Citrus Sinensis ID: 048433

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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-------28
Protein Sequence
MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV
Secondary Structure (PSIPRED)
ccEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccEEEEEEEEEcccHHHHHHHHHHHcccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccHHHHHccccEEEEcccccccccccccccccccccccccHHHHHcccccccccccccccccEEccccccccEEEEcccccccccccHHHHHHcccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccHccccccccccccEEEEEcccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEcccccHHHHccHHHHHHHHHHHHHHHHHHHccHHHHHHHccccccccccccHHHHHHccccEEEEEccccccccccccccccHHHHHHHccEEEcccccEEEccccccEEEEEHHHcccccHHcEccccccccHHHHHHHHHHcccccEEEEEccccccccccccccccccc
Coil and Loop (DISEMBL)
msfvfrgtrgdiesgfpgfiaeqpavrihatrpvnVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLShtelrlhvppsiafatRGRLQGLRLQLALLDREFDELDYDtlraldsdntsttpsmseeeinslpvhkykvpgpasesvgssirqpsssaatpeqskqeskkadgstkssedeltcticleqvkcgelvrslpclhqfhancidpwlrqrgtcpvckfrmgsgwqenresesdssdmv
Flexible Loop (DISEMBL)
msfvfrgtrgdiesgfpgFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLRaldsdntsttpsmseeeinslPVHKYKVPGPASESvgssirqpsssaatpeqskqeskkadgstkssedelTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRmgsgwqenresesdssdmv
Low Complexity Region (SEG)
MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSlaflvivlllfmilNSHQMSPNFLLWLVVGVFLIATSLRMYATCqqlqaqarahaaaaSGLLSHTELRLHVPPSIAFATrgrlqglrlqlallDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV
Disordered region (IsUnstruct)
****FRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLR**********************************************************************LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS****************
Disordered Region (DISOPRED)
*SFVFR*TRGDIESGFPGFIAEQPA***********NSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYA**************************LHVP***********************EFDELDY*************************************************************************ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVC**********************
Disordered Region (DISEMBL)
MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQ************SGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLRALDSD************INSLPVHKYKV******************************************LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG***************
Disordered Region (DISPRO)
*SFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPA*********Q*SSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS****************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGRLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV
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	279	2.2.26 [Sep-21-2011]
Q9M2S6	273	E3 ubiquitin-protein liga	yes	no	0.974	0.996	0.732	1e-109
Q9C1X4	513	Uncharacterized RING fing	yes	no	0.236	0.128	0.424	2e-11
Q6AY01	381	E3 ubiquitin-protein liga	yes	no	0.254	0.186	0.452	7e-11
Q8VEM1	419	E3 ubiquitin-protein liga	yes	no	0.258	0.171	0.378	1e-10
Q6Y290	419	E3 ubiquitin-protein liga	no	no	0.258	0.171	0.378	1e-10
Q9ULK6	438	RING finger protein 150 O	yes	no	0.207	0.132	0.466	1e-10
Q06003	461	Protein goliath OS=Drosop	no	no	0.222	0.134	0.451	1e-10
Q86XS8	419	E3 ubiquitin-protein liga	no	no	0.258	0.171	0.378	2e-10
Q68DV7	783	E3 ubiquitin-protein liga	no	no	0.240	0.085	0.417	2e-10
Q90972	381	E3 ubiquitin-protein liga	no	no	0.240	0.175	0.420	2e-10

>sp|Q9M2S6|SDIR1_ARATH E3 ubiquitin-protein ligase SDIR1 OS=Arabidopsis thaliana GN=SDIR1 PE=1 SV=1

 Score =  393 bits (1010), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/280 (73%), Positives = 236/280 (84%), Gaps = 8/280 (2%)

Query: 1   MSFVFRGTRGDIESGFPG-FIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSP 59
           MSFVFRG+RGD+ESGF G F+ E+ A+R+H  RPVN NSLAFLV VLLLFMILNSHQM P
Sbjct: 1   MSFVFRGSRGDLESGFSGGFLPERRAMRVHGARPVNSNSLAFLVTVLLLFMILNSHQMPP 60

Query: 60  NFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRG 119
           NFLLWLV+GVFL+AT+LRMYATCQQLQA A+A AAAASGL SHTELRLHVPPSIA ATRG
Sbjct: 61  NFLLWLVLGVFLMATTLRMYATCQQLQAHAQAQAAAASGLFSHTELRLHVPPSIALATRG 120

Query: 120 RLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
           RLQGLRLQLALLDREFD+LDY+TLRALDSDN STT SMSEEEIN+LPVHKYKV  P +  
Sbjct: 121 RLQGLRLQLALLDREFDDLDYETLRALDSDNVSTT-SMSEEEINALPVHKYKVLDPEN-- 177

Query: 180 VGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
            G S+ + +S++++ E+       A+ S K +EDELTC++CLEQV  GE+VR+LPCLHQF
Sbjct: 178 -GCSLAKQASTSSSAEKMLD---SANESKKGTEDELTCSVCLEQVTVGEIVRTLPCLHQF 233

Query: 240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           HA CIDPWLRQ+GTCPVCKFR  SGWQE  E + D+SDMV
Sbjct: 234 HAGCIDPWLRQQGTCPVCKFRAHSGWQEQDEIDDDASDMV 273

E3 ubiquitin-protein ligase that acts as a positive regulator of abscisic acid-related stress signal transduction.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9C1X4|YKW3_SCHPO Uncharacterized RING finger protein P32A8.03c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAP32A8.03c PE=4 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 28/66 (42%), Positives = 40/66 (60%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRES 271
           ++E  CTIC+E  K  + V  LPC H FH NCI PWLR  GTC +C+  +    Q+   +
Sbjct: 391 DEEGECTICMEMFKINDDVIQLPCKHYFHENCIKPWLRVNGTCAICRAPVDPNSQQRNNT 450

Query: 272 ESDSSD 277
            +DS++
Sbjct: 451 STDSAN 456

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q6AY01|RN133_RAT E3 ubiquitin-protein ligase RNF133 OS=Rattus norvegicus GN=Rnf133 PE=2 SV=1

 Score = 68.2 bits (165), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 33/73 (45%), Positives = 42/73 (57%), Gaps = 2/73 (2%)

Query: 205 DGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRM--G 262
           +G  + S +  +C IC E  K  E+VR L C H FH NCIDPW+   GTCP+CK  +   
Sbjct: 244 EGDEEVSPNADSCVICFEAYKPNEIVRILTCKHFFHKNCIDPWILAHGTCPMCKCDILKA 303

Query: 263 SGWQENRESESDS 275
            G Q + E  SDS
Sbjct: 304 LGIQMDIEDGSDS 316

Has E3 ubiquitin-protein ligase activity.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8VEM1|GOLI_MOUSE E3 ubiquitin-protein ligase RNF130 OS=Mus musculus GN=Rnf130 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 2/74 (2%)

Query: 188 SSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPW 247
           ++  A  + + +  KK D  T    D   C +C+E  K  ++VR LPC H FH +C+DPW
Sbjct: 237 AAKKAISKLTTRTVKKGDKETDPDFDH--CAVCIESYKQNDVVRVLPCKHVFHKSCVDPW 294

Query: 248 LRQRGTCPVCKFRM 261
           L +  TCP+CK  +
Sbjct: 295 LSEHCTCPMCKLNI 308

Acts as an E3 ubiquitin-protein ligase (By similarity). May have a role during the programmed cell death of hematopoietic cells.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6Y290|GOLI_RAT E3 ubiquitin-protein ligase RNF130 OS=Rattus norvegicus GN=Rnf130 PE=1 SV=1

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 2/74 (2%)

Query: 188 SSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPW 247
           ++  A  + + +  KK D  T    D   C +C+E  K  ++VR LPC H FH +C+DPW
Sbjct: 237 AAKKAISKLTTRTVKKGDKETDPDFDH--CAVCIESYKQNDVVRVLPCKHVFHKSCVDPW 294

Query: 248 LRQRGTCPVCKFRM 261
           L +  TCP+CK  +
Sbjct: 295 LSEHCTCPMCKLNI 308

Acts as an E3 ubiquitin-protein ligase (By similarity). May have a role during the programmed cell death of hematopoietic cells.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9ULK6|RN150_HUMAN RING finger protein 150 OS=Homo sapiens GN=RNF150 PE=2 SV=2

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 37/60 (61%), Gaps = 2/60 (3%)

Query: 202 KKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRM 261
           KK D  T+S  D   C +C+E  K  ++VR LPC H FH +C+DPWL    TCP+CK  +
Sbjct: 265 KKGDKETESDFD--NCAVCIEGYKPNDVVRILPCRHLFHKSCVDPWLLDHRTCPMCKMNI 322

Homo sapiens (taxid: 9606)

>sp|Q06003|GOLI_DROME Protein goliath OS=Drosophila melanogaster GN=gol PE=2 SV=3

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 36/62 (58%)

Query: 198 KQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVC 257
           K  +K    S +   D   C IC+E  K  + +R LPC H+FH NCIDPWL +  TCP+C
Sbjct: 284 KIPTKTGKFSDEKDLDSDCCAICIEAYKPTDTIRILPCKHEFHKNCIDPWLIEHRTCPMC 343

Query: 258 KF 259
           K 
Sbjct: 344 KL 345

Regulation of gene expression during embryonic mesoderm formation. Putative role as transcription factor.

Drosophila melanogaster (taxid: 7227)

>sp|Q86XS8|GOLI_HUMAN E3 ubiquitin-protein ligase RNF130 OS=Homo sapiens GN=RNF130 PE=1 SV=1

 Score = 67.0 bits (162), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 2/74 (2%)

Query: 188 SSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPW 247
           ++  A  + + +  KK D  T    D   C +C+E  K  ++VR LPC H FH +C+DPW
Sbjct: 237 AAKKAISKLTTRTVKKGDKETDPDFDH--CAVCIESYKQNDVVRILPCKHVFHKSCVDPW 294

Query: 248 LRQRGTCPVCKFRM 261
           L +  TCP+CK  +
Sbjct: 295 LSEHCTCPMCKLNI 308

May have a role during the programmed cell death of hematopoietic cells (By similarity). Acts as an E3 ubiquitin-protein ligase.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q68DV7|RNF43_HUMAN E3 ubiquitin-protein ligase RNF43 OS=Homo sapiens GN=RNF43 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 38/67 (56%)

Query: 198 KQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVC 257
           +Q   +   S  S      C ICLE+   G+ +R + CLH+FH NC+DPWL Q  TCP+C
Sbjct: 253 RQARGEWPDSGSSCSSAPVCAICLEEFSEGQELRVISCLHEFHRNCVDPWLHQHRTCPLC 312

Query: 258 KFRMGSG 264
            F +  G
Sbjct: 313 MFNITEG 319

Probable E3 ubiquitin-protein ligase. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfer the ubiquitin to targeted substrates.

Homo sapiens (taxid: 9606)

>sp|Q90972|RNF13_CHICK E3 ubiquitin-protein ligase RNF13 OS=Gallus gallus GN=RNF13 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 45/69 (65%), Gaps = 2/69 (2%)

Query: 209 KSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL-RQRGTCPVCKFRMGSGWQE 267
           K  ++   C ICL++ + G+ +R LPC H +H  C+DPWL + + TCPVCK ++    Q 
Sbjct: 232 KKGDEYDVCAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKTCPVCKQKVVPS-QG 290

Query: 268 NRESESDSS 276
           + +SE+DSS
Sbjct: 291 DSDSETDSS 299

E3 ubiquitin-protein ligase. May play a role in controlling cell proliferation, including that of muscle cells.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	279
224104393	275	predicted protein [Populus trichocarpa]	0.985	1.0	0.827	1e-123
359478923	279	PREDICTED: E3 ubiquitin-protein ligase S	0.996	0.996	0.778	1e-115
255559032	397	protein binding protein, putative [Ricin	0.971	0.682	0.723	1e-112
359486786	275	PREDICTED: E3 ubiquitin-protein ligase S	0.985	1.0	0.749	1e-111
449441410	275	PREDICTED: E3 ubiquitin-protein ligase S	0.971	0.985	0.764	1e-110
307136233	275	protein binding protein [Cucumis melo su	0.971	0.985	0.764	1e-110
297820308	272	zinc finger family protein [Arabidopsis	0.974	1.0	0.749	1e-108
363807434	274	uncharacterized protein LOC100816448 [Gl	0.982	1.0	0.734	1e-108
15233298	273	E3 ubiquitin-protein ligase SDIR1 [Arabi	0.974	0.996	0.732	1e-107
242041429	280	hypothetical protein SORBIDRAFT_01g03974	0.978	0.975	0.681	1e-106

>gi|224104393|ref|XP_002313422.1| predicted protein [Populus trichocarpa] gi|222849830|gb|EEE87377.1| predicted protein [Populus trichocarpa]

 Score =  446 bits (1147), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 231/279 (82%), Positives = 252/279 (90%), Gaps = 4/279 (1%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSFVFRG+RGDIESGF GFI E+PAVRIHA RPVN NSLAFLV VLLLFMILNSHQMSPN
Sbjct: 1   MSFVFRGSRGDIESGFSGFIPERPAVRIHAARPVNSNSLAFLVTVLLLFMILNSHQMSPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FLLWLVVGVFL+ATSLRMYATCQQLQAQARAHAAAASGL+ HTELRLH+PPSIAFATRGR
Sbjct: 61  FLLWLVVGVFLMATSLRMYATCQQLQAQARAHAAAASGLMGHTELRLHMPPSIAFATRGR 120

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLDREFD+LDYDTLRALDS N STT SM+EEEIN+LPVHKYKVP    +  
Sbjct: 121 LQGLRLQLALLDREFDDLDYDTLRALDSGNASTT-SMTEEEINALPVHKYKVP---VQEN 176

Query: 181 GSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFH 240
           GS+  Q +SS++ P ++KQ+SK ADG+ K+SEDELTCTICLEQV  GELVRSLPCLHQFH
Sbjct: 177 GSASLQHASSSSAPAETKQDSKNADGNMKTSEDELTCTICLEQVNRGELVRSLPCLHQFH 236

Query: 241 ANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
            NCIDPWLRQ+GTCPVCKF +GSGWQE+RESESD SDMV
Sbjct: 237 TNCIDPWLRQQGTCPVCKFLIGSGWQESRESESDGSDMV 275

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478923|ref|XP_002283232.2| PREDICTED: E3 ubiquitin-protein ligase SDIR1 [Vitis vinifera] gi|297746043|emb|CBI16099.3| unnamed protein product [Vitis vinifera]

 Score =  419 bits (1078), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 218/280 (77%), Positives = 245/280 (87%), Gaps = 2/280 (0%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSFVFRG+R DIESG PGFI ++PAVR+H  RPVN NSLAFLV VLLLFMILNSHQMSPN
Sbjct: 1   MSFVFRGSRADIESGLPGFIPQRPAVRLHPARPVNTNSLAFLVTVLLLFMILNSHQMSPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FLLWLVVG F +ATSLRMYATCQQLQA A+AHAAAASGLL HTELRL +PPSIAFATRGR
Sbjct: 61  FLLWLVVGFFFMATSLRMYATCQQLQAHAQAHAAAASGLLGHTELRLRMPPSIAFATRGR 120

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLDREFD+LDY+TLR+LDSDNTS+T S+SEEEIN+LPVHKYKV GP SE  
Sbjct: 121 LQGLRLQLALLDREFDDLDYETLRSLDSDNTSST-SLSEEEINALPVHKYKVTGPQSEGS 179

Query: 181 GSSIRQPSSSAAT-PEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
                  SS++A   E+++Q+S+K D S K SEDELTC+ICLEQV  GELVRSLPCLHQF
Sbjct: 180 SMQQAASSSASAEFDEKARQDSRKGDSSMKGSEDELTCSICLEQVNRGELVRSLPCLHQF 239

Query: 240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           HANCIDPWLRQ+GTCPVCKFR+G+GWQE+RESE D ++MV
Sbjct: 240 HANCIDPWLRQQGTCPVCKFRVGAGWQESRESEIDDAEMV 279

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559032|ref|XP_002520539.1| protein binding protein, putative [Ricinus communis] gi|223540381|gb|EEF41952.1| protein binding protein, putative [Ricinus communis]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 201/278 (72%), Positives = 236/278 (84%), Gaps = 7/278 (2%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSF FRG+RGD+E+GFP F  E+P +RIH  RPVN NSLAFLV VLLLFMILNSHQ+SPN
Sbjct: 1   MSFAFRGSRGDVETGFPTFFTERPNLRIHTARPVNSNSLAFLVTVLLLFMILNSHQISPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FLLW+VV VFL+ATSLR++ATCQQ     R+H AAASGL+ HTELRLH+PPS+AFATRGR
Sbjct: 61  FLLWIVVIVFLMATSLRIFATCQQ----PRSHTAAASGLVGHTELRLHMPPSVAFATRGR 116

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLD EFD+LDY+TLRALDSDN S   SMSEEEIN+LPVHKYKVP   SE+ 
Sbjct: 117 LQGLRLQLALLDHEFDDLDYETLRALDSDNASAAHSMSEEEINALPVHKYKVP--RSEN- 173

Query: 181 GSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFH 240
             + +Q +SS++ P +  Q+S+K++G+ K+ EDELTC+ICLEQV  GE+VRSLPCLHQFH
Sbjct: 174 ACTSQQQASSSSAPTEMTQDSRKSEGTVKALEDELTCSICLEQVNKGEIVRSLPCLHQFH 233

Query: 241 ANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDM 278
            NCIDPWLRQ+GTCPVCKFR+GSGWQE+ ES SD SDM
Sbjct: 234 TNCIDPWLRQQGTCPVCKFRIGSGWQESAESISDGSDM 271

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486786|ref|XP_002283148.2| PREDICTED: E3 ubiquitin-protein ligase SDIR1-like [Vitis vinifera] gi|296086209|emb|CBI31650.3| unnamed protein product [Vitis vinifera]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 209/279 (74%), Positives = 234/279 (83%), Gaps = 4/279 (1%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSFVFRG+R DIESGFPGFI E+ AVR+HA RPVN NSLAFLV VLLLFMILNSHQMSPN
Sbjct: 1   MSFVFRGSRADIESGFPGFIPERRAVRVHAARPVNTNSLAFLVTVLLLFMILNSHQMSPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FL+WLV+G+FL+AT+LRMYATCQQLQAQA+AHAAAASGLL HTELRLH+PPSIA ATRGR
Sbjct: 61  FLIWLVLGIFLMATTLRMYATCQQLQAQAQAHAAAASGLLGHTELRLHMPPSIALATRGR 120

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLDREFD+LDY+TLRALDS+N  TTPSMSEEEIN+LPVHKYKV G      
Sbjct: 121 LQGLRLQLALLDREFDDLDYETLRALDSENVPTTPSMSEEEINALPVHKYKVAGTQGGGS 180

Query: 181 GSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFH 240
                  S+SA    + KQ+   A  STK+ +DELTC++CLEQV  GEL+RSLPCLHQFH
Sbjct: 181 SMQQGSSSASA----EKKQDINNAVASTKAPDDELTCSVCLEQVNVGELIRSLPCLHQFH 236

Query: 241 ANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           ANCIDPWLRQ+GTCPVCKFR   GWQEN +   D+S MV
Sbjct: 237 ANCIDPWLRQQGTCPVCKFRAAPGWQENGQGGMDASYMV 275

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441410|ref|XP_004138475.1| PREDICTED: E3 ubiquitin-protein ligase SDIR1-like [Cucumis sativus]

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 211/276 (76%), Positives = 240/276 (86%), Gaps = 5/276 (1%)

Query: 1   MSFVFRGTR-GDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSP 59
           MSFVFRGTR  DIE+G  GFI E+ A+R+HA RPVN NSLAFLV VLLLFMILNSHQMSP
Sbjct: 1   MSFVFRGTRVPDIENGLSGFIPERRAMRVHAARPVNSNSLAFLVTVLLLFMILNSHQMSP 60

Query: 60  NFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRG 119
           NFLLWLV+GVFL+AT+LRMYATCQQLQAQA+A A AASGLL HTELRLH+PPSIA ATRG
Sbjct: 61  NFLLWLVLGVFLMATTLRMYATCQQLQAQAQARAMAASGLLGHTELRLHMPPSIALATRG 120

Query: 120 RLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
           RLQGLRLQLALLDREFD+LDY+TLRALDSDN  TTPSMSEE+IN+LPVHKYKV GP S+ 
Sbjct: 121 RLQGLRLQLALLDREFDDLDYETLRALDSDNAPTTPSMSEEQINALPVHKYKVSGPQSD- 179

Query: 180 VGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
             SS+ Q +SS+ + E+ +Q+S  A GSTK+SEDELTC++CLEQV  GEL+RSLPCLHQF
Sbjct: 180 --SSVNQQASSSESIEK-RQDSVNAVGSTKTSEDELTCSVCLEQVNVGELIRSLPCLHQF 236

Query: 240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDS 275
           HANCIDPWLRQ+GTCPVCKFR  SGW E  + E+D+
Sbjct: 237 HANCIDPWLRQQGTCPVCKFRAVSGWSEQEQGETDA 272

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136233|gb|ADN34069.1| protein binding protein [Cucumis melo subsp. melo]

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 211/276 (76%), Positives = 240/276 (86%), Gaps = 5/276 (1%)

Query: 1   MSFVFRGTR-GDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSP 59
           MSFVFRGTR  DIE+G  GFI E+ A+R+HA RPVN NSLAFLV VLLLFMILNSHQMSP
Sbjct: 1   MSFVFRGTRVPDIENGLSGFIPERRAMRVHAARPVNSNSLAFLVTVLLLFMILNSHQMSP 60

Query: 60  NFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRG 119
           NFLLWLV+GVFL+AT+LRMYATCQQLQAQA+A A AASGLL HTELRLH+PPSIA ATRG
Sbjct: 61  NFLLWLVLGVFLMATTLRMYATCQQLQAQAQARAMAASGLLGHTELRLHMPPSIALATRG 120

Query: 120 RLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
           RLQGLRLQLALLDREFD+LDY+TLRALDSDN  TTPSMSEE+IN+LPVHKYKV GP S+ 
Sbjct: 121 RLQGLRLQLALLDREFDDLDYETLRALDSDNAPTTPSMSEEQINALPVHKYKVSGPQSD- 179

Query: 180 VGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
             SS+ Q +SS+ + E+ +Q+S  A GSTK+SEDELTC++CLEQV  GEL+RSLPCLHQF
Sbjct: 180 --SSVNQQASSSESNEK-RQDSVNAVGSTKTSEDELTCSVCLEQVNVGELIRSLPCLHQF 236

Query: 240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDS 275
           HANCIDPWLRQ+GTCPVCKFR  SGW E  + E+D+
Sbjct: 237 HANCIDPWLRQQGTCPVCKFRAVSGWSEQGQGETDA 272

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820308|ref|XP_002878037.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297323875|gb|EFH54296.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 209/279 (74%), Positives = 239/279 (85%), Gaps = 7/279 (2%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSFVFRG+RGD+ESGF GFI E+ A+R+H  RPVN NSLAFLV VLLLFMILNSHQM PN
Sbjct: 1   MSFVFRGSRGDLESGFSGFIPERRAMRVHGARPVNSNSLAFLVTVLLLFMILNSHQMPPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FLLWLV+GVFL+AT+LRMYATCQQLQAQA+AHAAAASGL SHTELRLHVPPSIA ATRGR
Sbjct: 61  FLLWLVLGVFLMATTLRMYATCQQLQAQAQAHAAAASGLFSHTELRLHVPPSIALATRGR 120

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLDREFD+LDY+TLRALDSDN STT SMSEEEIN+LPVHKYK   P +   
Sbjct: 121 LQGLRLQLALLDREFDDLDYETLRALDSDNVSTT-SMSEEEINALPVHKYKTLDPEN--- 176

Query: 181 GSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFH 240
           G S+ + +S++++ E+ KQ+S     S K +EDELTC++CLEQV  GE+VR+LPCLHQFH
Sbjct: 177 GCSLAKQASTSSSAEK-KQDS--VTESKKGTEDELTCSVCLEQVTVGEIVRTLPCLHQFH 233

Query: 241 ANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           A CIDPWLRQ+GTCPVCKFR  SGWQE  E + D+SDMV
Sbjct: 234 AGCIDPWLRQQGTCPVCKFRAHSGWQEQDEIDDDASDMV 272

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807434|ref|NP_001242131.1| uncharacterized protein LOC100816448 [Glycine max] gi|255641194|gb|ACU20874.1| unknown [Glycine max]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 205/279 (73%), Positives = 237/279 (84%), Gaps = 5/279 (1%)

Query: 1   MSFVFRGTRGDIESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPN 60
           MSFVFRGTR DIE+GFPGFI E+ A+R+HATRP N  SL F V VLLLFMILNSHQMSPN
Sbjct: 1   MSFVFRGTRADIENGFPGFIPERRALRVHATRPSNSTSLTFPVTVLLLFMILNSHQMSPN 60

Query: 61  FLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRGR 120
           FLLWLV+GVFL+AT LRMYATCQQLQ QA+AHAAAASG+L HTELRLH+PPSIA A+RGR
Sbjct: 61  FLLWLVLGVFLMATMLRMYATCQQLQVQAQAHAAAASGILGHTELRLHMPPSIALASRGR 120

Query: 121 LQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESV 180
           LQGLRLQLALLDREFD+LDY+TLRALDSDN ST PSM+EEEIN+LPVHKYKV GP S S 
Sbjct: 121 LQGLRLQLALLDREFDDLDYETLRALDSDNVSTAPSMTEEEINALPVHKYKVSGPQSGSS 180

Query: 181 GSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFH 240
                   +S++TP + KQ++  A GS K+S+DELTC++CLEQV  G+++RSLPCLHQFH
Sbjct: 181 SMQ----QTSSSTPAEKKQDNSTAVGSMKASDDELTCSVCLEQVDVGDVLRSLPCLHQFH 236

Query: 241 ANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           ANCIDPWLRQ+GTCPVCKFR GSGW +N  ++   +DMV
Sbjct: 237 ANCIDPWLRQQGTCPVCKFRAGSGWSDNGHNDI-IADMV 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233298|ref|NP_191112.1| E3 ubiquitin-protein ligase SDIR1 [Arabidopsis thaliana] gi|75311810|sp|Q9M2S6.1|SDIR1_ARATH RecName: Full=E3 ubiquitin-protein ligase SDIR1; AltName: Full=Protein salt- and drought-induced RING finger1 gi|14423516|gb|AAK62440.1|AF386995_1 putative protein [Arabidopsis thaliana] gi|7076796|emb|CAB75911.1| putative protein [Arabidopsis thaliana] gi|30023760|gb|AAP13413.1| At3g55530 [Arabidopsis thaliana] gi|222423557|dbj|BAH19748.1| AT3G55530 [Arabidopsis thaliana] gi|332645876|gb|AEE79397.1| E3 ubiquitin-protein ligase SDIR1 [Arabidopsis thaliana]

 Score =  393 bits (1010), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/280 (73%), Positives = 236/280 (84%), Gaps = 8/280 (2%)

Query: 1   MSFVFRGTRGDIESGFPG-FIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSP 59
           MSFVFRG+RGD+ESGF G F+ E+ A+R+H  RPVN NSLAFLV VLLLFMILNSHQM P
Sbjct: 1   MSFVFRGSRGDLESGFSGGFLPERRAMRVHGARPVNSNSLAFLVTVLLLFMILNSHQMPP 60

Query: 60  NFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATRG 119
           NFLLWLV+GVFL+AT+LRMYATCQQLQA A+A AAAASGL SHTELRLHVPPSIA ATRG
Sbjct: 61  NFLLWLVLGVFLMATTLRMYATCQQLQAHAQAQAAAASGLFSHTELRLHVPPSIALATRG 120

Query: 120 RLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
           RLQGLRLQLALLDREFD+LDY+TLRALDSDN STT SMSEEEIN+LPVHKYKV  P +  
Sbjct: 121 RLQGLRLQLALLDREFDDLDYETLRALDSDNVSTT-SMSEEEINALPVHKYKVLDPEN-- 177

Query: 180 VGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
            G S+ + +S++++ E+       A+ S K +EDELTC++CLEQV  GE+VR+LPCLHQF
Sbjct: 178 -GCSLAKQASTSSSAEKMLD---SANESKKGTEDELTCSVCLEQVTVGEIVRTLPCLHQF 233

Query: 240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           HA CIDPWLRQ+GTCPVCKFR  SGWQE  E + D+SDMV
Sbjct: 234 HAGCIDPWLRQQGTCPVCKFRAHSGWQEQDEIDDDASDMV 273

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242041429|ref|XP_002468109.1| hypothetical protein SORBIDRAFT_01g039740 [Sorghum bicolor] gi|241921963|gb|EER95107.1| hypothetical protein SORBIDRAFT_01g039740 [Sorghum bicolor]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 195/286 (68%), Positives = 229/286 (80%), Gaps = 13/286 (4%)

Query: 1   MSFVFRGTRGDIESG-FPGFIAEQPAVRIHA-TRPVNVNSLAFLVIVLLLFMILNSHQMS 58
           MSFVFRG+R DIE+G FPGF  E+ A+RIHA +RPVN NSLAFL+ VL+LFM+LNSHQMS
Sbjct: 1   MSFVFRGSRADIEAGGFPGFAPERRAMRIHAGSRPVNSNSLAFLLTVLVLFMVLNSHQMS 60

Query: 59  PNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHAAAASGLLSHTELRLHVPPSIAFATR 118
           PN LLWLV+GVFL+ATSLRMYATCQQL     AHAAAA+  L HTELR+HVPP+IA ATR
Sbjct: 61  PNLLLWLVLGVFLMATSLRMYATCQQL-----AHAAAANNFLGHTELRVHVPPTIALATR 115

Query: 119 GRLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVP----- 173
           GRLQ LRLQLALLDREFD+LDYDTLRALD+DN+  TPSMSEEEINSLPV KYKV      
Sbjct: 116 GRLQSLRLQLALLDREFDDLDYDTLRALDADNSPHTPSMSEEEINSLPVFKYKVQAQQGN 175

Query: 174 GPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSL 233
            PA +S G S    SS+ +  E+ KQ+  K+DG++K+ EDELTC++CLEQV  G+L+RSL
Sbjct: 176 APAQKSDGPSQLSVSSTGSGNEK-KQDGLKSDGTSKTPEDELTCSVCLEQVAVGDLLRSL 234

Query: 234 PCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
           PCLHQFH NCIDPWLRQ+GTCP+CK ++  GW      E D+S MV
Sbjct: 235 PCLHQFHVNCIDPWLRQQGTCPICKHQVSDGWHATGNGEEDASYMV 280

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	279
TAIR|locus:2100021	273	SDIR1 "SALT- AND DROUGHT-INDUC	0.974	0.996	0.596	7.2e-84
UNIPROTKB|G4N652	526	MGG_08571 "RING-7 protein" [Ma	0.480	0.254	0.335	1.3e-15
TAIR|locus:2010582	634	AT1G04790 [Arabidopsis thalian	0.186	0.082	0.547	5.2e-15
DICTYBASE|DDB_G0282479	320	DDB_G0282479 "E3 ubiquitin-pro	0.164	0.143	0.391	1.4e-12
DICTYBASE|DDB_G0293132	766	DDB_G0293132 "E3 ubiquitin-pro	0.394	0.143	0.325	3.3e-12
UNIPROTKB|D6RIE5	230	RNF150 "RING finger protein 15	0.207	0.252	0.466	9.1e-12
UNIPROTKB|J3KSE3	742	RNF43 "E3 ubiquitin-protein li	0.333	0.125	0.367	1e-11
UNIPROTKB|Q68DV7	783	RNF43 "E3 ubiquitin-protein li	0.333	0.118	0.367	1.1e-11
UNIPROTKB|I3LB70	577	LOC100738472 "Uncharacterized	0.189	0.091	0.438	2e-11
UNIPROTKB|F1S6C0	141	LOC100620409 "Uncharacterized	0.308	0.609	0.395	2.2e-11

TAIR|locus:2100021 SDIR1 "SALT- AND DROUGHT-INDUCED RING FINGER1" [Arabidopsis thaliana (taxid:3702)]

 Score = 840 (300.8 bits), Expect = 7.2e-84, P = 7.2e-84
 Identities = 167/280 (59%), Positives = 197/280 (70%)

Query:     1 MSFVFRGTRGDIESGFPG-FIAEQPAVRIHATRPVNVNSXXXXXXXXXXXXXXNSHQMSP 59
             MSFVFRG+RGD+ESGF G F+ E+ A+R+H  RPVN NS              NSHQM P
Sbjct:     1 MSFVFRGSRGDLESGFSGGFLPERRAMRVHGARPVNSNSLAFLVTVLLLFMILNSHQMPP 60

Query:    60 NFLLWLVVGVFLIATSLRMYATCXXXXXXXXXXXXXXSGLLSHTELRLHVPPSIAFATXX 119
             NFLLWLV+GVFL+AT+LRMYATC              SGL SHTELRLHVPPSIA AT  
Sbjct:    61 NFLLWLVLGVFLMATTLRMYATCQQLQAHAQAQAAAASGLFSHTELRLHVPPSIALATRG 120

Query:   120 XXXXXXXXXXXXDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
                         DREFD+LDY+TLRALDSDN STT SMSEEEIN+LPVHKYKV  P +  
Sbjct:   121 RLQGLRLQLALLDREFDDLDYETLRALDSDNVSTT-SMSEEEINALPVHKYKVLDPEN-- 177

Query:   180 VGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQF 239
              G S+ + +S++++ E+       A+ S K +EDELTC++CLEQV  GE+VR+LPCLHQF
Sbjct:   178 -GCSLAKQASTSSSAEKMLDS---ANESKKGTEDELTCSVCLEQVTVGEIVRTLPCLHQF 233

Query:   240 HANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDMV 279
             HA CIDPWLRQ+GTCPVCKFR  SGWQE  E + D+SDMV
Sbjct:   234 HAGCIDPWLRQQGTCPVCKFRAHSGWQEQDEIDDDASDMV 273

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

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

GO:0009789 "positive regulation of abscisic acid mediated signaling pathway" evidence=IMP

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0006301 "postreplication repair" evidence=RCA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

UNIPROTKB|G4N652 MGG_08571 "RING-7 protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 204 (76.9 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 46/137 (33%), Positives = 67/137 (48%)

Query:   145 ALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPS-SSAATPEQSKQESKK 203
             +L+ ++    P      +N + VH        +E++ +    P   S   P QS   +  
Sbjct:   285 SLEPEDGGLEPGKRNMSMNHVQVHHLSTIPEDAEAIPTVTNSPMRESRMAPAQSCDAATV 344

Query:   204 ADGSTKSSEDE-LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL-RQRGTCPVCKFRM 261
             A G T+   DE L C+IC E    GE VR LPC H+FH +CIDPWL    GTCP+C+  +
Sbjct:   345 AQGQTEPLGDEHLGCSICTEDFLVGEDVRVLPCDHKFHPSCIDPWLINVSGTCPLCRLDL 404

Query:   262 GSGWQENRESESDSSDM 278
                   + E E DS+ +
Sbjct:   405 HPPKNTDEEEEGDSTQL 421

GO:0005575 "cellular_component" evidence=ND

TAIR|locus:2010582 AT1G04790 [Arabidopsis thaliana (taxid:3702)]

 Score = 171 (65.3 bits), Expect = 5.2e-15, Sum P(2) = 5.2e-15
 Identities = 29/53 (54%), Positives = 39/53 (73%)

Query:   207 STKSSED-ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
             ST  +++ + TC ICLE  K G+ +R LPCLH+FH +CIDPWL +  +CPVCK
Sbjct:   578 STVQTDNFQETCVICLETPKIGDTIRHLPCLHKFHKDCIDPWLGRSKSCPVCK 630

GO:0005634 "nucleus" evidence=ISM

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

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0016558 "protein import into peroxisome matrix" evidence=RCA

DICTYBASE|DDB_G0282479 DDB_G0282479 "E3 ubiquitin-protein ligase DMA2" [Dictyostelium discoideum (taxid:44689)]

 Score = 147 (56.8 bits), Expect = 1.4e-12, Sum P(2) = 1.4e-12
 Identities = 18/46 (39%), Positives = 33/46 (71%)

Query:   213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
             D  TC+ICL+     + +++LPC+H +H++C++ WL+ +  CP+CK
Sbjct:   269 DSKTCSICLDDFAVNDAIKTLPCIHHYHSDCVEKWLKIKSVCPICK 314

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

DICTYBASE|DDB_G0293132 DDB_G0293132 "E3 ubiquitin-protein ligase Arkadia" [Dictyostelium discoideum (taxid:44689)]

 Score = 175 (66.7 bits), Expect = 3.3e-12, P = 3.3e-12
 Identities = 41/126 (32%), Positives = 66/126 (52%)

Query:   133 REFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAA 192
             R+F   DY+ L  LD +  +   + S+  I +LPVH    P   + S         ++  
Sbjct:   651 RDFSSNDYELLLQLDENINNKGATTSD--IENLPVHTLNKPTATTTS---------TTTT 699

Query:   193 TPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG 252
             T   +  ++KK + +T     ++TC ICL +++ G+ VR+LPC H FH +CID WL+   
Sbjct:   700 TNSSTSDDNKKNEPTT-----DVTCCICLCEMEPGDAVRTLPCKHFFHVSCIDQWLKVNK 754

Query:   253 TCPVCK 258
              CP+ K
Sbjct:   755 VCPIDK 760

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|D6RIE5 RNF150 "RING finger protein 150" [Homo sapiens (taxid:9606)]

 Score = 164 (62.8 bits), Expect = 9.1e-12, P = 9.1e-12
 Identities = 28/60 (46%), Positives = 37/60 (61%)

Query:   202 KKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRM 261
             KK D  T+S  D   C +C+E  K  ++VR LPC H FH +C+DPWL    TCP+CK  +
Sbjct:    96 KKGDKETESDFDN--CAVCIEGYKPNDVVRILPCRHLFHKSCVDPWLLDHRTCPMCKMNI 153

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|J3KSE3 RNF43 "E3 ubiquitin-protein ligase RNF43" [Homo sapiens (taxid:9606)]

 Score = 173 (66.0 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 36/98 (36%), Positives = 55/98 (56%)

Query:   169 KYKVPGPASESVGSSIRQPSSSA--ATPEQSKQESKKADGSTKSSEDELTCTICLEQVKC 226
             ++  P P  +    +I Q ++    A+  Q++ E   + GS+ SS     C ICLE+   
Sbjct:    98 RHSRPDPLQQRTAWAISQLATRRYQASCRQARGEWPDS-GSSCSSAP--VCAICLEEFSE 154

Query:   227 GELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG 264
             G+ +R + CLH+FH NC+DPWL Q  TCP+C F +  G
Sbjct:   155 GQELRVISCLHEFHRNCVDPWLHQHRTCPLCMFNITEG 192

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q68DV7 RNF43 "E3 ubiquitin-protein ligase RNF43" [Homo sapiens (taxid:9606)]

 Score = 173 (66.0 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 36/98 (36%), Positives = 55/98 (56%)

Query:   169 KYKVPGPASESVGSSIRQPSSSA--ATPEQSKQESKKADGSTKSSEDELTCTICLEQVKC 226
             ++  P P  +    +I Q ++    A+  Q++ E   + GS+ SS     C ICLE+   
Sbjct:   225 RHSRPDPLQQRTAWAISQLATRRYQASCRQARGEWPDS-GSSCSSAP--VCAICLEEFSE 281

Query:   227 GELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG 264
             G+ +R + CLH+FH NC+DPWL Q  TCP+C F +  G
Sbjct:   282 GQELRVISCLHEFHRNCVDPWLHQHRTCPLCMFNITEG 319

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0005887 "integral to plasma membrane" evidence=IDA

GO:0030178 "negative regulation of Wnt receptor signaling pathway" evidence=IMP

GO:0038018 "Wnt receptor catabolic process" evidence=IDA

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

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0005109 "frizzled binding" evidence=IPI

GO:0072089 "stem cell proliferation" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|I3LB70 LOC100738472 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 148 (57.2 bits), Expect = 2.0e-11, Sum P(2) = 2.0e-11
 Identities = 25/57 (43%), Positives = 37/57 (64%)

Query:   216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFR-MGSGWQENRES 271
             TC++C+ +   G  +R LPC H++H +CID WL +  TCP+C+   + SG   NRES
Sbjct:   522 TCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTCPICRRAVLASG---NRES 575

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1S6C0 LOC100620409 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 36/91 (39%), Positives = 47/91 (51%)

Query:   171 KVPG--PASESVGSS-IRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCG 227
             +VPG  PA+  V    +R P   +      K   K+ DGS +  E E  C IC     CG
Sbjct:    39 QVPGWAPAAPLVQEEQVRVPQRISQIQCLPKGVYKR-DGSQEKMEQE-ECAICTLDFVCG 96

Query:   228 ELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
             + +RSLPC H +H  CID WL +  TCP C+
Sbjct:    97 DPIRSLPCKHFYHLGCIDEWLTRSFTCPYCR 127

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M2S6	SDIR1_ARATH	6, ., 3, ., 2, ., -	0.7321	0.9749	0.9963	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_LG_IX0591 hypothetical protein (275 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	279
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-09
smart00184	40	smart00184, RING, Ring finger	2e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	5e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-04
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.003
pfam01292	140	pfam01292, Ni_hydr_CYTB, Prokaryotic cytochrome b5	0.003
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.004

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

 Score = 69.7 bits (171), Expect = 6e-16
 Identities = 22/43 (51%), Positives = 28/43 (65%)

Query: 216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
            C ICL++ + GE V  LPC H FH  C+D WLR   TCP+C+
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 57.1 bits (138), Expect = 3e-11
 Identities = 21/44 (47%), Positives = 27/44 (61%), Gaps = 3/44 (6%)

Query: 216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCK 258
            C ICLE+ +  E V  LPC H F  +CID WL+    TCP+C+
Sbjct: 1   ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 52.9 bits (127), Expect = 1e-09
 Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 2/46 (4%)

Query: 213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           +EL C ICL+ ++  + V   PC H F   CI  +L+++  CP+C+
Sbjct: 1   EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVC 257
           C ICLE  +  +    LPC H F  +CI  WL     TCP+C
Sbjct: 1   CPICLE--EYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 55.0 bits (132), Expect = 1e-08
 Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 3/74 (4%)

Query: 188 SSSAATPEQSKQESKK--ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCID 245
           SSS A P  + + S K  +      ++  + C IC+      + +R LPC H+FH  C+D
Sbjct: 295 SSSEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVD 354

Query: 246 PWL-RQRGTCPVCK 258
            WL      CPVC+
Sbjct: 355 KWLLGYSNKCPVCR 368

Length = 374

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

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVC 257
           C ICLE+ K  + V  LPC H F + CI  WL     TCP+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 = 47.0 bits (112), Expect = 2e-07
 Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 10/56 (17%)

Query: 213 DELTCTICLEQ--VKCGEL--------VRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           ++  C IC       C E         V    C H FH +CI  WL+ R TCP+C+
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 49.4 bits (118), Expect = 5e-07
 Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 6/55 (10%)

Query: 209 KSSEDELTCTICLEQVKCGELVRS----LP-CLHQFHANCIDPWLRQRGTCPVCK 258
             S+D+  C IC+E+V   E+       L  C H F   CID W +++ TCPVC+
Sbjct: 170 NRSKDK-ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 43.0 bits (101), Expect = 1e-04
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 10/56 (17%)

Query: 213 DELTCTICLEQV----------KCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
            + TCTIC++++                + LPC H  H +C+  WL ++ TCP+C+
Sbjct: 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICR 341

Length = 491

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

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 235 CLHQFHANCIDPWLRQRGTCPVCK 258
           C H FH +CI  WL  +G CP+ +
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 5/47 (10%)

Query: 213 DELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCK 258
           ++  C ICLE+ +    V  LPC H      C    LR +  CP+C+
Sbjct: 1   EDDLCVICLERPRN---VVFLPCGHLCLCEECAK-RLRSKKKCPICR 43

Length = 49

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

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 3/27 (11%)

Query: 235 CLHQFHANCIDPWLRQ---RGTCPVCK 258
           C H FH +CI  WL     +G CP+C+
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|216416 pfam01292, Ni_hydr_CYTB, Prokaryotic cytochrome b561

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 19/91 (20%), Positives = 27/91 (29%), Gaps = 12/91 (13%)

Query: 12  IESGFPGFIAEQPAVRIHATRPVNVNSLAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFL 71
           I    P       A  +H        SL  + + LLL  +L +       LL  ++ + L
Sbjct: 27  IAFPEPLAPLAVAARNLH-------KSLGLVFLALLLLRLLWAV-----HLLLYLLLLLL 74

Query: 72  IATSLRMYATCQQLQAQARAHAAAASGLLSH 102
             T L M                A    L H
Sbjct: 75  PLTGLLMSFPEGFPVLLLPDGGLAELARLIH 105

This family includes cytochrome b561 and related proteins, in addition to the nickel-dependent hydrogenases b-type cytochrome subunit. Cytochrome b561 is a secretory vesicle-specific electron transport protein. It is an integral membrane protein, that binds two heme groups non-covalently. This is a prokaryotic family. Members of the 'eukaryotic cytochrome b561' family can be found in Pfam: PF03188. Length = 140

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

 Score = 38.5 bits (89), Expect = 0.004
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 10/50 (20%)

Query: 217  CTICLEQVKCGELVRSLP------CLHQFHANCIDPWLRQ--RGTCPVCK 258
            C IC   +   +  RSLP      C ++FH  C+  W     R  CP+C+
Sbjct: 1472 CAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	279
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.62
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.51
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.25
PHA02929	238	N1R/p28-like protein; Provisional	99.2
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	99.16
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.14
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.13
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.11
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.1
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.09
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.02
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.01
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.94
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.88
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.85
PHA02926	242	zinc finger-like protein; Provisional	98.82
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.82
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.78
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.77
PF14634	44	zf-RING_5: zinc-RING finger domain	98.76
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.69
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.68
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.5
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.46
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.42
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.39
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.38
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.34
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.31
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.31
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.27
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.24
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.22
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.17
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.15
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.94
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.92
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.88
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.8
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.79
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.7
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.64
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.6
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.36
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.33
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.25
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.17
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.09
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.05
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.04
KOG2660	331	consensus Locus-specific chromosome binding protei	97.01
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.88
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.84
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.74
COG5152	259	Uncharacterized conserved protein, contains RING a	96.62
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.57
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.31
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.25
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.22
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.22
PHA02862	156	5L protein; Provisional	95.96
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.92
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.86
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.85
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.8
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.79
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.61
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.5
PHA03096	284	p28-like protein; Provisional	95.48
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.45
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.42
KOG4739	233	consensus Uncharacterized protein involved in syna	95.08
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.98
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.89
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	94.67
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.58
KOG3002	299	consensus Zn finger protein [General function pred	94.48
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.3
PF04641	260	Rtf2: Rtf2 RING-finger	94.25
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.13
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.06
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.0
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.86
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.82
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.53
KOG1940	276	consensus Zn-finger protein [General function pred	93.01
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.93
KOG4367	699	consensus Predicted Zn-finger protein [Function un	91.89
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	91.84
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.7
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.25
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	90.87
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.07
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.84
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	89.74
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	89.63
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	89.35
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	88.44
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.56
KOG1609	323	consensus Protein involved in mRNA turnover and st	87.07
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.72
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	86.71
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	85.85
KOG3899	381	consensus Uncharacterized conserved protein [Funct	85.68
PLN02189	1040	cellulose synthase	85.68
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	84.66
PLN02436	1094	cellulose synthase A	81.96
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	81.83
KOG0269	839	consensus WD40 repeat-containing protein [Function	81.75
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	81.3
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	81.24
KOG1829	580	consensus Uncharacterized conserved protein, conta	81.11

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

Probab=99.62  E-value=2.2e-15  Score=140.08  Aligned_cols=59  Identities=51%  Similarity=0.994  Sum_probs=53.1

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCC-CcccccccCCCCCCCCCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGT-CPVCKFRMGSGWQENRESES  273 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~-CP~CR~~i~~~~~~~~~~~~  273 (279)
                      .+|+||+|+|++|+.++.|||+|.||..||++||.+..+ ||+||+.+.........+|+
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e~  289 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSED  289 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccCC
Confidence            489999999999999999999999999999999998755 99999999988877666663

>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=99.51  E-value=5.8e-15  Score=98.28  Aligned_cols=43  Identities=51%  Similarity=1.218  Sum_probs=40.2

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK  258 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR  258 (279)
                      +|+||++.+..++.+..++|||.||.+||.+|++++.+||+||
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            6999999999888999999999999999999999999999997

...

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

Probab=99.25  E-value=5.4e-12  Score=93.13  Aligned_cols=45  Identities=40%  Similarity=0.908  Sum_probs=35.7

Q ss_pred             cccccccccccccC----------ceeEEeCCCCcccHhhHHHHHhcCCCCcccc
Q 048433          214 ELTCTICLEQVKCG----------ELVRSLPCLHQFHANCIDPWLRQRGTCPVCK  258 (279)
Q Consensus       214 ~~~C~ICle~~~~~----------~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR  258 (279)
                      +..|+||++.+...          ..+...+|||.||..||.+|++.+.+||+||
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            34599999999322          2344567999999999999999999999997

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.20  E-value=1.2e-11  Score=110.40  Aligned_cols=50  Identities=38%  Similarity=0.800  Sum_probs=40.8

Q ss_pred             cccccccccccccCce-----eEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          214 ELTCTICLEQVKCGEL-----VRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~-----v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      +.+|+||++.+..+..     ....+|+|.||..||.+|++.+.+||+||..+..
T Consensus       174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~  228 (238)
T PHA02929        174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence            4589999998775431     2334699999999999999999999999998763

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

Probab=99.16  E-value=3.4e-11  Score=114.87  Aligned_cols=75  Identities=12%  Similarity=0.094  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhH-HHhcCCCccccccccCCCcch
Q 048433           39 LAFLVIVLLLFMILNSHQMSPNFLLWLVVGVFLIATSLRMYATCQQLQAQARAHA-AAASGLLSHTELRLHVPPSIA  114 (279)
Q Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lq~~~~~~~-~~~~g~l~~~~~r~~~~~s~~  114 (279)
                      -+|++.++++|++|+|..|+.-|-....-.++++..+.++..+.+.+... .++. ......+|.|.+|+..|--++
T Consensus       427 rf~fm~lv~~~~~l~s~~wp~q~r~yf~~iLif~~~SfWIPQIv~Nvvrg-~SR~Pl~w~yIlG~Tv~Rl~~plyVF  502 (636)
T KOG0828|consen  427 RFLFMYLVVCIASLYSAFWPVQFRNYFIPILIFMYYSFWIPQIVANVVRG-DSRKPLHWYYILGMTVTRLAIPLYVF  502 (636)
T ss_pred             hHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcC-CCCCCcchhhhhhHhHHhhhcceEEE
Confidence            46777888999999999999999999988888888888888877766533 3332 334566667777777665443

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

Probab=99.14  E-value=2.3e-11  Score=110.12  Aligned_cols=50  Identities=36%  Similarity=0.949  Sum_probs=46.1

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHh-cCCCCcccccccCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~  263 (279)
                      ..+|+|||+.|..++.++.|||.|.||..|+.+|+. -+..||+||..+++
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            358999999999999999999999999999999998 57789999999875

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

Probab=99.13  E-value=2.5e-11  Score=112.46  Aligned_cols=51  Identities=33%  Similarity=0.881  Sum_probs=42.9

Q ss_pred             CCccccccccccc-ccC---------ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          212 EDELTCTICLEQV-KCG---------ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       212 ~e~~~C~ICle~~-~~~---------~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      .+|..|.||++++ ..+         ....+|||||.||.+|++.|++++.+||+||.++-
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            4567999999994 433         13468999999999999999999999999999944

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

Probab=99.11  E-value=4.5e-11  Score=107.77  Aligned_cols=53  Identities=28%  Similarity=0.693  Sum_probs=45.3

Q ss_pred             CCCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          210 SSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       210 ~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ..+....|.+||+...   +...+||||.||..||..|...+..||+||.++++..
T Consensus       235 i~~a~~kC~LCLe~~~---~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRS---NPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCCceEEEecCCC---CCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            3455678999999876   4457899999999999999999999999999987654

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

Probab=99.10  E-value=5.8e-11  Score=81.06  Aligned_cols=47  Identities=34%  Similarity=0.834  Sum_probs=39.8

Q ss_pred             cccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      +..|.||++...   .+..+||||. ||..|+.+|++.+..||+||+++.+
T Consensus         2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            457999998755   5778999999 9999999999999999999998853

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.09  E-value=7.3e-11  Score=101.69  Aligned_cols=50  Identities=34%  Similarity=0.725  Sum_probs=40.6

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----------------CCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----------------RGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----------------~~~CP~CR~~i~~~  264 (279)
                      .++.+|+||++.+..   ...++|||.||..||.+|+..                +..||+||..+...
T Consensus        16 ~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            356789999998873   356789999999999999852                34699999988654

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

Probab=99.02  E-value=2.3e-10  Score=96.61  Aligned_cols=53  Identities=30%  Similarity=0.628  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      +....|+|||+.+.+... ....|||+||..||+..++....||+|+++|..++
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            345789999999986432 44779999999999999999999999999887654

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

Probab=99.01  E-value=2.3e-10  Score=74.12  Aligned_cols=39  Identities=41%  Similarity=1.034  Sum_probs=33.3

Q ss_pred             ccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~C  257 (279)
                      |+||++.+..  .+..++|||.||.+|+.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998884  44678999999999999999998899998

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

Probab=99.01  E-value=2e-10  Score=100.74  Aligned_cols=53  Identities=30%  Similarity=0.594  Sum_probs=42.5

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc---CCCCcccccccCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ---RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~---~~~CP~CR~~i~~~~~  266 (279)
                      +....+|.|||+.-+   +.++..|||.||+.||.+||..   .+.||+||..|..+..
T Consensus        44 ~~~~FdCNICLd~ak---dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAK---DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCCceeeeeeccccC---CCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            445678999999877   3345669999999999999975   4559999998876654

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

Probab=98.94  E-value=7.2e-10  Score=72.32  Aligned_cols=44  Identities=48%  Similarity=1.133  Sum_probs=36.5

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCccccccc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRM  261 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i  261 (279)
                      +|+||++.+.  +.....+|||.||..|+..|+++ ...||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999983  34455569999999999999997 77899998764

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

Probab=98.88  E-value=1.3e-09  Score=71.93  Aligned_cols=38  Identities=39%  Similarity=0.912  Sum_probs=29.1

Q ss_pred             ccccccccccCceeEEeCCCCcccHhhHHHHHhcC----CCCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR----GTCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~----~~CP~C  257 (279)
                      |+||++.|.   +.+.|+|||.||..||.+|++..    ..||.|
T Consensus         1 CpiC~~~~~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFK---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhC---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999999   44689999999999999999753    359987

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

Probab=98.85  E-value=1.1e-09  Score=109.02  Aligned_cols=54  Identities=33%  Similarity=0.827  Sum_probs=45.8

Q ss_pred             CcccccccccccccCce--eEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGEL--VRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~--v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      .+..|+||+|.+..+..  ..+++|+|.||..|++.|++++.+||+||..+-....
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~  345 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL  345 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence            36789999999986543  6789999999999999999999999999995555443

>PHA02926 zinc finger-like protein; Provisional

Probab=98.82  E-value=2e-09  Score=94.16  Aligned_cols=50  Identities=38%  Similarity=0.846  Sum_probs=37.1

Q ss_pred             CcccccccccccccCc-----eeEEe-CCCCcccHhhHHHHHhcC------CCCcccccccC
Q 048433          213 DELTCTICLEQVKCGE-----LVRSL-PCLHQFHANCIDPWLRQR------GTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~-----~v~~L-pC~H~Fh~~CI~~WL~~~------~~CP~CR~~i~  262 (279)
                      ++.+|+||+|..-+..     ....| +|+|.||..||.+|.+.+      .+||+||..+.
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            3568999999864321     12344 599999999999999753      35999998765

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

Probab=98.82  E-value=3e-09  Score=80.01  Aligned_cols=50  Identities=32%  Similarity=0.744  Sum_probs=38.1

Q ss_pred             ccccccccccccc--------Cc--eeEEeCCCCcccHhhHHHHHhc---CCCCcccccccCC
Q 048433          214 ELTCTICLEQVKC--------GE--LVRSLPCLHQFHANCIDPWLRQ---RGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~--------~~--~v~~LpC~H~Fh~~CI~~WL~~---~~~CP~CR~~i~~  263 (279)
                      ++.|.||...|+.        |+  .+..-.|+|.||.+||.+|+..   ++.||+||+...-
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            5679999988872        22  2223349999999999999985   5679999998653

>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=98.78  E-value=5.2e-09  Score=68.17  Aligned_cols=39  Identities=44%  Similarity=1.042  Sum_probs=33.3

Q ss_pred             ccccccccccCceeEEeCCCCcccHhhHHHHHh--cCCCCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLR--QRGTCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~--~~~~CP~C  257 (279)
                      |+||++.+..+  ...++|||.||..|+.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998843  35789999999999999999  45569998

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

>smart00504 Ubox Modified RING finger domain

Probab=98.77  E-value=6.2e-09  Score=73.83  Aligned_cols=46  Identities=30%  Similarity=0.501  Sum_probs=40.6

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ..|+||.+.+..+   ..++|||.|+..||.+|++.+.+||+|+..+..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4799999998853   568999999999999999998999999988754

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.76  E-value=5.6e-09  Score=69.41  Aligned_cols=44  Identities=27%  Similarity=0.659  Sum_probs=37.8

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      .|+||++.|........++|||.||..|+.++......||+||+
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            39999999955556778899999999999999866778999984

>smart00184 RING Ring finger

Probab=98.69  E-value=1.5e-08  Score=63.74  Aligned_cols=38  Identities=47%  Similarity=1.163  Sum_probs=32.5

Q ss_pred             ccccccccccCceeEEeCCCCcccHhhHHHHHh-cCCCCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-QRGTCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-~~~~CP~C  257 (279)
                      |+||++..   .....++|||.||..|++.|++ .+..||+|
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            78998883   3667889999999999999998 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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.68  E-value=1.3e-08  Score=97.14  Aligned_cols=52  Identities=25%  Similarity=0.581  Sum_probs=44.4

Q ss_pred             CCCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          210 SSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       210 ~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ..+....|+||++.|..+   ..++|||.||..||..|+.....||+||..+...
T Consensus        22 ~Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        22 PLDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            345678999999999744   4689999999999999999888999999988754

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

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

Probab=98.50  E-value=6.3e-08  Score=86.60  Aligned_cols=51  Identities=25%  Similarity=0.702  Sum_probs=42.7

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHH-HHhcCCC-CcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDP-WLRQRGT-CPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~-WL~~~~~-CP~CR~~i~~~~  265 (279)
                      +.+..|.||++...   ....++|||.||..||.. |-+++.. ||+||+.+..+.
T Consensus       213 ~~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            56789999988766   456789999999999999 9877665 999999887654

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

Probab=98.46  E-value=5.6e-08  Score=87.06  Aligned_cols=54  Identities=30%  Similarity=0.665  Sum_probs=43.9

Q ss_pred             CCcccccccccccccCc-------eeEEeCCCCcccHhhHHHHHh--cCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGE-------LVRSLPCLHQFHANCIDPWLR--QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~-------~v~~LpC~H~Fh~~CI~~WL~--~~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||-..+...+       +.-.|.|+|.||..||+.|.-  ++.+||.||.++..+.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r  284 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR  284 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence            45668999988876554       566789999999999999974  6889999998876543

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

Probab=98.42  E-value=1.8e-07  Score=61.89  Aligned_cols=34  Identities=29%  Similarity=0.668  Sum_probs=21.5

Q ss_pred             cccccccccc-CceeEEeCCCCcccHhhHHHHHhcC
Q 048433          217 CTICLEQVKC-GELVRSLPCLHQFHANCIDPWLRQR  251 (279)
Q Consensus       217 C~ICle~~~~-~~~v~~LpC~H~Fh~~CI~~WL~~~  251 (279)
                      |+||.+ +.. ......|+|||.||.+|+.+|++++
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 654 3456789999999999999999854

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

Probab=98.39  E-value=1.6e-07  Score=72.61  Aligned_cols=50  Identities=30%  Similarity=0.666  Sum_probs=37.0

Q ss_pred             CCCcccccccccccc-------------cCceeEEeC-CCCcccHhhHHHHHhcCCCCcccccc
Q 048433          211 SEDELTCTICLEQVK-------------CGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFR  260 (279)
Q Consensus       211 ~~e~~~C~ICle~~~-------------~~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~CR~~  260 (279)
                      +.....|+||...+-             .++-..... |.|.||..||.+||++++.||+|.+.
T Consensus        43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            344568999965541             122333344 99999999999999999999999654

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

Probab=98.38  E-value=2.3e-07  Score=68.47  Aligned_cols=28  Identities=39%  Similarity=0.958  Sum_probs=26.3

Q ss_pred             CCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          235 CLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       235 C~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      |.|.||.+||.+||..++.||++|++..
T Consensus        54 CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          54 CNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             cchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            9999999999999999999999998754

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

Probab=98.34  E-value=2e-07  Score=90.19  Aligned_cols=50  Identities=26%  Similarity=0.571  Sum_probs=39.1

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhc-----CCCCcccccccCCCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-----RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-----~~~CP~CR~~i~~~~~  266 (279)
                      +..|||||+....+   ..+.|||+||..||.+.+..     ...||+||..|..+..
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            67899999886633   34459999999999998754     3469999998877543

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

Probab=98.31  E-value=1.2e-07  Score=87.40  Aligned_cols=53  Identities=30%  Similarity=0.627  Sum_probs=45.2

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      .++-..|.||.+.|..+   ...||+|.||.-||+..|..+..||.|+..+.+...
T Consensus        20 lD~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L   72 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL   72 (442)
T ss_pred             hHHHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence            34557899999999944   478899999999999999999999999998876543

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

Probab=98.31  E-value=4e-07  Score=67.05  Aligned_cols=49  Identities=31%  Similarity=0.533  Sum_probs=38.2

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~  264 (279)
                      ++..|+||.+.+.   +.+.+||||.|...||.+|+++ ..+||+|+.++...
T Consensus         3 ~~f~CpIt~~lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            4578999999998   4457899999999999999998 88999999888754

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

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

Probab=98.30  E-value=4e-07  Score=84.74  Aligned_cols=58  Identities=26%  Similarity=0.555  Sum_probs=46.9

Q ss_pred             CCcccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCCCCCCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSGWQENRESE  272 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~~~~~~  272 (279)
                      +...+|.||+.+..   ++..|||.|. .|..|.+..--+++.||+||+++..-...-...+
T Consensus       288 ~~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~~~~~  346 (349)
T KOG4265|consen  288 ESGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIYVNKE  346 (349)
T ss_pred             cCCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhheeccccc
Confidence            44678999988766   6789999996 8999999887789999999999887655444433

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

Probab=98.27  E-value=1.3e-07  Score=69.18  Aligned_cols=49  Identities=39%  Similarity=0.857  Sum_probs=36.1

Q ss_pred             ccccccccccccc--------Cce-eEEeC-CCCcccHhhHHHHHhc---CCCCcccccccC
Q 048433          214 ELTCTICLEQVKC--------GEL-VRSLP-CLHQFHANCIDPWLRQ---RGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~--------~~~-v~~Lp-C~H~Fh~~CI~~WL~~---~~~CP~CR~~i~  262 (279)
                      +++|.||...|..        +++ ..++. |.|.||..||.+|+..   +..||+||+...
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            3489999888862        222 22333 9999999999999964   567999998754

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.24  E-value=6.7e-07  Score=82.53  Aligned_cols=52  Identities=21%  Similarity=0.500  Sum_probs=37.9

Q ss_pred             cccccccccc-cccCce-eEEeCCCCcccHhhHHHHHh-cCCCCcccccccCCCC
Q 048433          214 ELTCTICLEQ-VKCGEL-VRSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       214 ~~~C~ICle~-~~~~~~-v~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~~~  265 (279)
                      +..||||... +..++. +..-+|||.||..|+...+. ....||.|+..+....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4579999995 333321 22227999999999999664 4667999999887765

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

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

Probab=98.22  E-value=4.2e-07  Score=81.15  Aligned_cols=46  Identities=39%  Similarity=0.779  Sum_probs=39.7

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      ..++..|+||++.|..+   ..++|||.||..|+..++...-.||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            35678999999999976   68999999999999999885556999993

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

Probab=98.22  E-value=5.4e-07  Score=81.62  Aligned_cols=49  Identities=29%  Similarity=0.550  Sum_probs=41.6

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .-..|-||-+.+..+   ...+|||.||.-||+..|..+..||+||.+....
T Consensus        24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es   72 (391)
T COG5432          24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES   72 (391)
T ss_pred             hHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence            345799999998844   4678999999999999999999999999876543

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

Probab=98.19  E-value=1.7e-07  Score=86.81  Aligned_cols=62  Identities=29%  Similarity=0.597  Sum_probs=49.3

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCCCCCCCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQENRESESDS  275 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~~~~~~~~~~  275 (279)
                      ..+..|+|||+.++.  .+.+-.|+|.||.+||.+-++. ++.||.||+.+.++-....+..+|+
T Consensus        41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fda  103 (381)
T KOG0311|consen   41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDA  103 (381)
T ss_pred             hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHH
Confidence            345789999999882  3333449999999999998875 7789999999999988777766553

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

Probab=98.17  E-value=1.5e-06  Score=59.12  Aligned_cols=42  Identities=29%  Similarity=0.764  Sum_probs=32.4

Q ss_pred             cccccccccccCceeEEeCCC-----CcccHhhHHHHHhc--CCCCcccc
Q 048433          216 TCTICLEQVKCGELVRSLPCL-----HQFHANCIDPWLRQ--RGTCPVCK  258 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~-----H~Fh~~CI~~WL~~--~~~CP~CR  258 (279)
                      .|-||++ ...++.....||.     |.+|..|+.+|+..  +.+||+|+
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 3334455678974     88999999999965  44799995

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

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

Probab=98.15  E-value=1.1e-06  Score=83.86  Aligned_cols=50  Identities=30%  Similarity=0.857  Sum_probs=40.5

Q ss_pred             CCcccccccccccccCc-eeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGE-LVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~-~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      .+-.+|+||||.+.... .+....|.|.||..|+.+|  ...+||+||.-..+
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~p  223 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQSP  223 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcCc
Confidence            45568999999998664 3445669999999999999  56789999987664

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

Probab=98.14  E-value=3.9e-07  Score=62.56  Aligned_cols=46  Identities=26%  Similarity=0.507  Sum_probs=36.1

Q ss_pred             ccccccccccccCceeEEeCCCCc-ccHhhHHHHHh-cCCCCcccccccCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLR-QRGTCPVCKFRMGS  263 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~-~~~~CP~CR~~i~~  263 (279)
                      .+|.||+|.-.   +.+...|||. .|.+|..+.++ .+..||+||++|.+
T Consensus         8 dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            47999977543   3345669997 79999887666 68899999998864

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

Probab=97.95  E-value=3e-06  Score=77.24  Aligned_cols=51  Identities=31%  Similarity=0.701  Sum_probs=41.5

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQEN  268 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~~~  268 (279)
                      .+|+||+.....+   +.|+|+|.||..||+.-.+. +.+|++||++|.+..-.+
T Consensus         8 ~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~   59 (324)
T KOG0824|consen    8 KECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFE   59 (324)
T ss_pred             CcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcc
Confidence            3699998876643   67999999999999998776 566999999998765443

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

Probab=97.94  E-value=2.5e-06  Score=87.42  Aligned_cols=51  Identities=25%  Similarity=0.766  Sum_probs=36.7

Q ss_pred             CCcccccccccccccCc----eeEEeCCCCcccHhhHHHHHhc--CCCCcccccccC
Q 048433          212 EDELTCTICLEQVKCGE----LVRSLPCLHQFHANCIDPWLRQ--RGTCPVCKFRMG  262 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~----~v~~LpC~H~Fh~~CI~~WL~~--~~~CP~CR~~i~  262 (279)
                      ..-++|+||+..+..-+    ..+.-.|.|.||..|+.+|++.  +++||+||..++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34568999987665111    1112239999999999999986  567999997765

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

Probab=97.92  E-value=2.4e-06  Score=62.46  Aligned_cols=49  Identities=33%  Similarity=0.757  Sum_probs=23.4

Q ss_pred             ccccccccccc-cCcee-EEe---CCCCcccHhhHHHHHhc----C-------CCCcccccccCC
Q 048433          215 LTCTICLEQVK-CGELV-RSL---PCLHQFHANCIDPWLRQ----R-------GTCPVCKFRMGS  263 (279)
Q Consensus       215 ~~C~ICle~~~-~~~~v-~~L---pC~H~Fh~~CI~~WL~~----~-------~~CP~CR~~i~~  263 (279)
                      ..|.||+.... .++.. ..-   .|++.||..|+.+|++.    +       +.||.|+.+|.-
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            47999999865 32221 111   49999999999999963    1       249999998764

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

Probab=97.88  E-value=5e-06  Score=83.82  Aligned_cols=52  Identities=27%  Similarity=0.481  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      .....|++|+..+..+......+|+|.||.+||..|-+...+||+||..+..
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            4456899999998866555567799999999999999999999999987654

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

Probab=97.80  E-value=1.1e-05  Score=75.77  Aligned_cols=52  Identities=35%  Similarity=0.782  Sum_probs=38.3

Q ss_pred             CCcccccccccccccCc----eeEEeC-CCCcccHhhHHHHH--hc-----CCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGE----LVRSLP-CLHQFHANCIDPWL--RQ-----RGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~----~v~~Lp-C~H~Fh~~CI~~WL--~~-----~~~CP~CR~~i~~  263 (279)
                      ..+.+|.||++......    ....|| |.|.||..||.+|-  ++     .+.||.||....-
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            34678999999876432    012345 99999999999998  44     4679999976543

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

Probab=97.79  E-value=9.4e-06  Score=76.26  Aligned_cols=52  Identities=23%  Similarity=0.754  Sum_probs=38.0

Q ss_pred             cccccccccccCceeEEeC-CCCcccHhhHHHHHhc---CCCCcccccccCCCCCC
Q 048433          216 TCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQ---RGTCPVCKFRMGSGWQE  267 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~---~~~CP~CR~~i~~~~~~  267 (279)
                      .|.||.+-+....++..+. |||.||..|+.+|+..   ...||+||-.++..-..
T Consensus         6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~   61 (465)
T KOG0827|consen    6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA   61 (465)
T ss_pred             eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence            6999955544444555555 9999999999999985   35799999665554433

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

Probab=97.70  E-value=2.3e-05  Score=74.10  Aligned_cols=49  Identities=35%  Similarity=0.762  Sum_probs=38.1

Q ss_pred             CcccccccccccccCcee--EEeCCCCcccHhhHHHHHhc--CCCCccccccc
Q 048433          213 DELTCTICLEQVKCGELV--RSLPCLHQFHANCIDPWLRQ--RGTCPVCKFRM  261 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v--~~LpC~H~Fh~~CI~~WL~~--~~~CP~CR~~i  261 (279)
                      ...+|+||++.+.-..+.  ..+.|||.|..+||++||.+  ...||.|..+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            346899999998765543  34669999999999999963  34599997653

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

Probab=97.64  E-value=1.4e-05  Score=80.79  Aligned_cols=49  Identities=24%  Similarity=0.574  Sum_probs=39.8

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHh-cCCCCcccccccCCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~~~  265 (279)
                      -.+|++|-..++   +++...|+|.||..|+.+-+. ++..||.|...++...
T Consensus       643 ~LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  643 LLKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             ceeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            468999976665   455666999999999999997 4778999999887653

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

Probab=97.60  E-value=1.2e-05  Score=57.24  Aligned_cols=47  Identities=32%  Similarity=0.636  Sum_probs=23.2

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      +-..|++|.+.++.+  +....|.|.||..||..-+.  ..||+|+.+.-.
T Consensus         6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~   52 (65)
T PF14835_consen    6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWI   52 (65)
T ss_dssp             HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-
T ss_pred             HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHHH
Confidence            345799999998844  34456999999999977433  459999877643

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

Probab=97.38  E-value=0.00014  Score=67.88  Aligned_cols=53  Identities=23%  Similarity=0.362  Sum_probs=44.1

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      ..++..|+||..   .+......||+|.-|+.||.+.+.+.+.|=.||..+.+...
T Consensus       419 ~sEd~lCpICyA---~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~l  471 (489)
T KOG4692|consen  419 DSEDNLCPICYA---GPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVIL  471 (489)
T ss_pred             CcccccCcceec---ccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeeehhc
Confidence            356788999954   44455678999999999999999999999999999886443

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

Probab=97.36  E-value=9.7e-05  Score=70.86  Aligned_cols=49  Identities=29%  Similarity=0.668  Sum_probs=42.2

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ..+..|.||+..+..+   +++||||.||..||.+-+.+...||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccccc
Confidence            4567899999988844   467999999999999988888889999998876

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

Probab=97.33  E-value=7.5e-05  Score=68.18  Aligned_cols=52  Identities=27%  Similarity=0.574  Sum_probs=43.4

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHh-----------------------cCCCCcccccccCCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-----------------------QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-----------------------~~~~CP~CR~~i~~~~  265 (279)
                      ...|.|||--|..++...+.+|-|.||..|+.+.|.                       .+..||+||.+|+...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            457999999999988888999999999999988762                       0224999999998654

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

Probab=97.25  E-value=0.00011  Score=69.41  Aligned_cols=47  Identities=30%  Similarity=0.728  Sum_probs=38.3

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhc--CCCCcccccccCCCC
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--RGTCPVCKFRMGSGW  265 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--~~~CP~CR~~i~~~~  265 (279)
                      -|.||-|.-   .++..=||||..|..|+..|-..  .++||.||..|+...
T Consensus       371 LCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  371 LCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            599997653   36777889999999999999743  578999999987654

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

Probab=97.17  E-value=0.00035  Score=49.02  Aligned_cols=41  Identities=32%  Similarity=0.686  Sum_probs=28.4

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhc--CCCCcc
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--RGTCPV  256 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--~~~CP~  256 (279)
                      ...|||.+..|+  +.++...|||.|-.+.|.+|+++  ...||+
T Consensus        11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            468999999998  45666789999999999999954  445998

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

Probab=97.09  E-value=0.00029  Score=67.75  Aligned_cols=54  Identities=26%  Similarity=0.637  Sum_probs=43.9

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      .+++..|+||...+..+.  ....|||.||..|+..|+..+..||.|+..+.....
T Consensus        18 ~~~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE   71 (391)
T ss_pred             CcccccCccccccccCCC--CCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence            356689999999988553  225799999999999999999999999887655443

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

Probab=97.05  E-value=0.00026  Score=66.83  Aligned_cols=62  Identities=35%  Similarity=0.749  Sum_probs=44.7

Q ss_pred             cccccccccccccC-ceeEEeCCCCcccHhhHHHHHhcCC--CCcccccccC----CCCCCCCCCCCCC
Q 048433          214 ELTCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQRG--TCPVCKFRMG----SGWQENRESESDS  275 (279)
Q Consensus       214 ~~~C~ICle~~~~~-~~v~~LpC~H~Fh~~CI~~WL~~~~--~CP~CR~~i~----~~~~~~~~~~~~~  275 (279)
                      +..|..|-+.+... +.+-.|||.|+||..|+...|.++.  +||.||.-..    +.+......++++
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~rpgfvgs~~Veses  433 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMKRPGFVGSVPVESES  433 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhccCCCCcCCCcccccc
Confidence            46799998887543 3566799999999999999997754  6999995433    4444444444444

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

Probab=97.04  E-value=0.00036  Score=74.51  Aligned_cols=53  Identities=28%  Similarity=0.675  Sum_probs=40.9

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC----------CCcccccccCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG----------TCPVCKFRMGS  263 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~----------~CP~CR~~i~~  263 (279)
                      .+.+..|.||+.+--.......|.|+|+||.+|.++.|.++-          .||+|+.+|..
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            345668999987755555677899999999999998876532          49999988753

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

Probab=97.01  E-value=0.00016  Score=66.88  Aligned_cols=52  Identities=25%  Similarity=0.602  Sum_probs=42.4

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ....+|.+|-..+....  .+.-|-|.||..||.+.+...++||.|...+....
T Consensus        13 n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             ccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            34568999999888443  23449999999999999999999999988877653

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

Probab=96.88  E-value=0.001  Score=60.30  Aligned_cols=49  Identities=22%  Similarity=0.354  Sum_probs=36.9

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc--CCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--RGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--~~~CP~CR~~i~~  263 (279)
                      .+.+|++|-+.-.  ......+|||.||..||..-..-  ..+||.|-..+.+
T Consensus       238 ~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  238 SDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             CCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            4568999977644  23455679999999999987653  4689999776653

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

Probab=96.84  E-value=0.00059  Score=46.06  Aligned_cols=44  Identities=27%  Similarity=0.620  Sum_probs=22.4

Q ss_pred             ccccccccccCceeEEeC--CCCcccHhhHHHHHh-cCCCCccccccc
Q 048433          217 CTICLEQVKCGELVRSLP--CLHQFHANCIDPWLR-QRGTCPVCKFRM  261 (279)
Q Consensus       217 C~ICle~~~~~~~v~~Lp--C~H~Fh~~CI~~WL~-~~~~CP~CR~~i  261 (279)
                      |++|.+++...+ ...+|  ||++.|..|...-++ ..+.||-||.+.
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999985432 23455  899999999888886 478899999875

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.74  E-value=0.0022  Score=57.28  Aligned_cols=54  Identities=15%  Similarity=0.255  Sum_probs=46.0

Q ss_pred             CcccccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      ....|+||.+.+........| ||||+|+.+|..+.++....||+|-.++.++.-
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence            456899999999876655555 499999999999999999999999998887654

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

Probab=96.62  E-value=0.00094  Score=57.85  Aligned_cols=47  Identities=21%  Similarity=0.406  Sum_probs=39.2

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ...|.||-.+|..+   ++..|||.||..|..+-++....|-+|-.....
T Consensus       196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence            35899999999955   367799999999999988889999999665443

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

Probab=96.57  E-value=0.0021  Score=59.98  Aligned_cols=49  Identities=27%  Similarity=0.670  Sum_probs=39.3

Q ss_pred             CCCCCcccccccccccccCceeEEeCCCCcccHhhHHHH--HhcCCCCcccccc
Q 048433          209 KSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPW--LRQRGTCPVCKFR  260 (279)
Q Consensus       209 ~~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~W--L~~~~~CP~CR~~  260 (279)
                      +.+++...|-||-+.+.   -..++||+|..|.-|..+.  |..++.||+||..
T Consensus        56 dtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          56 DTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            34456678999988766   5678999999999998764  4578899999975

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

Probab=96.31  E-value=0.0028  Score=59.46  Aligned_cols=44  Identities=30%  Similarity=0.637  Sum_probs=31.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      -...|.||+++..   ...-+||||.-|  |..-- +....||+||+.|.
T Consensus       304 ~p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPK---SAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCcc---ceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            3457999998876   466899999865  54332 22444999998774

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

Probab=96.25  E-value=0.00087  Score=61.18  Aligned_cols=43  Identities=23%  Similarity=0.543  Sum_probs=33.8

Q ss_pred             cccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      +.-|.||++.-   .+...|+|||. -|.+|.++.    +.||+||+.|..
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHHHH
Confidence            56799997654   46778999996 599998664    489999987643

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

Probab=96.22  E-value=0.0034  Score=55.45  Aligned_cols=50  Identities=24%  Similarity=0.605  Sum_probs=39.7

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc--------CCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--------RGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--------~~~CP~CR~~i~~  263 (279)
                      ....|..|-..+.+++.+ +|-|-|.||.+|+..|-.+        .-.||.|..+|-.
T Consensus        49 Y~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            345799999999988654 6779999999999999864        1249999887644

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

Probab=96.22  E-value=0.002  Score=49.96  Aligned_cols=32  Identities=25%  Similarity=0.687  Sum_probs=26.8

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHH
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCID  245 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~  245 (279)
                      ++..|++|-..+.. ......||||.||..|++
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            34579999999886 467789999999999975

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 [].

>PHA02862 5L protein; Provisional

Probab=95.96  E-value=0.0053  Score=50.70  Aligned_cols=44  Identities=23%  Similarity=0.573  Sum_probs=32.8

Q ss_pred             ccccccccccccCceeEEeCCCC-----cccHhhHHHHHhc--CCCCcccccccC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLH-----QFHANCIDPWLRQ--RGTCPVCKFRMG  262 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H-----~Fh~~CI~~WL~~--~~~CP~CR~~i~  262 (279)
                      ..|=||++.-++.    .-||..     .-|.+|+.+|+..  +..|++|+.++.
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            3799999875432    356643     4799999999974  567999998754

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

Probab=95.92  E-value=0.0028  Score=57.98  Aligned_cols=48  Identities=21%  Similarity=0.387  Sum_probs=40.1

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ..|-||-..|..+   ++..|+|.||..|...-++....|.+|-+.+...+
T Consensus       242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~  289 (313)
T KOG1813|consen  242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSF  289 (313)
T ss_pred             ccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccccccc
Confidence            4699999999954   46779999999999998888899999987765443

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

Probab=95.86  E-value=0.0026  Score=53.43  Aligned_cols=29  Identities=41%  Similarity=0.980  Sum_probs=26.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccH
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHA  241 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~  241 (279)
                      +.-+|.||||++..++.+.+|||..+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccceEEEeec
Confidence            34579999999999999999999999996

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

Probab=95.85  E-value=0.0043  Score=60.88  Aligned_cols=56  Identities=25%  Similarity=0.595  Sum_probs=41.3

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-----CCCCcccccccCCCCCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-----RGTCPVCKFRMGSGWQENRE  270 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-----~~~CP~CR~~i~~~~~~~~~  270 (279)
                      .++..|.+|.+.-+   +.....|.|.||..||..+...     +-+||+|-..+.-.-.++.-
T Consensus       534 k~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~al  594 (791)
T KOG1002|consen  534 KGEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPAL  594 (791)
T ss_pred             cCceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhh
Confidence            34568999988755   4446679999999999988752     45799998877655444433

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

Probab=95.80  E-value=0.0077  Score=40.48  Aligned_cols=40  Identities=35%  Similarity=0.919  Sum_probs=26.3

Q ss_pred             ccccccccccCceeEEeCCCC-----cccHhhHHHHHhc--CCCCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLH-----QFHANCIDPWLRQ--RGTCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H-----~Fh~~CI~~WL~~--~~~CP~C  257 (279)
                      |-||++.-.+.. ....||+-     ..|.+|+.+|+..  +..|++|
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            679998876554 44577643     4799999999974  5569987

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

Probab=95.79  E-value=0.0048  Score=58.83  Aligned_cols=45  Identities=29%  Similarity=0.649  Sum_probs=36.2

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhc--------CCCCccccc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--------RGTCPVCKF  259 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--------~~~CP~CR~  259 (279)
                      ..|.||++..........+||+|.||..|.+..+..        .-.||-|+.
T Consensus       185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            579999998876678888999999999999999853        123877654

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.61  E-value=0.013  Score=49.18  Aligned_cols=46  Identities=20%  Similarity=0.612  Sum_probs=33.3

Q ss_pred             CcccccccccccccCceeEEeCCCC-----cccHhhHHHHHhc--CCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLH-----QFHANCIDPWLRQ--RGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H-----~Fh~~CI~~WL~~--~~~CP~CR~~i~  262 (279)
                      .+..|-||.+.-.  +.  .-||..     .-|.+|+.+|+..  ...|++|++++.
T Consensus         7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            4558999988743  22  346544     3599999999975  456999988764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.50  E-value=0.0088  Score=55.81  Aligned_cols=54  Identities=22%  Similarity=0.519  Sum_probs=38.1

Q ss_pred             CcccccccccccccCc-eeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGE-LVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~-~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~  266 (279)
                      ++..|+.|+|.+.-.+ ...-.|||-..|.-|....-.. ++.||-||+...+.+.
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv   68 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV   68 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence            3445999999887544 2233568988788886554443 7789999998877654

>PHA03096 p28-like protein; Provisional

Probab=95.48  E-value=0.0068  Score=55.89  Aligned_cols=36  Identities=33%  Similarity=0.701  Sum_probs=27.7

Q ss_pred             ccccccccccccCc----eeEEeC-CCCcccHhhHHHHHhc
Q 048433          215 LTCTICLEQVKCGE----LVRSLP-CLHQFHANCIDPWLRQ  250 (279)
Q Consensus       215 ~~C~ICle~~~~~~----~v~~Lp-C~H~Fh~~CI~~WL~~  250 (279)
                      ..|.||++......    .-..|+ |.|.||..||..|-..
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            47999999876431    223566 9999999999999853

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

Probab=95.45  E-value=0.0086  Score=61.65  Aligned_cols=46  Identities=41%  Similarity=0.912  Sum_probs=34.7

Q ss_pred             CcccccccccccccCceeEE-eCCCCcccHhhHHHHHhc-------CCCCcccc
Q 048433          213 DELTCTICLEQVKCGELVRS-LPCLHQFHANCIDPWLRQ-------RGTCPVCK  258 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~-LpC~H~Fh~~CI~~WL~~-------~~~CP~CR  258 (279)
                      +..+|.||.+.+.....+=. -.|-|+||..||..|-++       .-.||.|.
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq  243 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ  243 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence            34689999999886543322 238899999999999874       12499997

>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=95.42  E-value=0.01  Score=48.53  Aligned_cols=38  Identities=26%  Similarity=0.609  Sum_probs=29.6

Q ss_pred             cccccccccccccCceeEEeCCC------CcccHhhHHHHHhcC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCL------HQFHANCIDPWLRQR  251 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~------H~Fh~~CI~~WL~~~  251 (279)
                      ..+|.||++.+...+.++.++||      |.||.+|+.+|-+.+
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            45799999999874566667775      679999999995433

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.

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

Probab=95.08  E-value=0.0082  Score=53.57  Aligned_cols=47  Identities=21%  Similarity=0.475  Sum_probs=33.8

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      -|-.|..--. ++....+.|+|+||..|...-  ....||+||..+....
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~   51 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ   51 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccC--Cccccccccceeeeee
Confidence            4777765444 566777789999999997653  1228999999865443

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

Probab=94.98  E-value=0.02  Score=53.19  Aligned_cols=47  Identities=26%  Similarity=0.516  Sum_probs=36.4

Q ss_pred             CCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcCCCCccccccc
Q 048433          212 EDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFRM  261 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~CR~~i  261 (279)
                      .+...|+||+.....+.   .+. -|-+||..||...+++.+.||+-..++
T Consensus       298 ~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            34568999988766432   333 699999999999999999999865543

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

Probab=94.89  E-value=0.015  Score=53.53  Aligned_cols=47  Identities=32%  Similarity=0.658  Sum_probs=38.2

Q ss_pred             ccccccccccccCc---eeEEeCCCCcccHhhHHHHHhc-CCCCccccccc
Q 048433          215 LTCTICLEQVKCGE---LVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRM  261 (279)
Q Consensus       215 ~~C~ICle~~~~~~---~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i  261 (279)
                      ..|-||=++|...+   ..+.|.|||.||..|+.+.+.. ...||.||...
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            36999999998663   3456779999999999888776 44699999984

>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=94.67  E-value=0.032  Score=46.84  Aligned_cols=55  Identities=27%  Similarity=0.630  Sum_probs=34.7

Q ss_pred             CcccccccccccccCceeE-------EeC--CCCc-ccHhhHHHHHhc-------------------------------C
Q 048433          213 DELTCTICLEQVKCGELVR-------SLP--CLHQ-FHANCIDPWLRQ-------------------------------R  251 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~-------~Lp--C~H~-Fh~~CI~~WL~~-------------------------------~  251 (279)
                      ++.+|+||||.--....+.       .-|  |+-. -|..|+++..+.                               +
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            3568999998754322111       012  5544 488999998741                               1


Q ss_pred             CCCcccccccCCCCCC
Q 048433          252 GTCPVCKFRMGSGWQE  267 (279)
Q Consensus       252 ~~CP~CR~~i~~~~~~  267 (279)
                      -.||+||..|..+...
T Consensus        81 L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   81 LACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccCccccCceeceEEc
Confidence            1399999999876543

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.

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

Probab=94.58  E-value=0.017  Score=53.05  Aligned_cols=42  Identities=31%  Similarity=0.683  Sum_probs=33.3

Q ss_pred             ccccccccccccCceeEEeC-CCCcccHhhHHHHHh-cCCCCccccc
Q 048433          215 LTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLR-QRGTCPVCKF  259 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~-~~~~CP~CR~  259 (279)
                      +.|+.|...+..+  + ..| |+|.||.+||..-|. ....||.|..
T Consensus       275 LkCplc~~Llrnp--~-kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP--M-KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc--c-cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            7899998877743  2 345 899999999998776 4677999955

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

Probab=94.48  E-value=0.024  Score=52.67  Aligned_cols=46  Identities=24%  Similarity=0.679  Sum_probs=36.6

Q ss_pred             CCCcccccccccccccCceeEEeCC--CCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPC--LHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC--~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ..+-.+||||.+.+..+.    ..|  ||.-|..|-.   +..+.||.||.+++.
T Consensus        45 ~~~lleCPvC~~~l~~Pi----~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPI----FQCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             chhhccCchhhccCcccc----eecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            345678999999988653    556  8999999965   357889999999984

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

Probab=94.30  E-value=0.027  Score=48.17  Aligned_cols=53  Identities=28%  Similarity=0.666  Sum_probs=36.1

Q ss_pred             CcccccccccccccCc----eeEEeCCCCcccHhhHHHHHhc-----C------CCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGE----LVRSLPCLHQFHANCIDPWLRQ-----R------GTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~----~v~~LpC~H~Fh~~CI~~WL~~-----~------~~CP~CR~~i~~~~  265 (279)
                      +...|.||+..--.|.    ..-...||..||.-|+..||+.     +      +.||.|..++.-+-
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            3446888876433332    1123559999999999999973     1      24999998876554

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.25  E-value=0.061  Score=48.94  Aligned_cols=54  Identities=19%  Similarity=0.356  Sum_probs=41.3

Q ss_pred             CCcccccccccccccCc-eeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          212 EDELTCTICLEQVKCGE-LVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~-~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      .....|||....|.... -+...||||+|...++...- ....||+|-.++.....
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~Di  165 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDI  165 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCE
Confidence            45678999999986443 34455899999999999983 45679999888875543

>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=94.13  E-value=0.028  Score=37.02  Aligned_cols=41  Identities=32%  Similarity=0.834  Sum_probs=23.5

Q ss_pred             ccccccccccCceeEEeCCCCcccHhhHHHHHhcCC--CCccc
Q 048433          217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVC  257 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~--~CP~C  257 (279)
                      |.+|-+....|..-..-.|+=.+|..|+..+++.+.  .||.|
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            678888777665332334888999999999998755  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.06  E-value=0.054  Score=55.62  Aligned_cols=58  Identities=16%  Similarity=0.172  Sum_probs=41.8

Q ss_pred             CcccccccccccccCce-eEEeC---CCCcccHhhHHHHHhc------CCCCcccccccCCCCCCCCC
Q 048433          213 DELTCTICLEQVKCGEL-VRSLP---CLHQFHANCIDPWLRQ------RGTCPVCKFRMGSGWQENRE  270 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~-v~~Lp---C~H~Fh~~CI~~WL~~------~~~CP~CR~~i~~~~~~~~~  270 (279)
                      +..+|.||..++..+++ ...+|   |+|.||..||..|..+      +-.|+.|...|..+....+.
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqT  162 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQT  162 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhccc
Confidence            34578888877775332 23445   9999999999999854      34589999988877665544

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

Probab=94.00  E-value=0.0041  Score=58.88  Aligned_cols=50  Identities=22%  Similarity=0.577  Sum_probs=42.4

Q ss_pred             ccccccccccccC-ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          215 LTCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       215 ~~C~ICle~~~~~-~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ..|+||.+.+++. +.+..+-|||.+|..|+.+||.....||.|+..++..
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            4799999998865 4555667999999999999999988999999987754

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

Probab=93.86  E-value=0.029  Score=57.95  Aligned_cols=40  Identities=23%  Similarity=0.684  Sum_probs=32.3

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      ..|..|--.++-+  .+..-|||.||.+|..   .....||-|+.
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccch
Confidence            4799997777743  4567799999999998   45667999987

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.82  E-value=0.034  Score=38.56  Aligned_cols=46  Identities=26%  Similarity=0.451  Sum_probs=32.8

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ...|..|...-   ..-..+||||..|..|..-+  +-+.||.|-+++...
T Consensus         7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             ceeEEEccccc---cccccccccceeeccccChh--hccCCCCCCCcccCC
Confidence            34577774432   34467999999999996543  567799998887654

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

Probab=93.53  E-value=0.03  Score=57.55  Aligned_cols=50  Identities=22%  Similarity=0.500  Sum_probs=38.6

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhc--CCCCcccccccCCCCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--RGTCPVCKFRMGSGWQEN  268 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--~~~CP~CR~~i~~~~~~~  268 (279)
                      ..|.||++    .+.....+|+|.||.+|+..-+..  ...||.||..+..+....
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            68999998    345667789999999999998865  335999998776554433

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

Probab=93.01  E-value=0.043  Score=50.31  Aligned_cols=44  Identities=32%  Similarity=0.684  Sum_probs=36.4

Q ss_pred             cccccccccccC-ceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          216 TCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       216 ~C~ICle~~~~~-~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      .|+||.+.+... ..+..++|||.-|..|........-+||+|..
T Consensus       160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            499999976544 35667899999999999888877788999987

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

Probab=91.93  E-value=0.045  Score=58.90  Aligned_cols=43  Identities=30%  Similarity=0.759  Sum_probs=36.4

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      ..|.||++.+....  ....|||.+|..|...|+..+..||+|+.
T Consensus      1154 ~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            47999999887322  34569999999999999999999999984

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

Probab=91.89  E-value=0.14  Score=49.56  Aligned_cols=36  Identities=33%  Similarity=0.614  Sum_probs=30.7

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ  250 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~  250 (279)
                      +++..|+||..-|.+   ...|||+|..|..|...-+.+
T Consensus         2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccC---ceEeecccHHHHHHHHhhccc
Confidence            577899999988884   468999999999999987765

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

Probab=91.84  E-value=0.085  Score=46.55  Aligned_cols=40  Identities=33%  Similarity=0.679  Sum_probs=30.1

Q ss_pred             ccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCC
Q 048433          217 CTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       217 C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      |-.|-+.   +..+..+||.|. +|..|-..    ...||+|+.....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            8889554   346888999985 89999654    4559999876554

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

Probab=91.70  E-value=0.14  Score=41.80  Aligned_cols=51  Identities=29%  Similarity=0.512  Sum_probs=38.1

Q ss_pred             cccccccccccccCceeEEe-C---CCCcccHhhHHHHHhc---CCCCcccccccCCCCCC
Q 048433          214 ELTCTICLEQVKCGELVRSL-P---CLHQFHANCIDPWLRQ---RGTCPVCKFRMGSGWQE  267 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~L-p---C~H~Fh~~CI~~WL~~---~~~CP~CR~~i~~~~~~  267 (279)
                      -.+|.||.|...+.   +-| |   ||-..|..|-...++.   ...||+|+..+++....
T Consensus        80 lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~~  137 (140)
T PF05290_consen   80 LYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSSA  137 (140)
T ss_pred             ceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccccc
Confidence            46899998876532   222 2   8999999998876653   66799999999877654

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

Probab=91.25  E-value=0.28  Score=46.72  Aligned_cols=28  Identities=21%  Similarity=0.864  Sum_probs=21.9

Q ss_pred             CCCcccHhhHHHHHhc-------------CCCCcccccccC
Q 048433          235 CLHQFHANCIDPWLRQ-------------RGTCPVCKFRMG  262 (279)
Q Consensus       235 C~H~Fh~~CI~~WL~~-------------~~~CP~CR~~i~  262 (279)
                      |.-..|.+|+-+|+..             +..||+||+++.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            5667899999999852             235999999865

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

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

Probab=90.87  E-value=0.11  Score=54.10  Aligned_cols=36  Identities=25%  Similarity=0.526  Sum_probs=28.5

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHH
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL  248 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL  248 (279)
                      +....|.+|...+... .-.+.||||.||.+|+.+-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            4556899998876643 45678999999999998865

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

Probab=90.07  E-value=0.13  Score=47.68  Aligned_cols=47  Identities=26%  Similarity=0.508  Sum_probs=31.4

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      -.|--|=-.+.  .--+.+||.|+||.+|...  ..-+.||.|-.+|..-.
T Consensus        91 HfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe  137 (389)
T KOG2932|consen   91 HFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQRIE  137 (389)
T ss_pred             EeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence            34666733322  2345689999999999754  34668999987765443

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

Probab=89.84  E-value=0.25  Score=47.18  Aligned_cols=47  Identities=19%  Similarity=0.402  Sum_probs=39.7

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC---CCccccc
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG---TCPVCKF  259 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~---~CP~CR~  259 (279)
                      ....|||=-+.-...+....|.|||+.+.+-+.+..++..   .||.|-.
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            3568999988888888888999999999999999887644   5999943

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=89.74  E-value=0.45  Score=32.93  Aligned_cols=39  Identities=26%  Similarity=0.651  Sum_probs=31.2

Q ss_pred             cccccccccccccCceeEEeC-CCCcccHhhHHHHHhcCCCCcc
Q 048433          214 ELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPV  256 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~  256 (279)
                      ...|.+|-+.|..++++++-| ||-.+|.+|..+    .+.|-.
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            347999999998778888888 999999999544    455655

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

Probab=89.63  E-value=0.12  Score=34.63  Aligned_cols=44  Identities=25%  Similarity=0.593  Sum_probs=25.7

Q ss_pred             cccccccccccCceeEEeCC-CCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          216 TCTICLEQVKCGELVRSLPC-LHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC-~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .|--|+-..+     ....| .|..|..|+...+.....||+|..+++.+
T Consensus         4 nCKsCWf~~k-----~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFANK-----GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S--S-----SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcCC-----CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            4666764422     24557 49999999999999999999999998865

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

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

Probab=89.35  E-value=0.2  Score=51.39  Aligned_cols=40  Identities=33%  Similarity=0.720  Sum_probs=28.4

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPV  256 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~  256 (279)
                      .|.||--.+. +.......|+|..|.+|...|++....||.
T Consensus      1030 ~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            4666543333 122234569999999999999999999984

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

Probab=88.44  E-value=0.4  Score=49.65  Aligned_cols=53  Identities=23%  Similarity=0.569  Sum_probs=38.2

Q ss_pred             CCcccccccccccccCceeEEeCCCCc-----ccHhhHHHHHhc--CCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQ-----FHANCIDPWLRQ--RGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~-----Fh~~CI~~WL~~--~~~CP~CR~~i~~~~  265 (279)
                      +++..|-||..+=.+++. ..=||+..     .|.+|+..|+.-  ...|-+|+.+++-+.
T Consensus        10 ~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            445789999887665543 34466543     799999999985  445999998776443

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

Probab=87.56  E-value=0.2  Score=48.19  Aligned_cols=37  Identities=22%  Similarity=0.592  Sum_probs=26.8

Q ss_pred             cccccccccccccC-ceeEEeCCCCcccHhhHHHHHhc
Q 048433          214 ELTCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQ  250 (279)
Q Consensus       214 ~~~C~ICle~~~~~-~~v~~LpC~H~Fh~~CI~~WL~~  250 (279)
                      ..+|.||..+.... .......|+|.||.+|.++.+..
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            45799999444333 33345669999999999988863

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

Probab=87.07  E-value=0.51  Score=43.34  Aligned_cols=51  Identities=25%  Similarity=0.537  Sum_probs=36.1

Q ss_pred             cccccccccccccCce-eEEeCCCC-----cccHhhHHHHHh--cCCCCcccccccCCC
Q 048433          214 ELTCTICLEQVKCGEL-VRSLPCLH-----QFHANCIDPWLR--QRGTCPVCKFRMGSG  264 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~-v~~LpC~H-----~Fh~~CI~~WL~--~~~~CP~CR~~i~~~  264 (279)
                      +..|-||.++...... ....||..     ..|..|+..|+.  .+..|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4679999987654321 34566633     379999999998  456799998865544

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.72  E-value=0.32  Score=43.97  Aligned_cols=52  Identities=27%  Similarity=0.651  Sum_probs=33.4

Q ss_pred             CCCcccccccccccccCcee-EEeCC-----CCcccHhhHHHHHhcC--------CCCcccccccC
Q 048433          211 SEDELTCTICLEQVKCGELV-RSLPC-----LHQFHANCIDPWLRQR--------GTCPVCKFRMG  262 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v-~~LpC-----~H~Fh~~CI~~WL~~~--------~~CP~CR~~i~  262 (279)
                      .+.+..|=||+..=++.... =+-||     .|..|..|+.+|+..+        -.||.|+....
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            35566899997753322110 12355     3679999999999432        24999988654

>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=86.71  E-value=0.53  Score=43.30  Aligned_cols=48  Identities=21%  Similarity=0.519  Sum_probs=33.7

Q ss_pred             cccccccc-cccCce-eEEeCCCCcccHhhHHHHHhc-CCCCcccccccCC
Q 048433          216 TCTICLEQ-VKCGEL-VRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGS  263 (279)
Q Consensus       216 ~C~ICle~-~~~~~~-v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~  263 (279)
                      .|++|-.. |-.++. +..-+|+|..|.+|....+.. ...||.|-..+-.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence            48888764 333332 222369999999999998865 6679999665543

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

Probab=85.85  E-value=0.2  Score=51.10  Aligned_cols=50  Identities=32%  Similarity=0.626  Sum_probs=38.9

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhcC---CCCcccccccCCCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR---GTCPVCKFRMGSGWQ  266 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~---~~CP~CR~~i~~~~~  266 (279)
                      ..+|+||.+.+..+   ..+.|-|.||..|+..-+...   ..||+|+..+.....
T Consensus        21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~   73 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL   73 (684)
T ss_pred             hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence            45899999998865   467899999999988766543   459999877665543

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.68  E-value=0.42  Score=44.01  Aligned_cols=30  Identities=17%  Similarity=0.525  Sum_probs=23.4

Q ss_pred             CCCcccHhhHHHHHh-------------cCCCCcccccccCCC
Q 048433          235 CLHQFHANCIDPWLR-------------QRGTCPVCKFRMGSG  264 (279)
Q Consensus       235 C~H~Fh~~CI~~WL~-------------~~~~CP~CR~~i~~~  264 (279)
                      |....|.+|+.+|+.             ++.+||+||+.+.-.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            667789999999973             355799999987643

>PLN02189 cellulose synthase

Probab=85.68  E-value=0.95  Score=48.43  Aligned_cols=49  Identities=27%  Similarity=0.531  Sum_probs=34.2

Q ss_pred             cccccccccccc---cCceeEEeC-CCCcccHhhHHHHHh-cCCCCcccccccC
Q 048433          214 ELTCTICLEQVK---CGELVRSLP-CLHQFHANCIDPWLR-QRGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~---~~~~v~~Lp-C~H~Fh~~CI~~WL~-~~~~CP~CR~~i~  262 (279)
                      ...|.||-+++.   .|+.-+... |+--.|..|.+-=-+ .++.||.||.+..
T Consensus        34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~   87 (1040)
T PLN02189         34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK   87 (1040)
T ss_pred             CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            347999999875   233333333 787889999854333 3667999999887

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=84.66  E-value=0.62  Score=42.80  Aligned_cols=40  Identities=28%  Similarity=0.520  Sum_probs=29.0

Q ss_pred             CCcccccccccccccCceeEEeC--CCCcccHhhHHHHHhcCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLP--CLHQFHANCIDPWLRQRG  252 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp--C~H~Fh~~CI~~WL~~~~  252 (279)
                      ...+.|.+|.|.++.. ..+..|  =.|.||..|-+.-+|++.
T Consensus       266 ~apLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~Qg  307 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQQG  307 (352)
T ss_pred             CCceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHhhc
Confidence            3457899999998832 222223  289999999999998654

>PLN02436 cellulose synthase A

Probab=81.96  E-value=1.6  Score=46.96  Aligned_cols=48  Identities=29%  Similarity=0.570  Sum_probs=33.8

Q ss_pred             ccccccccccc---cCceeEEeC-CCCcccHhhHHHHHh-cCCCCcccccccC
Q 048433          215 LTCTICLEQVK---CGELVRSLP-CLHQFHANCIDPWLR-QRGTCPVCKFRMG  262 (279)
Q Consensus       215 ~~C~ICle~~~---~~~~v~~Lp-C~H~Fh~~CI~~WL~-~~~~CP~CR~~i~  262 (279)
                      ..|-||-+++.   .|+.-+... |+--.|..|.+-=-+ .++.||.||.+..
T Consensus        37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~   89 (1094)
T PLN02436         37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK   89 (1094)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            47999999864   333333333 787799999854333 3667999999887

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

Probab=81.83  E-value=0.72  Score=41.43  Aligned_cols=48  Identities=21%  Similarity=0.598  Sum_probs=34.2

Q ss_pred             Ccccccccccc-cccCc-eeEEeC-CCCcccHhhHHHHHhc-CCCCc--ccccc
Q 048433          213 DELTCTICLEQ-VKCGE-LVRSLP-CLHQFHANCIDPWLRQ-RGTCP--VCKFR  260 (279)
Q Consensus       213 e~~~C~ICle~-~~~~~-~v~~Lp-C~H~Fh~~CI~~WL~~-~~~CP--~CR~~  260 (279)
                      .+..||||..+ |-.++ ....-| |-|..|..|+++.+.. ...||  -|..-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI   62 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI   62 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence            34579999875 33333 333345 9999999999999876 56699  78543

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=81.75  E-value=1.3  Score=45.81  Aligned_cols=41  Identities=24%  Similarity=0.526  Sum_probs=29.6

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPV  256 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~  256 (279)
                      ..|.+|-..+. |..+-.--|||.-|.+|+.+|+.....||.
T Consensus       780 ~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence            36999965544 222222229999999999999998888766

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

Probab=81.30  E-value=2  Score=29.05  Aligned_cols=43  Identities=23%  Similarity=0.642  Sum_probs=20.3

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhc-----CCCCcccccc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-----RGTCPVCKFR  260 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-----~~~CP~CR~~  260 (279)
                      ..|+|....+.  ..++...|.|.-|.+ +..|+..     .-.||+|.++
T Consensus         3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            46999988877  355667799985543 3445532     2359999763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=81.24  E-value=0.68  Score=44.61  Aligned_cols=43  Identities=28%  Similarity=0.562  Sum_probs=31.5

Q ss_pred             ccccccccccccCc--eeEEeCCCCcccHhhHHHHHhcCCCCccc
Q 048433          215 LTCTICLEQVKCGE--LVRSLPCLHQFHANCIDPWLRQRGTCPVC  257 (279)
Q Consensus       215 ~~C~ICle~~~~~~--~v~~LpC~H~Fh~~CI~~WL~~~~~CP~C  257 (279)
                      ..|++|.-.++...  ...+-.|||.||..|...|...+..|..|
T Consensus       307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence            46888876654333  33344499999999999999888887655

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

Probab=81.11  E-value=0.54  Score=47.43  Aligned_cols=43  Identities=28%  Similarity=0.753  Sum_probs=27.3

Q ss_pred             cccccccccc-----cccCceeEEeCCCCcccHhhHHHHHhcCCCCccccc
Q 048433          214 ELTCTICLEQ-----VKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF  259 (279)
Q Consensus       214 ~~~C~ICle~-----~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~  259 (279)
                      ...|.+|...     |+.....+...|++.||..|..   +.+..||.|-+
T Consensus       511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~---r~s~~CPrC~R  558 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLR---RKSPCCPRCER  558 (580)
T ss_pred             eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHh---ccCCCCCchHH
Confidence            4578888332     2222233345599999999954   45666999933

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	279
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		8e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		7e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-07
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-06
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		7e-05
1chc_A	68	Structure Of The C3hc4 Domain By 1h-Nuclear Magneti		1e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		1e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		2e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		2e-04
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		4e-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 = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 26/58 (44%), Positives = 33/58 (56%)
Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           S  + G+ +     L C +C E    GE VR LPC H FH +CI PWL Q  +CPVC+
Sbjct: 2   SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG 262
           ++  C +C+   +  +L+R LPC H+FHA C+D WL+   TCP+C+   G
Sbjct: 22  EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 28/43 (65%)
Query: 217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF 259
           CTICL  ++ GE VR LPC+H FH  C+D WL     CP+C+ 
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRV 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 = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 191 AATPEQSKQESKKADGSTKSSED------ELTCTICLEQVKCGELVRSLPCLHQFHANCI 244
            A P  SK ES  A      +ED      E+ C IC  +   G++   LPC H FH  C+
Sbjct: 12  VANPPASK-ESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCV 70
Query: 245 DPWLRQRGTCPVCK 258
             WL++ GTCPVC+
Sbjct: 71  SIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 210 SSEDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKF 259
           + +D + C +CL +++ GE  R LP C H FHA C+D WL    TCP+C+ 
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRL 51

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFR 260
           S  + G  K   DE  C IC++    G     LPC H F   CID W  +   CP+C+ +
Sbjct: 2   SSGSSGRVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57
Query: 261 M 261
           M
Sbjct: 58  M 58

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSS 276
           C ICLE         +LPCLH F   CI  W+RQ  TCP+CK  + S      ES+S+  
Sbjct: 8   CPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV-VHTIESDSEFG 64
Query: 277 D 277
           D
Sbjct: 65  D 65

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 195 EQSKQESKKADGSTKSS--------EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDP 246
           EQ+K+E +K     +          E+EL C IC E     E V +L C H F + CI+ 
Sbjct: 26  EQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF--IEAV-TLNCAHSFCSYCINE 82
Query: 247 WLRQRGTCPVCK 258
           W++++  CP+C+
Sbjct: 83  WMKRKIECPICR 94

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 195 EQSKQESKKADGSTKSS--------EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDP 246
           EQ+K+E +K     +          E+EL C IC E     E V +L C H F + CI+ 
Sbjct: 26  EQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF--IEAV-TLNCAHSFCSYCINE 82
Query: 247 WLRQRGTCPVCK 258
           W++++  CP+C+
Sbjct: 83  WMKRKIECPICR 94

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 195 EQSKQESKKADGSTKSS--------EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDP 246
           EQ+K+E +K     +          E+EL C IC E     E V +L C H F + CI+ 
Sbjct: 37  EQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF--IEAV-TLNCAHSFCSYCINE 93
Query: 247 WLRQRGTCPVCK 258
           W++++  CP+C+
Sbjct: 94  WMKRKIECPICR 105

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 26/59 (44%)
Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF 259
           S  + G  K       C +CLE  K  + +   PC H FH  C+  WL  R  CP+C  
Sbjct: 2   SSGSSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNM 60

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	279
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	5e-26
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-26
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-25
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	8e-25
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-23
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	6e-21
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-19
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-19
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	4e-17
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-15
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	7e-14
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	8e-11
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-10
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-10
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	5e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	7e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-10
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	9e-10
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-08
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	6e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	7e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	8e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	3e-06
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-06
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	5e-06
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	5e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-06
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	8e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	1e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-05
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	3e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	5e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	7e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	6e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	7e-04

>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 = 96.3 bits (240), Expect = 5e-26
 Identities = 24/58 (41%), Positives = 32/58 (55%)

Query: 202 KKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF 259
           K+        + E  CTICL  ++ GE VR LPC+H FH  C+D WL     CP+C+ 
Sbjct: 2   KQDGEEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRV 59

>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 = 96.3 bits (240), Expect = 8e-26
 Identities = 26/61 (42%), Positives = 34/61 (55%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFR 260
           S  + G+ +     L C +C E    GE VR LPC H FH +CI PWL Q  +CPVC+  
Sbjct: 2   SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKS 61

Query: 261 M 261
           +
Sbjct: 62  L 62

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

 Score = 94.8 bits (236), Expect = 3e-25
 Identities = 22/72 (30%), Positives = 30/72 (41%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFR 260
           S  + G  K       C +CLE  K  + +   PC H FH  C+  WL  R  CP+C   
Sbjct: 2   SSGSSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMP 61

Query: 261 MGSGWQENRESE 272
           +    Q +  S 
Sbjct: 62  VLQLAQLSGPSS 73

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

 Score = 93.9 bits (234), Expect = 8e-25
 Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 5/87 (5%)

Query: 180 VGSSIRQPSSSAATPEQSKQ-----ESKKADGSTKSSEDELTCTICLEQVKCGELVRSLP 234
           +G      S   A P  SK+               +   E+ C IC  +   G++   LP
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 235 CLHQFHANCIDPWLRQRGTCPVCKFRM 261
           C H FH  C+  WL++ GTCPVC+   
Sbjct: 61  CHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 90.1 bits (224), Expect = 2e-23
 Identities = 22/102 (21%), Positives = 37/102 (36%), Gaps = 35/102 (34%)

Query: 158 SEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTC 217
           S      LP +++                                          ++  C
Sbjct: 2   SSGSSGQLPSYRFN-----------------------------------PNNHQSEQTLC 26

Query: 218 TICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF 259
            +C+   +  +L+R LPC H+FHA C+D WL+   TCP+C+ 
Sbjct: 27  VVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRA 68

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

 Score = 83.2 bits (206), Expect = 6e-21
 Identities = 23/71 (32%), Positives = 32/71 (45%), Gaps = 4/71 (5%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFR 260
           S  + G  K   DE  C IC++    G     LPC H F   CID W  +   CP+C+ +
Sbjct: 2   SSGSSGRVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57

Query: 261 MGSGWQENRES 271
           M    + +  S
Sbjct: 58  MTGANESSGPS 68

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

 Score = 78.4 bits (194), Expect = 3e-19
 Identities = 22/52 (42%), Positives = 32/52 (61%), Gaps = 1/52 (1%)

Query: 210 SSEDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFR 260
           + +D + C +CL +++ GE  R LP C H FHA C+D WL    TCP+C+  
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

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

 Score = 78.6 bits (194), Expect = 3e-19
 Identities = 26/69 (37%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRE 270
           +     C ICLE         +LPCLH F   CI  W+RQ  TCP+CK  + S      E
Sbjct: 2   ATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES-VVHTIE 58

Query: 271 SESDSSDMV 279
           S+S+  D +
Sbjct: 59  SDSEFGDQL 67

>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 = 72.7 bits (179), Expect = 4e-17
 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 1/50 (2%)

Query: 211 SEDELTCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKF 259
           S     C ICLE +     +   LPC H  H  C +  L++   CP+C  
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

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

 Score = 68.4 bits (167), Expect = 2e-15
 Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 4/67 (5%)

Query: 201 SKKADGSTKSSEDELTCTICLEQ----VKCGELVRSLPCLHQFHANCIDPWLRQRGTCPV 256
           S  + G+       ++C IC++     V+ G L+ S  C H F + C+   L+   TCP 
Sbjct: 2   SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61

Query: 257 CKFRMGS 263
           C+ ++  
Sbjct: 62  CRKKINH 68

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

 Score = 66.5 bits (162), Expect = 2e-14
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 216 TCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVC 257
            C  C  + K  + V     C H FH  C+  W++Q   CP+C
Sbjct: 28  ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLC 70

>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 = 66.0 bits (161), Expect = 2e-14
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 207 STKSSEDELTCTICLEQ----VKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           +       ++C IC++     V+ G L+ S  C H F + C+   L+   TCP C+
Sbjct: 3   TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58

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

 Score = 64.0 bits (156), Expect = 7e-14
 Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)

Query: 214 ELTCTICLEQ----VKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
            ++C IC++     V+ G L+ S  C H F + C+   L+   TCP C+
Sbjct: 3   MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51

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

 Score = 56.3 bits (136), Expect = 6e-11
 Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 2/58 (3%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           S  + G+       + C+IC   +   +      CLH F  +CI         CP C 
Sbjct: 2   SSGSSGNLSELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCN 57

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 57.2 bits (138), Expect = 6e-11
 Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 3/65 (4%)

Query: 195 EQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL-RQRGT 253
                 S   + S +S  +   C IC+E+++  +      C      +CI  WL  QR  
Sbjct: 3   HHHHHHSHMDEQSVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQ 60

Query: 254 CPVCK 258
           CP C+
Sbjct: 61  CPHCR 65

>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 = 57.1 bits (137), Expect = 8e-11
 Identities = 21/89 (23%), Positives = 32/89 (35%), Gaps = 17/89 (19%)

Query: 186 QPSSSAATPEQSKQESKKADGSTKSSEDEL--TCTICLEQVKC---------------GE 228
            PS + +   + + E KK +     + D +   C IC   +                   
Sbjct: 7   TPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEEC 66

Query: 229 LVRSLPCLHQFHANCIDPWLRQRGTCPVC 257
            V    C H FH +CI  WL+ R  CP+ 
Sbjct: 67  TVAWGVCNHAFHFHCISRWLKTRQVCPLD 95

>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 = 55.3 bits (133), Expect = 2e-10
 Identities = 12/60 (20%), Positives = 19/60 (31%), Gaps = 4/60 (6%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVCK 258
           S  + G     +    C IC   +  G       C  + H  C+  + +      CP C 
Sbjct: 2   SSGSSGRETYPDAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 56.2 bits (135), Expect = 3e-10
 Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 11/72 (15%)

Query: 195 EQSKQESKKADGSTKS--------SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDP 246
           EQ+K+E +K     +          E+EL C IC E         +L C H F + CI+ 
Sbjct: 37  EQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEA---VTLNCAHSFCSYCINE 93

Query: 247 WLRQRGTCPVCK 258
           W++++  CP+C+
Sbjct: 94  WMKRKIECPICR 105

>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 = 55.6 bits (133), Expect = 3e-10
 Identities = 19/89 (21%), Positives = 30/89 (33%), Gaps = 21/89 (23%)

Query: 190 SAATPEQSKQESKKADGSTKSSEDELTCTICLE---------------QVKCGELVRSLP 234
           S+ +  + +Q  +K     K + +E  C IC+E                +    + R   
Sbjct: 2   SSGSSGEPEQVIRKYTEELKVAPEE-DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK 60

Query: 235 CLHQFHANCIDPWLRQ-----RGTCPVCK 258
           C H FH  C+              CP CK
Sbjct: 61  CSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

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

 Score = 54.1 bits (130), Expect = 5e-10
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 6/58 (10%)

Query: 204 ADGSTKSSEDE---LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           + GS+  SE+E     C IC +  +         C H F  +C     R    C +C 
Sbjct: 2   SSGSSGGSEEEEIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICD 56

>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 = 57.9 bits (139), Expect = 7e-10
 Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 4/67 (5%)

Query: 193 TPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG 252
             +  K   ++ +   +       C IC E  K    V+  PC H    +C+  W    G
Sbjct: 311 PQDHIKVTQEQYELYCEMGSTFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEG 367

Query: 253 -TCPVCK 258
             CP C+
Sbjct: 368 QGCPFCR 374

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

 Score = 54.1 bits (130), Expect = 8e-10
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 2/47 (4%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
              L C +C       +    + CLH F   CI  +L     CP+C 
Sbjct: 13  NPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICD 57

>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 = 54.5 bits (130), Expect = 9e-10
 Identities = 20/99 (20%), Positives = 31/99 (31%), Gaps = 17/99 (17%)

Query: 176 ASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDEL--TCTICLEQVKC------- 226
             E           + +   + + E KK +     + D +   C IC   +         
Sbjct: 8   VDEENLYFQGGGRGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQA 67

Query: 227 --------GELVRSLPCLHQFHANCIDPWLRQRGTCPVC 257
                      V    C H FH +CI  WL+ R  CP+ 
Sbjct: 68  NQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 106

>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 = 54.2 bits (130), Expect = 2e-09
 Identities = 19/122 (15%), Positives = 37/122 (30%), Gaps = 5/122 (4%)

Query: 144 RALDSDNTSTTPSMSEEEINSLPVHKYKV-PGPASESVGSSIRQPSSSAATPEQSKQESK 202
               S       S S  ++         +     +      IR+   +    ++      
Sbjct: 7   HHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVLSHLV 66

Query: 203 KADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRM 261
           +     K  E    C  C E V   + V +  C H    +C+    + +  +CP C+  +
Sbjct: 67  EGPNFLKKLEQSFMCVCCQELVY--QPV-TTECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

Query: 262 GS 263
           G 
Sbjct: 124 GQ 125

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

 Score = 53.2 bits (127), Expect = 3e-09
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 4/52 (7%)

Query: 211 SEDELTCTICLEQVKCGELVR----SLPCLHQFHANCIDPWLRQRGTCPVCK 258
               ++C IC++             S  C H F + C+   L+   TCP C+
Sbjct: 4   GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

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

 Score = 45.9 bits (108), Expect = 1e-06
 Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 4/69 (5%)

Query: 194 PEQSKQESKKADGSTKSSEDELTCTICLEQVK----CGELVRSLPCLHQFHANCIDPWLR 249
           P   K+ + K           ++C IC++        G L+ S  C H F + C+   L+
Sbjct: 52  PTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK 111

Query: 250 QRGTCPVCK 258
              TCP C+
Sbjct: 112 NANTCPTCR 120

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

 Score = 50.6 bits (121), Expect = 6e-09
 Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 3/53 (5%)

Query: 206 GSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           G+T  S     C ICL+         SLPC H F   C+         C +C+
Sbjct: 7   GNTAPSLTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCR 56

>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 = 51.1 bits (122), Expect = 2e-08
 Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 4/65 (6%)

Query: 195 EQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-T 253
           +                E+   C  C E V     + +  C H    +C+D   R +  +
Sbjct: 33  KDRPASGSPFQLFLSKVEETFQCICCQELVF--RPI-TTVCQHNVCKDCLDRSFRAQVFS 89

Query: 254 CPVCK 258
           CP C+
Sbjct: 90  CPACR 94

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

 Score = 48.4 bits (115), Expect = 6e-08
 Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 10/68 (14%)

Query: 201 SKKADGSTKSSEDELTCTICL-EQVKCGELVRSLPC-----LHQFHANCIDPWLRQRG-- 252
           S  + G++ +   +  C IC  E      L+   PC     LH  H  C+  W++     
Sbjct: 2   SSGSSGTSITPSSQDICRICHCEGDDESPLIT--PCHCTGSLHFVHQACLQQWIKSSDTR 59

Query: 253 TCPVCKFR 260
            C +CK+ 
Sbjct: 60  CCELCKYE 67

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

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 2/47 (4%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           +D L C IC E       +    C H + + CI  +L  +  CP C 
Sbjct: 20  DDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCC 64

>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 = 48.0 bits (114), Expect = 4e-07
 Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 193 TPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG 252
           TP+++  +  +   S +S   EL C ICL+ +K    + +  CLH+F A+CI   LR   
Sbjct: 33  TPQEAITDGLEIVVSPRSLHSELMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGN 90

Query: 253 -TCPVCK 258
             CP C+
Sbjct: 91  KECPTCR 97

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

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 4/62 (6%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELV-RSLPCLHQFHANCIDPWLRQRG---TCPV 256
           S  + G+  +  + L C IC+E     +L  + L C H     C++  L        CP 
Sbjct: 2   SSGSSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPF 61

Query: 257 CK 258
           C 
Sbjct: 62  CS 63

>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 = 45.9 bits (109), Expect = 7e-07
 Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 6/65 (9%)

Query: 197 SKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG---T 253
           S    ++      + +  L C ICLE +K  E V S  C H F   C+   L Q+     
Sbjct: 4   SALRVEEVQNVINAMQKILECPICLELIK--EPV-STKCDHIFCKFCMLKLLNQKKGPSQ 60

Query: 254 CPVCK 258
           CP+CK
Sbjct: 61  CPLCK 65

>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 = 46.1 bits (109), Expect = 8e-07
 Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 4/68 (5%)

Query: 207 STKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRMGSGW 265
               S  E  C IC+E +   E V  LPC H     C    + +    CP C+ R+ S  
Sbjct: 8   DAIPSLSECQCGICMEILV--EPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWT 64

Query: 266 QENRESES 273
           + +    S
Sbjct: 65  RYHTRRNS 72

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 7/59 (11%)

Query: 204 ADGST---KSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCK 258
           + GS+   K+ ED+  C  C   +      +   C H+F  +C+   L      C  C+
Sbjct: 2   SSGSSGFVKTVEDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQ 57

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

 Score = 47.9 bits (113), Expect = 2e-06
 Identities = 17/77 (22%), Positives = 26/77 (33%), Gaps = 16/77 (20%)

Query: 198 KQESKKADGSTKSSEDELTCTICLEQVKCGELV-----RSLPCLHQFHANCIDPWLRQR- 251
             +        +   +EL C IC      G  V      +  C+ + HA C++ W +   
Sbjct: 292 MPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLM 351

Query: 252 ----------GTCPVCK 258
                     G CP CK
Sbjct: 352 DGKTFLEVSFGQCPFCK 368

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

 Score = 44.5 bits (105), Expect = 2e-06
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           E  L C+ C   ++  E V    C H F +NC+   +     CPVC 
Sbjct: 20  EKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGTG--CPVCY 62

>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 = 43.6 bits (103), Expect = 2e-06
 Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 4/60 (6%)

Query: 201 SKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVCK 258
           S  + G      DEL C IC + +   + V    C + +   CI   L +    TCP C 
Sbjct: 2   SSGSSGEDDPIPDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

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

 Score = 42.7 bits (101), Expect = 3e-06
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 6/46 (13%)

Query: 213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
             L C  C  + KC    + LPCLH   + C++        CP+C+
Sbjct: 5   QFLRCQQCQAEAKC---PKLLPCLHTLCSGCLE---ASGMQCPICQ 44

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

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 6/50 (12%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCI-DPWLRQRGT--CPVCK 258
           ++E+ C ICL+ ++  + V ++ C H F   CI        G   CP+CK
Sbjct: 18  QEEVICPICLDILQ--KPV-TIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3 Length = 60

 Score = 42.0 bits (99), Expect = 5e-06
 Identities = 16/57 (28%), Positives = 20/57 (35%), Gaps = 10/57 (17%)

Query: 211 SEDELTCTICLEQVKCGELVRSLPC-----LHQFHANCIDPWLRQRG--TCPVCKFR 260
            ED   C IC E+    E  R   C     L   H +C+  WL       C +C   
Sbjct: 3   DEDVPVCWICNEE-LGNERFR--ACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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} Length = 267

 Score = 45.7 bits (107), Expect = 5e-06
 Identities = 24/143 (16%), Positives = 45/143 (31%), Gaps = 11/143 (7%)

Query: 120 RLQGLRLQLALLDREFDELDYDTLRALDSDNTSTTPSMSEEEINSLPVHKYKVPGPASES 179
            ++ L+           ++D  T          T P +SE  +N             +  
Sbjct: 86  HIKDLKKNFKQSSDACPQIDLSTWDKY-RTGELTAPKLSELYLNM--PTPEPATMVNNTD 142

Query: 180 VGSSIRQPSSSAATPEQ----SKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPC 235
               ++        P       +  + + D   +  + ELTC I  +  +    + S  C
Sbjct: 143 TLKILKVLPYIWNDPTCVIPDLQNPADEDDLQIEGGKIELTCPITCKPYE--APLISRKC 200

Query: 236 LHQFHANCIDPWLRQRGT--CPV 256
            H F  + I  +L+   T  CP 
Sbjct: 201 NHVFDRDGIQNYLQGYTTRDCPQ 223

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

 Score = 45.1 bits (106), Expect = 7e-06
 Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 4/49 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVCK 258
           +    C IC   +  G       C  + H  C+  + +      CP C 
Sbjct: 178 DAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 224

>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 = 42.3 bits (100), Expect = 7e-06
 Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 10/62 (16%)

Query: 204 ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGT-------CPV 256
           + GS+ + ++E+TC ICLE +   E + SL C H     CI    ++  T       CPV
Sbjct: 2   SSGSSGNVQEEVTCPICLELLT--EPL-SLDCGHSLCRACITVSNKEAVTSMGGKSSCPV 58

Query: 257 CK 258
           C 
Sbjct: 59  CG 60

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

 Score = 42.4 bits (100), Expect = 8e-06
 Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 9/61 (14%)

Query: 204 ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGT------CPVC 257
           A    +  ++E+TC ICLE +K  E V S  C H F   CI               CPVC
Sbjct: 9   ASSVLEMIKEEVTCPICLELLK--EPV-SADCNHSFCRACITLNYESNRNTDGKGNCPVC 65

Query: 258 K 258
           +
Sbjct: 66  R 66

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

 Score = 41.2 bits (97), Expect = 1e-05
 Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 6/57 (10%)

Query: 204 ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGT---CPVC 257
           + G+ ++ + E +C++CLE +K  E V  + C H F   CI  W         CPVC
Sbjct: 5   SSGALENLQVEASCSVCLEYLK--EPV-IIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 41.6 bits (97), Expect = 1e-05
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 2/56 (3%)

Query: 205 DGSTKSSEDELTCTICLEQVKCGEL-VRSLPCLHQFHANCIDPWLRQR-GTCPVCK 258
             S  + ED + C +C+E ++  ++      C +Q    C         G CP C+
Sbjct: 2   SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

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

 Score = 41.2 bits (97), Expect = 1e-05
 Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 6/54 (11%)

Query: 207 STKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCI-DPWLRQRGT--CPVC 257
                ++E+ C ICL+ ++  + V ++ C H F   CI        G   CP+C
Sbjct: 13  FVNKLQEEVICPICLDILQ--KPV-TIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 9/61 (14%)

Query: 204 ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGT------CPVC 257
           A G   + ++E+TC ICLE +   + + SL C H F   C+    ++         CPVC
Sbjct: 9   ASGILVNVKEEVTCPICLELLT--QPL-SLDCGHSFCQACLTANHKKSMLDKGESSCPVC 65

Query: 258 K 258
           +
Sbjct: 66  R 66

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

 Score = 40.9 bits (96), Expect = 3e-05
 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVCK 258
            DEL C IC + +   + V    C + +   CI   L +    TCP C 
Sbjct: 11  PDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

>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 = 40.6 bits (95), Expect = 4e-05
 Identities = 9/56 (16%), Positives = 17/56 (30%), Gaps = 8/56 (14%)

Query: 211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--------RGTCPVCK 258
           S     C +CL +    ++     C   F   C+  ++            +CP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 41.0 bits (96), Expect = 5e-05
 Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 4/48 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCK 258
           E +  C ICL  ++  E V   PC H+F   CI   +R  G  CPV  
Sbjct: 16  ESKYECPICLMALR--EAV-QTPCGHRFCKACIIKSIRDAGHKCPVDN 60

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

 Score = 41.6 bits (97), Expect = 7e-05
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCK 258
           E +  C ICL  ++        PC H+F   CI   +R  G  CPV  
Sbjct: 16  ESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

>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 = 39.9 bits (93), Expect = 1e-04
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFR 260
              ++C IC   +   + V    C H F   CI   L+  G  CP C++ 
Sbjct: 21  VKSISCQICEHILA--DPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYP 67

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

 Score = 38.6 bits (89), Expect = 6e-04
 Identities = 12/75 (16%), Positives = 26/75 (34%), Gaps = 7/75 (9%)

Query: 188 SSSAATPEQSKQESKK---ADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCI 244
           ++++ TP  S +  +            E +  C+ C   ++         C H++ + C+
Sbjct: 2   AAASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACRNVLRR---PFQAQCGHRYCSFCL 58

Query: 245 DPWLRQRG-TCPVCK 258
              L      C  C 
Sbjct: 59  ASILSSGPQNCAACV 73

>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* Length = 63

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 8/49 (16%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 210 SSEDELTCTICLEQVKCGELVRSLPCLHQFH-ANCIDPWLRQRGTCPVC 257
                  C++C ++ + G ++      H     +C     +   +CP+C
Sbjct: 3   CQNLLKPCSLCEKRPRDGNIIH-GRTGHLVTCFHCARRLKKAGASCPIC 50

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	279
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.68
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.62
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.58
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.58
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.56
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.46
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.45
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.45
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.45
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.44
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.41
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.41
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.39
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.37
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.37
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.36
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.35
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.34
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.32
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.32
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.32
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.3
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.24
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.24
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.23
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.23
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.23
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.22
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.22
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.2
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.19
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.19
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.19
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.19
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.17
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.15
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.13
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.1
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.1
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.1
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.07
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.05
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.05
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.02
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.0
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.97
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.94
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.92
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.91
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.84
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.82
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.8
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.79
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.78
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.72
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.69
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.66
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.64
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.57
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.56
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.5
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.42
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.14
3nw0_A	238	Non-structural maintenance of chromosomes element	97.75
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.79
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.74
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.35
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	91.49
1we9_A	64	PHD finger family protein; structural genomics, PH	88.85
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	87.39
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	87.2
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	85.74
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	85.58
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	85.5
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	84.79
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	84.2
1weu_A	91	Inhibitor of growth family, member 4; structural g	83.41
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	82.64
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	82.44
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	81.84
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	81.45
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	80.43
2yt5_A	66	Metal-response element-binding transcription facto	80.4
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	80.29
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	80.16
1wem_A	76	Death associated transcription factor 1; structura	80.09

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

Probab=99.68  E-value=9.3e-17  Score=122.02  Aligned_cols=80  Identities=33%  Similarity=0.717  Sum_probs=66.4

Q ss_pred             CCCCCCCCHHHHhcCCceeeeCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhccCCCCCCCCCcccccccccccccCcee
Q 048433          151 TSTTPSMSEEEINSLPVHKYKVPGPASESVGSSIRQPSSSAATPEQSKQESKKADGSTKSSEDELTCTICLEQVKCGELV  230 (279)
Q Consensus       151 ~~~~~~ls~e~i~~LP~~~~~~~~~s~~s~~s~~~~~ss~~~~~e~~~~~~~~~~~~~~~~~e~~~C~ICle~~~~~~~v  230 (279)
                      .....+++++.+++||...+.....                                  ..+++..|+||++.+..++.+
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~----------------------------------~~~~~~~C~IC~~~~~~~~~~   56 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHG----------------------------------AVGQEMCCPICCSEYVKGDVA   56 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCS----------------------------------SSSSCSEETTTTEECCTTCEE
T ss_pred             CcCCCCCCHHHHHhCCCeeeccccc----------------------------------ccCCCCCCcccChhhcCCCcE
Confidence            3467789999999999887643211                                  123456899999999988888


Q ss_pred             EEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          231 RSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       231 ~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ..++|||.||..||.+|++.+.+||+||..+...
T Consensus        57 ~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   90 (91)
T 2l0b_A           57 TELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPPP   90 (91)
T ss_dssp             EEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSCC
T ss_pred             EecCCCChHHHHHHHHHHHcCCcCcCcCccCCCC
Confidence            8999999999999999999999999999998753

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

Probab=99.62  E-value=1.7e-16  Score=115.93  Aligned_cols=53  Identities=38%  Similarity=1.039  Sum_probs=48.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+..++.+..++|+|.||..||.+|++.+.+||+||+.+...
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            34568999999999888888999999999999999999999999999988764

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

Probab=99.58  E-value=2.2e-15  Score=109.48  Aligned_cols=59  Identities=31%  Similarity=0.636  Sum_probs=51.5

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENR  269 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~~~  269 (279)
                      ..++..|+||++.+..+..+..++|+|.||..||.+|++.+.+||+||..+........
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSG   70 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCSCCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccccCC
Confidence            34567899999999988888889999999999999999999999999999987665443

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

Probab=99.58  E-value=2.3e-15  Score=110.48  Aligned_cols=61  Identities=39%  Similarity=0.859  Sum_probs=52.8

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCCCCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESE  272 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~~~~~~  272 (279)
                      .++..|+||++.|..++.+..++|+|.||..||.+|++.+.+||+||..+.......+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~   73 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPG   73 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCCCSS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCCCCC
Confidence            4567899999999988888889999999999999999999999999999988766554433

>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=99.56  E-value=5e-15  Score=106.16  Aligned_cols=54  Identities=43%  Similarity=0.998  Sum_probs=48.5

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..++.+..++|||.||..||.+|++.+.+||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            445689999999988778889999999999999999999999999999987654

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

Probab=99.53  E-value=4.6e-15  Score=101.56  Aligned_cols=51  Identities=43%  Similarity=1.064  Sum_probs=45.9

Q ss_pred             CCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          212 EDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      +++..|+||++.+..++.+..++ |||.||..||.+|++.+.+||+||+.+.
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            34568999999999888888898 9999999999999999999999998864

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

Probab=99.46  E-value=3.3e-14  Score=101.35  Aligned_cols=52  Identities=27%  Similarity=0.684  Sum_probs=44.6

Q ss_pred             CCcccccccccccccC----ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCG----ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~----~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      .++..|+||++.+..+    ..+..++|||.||..||.+|++.+..||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4567899999998753    234678999999999999999999999999998865

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

Probab=99.45  E-value=5.8e-14  Score=95.91  Aligned_cols=50  Identities=30%  Similarity=0.717  Sum_probs=43.2

Q ss_pred             CcccccccccccccC-ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          213 DELTCTICLEQVKCG-ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~-~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      ++..|+||++.+..+ +.+..++|||.||..||.+|++.+.+||+||..+.
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            456899999998653 35677899999999999999999999999999875

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

Probab=99.45  E-value=5.7e-14  Score=100.20  Aligned_cols=52  Identities=42%  Similarity=0.846  Sum_probs=44.5

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      ++..|+||++.+..  ....++|||.||..|+.+|++++.+||+||..+.....
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   55 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH   55 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEEC
T ss_pred             CCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhhhh
Confidence            34589999999873  34678999999999999999999999999999986543

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

Probab=99.45  E-value=4.7e-14  Score=101.28  Aligned_cols=55  Identities=25%  Similarity=0.620  Sum_probs=46.6

Q ss_pred             CCcccccccccccccC----ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          212 EDELTCTICLEQVKCG----ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~----~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      +++..|+||++.+..+    ..+..++|||.||..||.+|++++.+||+||..+..+..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            4567899999998753    344778999999999999999999999999999886543

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

Probab=99.44  E-value=7e-14  Score=103.85  Aligned_cols=51  Identities=33%  Similarity=0.700  Sum_probs=41.5

Q ss_pred             Cccccccccccccc-----------CceeEEeC-CCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKC-----------GELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~-----------~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ++..|+||++.+..           ++.++.++ |+|.||.+||.+|++++.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45578888888854           34455665 99999999999999999999999998754

>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=99.44  E-value=1.1e-13  Score=108.75  Aligned_cols=58  Identities=28%  Similarity=0.502  Sum_probs=46.0

Q ss_pred             cccccccccccccCc---------------eeEEeCCCCcccHhhHHHHHh-----cCCCCcccccccCCCCCCCCCC
Q 048433          214 ELTCTICLEQVKCGE---------------LVRSLPCLHQFHANCIDPWLR-----QRGTCPVCKFRMGSGWQENRES  271 (279)
Q Consensus       214 ~~~C~ICle~~~~~~---------------~v~~LpC~H~Fh~~CI~~WL~-----~~~~CP~CR~~i~~~~~~~~~~  271 (279)
                      +..|+||++.|..+.               .+..++|+|.||..||.+|+.     .+.+||+||..+..+...+..+
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~qp~g  102 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWG  102 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCCCCCC
Confidence            458999999997543               334678999999999999994     4678999999998876554443

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

Probab=99.41  E-value=2.5e-13  Score=98.23  Aligned_cols=56  Identities=21%  Similarity=0.427  Sum_probs=46.1

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQEN  268 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~~  268 (279)
                      .+++..|+||++.+..  .+..++|||.||..||.+|++.+..||+||..+.......
T Consensus        12 ~~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   67 (72)
T 2djb_A           12 LTPYILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLS   67 (72)
T ss_dssp             CCGGGSCTTTSSCCSS--CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCC
T ss_pred             cCCCCCCCCCChHHHC--cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccccc
Confidence            4566789999999884  2333489999999999999999999999999998765444

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

Probab=99.41  E-value=1.1e-13  Score=99.94  Aligned_cols=51  Identities=25%  Similarity=0.526  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..   ...++|||.||..||.+|++.+..||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   63 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDF   63 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHHH
T ss_pred             CCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHhh
Confidence            456789999999873   457899999999999999999999999999987544

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

Probab=99.39  E-value=1.6e-13  Score=96.24  Aligned_cols=53  Identities=26%  Similarity=0.639  Sum_probs=45.0

Q ss_pred             CcccccccccccccC----ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCG----ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~----~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ++..|+||++.+..+    ..+..++|||.||..||.+|++++.+||+||..+....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            346899999998753    34467899999999999999999999999999987653

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

Probab=99.37  E-value=2.2e-13  Score=97.74  Aligned_cols=50  Identities=36%  Similarity=0.896  Sum_probs=44.3

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..    ..++|||.||..||.+|++.+..||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            456789999999874    67899999999999999999999999999988654

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

Probab=99.37  E-value=4.9e-13  Score=98.81  Aligned_cols=49  Identities=24%  Similarity=0.510  Sum_probs=43.0

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      .+...|+||++.+..   ...++|||.||..||.+|++....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTGG   61 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCCS
T ss_pred             CCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCccccc
Confidence            456789999999874   3468999999999999999999999999999873

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

Probab=99.36  E-value=8.6e-13  Score=98.42  Aligned_cols=55  Identities=25%  Similarity=0.524  Sum_probs=46.1

Q ss_pred             CCCcccccccccccccCce-eEEeCCCCcccHhhHHHHHhcC---CCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGEL-VRSLPCLHQFHANCIDPWLRQR---GTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~-v~~LpC~H~Fh~~CI~~WL~~~---~~CP~CR~~i~~~~  265 (279)
                      ..+...|+||++.+...+. ...++|||.||..||.+|++.+   ..||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            4556789999999986543 6778999999999999999875   78999999887653

>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=99.35  E-value=5.5e-13  Score=104.21  Aligned_cols=50  Identities=30%  Similarity=0.548  Sum_probs=42.5

Q ss_pred             CcccccccccccccCc---------------eeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGE---------------LVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~---------------~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      ++..|+||++.|....               .+..++|+|.||..||.+||+.+.+||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4568999999988541               2566889999999999999999999999999854

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

Probab=99.34  E-value=1.2e-12  Score=95.24  Aligned_cols=52  Identities=31%  Similarity=0.555  Sum_probs=43.0

Q ss_pred             CCCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcC--CCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQR--GTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~--~~CP~CR~~i~~~~  265 (279)
                      ..++..|+||++.+..+   ..++ |||.||..||.+|++.+  ..||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           12 IPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             SCGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            45677899999999843   4689 99999999999999865  68999999765443

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

Probab=99.32  E-value=9.8e-13  Score=93.40  Aligned_cols=52  Identities=21%  Similarity=0.473  Sum_probs=43.3

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHh-cCCCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~~~  265 (279)
                      ..++..|+||++.+..+.   .++|||.||..||.+|++ .+..||+||..+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPK---QTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCCEECTTTCCEESSCC---CCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CCcCCCCCCCChHhcCee---ECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            355678999999988543   479999999999999995 5678999999987653

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

Probab=99.32  E-value=1.7e-12  Score=93.57  Aligned_cols=52  Identities=27%  Similarity=0.573  Sum_probs=43.1

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHh---cCCCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR---QRGTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~---~~~~CP~CR~~i~~~~  265 (279)
                      ..++..|+||++.+..   ...++|||.||..||.+|++   .+..||+||..+....
T Consensus        17 ~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            4556789999999883   45679999999999999997   4568999999987643

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

Probab=99.32  E-value=4.8e-13  Score=108.88  Aligned_cols=49  Identities=35%  Similarity=0.866  Sum_probs=43.1

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ++..|+||++.+..   .+.+||||.||..||..|+..+.+||+||.++...
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            45689999999873   45789999999999999999999999999998654

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

Probab=99.30  E-value=2.4e-12  Score=95.55  Aligned_cols=54  Identities=22%  Similarity=0.596  Sum_probs=44.7

Q ss_pred             CCcccccccccccccCceeEEeCCC-----CcccHhhHHHHHhcC--CCCcccccccCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCL-----HQFHANCIDPWLRQR--GTCPVCKFRMGSGWQ  266 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~-----H~Fh~~CI~~WL~~~--~~CP~CR~~i~~~~~  266 (279)
                      .++..|.||++++..++.+ .+||+     |.||.+||.+|+..+  .+||+||+.+.-...
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~   73 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK   73 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcc
Confidence            3456899999999876655 68996     999999999999875  489999999876554

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

Probab=99.26  E-value=4.5e-12  Score=92.72  Aligned_cols=51  Identities=22%  Similarity=0.374  Sum_probs=43.6

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..   ...++|||.||..||.+|++. +.+||+||..+....
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             cccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            456789999999984   356799999999999999987 788999999987543

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

Probab=99.24  E-value=5.8e-12  Score=92.93  Aligned_cols=52  Identities=38%  Similarity=0.741  Sum_probs=43.7

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc------CCCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ------RGTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~------~~~CP~CR~~i~~~~  265 (279)
                      ..++..|+||++.+..+   ..++|||.||..||..|+..      ...||+||..+....
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CCTTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             CccCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            34567899999998844   46899999999999999987      667999999987653

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

Probab=99.24  E-value=6.2e-12  Score=92.77  Aligned_cols=52  Identities=33%  Similarity=0.715  Sum_probs=43.8

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc------CCCCcccccccCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ------RGTCPVCKFRMGSGW  265 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~------~~~CP~CR~~i~~~~  265 (279)
                      ..++..|+||++.+..+   ..++|||.||..|+..|++.      ...||+||..+....
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             ccCCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            34567899999998743   45799999999999999987      778999999988643

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

Probab=99.23  E-value=1.5e-12  Score=95.24  Aligned_cols=51  Identities=33%  Similarity=0.685  Sum_probs=43.2

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-------CCCCcccccccCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-------RGTCPVCKFRMGSG  264 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-------~~~CP~CR~~i~~~  264 (279)
                      ..++..|+||++.+..+   ..++|||.||..||.+|++.       ...||+||..+...
T Consensus         9 ~~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            9 VQEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            35677899999998854   45899999999999999986       56799999998764

>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=99.23  E-value=3.3e-12  Score=98.34  Aligned_cols=50  Identities=26%  Similarity=0.691  Sum_probs=42.5

Q ss_pred             CCcccccccccccccCceeEE-eCCCCcccHhhHHHHHhcC-CCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRS-LPCLHQFHANCIDPWLRQR-GTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~-LpC~H~Fh~~CI~~WL~~~-~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+..   .+. ++|||.||..||.+|++.+ ..||+||..+...
T Consensus        20 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            356789999999983   345 8999999999999999987 6999999998643

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

Probab=99.23  E-value=4.5e-12  Score=101.05  Aligned_cols=55  Identities=25%  Similarity=0.622  Sum_probs=46.9

Q ss_pred             CcccccccccccccC----ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCCC
Q 048433          213 DELTCTICLEQVKCG----ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQE  267 (279)
Q Consensus       213 e~~~C~ICle~~~~~----~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~  267 (279)
                      ++.+|+||++.+..+    ..+..++|||.||..||.+|++.+.+||+||..+......
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~   64 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   64 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccc
Confidence            456899999999754    3447899999999999999999999999999999876543

>2ysj_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=87.18  Aligned_cols=45  Identities=29%  Similarity=0.675  Sum_probs=37.6

Q ss_pred             CCCCcccccccccccccCceeEEeCCCCcccHhhHHHHHh---cCCCCccc
Q 048433          210 SSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR---QRGTCPVC  257 (279)
Q Consensus       210 ~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~---~~~~CP~C  257 (279)
                      ..+++..|+||++.+..   ...++|||.||..||.+|++   .+..||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSS---CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCC---eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34567799999999884   35679999999999999998   45689998

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

Probab=99.22  E-value=1.1e-11  Score=93.57  Aligned_cols=49  Identities=31%  Similarity=0.617  Sum_probs=41.4

Q ss_pred             CCCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcC--CCCcccccccC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQR--GTCPVCKFRMG  262 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~--~~CP~CR~~i~  262 (279)
                      ..++..|+||++.+..   ...++ |||.||..||..|+..+  ..||+||..+.
T Consensus        10 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4567899999999984   35789 99999999999999754  58999999873

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

Probab=99.21  E-value=1.4e-12  Score=103.68  Aligned_cols=50  Identities=32%  Similarity=0.592  Sum_probs=0.9

Q ss_pred             CcccccccccccccC-------------c--eeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          213 DELTCTICLEQVKCG-------------E--LVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~-------------~--~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      ++..|+||++.|..+             +  .+..++|+|.||..||.+||+.+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            456899999999752             1  2233579999999999999999999999999854

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

Probab=99.20  E-value=1e-11  Score=87.79  Aligned_cols=53  Identities=23%  Similarity=0.505  Sum_probs=42.3

Q ss_pred             Cccccccccc-ccccCcee-EEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          213 DELTCTICLE-QVKCGELV-RSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle-~~~~~~~v-~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      ++..|+||++ .+..+... ..++|||.||..||.+|+.+ ...||+||..+....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3568999999 77765432 45789999999999999765 567999999987654

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

Probab=99.19  E-value=1e-11  Score=96.61  Aligned_cols=50  Identities=26%  Similarity=0.673  Sum_probs=43.0

Q ss_pred             CCcccccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+..   ...+ +|||.||..||..|+..+..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhC---cCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            356789999999983   3455 9999999999999999999999999998764

>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=99.19  E-value=1.1e-11  Score=98.82  Aligned_cols=48  Identities=27%  Similarity=0.722  Sum_probs=41.4

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC-CCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~-~CP~CR~~i~~  263 (279)
                      ++..|+||++.+..   ...++|||.||..||..|+..+. .||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            45689999999983   45689999999999999998644 89999999976

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

Probab=99.19  E-value=7.5e-12  Score=95.83  Aligned_cols=48  Identities=29%  Similarity=0.714  Sum_probs=41.6

Q ss_pred             CcccccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ++..|+||++.+..   ...+ +|||.||..||.+|+..+..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCC---cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            45689999999984   3345 899999999999999999999999998875

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

Probab=99.19  E-value=1e-11  Score=85.44  Aligned_cols=44  Identities=36%  Similarity=0.836  Sum_probs=36.6

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHh---cCCCCccc
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR---QRGTCPVC  257 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~---~~~~CP~C  257 (279)
                      ..++..|+||++.+..+   ..++|||.||..||.+|++   .+..||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34567899999999854   4589999999999999954   56789998

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

Probab=99.17  E-value=3.2e-11  Score=88.16  Aligned_cols=54  Identities=19%  Similarity=0.439  Sum_probs=43.5

Q ss_pred             CCCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC--CCCcccccccCCCC
Q 048433          210 SSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR--GTCPVCKFRMGSGW  265 (279)
Q Consensus       210 ~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~--~~CP~CR~~i~~~~  265 (279)
                      -.+....|+||.+.+..++.  ...|+|.||..||.+||+.+  .+||+||..+....
T Consensus        11 y~~~i~~C~IC~~~i~~g~~--C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQS--CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSEE--CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             ccCCCCcCcchhhHcccCCc--cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            34455789999999986643  33799999999999999987  78999998776443

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

Probab=99.15  E-value=4e-11  Score=88.50  Aligned_cols=58  Identities=22%  Similarity=0.539  Sum_probs=44.6

Q ss_pred             CCCcccccccccccccCceeEEeC--CCCcccHhhHHHHHhc-CCCCcccccccCCCCCCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLP--CLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQENR  269 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~Lp--C~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~~~~  269 (279)
                      .+++.+|+||++.+...+ ...+|  |||.||..|+.+|+.. ...||+||+.+........
T Consensus         8 ~~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~~   68 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYK   68 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCCC
T ss_pred             cccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhhc
Confidence            356779999999886432 23444  9999999999998854 5679999999987765433

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

Probab=99.13  E-value=1.7e-11  Score=102.45  Aligned_cols=50  Identities=40%  Similarity=0.845  Sum_probs=41.9

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~  263 (279)
                      .++..|+||++.+..  .+..++|||.||..||..|++. +..||+||..+..
T Consensus        52 ~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            456789999999984  3334499999999999999997 7789999999854

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

Probab=99.11  E-value=7.8e-12  Score=98.31  Aligned_cols=49  Identities=31%  Similarity=0.670  Sum_probs=41.8

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~  263 (279)
                      .++..|+||++.+..   ...++|||.||..||.+|+.. +..||+||..+..
T Consensus        13 ~~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            456789999999884   456799999999999999976 6689999998863

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

Probab=99.10  E-value=7.3e-11  Score=88.33  Aligned_cols=50  Identities=16%  Similarity=0.056  Sum_probs=43.9

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+.   +.+.++|||.||..||.+|+..+.+||+||..+...
T Consensus        12 p~~~~CpI~~~~m~---dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           12 PDEFRDPLMDTLMT---DPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CTTTBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             chheECcccCchhc---CCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            45789999999998   345789999999999999999889999999988653

>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=99.10  E-value=2.8e-11  Score=94.22  Aligned_cols=51  Identities=35%  Similarity=0.613  Sum_probs=42.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC---CCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG---TCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~---~CP~CR~~i~~~~~  266 (279)
                      +...|+||++.+..+   ..++|||.||..||..|+..+.   .||+||..+.....
T Consensus        20 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            346899999998744   3579999999999999998754   89999999886543

>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=99.10  E-value=3.8e-11  Score=99.21  Aligned_cols=49  Identities=22%  Similarity=0.671  Sum_probs=42.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC-CCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~-~CP~CR~~i~~~  264 (279)
                      ++..|+||++.+..   ...++|||.||..||..|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45689999999884   34689999999999999998755 899999999876

>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=99.08  E-value=2.1e-11  Score=99.85  Aligned_cols=50  Identities=18%  Similarity=0.410  Sum_probs=42.1

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC-CCcccccccCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRMGS  263 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~-~CP~CR~~i~~  263 (279)
                      .+++..|+||++.+..+   ..++|||.||..||.+|++... .||+||.++..
T Consensus        28 l~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            45678999999999844   4579999999999999998765 89999998643

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

Probab=99.07  E-value=5.3e-11  Score=94.76  Aligned_cols=53  Identities=26%  Similarity=0.664  Sum_probs=44.9

Q ss_pred             CCcccccccccccccC----ceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCG----ELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~----~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ++...|+||++.+..+    .....++|||.||..||.+|++.+++||+||..+..+
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            4566899999998753    2346789999999999999999999999999998754

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

Probab=99.07  E-value=6.6e-11  Score=93.56  Aligned_cols=51  Identities=31%  Similarity=0.610  Sum_probs=43.2

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC-CCcccccccCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCKFRMGSG  264 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~-~CP~CR~~i~~~  264 (279)
                      ..++..|+||++.+..+   ..++|||.||..||.+|++.+. .||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            45667999999998843   5689999999999999998765 999999998753

>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=99.05  E-value=1.7e-10  Score=88.78  Aligned_cols=50  Identities=18%  Similarity=0.052  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCceeEEeCCC-CcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCL-HQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~-H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+.   +.+.++|| |.||..||.+|+..+.+||+||.++...
T Consensus        20 p~~~~CpI~~~~m~---dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           20 CDEFLDPIMSTLMC---DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cHhcCCcCcccccc---CCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            45789999999999   34578999 9999999999999889999999998754

>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=99.05  E-value=2.2e-10  Score=88.44  Aligned_cols=50  Identities=16%  Similarity=0.063  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+.   +.+.++|||.||..||.+|+..+.+||+||.++...
T Consensus        27 p~~~~CpI~~~~m~---dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           27 PDEFRDPLMDTLMT---DPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             STTTBCTTTCSBCS---SEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             cHhhCCcCccCccc---CCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            45789999999998   445789999999999999999889999999998754

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=99.04  E-value=8.3e-11  Score=83.35  Aligned_cols=48  Identities=21%  Similarity=0.358  Sum_probs=40.3

Q ss_pred             CcccccccccccccCceeEEe--CCCCc-ccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSL--PCLHQ-FHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L--pC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ++..|.||++...   +...+  ||||. ||..|+.+|.+.+..||+||+++..
T Consensus         7 ~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPK---NGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCS---CEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCC---CEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            4568999999866   33444  99999 8999999999999999999998853

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

Probab=99.02  E-value=1.1e-10  Score=91.70  Aligned_cols=50  Identities=24%  Similarity=0.496  Sum_probs=42.6

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      ++..|+||++.+..   ...++|||.||..||.+|+.. +..||+||..+....
T Consensus        22 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            45689999999873   345899999999999999987 778999999987644

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

Probab=99.00  E-value=1.4e-10  Score=81.99  Aligned_cols=48  Identities=17%  Similarity=0.355  Sum_probs=39.8

Q ss_pred             CcccccccccccccCceeEEe--CCCCc-ccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSL--PCLHQ-FHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L--pC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      .+..|.||++...   +...+  ||||. ||..|+.+|.+.+..||+||+++..
T Consensus         6 ~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPR---DGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBS---CEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCC---CeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            4458999998765   23344  99998 9999999999888999999999854

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

Probab=98.97  E-value=1.7e-10  Score=79.44  Aligned_cols=48  Identities=31%  Similarity=0.743  Sum_probs=39.9

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..+   ..++|||.||..||..|   ...||+||+.+....
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            4567899999999854   57899999999999884   678999999887544

>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=98.94  E-value=4.7e-10  Score=105.60  Aligned_cols=48  Identities=29%  Similarity=0.709  Sum_probs=42.0

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHh-cCCCCcccccccCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGSG  264 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~~  264 (279)
                      ...|+||++.+.   .+..+||||.||..|+..|+. .+..||+||..+...
T Consensus       332 ~~~C~ICle~~~---~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBC---CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCC---CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            358999999886   456799999999999999998 688999999988764

>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=98.92  E-value=2.3e-10  Score=90.29  Aligned_cols=46  Identities=28%  Similarity=0.583  Sum_probs=39.7

Q ss_pred             CcccccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCC
Q 048433          213 DELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGS  263 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~  263 (279)
                      ++..|+||++.+..+   ..+ +|||.||..||..|+.  ..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            457899999999843   456 8999999999999988  789999999854

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

Probab=98.91  E-value=2.7e-10  Score=82.82  Aligned_cols=45  Identities=24%  Similarity=0.609  Sum_probs=38.5

Q ss_pred             CcccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ++..|+||++.+.   +...+||||. ||..|+..|    ..||+||..+...
T Consensus        23 ~~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           23 EEKLCKICMDRNI---AIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHTBCTTTSSSBC---CEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             cCCCCCCCCCCCC---CEEEcCCCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            4568999999877   4567899999 999999998    8899999988653

>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=2.2e-09  Score=95.65  Aligned_cols=50  Identities=18%  Similarity=0.167  Sum_probs=42.0

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC-CCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR-GTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~-~~CP~CR~~i~~~  264 (279)
                      .+...|+||++.+.   +.++++|||.||..||.+|+..+ .+||+||.++...
T Consensus       206 ~~~~~c~i~~~~~~---dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          206 PDYLCGKISFELMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             CSTTBCTTTCSBCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CcccCCcCcCCHhc---CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            45678999999998   34578999999999999999864 4599999988643

>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=98.82  E-value=2e-09  Score=81.83  Aligned_cols=46  Identities=26%  Similarity=0.533  Sum_probs=38.2

Q ss_pred             CCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcC------CCCcc--cccc
Q 048433          212 EDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQR------GTCPV--CKFR  260 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~------~~CP~--CR~~  260 (279)
                      .++..|+||++.|..   .+.++ |||.||..||.+|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            456789999999983   45676 99999999999999864      48999  9855

>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=98.80  E-value=2.3e-09  Score=89.64  Aligned_cols=52  Identities=29%  Similarity=0.549  Sum_probs=43.4

Q ss_pred             CCCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC-CCCcccccccCCC
Q 048433          210 SSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR-GTCPVCKFRMGSG  264 (279)
Q Consensus       210 ~~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~-~~CP~CR~~i~~~  264 (279)
                      ..+++..|+||++.+..+   ..++|||.||..||.+|++.+ ..||+||..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           14 PLESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            345678999999999843   458999999999999999864 4899999988764

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

Probab=98.79  E-value=3.5e-09  Score=75.84  Aligned_cols=48  Identities=23%  Similarity=0.598  Sum_probs=39.2

Q ss_pred             CCcccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      +++..|.||++...   .+..+||||. ||..|+..    ...||+||..+.....
T Consensus        13 ~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~~~   61 (68)
T 2ea5_A           13 ENSKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQESFA   61 (68)
T ss_dssp             CCSSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCEEC
T ss_pred             CCCCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcchhceEE
Confidence            34568999998765   5678999999 99999984    5789999999876543

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

Probab=98.78  E-value=4.1e-09  Score=76.61  Aligned_cols=46  Identities=24%  Similarity=0.581  Sum_probs=37.5

Q ss_pred             CcccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ++..|+||++.+.   ++..+||||. ||..|+.+    ...||+||.++....
T Consensus        24 ~~~~C~IC~~~~~---~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~~   70 (75)
T 2ecg_A           24 EEKLCKICMDRNI---AIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFKQ   70 (75)
T ss_dssp             HHHSCSSSCSSCC---CBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCCC
T ss_pred             CCCCCCcCCCCCC---CEEEecCCCHHHHHHHhhC----CCCCccCCceecCcE
Confidence            3457999999877   3457899999 99999964    478999999987643

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

Probab=98.72  E-value=2.2e-09  Score=99.06  Aligned_cols=55  Identities=31%  Similarity=0.822  Sum_probs=42.0

Q ss_pred             CCcccccccccccccCcee----E-EeCCCCcccHhhHHHHHhcC-----------CCCcccccccCCCCC
Q 048433          212 EDELTCTICLEQVKCGELV----R-SLPCLHQFHANCIDPWLRQR-----------GTCPVCKFRMGSGWQ  266 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v----~-~LpC~H~Fh~~CI~~WL~~~-----------~~CP~CR~~i~~~~~  266 (279)
                      +...+|+||++.+..+..+    . ..+|+|.||..|+.+|++..           ++||.||.++..++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf~  376 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSFA  376 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccHH
Confidence            3456899999998862222    1 24599999999999999752           469999999886653

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

Probab=98.69  E-value=1.2e-08  Score=86.56  Aligned_cols=50  Identities=18%  Similarity=0.163  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC-CCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR-GTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~-~~CP~CR~~i~~~  264 (279)
                      .+...|+||++.+..   .+.++|||.||..||..|+..+ .+||+|+.++...
T Consensus       104 p~~f~CPI~~elm~D---PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCC---CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            467899999999983   4577999999999999999874 4699999988653

>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=98.66  E-value=1.1e-08  Score=77.44  Aligned_cols=48  Identities=19%  Similarity=0.539  Sum_probs=38.5

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc--------CCCCcc--cccc
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ--------RGTCPV--CKFR  260 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~--------~~~CP~--CR~~  260 (279)
                      +..+|+||++.+..++.+...+|||.||.+|+..++..        .-.||.  |+..
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            45689999999886655444579999999999999863        126999  9987

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.64  E-value=5.1e-09  Score=77.18  Aligned_cols=44  Identities=27%  Similarity=0.634  Sum_probs=37.5

Q ss_pred             cccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      +..|+||++.+.   ++..+||||. ||..|+..|    ..||+||..+...
T Consensus        18 ~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            457999998866   5678999999 999999887    3999999988765

>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=98.57  E-value=3.4e-08  Score=88.17  Aligned_cols=52  Identities=27%  Similarity=0.473  Sum_probs=42.1

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC--CCCcc--cccccCCC
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR--GTCPV--CKFRMGSG  264 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~--~~CP~--CR~~i~~~  264 (279)
                      ...+..|+||++.|..  .++...|||.||..||..|+..+  ..||+  ||..+...
T Consensus       178 ~~~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          178 GKIELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             SBCCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             CceeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            3566799999999983  44456899999999999999864  46999  99987643

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

Probab=98.56  E-value=4.4e-08  Score=68.46  Aligned_cols=49  Identities=27%  Similarity=0.614  Sum_probs=37.4

Q ss_pred             CCcccccccccccccCceeEEeCCC--C---cccHhhHHHHHhc--CCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCL--H---QFHANCIDPWLRQ--RGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~--H---~Fh~~CI~~WL~~--~~~CP~CR~~i~~  263 (279)
                      ++...|.||+++..  +.. .+||.  |   .||..|+.+|+..  +.+||+||..+.-
T Consensus         4 ~~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            34568999998743  333 58854  4   7999999999974  5789999998753

>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=98.50  E-value=2.7e-08  Score=92.58  Aligned_cols=45  Identities=27%  Similarity=0.685  Sum_probs=38.6

Q ss_pred             CcccccccccccccCceeEEeCCCCc-ccHhhHHHHHhcCCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQ-FHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~-Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      ++..|+||++.+.   .+..+||||. ||..|+..|    ..||+||..+...
T Consensus       294 ~~~~C~IC~~~~~---~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEV---SVVFIPCGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBC---CEEEETTCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCC---ceEEcCCCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            4568999999887   4567899999 999999988    7899999988643

>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=98.42  E-value=9e-08  Score=67.07  Aligned_cols=48  Identities=10%  Similarity=0.184  Sum_probs=41.4

Q ss_pred             ccccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          215 LTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      ..|+||++.+..   ...+ +|||.|...||.+|++.+++||+++.++....
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            479999999983   3456 79999999999999998889999999887554

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

Probab=98.14  E-value=1.7e-06  Score=65.97  Aligned_cols=49  Identities=27%  Similarity=0.445  Sum_probs=39.8

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCC
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~  266 (279)
                      -|.+|--.+.  ...+.+||+|.||.+|+..|.++ .++||.|+.++..-.+
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            4888866655  46678999999999999999865 6889999999876543

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

Probab=97.75  E-value=2e-05  Score=69.59  Aligned_cols=49  Identities=20%  Similarity=0.517  Sum_probs=38.8

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhcCC--CCcccccccCCC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--TCPVCKFRMGSG  264 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~--~CP~CR~~i~~~  264 (279)
                      ...|.||.+.+..+.  +.-.|+|.||..|+.+|++.+.  .||.|+...+..
T Consensus       180 i~~C~iC~~iv~~g~--~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCE--ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCc--ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            568999999888653  2223999999999999998754  899998875543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.74  E-value=0.0054  Score=46.14  Aligned_cols=35  Identities=11%  Similarity=0.452  Sum_probs=26.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHH
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPW  247 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~W  247 (279)
                      ++..|.||.+.+.......-+.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35689999987543333344889999999999983

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

Probab=93.35  E-value=0.078  Score=37.13  Aligned_cols=46  Identities=24%  Similarity=0.492  Sum_probs=31.9

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC----CCCccccccc
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR----GTCPVCKFRM  261 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~----~~CP~CR~~i  261 (279)
                      ....|.||.+.   ++.+.--.|...||..|+.+.+...    -.||.|+...
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            34579999642   3333333489999999999888653    3599997643

>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=91.49  E-value=0.16  Score=37.25  Aligned_cols=31  Identities=23%  Similarity=0.674  Sum_probs=22.8

Q ss_pred             CcccccccccccccCceeEEeC---CCCcccHhhHHHH
Q 048433          213 DELTCTICLEQVKCGELVRSLP---CLHQFHANCIDPW  247 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~Lp---C~H~Fh~~CI~~W  247 (279)
                      .+..|.||- .+..++   .+|   |+-.||..|+.+-
T Consensus        14 ~D~~C~VC~-~~t~~~---l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCE-VWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTC-CCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCccc-cccccc---eeccccccccccHhhcccc
Confidence            456899994 444333   344   8999999999996

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=88.85  E-value=0.14  Score=35.13  Aligned_cols=49  Identities=22%  Similarity=0.447  Sum_probs=33.1

Q ss_pred             CCcccccccccccccCceeEEe-CCCCcccHhhHHHHHh-----cCCCCcccccc
Q 048433          212 EDELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLR-----QRGTCPVCKFR  260 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~-----~~~~CP~CR~~  260 (279)
                      ++...|+||...+..+..++.- .|...||..|+.--..     ..-.||.|+.+
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            4556799998887644444433 3899999999864322     23459999653

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=87.39  E-value=1.4  Score=32.50  Aligned_cols=49  Identities=24%  Similarity=0.391  Sum_probs=34.3

Q ss_pred             ccccccccccccCc--ee--EEeCCCCcccHhhHHHHHh-cCCCCcccccccCC
Q 048433          215 LTCTICLEQVKCGE--LV--RSLPCLHQFHANCIDPWLR-QRGTCPVCKFRMGS  263 (279)
Q Consensus       215 ~~C~ICle~~~~~~--~v--~~LpC~H~Fh~~CI~~WL~-~~~~CP~CR~~i~~  263 (279)
                      ..|.||-+++....  .+  ..-.|+--.|..|..-=.+ .+..||.|+.++..
T Consensus        17 qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           17 QFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             CccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            47999998864322  11  1223777789999876554 47789999999873

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=87.20  E-value=0.18  Score=34.56  Aligned_cols=48  Identities=27%  Similarity=0.632  Sum_probs=31.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccccC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFRMG  262 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~i~  262 (279)
                      ..+..|.||.+.   ++.+.--.|...||..|+.+-+..    .-.||.|+....
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            345679999752   333222238889999999865543    335999976543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=85.74  E-value=0.46  Score=32.43  Aligned_cols=46  Identities=26%  Similarity=0.761  Sum_probs=30.7

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccc
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFR  260 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~  260 (279)
                      .++..|.||.+.   ++.+.--.|...||..|+..-+..    .-.||.|+..
T Consensus         9 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            345679999763   333332348889999999875543    3359999653

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=85.58  E-value=0.29  Score=34.69  Aligned_cols=51  Identities=18%  Similarity=0.386  Sum_probs=34.0

Q ss_pred             CcccccccccccccCceeEEe-CCCCcccHhhHHHHHhc----CCCCcccccccCCC
Q 048433          213 DELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQ----RGTCPVCKFRMGSG  264 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~----~~~CP~CR~~i~~~  264 (279)
                      +...|.||..... ++.+..- .|...||..|+..-...    .-.||.|+..+...
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k~   72 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKD   72 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCSC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhhc
Confidence            4457999977654 3333333 38899999999765432    34599998876543

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.50  E-value=0.14  Score=34.44  Aligned_cols=45  Identities=31%  Similarity=0.745  Sum_probs=29.5

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCccccc
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKF  259 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~  259 (279)
                      .++..|.||...   ++.+.--.|...||..|+.+-+..    .-.||.|+.
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            345679999763   333333348889999999865543    224888853

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=84.79  E-value=0.7  Score=47.96  Aligned_cols=50  Identities=18%  Similarity=0.166  Sum_probs=42.8

Q ss_pred             CCcccccccccccccCceeEEeCCC-CcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCL-HQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~-H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      -++..|||-++-+.   +.+.+|.| +.|-..+|.+|+..+.+||.=|.++...
T Consensus       889 P~~F~cPIs~~lM~---DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          889 PDEFLDPLMYTIMK---DPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             cHHhCCcchhhHHh---CCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            45678999999988   45679987 5899999999999999999999988754

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=84.20  E-value=0.83  Score=33.18  Aligned_cols=37  Identities=27%  Similarity=0.476  Sum_probs=27.9

Q ss_pred             CcccccccccccccCceeEEeC--CCCcccHhhHHHHHhc
Q 048433          213 DELTCTICLEQVKCGELVRSLP--CLHQFHANCIDPWLRQ  250 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~Lp--C~H~Fh~~CI~~WL~~  250 (279)
                      ....|.+|.+.++.. ..+..|  =.|.||..|-+..++.
T Consensus        14 a~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           14 GPLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CSCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CeeEeecchhhhccC-ceeeCCCccCCeeeccccHHHHHh
Confidence            346899999998843 233344  3899999999999875

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=83.41  E-value=1.5  Score=32.50  Aligned_cols=46  Identities=28%  Similarity=0.685  Sum_probs=27.8

Q ss_pred             CcccccccccccccCceeEEeC--CC-CcccHhhHHHHHhc----CCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGELVRSLP--CL-HQFHANCIDPWLRQ----RGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~Lp--C~-H~Fh~~CI~~WL~~----~~~CP~CR~~i~  262 (279)
                      +...| ||..... +..+..=.  |. ..||..|+.  |..    +-.||.|+..-.
T Consensus        35 e~~yC-iC~~~~~-g~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~~   87 (91)
T 1weu_A           35 EPTYC-LCHQVSY-GEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESG   87 (91)
T ss_dssp             CCBCS-TTCCBCC-SCCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCCS
T ss_pred             CCcEE-ECCCCCC-CCEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcCC
Confidence            44556 9977543 33222222  55 689999997  332    345999976543

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.64  E-value=0.29  Score=36.37  Aligned_cols=50  Identities=24%  Similarity=0.473  Sum_probs=32.4

Q ss_pred             CCCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccc
Q 048433          211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFR  260 (279)
Q Consensus       211 ~~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~  260 (279)
                      ..++..|.||...-.....+..=.|...||..|+.+=+..    .-.||.|+..
T Consensus        13 ~~~~~~C~vC~~~~~~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           13 FIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCCSSSCCSGGGGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             ccCCCCCccCCCcCCCCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            3455689999876433222222238999999999754433    3359999765

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=82.44  E-value=0.37  Score=33.42  Aligned_cols=45  Identities=33%  Similarity=0.734  Sum_probs=30.2

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccc
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFR  260 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~  260 (279)
                      ++..|.||.+.   ++.+.-=.|...||..|+.+-+..    .-.||.|...
T Consensus         7 ~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            7 NEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            45679999753   333332348889999999865543    3359999654

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=81.84  E-value=1.9  Score=30.70  Aligned_cols=48  Identities=21%  Similarity=0.535  Sum_probs=30.7

Q ss_pred             cccccccccccccCceeEEe-CCCCcccHhhHHHHHh-----cCCCCcccccccC
Q 048433          214 ELTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLR-----QRGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~-----~~~~CP~CR~~i~  262 (279)
                      ...| ||...+.....++.- .|...||..|+.--..     ..-.||.|+..-.
T Consensus        12 ~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~   65 (79)
T 1wep_A           12 PVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             ccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccccC
Confidence            3456 998877533344333 3999999999853221     2446999987543

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=81.45  E-value=0.53  Score=39.10  Aligned_cols=47  Identities=30%  Similarity=0.584  Sum_probs=31.8

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~i~  262 (279)
                      ++..|.||.+.   |+.+..=.|...||..|+.+-+..    .-.||.|+..-.
T Consensus         3 ~~~~C~~C~~~---g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG---GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC---SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC---CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            34579999743   443332338889999999876654    335999987544

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.43  E-value=0.65  Score=30.21  Aligned_cols=44  Identities=27%  Similarity=0.662  Sum_probs=27.9

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCccccc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKF  259 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~  259 (279)
                      .|.||...-..++.+.--.|...||..|+.+=+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            48889765333333322348889999999764433    234999964

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=80.40  E-value=0.56  Score=32.23  Aligned_cols=50  Identities=24%  Similarity=0.495  Sum_probs=32.2

Q ss_pred             Cccccccccccccc-CceeEEe-CCCCcccHhhHHHHHh-------cCCCCcccccccC
Q 048433          213 DELTCTICLEQVKC-GELVRSL-PCLHQFHANCIDPWLR-------QRGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~-~~~v~~L-pC~H~Fh~~CI~~WL~-------~~~~CP~CR~~i~  262 (279)
                      ++..|.||...... +..+..- .|...||..|+.+-+.       ..-.||.|+....
T Consensus         5 ~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~   63 (66)
T 2yt5_A            5 SSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT   63 (66)
T ss_dssp             CCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTS
T ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCccc
Confidence            45689999876432 2233332 3899999999886432       2346999976544

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=80.29  E-value=0.46  Score=34.98  Aligned_cols=56  Identities=16%  Similarity=0.333  Sum_probs=34.6

Q ss_pred             CCccccccccccc-ccCceeEEe-CCCCcccHhhHHHHHh--cCCCCcccccccCCCCCC
Q 048433          212 EDELTCTICLEQV-KCGELVRSL-PCLHQFHANCIDPWLR--QRGTCPVCKFRMGSGWQE  267 (279)
Q Consensus       212 ~e~~~C~ICle~~-~~~~~v~~L-pC~H~Fh~~CI~~WL~--~~~~CP~CR~~i~~~~~~  267 (279)
                      +++..|.||...- ...+.+..- .|.-.||..|+..-+.  ..-.||.|......+..+
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~~~~~   82 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRARPALE   82 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTSCC--
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccchhhhh
Confidence            4556899998653 122233333 3888999999975432  234599998776665543

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=80.16  E-value=0.8  Score=38.38  Aligned_cols=50  Identities=20%  Similarity=0.330  Sum_probs=34.7

Q ss_pred             ccccccccccccCce---eEEeC-CCCcccHhhHHH------HHh-----cCCCCcccccccCCC
Q 048433          215 LTCTICLEQVKCGEL---VRSLP-CLHQFHANCIDP------WLR-----QRGTCPVCKFRMGSG  264 (279)
Q Consensus       215 ~~C~ICle~~~~~~~---v~~Lp-C~H~Fh~~CI~~------WL~-----~~~~CP~CR~~i~~~  264 (279)
                      ..|+||...+..++.   ++.-. |...||..|+.-      -+.     ..-.||.|+..-+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~~   67 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPAE   67 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSCH
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCHH
Confidence            369999998887652   44444 999999999742      111     156799998766543

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=80.09  E-value=0.87  Score=32.26  Aligned_cols=48  Identities=25%  Similarity=0.527  Sum_probs=30.3

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHH---------hcCCCCcccccccC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL---------RQRGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL---------~~~~~CP~CR~~i~  262 (279)
                      ...| ||......+..+..-.|...||..|+.--.         ...-.||.|+..-.
T Consensus        16 ~~~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~   72 (76)
T 1wem_A           16 ALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSG   72 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSC
T ss_pred             CCEE-ECCCccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccC
Confidence            3456 898776533333323499999999984211         23567999976543

---

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	279
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	7e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-15
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-11
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-09
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	8e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 73.4 bits (180), Expect = 7e-18
 Identities = 22/52 (42%), Positives = 32/52 (61%), Gaps = 1/52 (1%)

Query: 210 SSEDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFR 260
           + +D + C +CL +++ GE  R LP C H FHA C+D WL    TCP+C+  
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 65.7 bits (160), Expect = 6e-15
 Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 3/61 (4%)

Query: 217 CTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSS 276
           C ICLE         +LPCLH F   CI  W+RQ  TCP+CK  + S      ES+S+  
Sbjct: 8   CPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES-VVHTIESDSEFG 64

Query: 277 D 277
           D
Sbjct: 65  D 65

>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 = 58.9 bits (142), Expect = 4e-12
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 193 TPEQS-KQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR 251
           TP+   K   ++ +   +       C IC E  K    V+  PC H    +C+  W    
Sbjct: 1   TPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESE 57

Query: 252 G-TCPVCKFRM 261
           G  CP C+  +
Sbjct: 58  GQGCPFCRCEI 68

>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 = 57.1 bits (137), Expect = 2e-11
 Identities = 15/58 (25%), Positives = 19/58 (32%), Gaps = 15/58 (25%)

Query: 216 TCTICLEQVKCGE---------------LVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
            C IC   +                    V    C H FH +CI  WL+ R  CP+  
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>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 = 54.5 bits (130), Expect = 7e-11
 Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 4/53 (7%)

Query: 212 EDELTCTICLEQVKCGELV--RSLPCLHQFHANCIDPWLRQRG--TCPVCKFR 260
           ED   C IC E++             L   H +C+  WL       C +C   
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 52.5 bits (125), Expect = 5e-10
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 3/49 (6%)

Query: 213 DELTCTICLEQVKCGELVRSL--PCLHQFHANCIDPWLRQR-GTCPVCK 258
           D+  C  C         ++ +   C H    +C+D    +  G CP C 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.5 bits (118), Expect = 4e-09
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 6/47 (12%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
              L C  C  + KC    + LPCLH   + C++        CP+C+
Sbjct: 4   FQFLRCQQCQAEAKC---PKLLPCLHTLCSGCLE---ASGMQCPICQ 44

>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 = 49.3 bits (117), Expect = 4e-09
 Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 2/46 (4%)

Query: 215 LTCTICLEQVKCGE-LVRSLPCLHQFHANCIDPWLRQRGT-CPVCK 258
           + C +C+E ++  +       C +Q    C           CP C+
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>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 = 50.0 bits (118), Expect = 1e-08
 Identities = 19/89 (21%), Positives = 31/89 (34%), Gaps = 21/89 (23%)

Query: 190 SAATPEQSKQESKKADGSTKSSEDELTCTICLEQV---------------KCGELVRSLP 234
           S+ +  + +Q  +K     K + +E  C IC+E++                   + R   
Sbjct: 2   SSGSSGEPEQVIRKYTEELKVAPEE-DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK 60

Query: 235 CLHQFHANCIDPWLRQR-----GTCPVCK 258
           C H FH  C+              CP CK
Sbjct: 61  CSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.5 bits (115), Expect = 3e-08
 Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 6/65 (9%)

Query: 197 SKQESKKADGSTKSSEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG---T 253
           S    ++      + +  L C ICLE +K      S  C H F   C+   L Q+     
Sbjct: 4   SALRVEEVQNVINAMQKILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQ 60

Query: 254 CPVCK 258
           CP+CK
Sbjct: 61  CPLCK 65

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.1 bits (109), Expect = 2e-07
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG-TCPVCK 258
              ++C IC   +          C H F   CI   L+  G  CP C+
Sbjct: 21  VKSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 44.3 bits (104), Expect = 8e-07
 Identities = 9/56 (16%), Positives = 17/56 (30%), Gaps = 8/56 (14%)

Query: 211 SEDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRG--------TCPVCK 258
           S     C +CL +    ++     C   F   C+  ++            +CP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.1 bits (98), Expect = 5e-06
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           E  L C+ C   ++    +    C H F +NC+   +     CPVC 
Sbjct: 20  EKLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDCIGT--GCPVCY 62

>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 = 34.3 bits (78), Expect = 0.001
 Identities = 7/44 (15%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCK 258
           + C I  +  +    V S      F  + ++ +++  G  P+  
Sbjct: 1   MLCAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITN 42

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 34.1 bits (77), Expect = 0.002
 Identities = 10/55 (18%), Positives = 16/55 (29%), Gaps = 4/55 (7%)

Query: 213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWL-RQRGTCPVCKFRMGSGWQ 266
           D L   I  E ++        P    +    I+  L R     PV +  +     
Sbjct: 6   DYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	279
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.65
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.58
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.43
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.4
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.4
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.39
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.38
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.24
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.2
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.2
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.19
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.04
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.04
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.02
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.02
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.81
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.48
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.34
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	88.61
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	87.51
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	87.33
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	86.94
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	86.08
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	84.97
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	84.66
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	81.33
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	80.15

>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=99.65  E-value=2.5e-17  Score=112.47  Aligned_cols=51  Identities=43%  Similarity=1.064  Sum_probs=45.9

Q ss_pred             CCcccccccccccccCceeEEeC-CCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          212 EDELTCTICLEQVKCGELVRSLP-CLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      +++.+|+||+++|..++.+..++ |+|.||..||.+|++++++||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45567999999999988888876 9999999999999999999999999863

>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=99.58  E-value=5.4e-16  Score=110.09  Aligned_cols=62  Identities=35%  Similarity=0.719  Sum_probs=47.8

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCCCCCCCCCCCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQENRESESDSSDM  278 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~~~~~~~~~~~~~  278 (279)
                      ..|+||++.+..  .++.++|||.||..||.+|++++.+||+||+++..........++-.+.+
T Consensus         6 d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~~~~~~~~~~~~~~   67 (68)
T d1chca_           6 ERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESDSEFGDQL   67 (68)
T ss_dssp             CCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEECCCCSCCCCSSSC
T ss_pred             CCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhcccccCCCccceee
Confidence            369999999873  45678999999999999999999999999999876543333333333333

>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=99.43  E-value=7.4e-14  Score=108.22  Aligned_cols=59  Identities=27%  Similarity=0.494  Sum_probs=45.7

Q ss_pred             cccccccccccccC---------------ceeEEeCCCCcccHhhHHHHHhcC-----CCCcccccccCCCCCCCCCCC
Q 048433          214 ELTCTICLEQVKCG---------------ELVRSLPCLHQFHANCIDPWLRQR-----GTCPVCKFRMGSGWQENRESE  272 (279)
Q Consensus       214 ~~~C~ICle~~~~~---------------~~v~~LpC~H~Fh~~CI~~WL~~~-----~~CP~CR~~i~~~~~~~~~~~  272 (279)
                      +..|+||++.+...               ..+..++|||.||..||..|++.+     .+||+||..+..+...+..++
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~~qP~~~  103 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGK  103 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCcCCCCCCc
Confidence            44799999987532               234567899999999999999753     379999999988876554433

>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=99.40  E-value=4e-14  Score=95.10  Aligned_cols=48  Identities=21%  Similarity=0.543  Sum_probs=40.5

Q ss_pred             cccccccccccCce-eEEeCCCCcccHhhHHHHHhc-CCCCcccccccCC
Q 048433          216 TCTICLEQVKCGEL-VRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGS  263 (279)
Q Consensus       216 ~C~ICle~~~~~~~-v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~  263 (279)
                      +|+||+++|..++. +..++|||.||..|+.+|++. +..||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            69999999986654 344689999999999999986 5579999999875

>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=99.40  E-value=7.9e-14  Score=97.84  Aligned_cols=53  Identities=21%  Similarity=0.451  Sum_probs=41.8

Q ss_pred             CcccccccccccccCc--eeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGE--LVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~--~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      ++..|+||++.+..+.  .+..++|||.||..||.+|+.. +..||+||+++....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            4568999999864332  3455689999999999999965 567999999987654

>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=99.39  E-value=1.5e-13  Score=100.01  Aligned_cols=49  Identities=29%  Similarity=0.681  Sum_probs=42.0

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCC
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~  266 (279)
                      ..|+||++.+.   +.+.++|||.||..||.+|++. +++||+||..+.....
T Consensus        24 ~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          24 QLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TBCTTTSSSBC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCccCCCcCC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            46999999877   4678999999999999999985 5789999999986543

>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=99.38  E-value=1.3e-13  Score=102.35  Aligned_cols=49  Identities=31%  Similarity=0.579  Sum_probs=40.8

Q ss_pred             cccccccccccccCc---------------eeEEeCCCCcccHhhHHHHHhcCCCCcccccccC
Q 048433          214 ELTCTICLEQVKCGE---------------LVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~~~---------------~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~  262 (279)
                      +..|+||++.+....               .+..++|||.||..||.+||+.+++||+||+++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            346999998876432               3567889999999999999999999999999864

>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=99.24  E-value=1.3e-12  Score=96.51  Aligned_cols=51  Identities=24%  Similarity=0.471  Sum_probs=42.6

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~~  266 (279)
                      ++..|+||++.+.   +...++|||.||..||.+|++. +..||+||.++.....
T Consensus        22 ~~l~C~IC~~~~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l   73 (86)
T d1rmda2          22 KSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (86)
T ss_dssp             HHTBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cCcCCccCCcchh---cceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhc
Confidence            3468999999987   4567899999999999999975 5679999999876543

>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=99.20  E-value=2.2e-12  Score=87.66  Aligned_cols=46  Identities=11%  Similarity=0.203  Sum_probs=39.8

Q ss_pred             cccccccccccCceeEEe-CCCCcccHhhHHHHHhcCCCCcccccccCCC
Q 048433          216 TCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLRQRGTCPVCKFRMGSG  264 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~  264 (279)
                      .|+||++.+..   ...+ .|||.||.+||.+|++++++||+||.++..+
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            69999999883   3355 5999999999999999999999999988754

>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=99.20  E-value=2.7e-12  Score=97.64  Aligned_cols=50  Identities=36%  Similarity=0.646  Sum_probs=41.5

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcC---CCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR---GTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~---~~CP~CR~~i~~~~  265 (279)
                      +...|+||++.+..+   ..++|||.||..||..|++.+   ..||+||..+....
T Consensus        20 ~~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          20 KILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             cCcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            346899999999854   468999999999999999764   37999999987544

>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=99.19  E-value=1.6e-12  Score=88.36  Aligned_cols=48  Identities=31%  Similarity=0.776  Sum_probs=39.8

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGWQ  266 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~~  266 (279)
                      +...|+||++.+..+   +.+||||.||..||.+|   +..||+||+++.....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            346899999999844   57899999999999876   6789999999986553

>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=99.04  E-value=9.6e-11  Score=84.39  Aligned_cols=51  Identities=22%  Similarity=0.374  Sum_probs=43.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      .++..|+||++.+..   .+.++|||.||..||.+|++. ...||.|+.++....
T Consensus         6 P~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           6 PEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            367899999999984   357899999999999999986 467999999987643

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.04  E-value=5.1e-11  Score=81.71  Aligned_cols=49  Identities=27%  Similarity=0.596  Sum_probs=38.1

Q ss_pred             CCcccccccccccccCceeEEeC-----CCCcccHhhHHHHHhc--CCCCcccccccCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLP-----CLHQFHANCIDPWLRQ--RGTCPVCKFRMGS  263 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp-----C~H~Fh~~CI~~WL~~--~~~CP~CR~~i~~  263 (279)
                      ++...|.||++.+....   ..|     |+|.||..||.+|+..  +.+||+||+++.-
T Consensus         4 ed~~~C~IC~~~~~~~~---~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNER---FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCC---CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCce---eEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            45678999999876432   233     4699999999999964  5689999998764

>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=99.02  E-value=2.3e-11  Score=91.39  Aligned_cols=49  Identities=27%  Similarity=0.455  Sum_probs=39.2

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      +..+|+||++.|..+  +...+|||.||..||.+|+.  ..||.||..+....
T Consensus        21 ~~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          21 KLLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             HTTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hcCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            456899999999854  33357999999999999984  45999998876543

>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=99.02  E-value=1e-10  Score=84.66  Aligned_cols=50  Identities=18%  Similarity=0.173  Sum_probs=42.1

Q ss_pred             CCcccccccccccccCceeEEeCCCCcccHhhHHHHHhc-CCCCcccccccCCC
Q 048433          212 EDELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSG  264 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~  264 (279)
                      .++..|+||++.+..   .+.++|||.||..||.+|+.. +.+||.||.++...
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhh---hcccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            367899999999984   357899999999999999975 56799999987643

>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=98.81  E-value=1.8e-09  Score=81.09  Aligned_cols=50  Identities=18%  Similarity=0.054  Sum_probs=42.6

Q ss_pred             CcccccccccccccCceeEEeCCC-CcccHhhHHHHHhcCCCCcccccccCCCC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCL-HQFHANCIDPWLRQRGTCPVCKFRMGSGW  265 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~-H~Fh~~CI~~WL~~~~~CP~CR~~i~~~~  265 (279)
                      +++.|+||++.+.   +.++++|+ |.|+..||.+|++.+.+||+||.++....
T Consensus        21 ~~f~CPI~~~lm~---dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~   71 (98)
T d1wgma_          21 DEFLDPIMSTLMC---DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             TTTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             HHhCCcCchhHHH---HHHhcccccchhhHHHHHHHHHhcCCcccccccccchh
Confidence            4689999999999   44578865 58999999999999999999999987543

>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=98.48  E-value=2.9e-08  Score=73.29  Aligned_cols=45  Identities=18%  Similarity=0.488  Sum_probs=35.7

Q ss_pred             ccccccccccccCceeEEeCCCCcccHhhHHHHHhcC--------CCCccccc
Q 048433          215 LTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR--------GTCPVCKF  259 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~--------~~CP~CR~  259 (279)
                      ..|+||++++...+.+..++|+|.||.+|+..|++.+        -.||.|+.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           6 SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4799999999766666666799999999999999631        14998654

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.34  E-value=0.047  Score=34.34  Aligned_cols=44  Identities=27%  Similarity=0.643  Sum_probs=29.1

Q ss_pred             cccccccccccCceeEEeCCCCcccHhhHHHHHhcC----CCCccccc
Q 048433          216 TCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR----GTCPVCKF  259 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~----~~CP~CR~  259 (279)
                      .|.||...-..+..+.--.|...||..|+..-+...    -.||.||.
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            488897654433322222389999999998876542    24999974

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=88.61  E-value=0.068  Score=35.17  Aligned_cols=46  Identities=24%  Similarity=0.476  Sum_probs=31.8

Q ss_pred             ccccccccccccCceeEEe-CCCCcccHhhHHHHHh-----cCCCCcccccc
Q 048433          215 LTCTICLEQVKCGELVRSL-PCLHQFHANCIDPWLR-----QRGTCPVCKFR  260 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~L-pC~H~Fh~~CI~~WL~-----~~~~CP~CR~~  260 (279)
                      ..|.||.+....++.++.- .|+..||..|+..-..     .+-.||.|+..
T Consensus         7 ~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           7 GQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            4799998877665544433 3999999999863211     23469999754

>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=87.51  E-value=0.19  Score=34.90  Aligned_cols=32  Identities=25%  Similarity=0.700  Sum_probs=24.7

Q ss_pred             CCcccccccccccccCceeEEeC---CCCcccHhhHHHH
Q 048433          212 EDELTCTICLEQVKCGELVRSLP---CLHQFHANCIDPW  247 (279)
Q Consensus       212 ~e~~~C~ICle~~~~~~~v~~Lp---C~H~Fh~~CI~~W  247 (279)
                      ..+..|.|| +.+...+   .+|   |+..||..|+.+-
T Consensus        13 ~~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            456789999 6666443   346   7899999999997

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.33  E-value=0.045  Score=38.42  Aligned_cols=52  Identities=19%  Similarity=0.466  Sum_probs=32.6

Q ss_pred             cccccccccccccC-ceeEEe-CCCCcccHhhHHHHH-----hc---CCCCcccccccCCCC
Q 048433          214 ELTCTICLEQVKCG-ELVRSL-PCLHQFHANCIDPWL-----RQ---RGTCPVCKFRMGSGW  265 (279)
Q Consensus       214 ~~~C~ICle~~~~~-~~v~~L-pC~H~Fh~~CI~~WL-----~~---~~~CP~CR~~i~~~~  265 (279)
                      ...|.||....... ..++.- .|...||..|+.+.+     ..   .-.||.|+.......
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~~~~   77 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMA   77 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCCST
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHhhhh
Confidence            45799997644322 233322 399999999986432     22   346999976555443

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.94  E-value=0.087  Score=34.38  Aligned_cols=47  Identities=28%  Similarity=0.635  Sum_probs=30.3

Q ss_pred             CcccccccccccccCceeEEeCCCCcccHhhHHHHHhc----CCCCcccccccC
Q 048433          213 DELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQ----RGTCPVCKFRMG  262 (279)
Q Consensus       213 e~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~----~~~CP~CR~~i~  262 (279)
                      .+..|.||.+   .++.+.-=.|.-.||..|+...+..    .-.||.|+....
T Consensus         8 ~~~~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           8 HMEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SCSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CcCCCcCCCC---CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            3446999964   2332222238889999999765543    335999975543

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.08  E-value=1.5  Score=30.37  Aligned_cols=52  Identities=25%  Similarity=0.409  Sum_probs=35.4

Q ss_pred             cccccccccccccC---ceeEE-eCCCCcccHhhHHHHHhc-CCCCcccccccCCCC
Q 048433          214 ELTCTICLEQVKCG---ELVRS-LPCLHQFHANCIDPWLRQ-RGTCPVCKFRMGSGW  265 (279)
Q Consensus       214 ~~~C~ICle~~~~~---~~v~~-LpC~H~Fh~~CI~~WL~~-~~~CP~CR~~i~~~~  265 (279)
                      ...|-||-+.+...   +..+. --|+--.|..|..-=.+. ++.||.|+.++..-.
T Consensus        16 ~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~k   72 (93)
T d1weoa_          16 GQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLR   72 (93)
T ss_dssp             SCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCT
T ss_pred             cchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhc
Confidence            44799999887533   21111 227777899998765553 778999999887543

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.97  E-value=1.8  Score=29.15  Aligned_cols=50  Identities=18%  Similarity=0.416  Sum_probs=31.9

Q ss_pred             cccccccccccCceeEEeC-CCCcccHhhHHH--HH-hc--CCCCcccccccCCCC
Q 048433          216 TCTICLEQVKCGELVRSLP-CLHQFHANCIDP--WL-RQ--RGTCPVCKFRMGSGW  265 (279)
Q Consensus       216 ~C~ICle~~~~~~~v~~Lp-C~H~Fh~~CI~~--WL-~~--~~~CP~CR~~i~~~~  265 (279)
                      .|.||...+......+.-. |.-.||..|+.-  .. ..  +-.||.|+....+..
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp~~   68 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGPSI   68 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCSCB
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCCcc
Confidence            4559987765544444333 899999999852  21 22  356999987655433

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.66  E-value=0.23  Score=33.22  Aligned_cols=46  Identities=28%  Similarity=0.618  Sum_probs=29.9

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHHHHHhcC----CCCcccccccC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCIDPWLRQR----GTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~~WL~~~----~~CP~CR~~i~  262 (279)
                      ...|.||.+   .++.+.-=.|...||..|+.+.+...    -.||.|+..-.
T Consensus         7 c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           7 ATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            446777753   33333222399999999999877542    34999965443

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.33  E-value=0.57  Score=31.46  Aligned_cols=35  Identities=29%  Similarity=0.506  Sum_probs=26.8

Q ss_pred             ccccccccccccCceeEEeC--CCCcccHhhHHHHHhc
Q 048433          215 LTCTICLEQVKCGELVRSLP--CLHQFHANCIDPWLRQ  250 (279)
Q Consensus       215 ~~C~ICle~~~~~~~v~~Lp--C~H~Fh~~CI~~WL~~  250 (279)
                      ..|.+|.+.++.. ..+..|  =+|.||..|-+..++.
T Consensus         9 l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           9 LCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             eeeeeehhhhcCC-ceEeCCCCcCCceeccccHHHHHh
Confidence            5799999998843 233334  3899999999999875

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.15  E-value=1  Score=29.96  Aligned_cols=48  Identities=27%  Similarity=0.604  Sum_probs=29.0

Q ss_pred             cccccccccccccCceeEEeCCCCcccHhhHH------HHH---hcCCCCcccccccC
Q 048433          214 ELTCTICLEQVKCGELVRSLPCLHQFHANCID------PWL---RQRGTCPVCKFRMG  262 (279)
Q Consensus       214 ~~~C~ICle~~~~~~~v~~LpC~H~Fh~~CI~------~WL---~~~~~CP~CR~~i~  262 (279)
                      ...| ||......+..+.-=.|.-.||..|+.      ...   ...-.||.|+..-.
T Consensus        16 ~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~~   72 (76)
T d1wema_          16 ALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSG   72 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSC
T ss_pred             cCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcCC
Confidence            3457 897665543322223388899999982      111   12467999976543