 33   35799999988