Citrus Sinensis ID: 016747

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380---
Protein Sequence
MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSSASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQNRIAMGPFSSTGRVLVSPSTQPQH
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEEEEccHHHHHHHHHHHHcccccccccccccccccccccccEEHHHHHHHHcHHHHHHHHHccEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHccEEEccccHHHHHcccccccccccHHcccccccHHHHHcccccccccccccccccccccccccccHHHHHHHHcccEEEcccccccccccEEccccccccEEccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEEHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHEHHHHHHHHHHHHHHHHHHHHHHHHEHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHccEEEEEEccccccccEEEHcccccccEEEEccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccHHccccccccccEEEcccccccc
Coil and Loop (DISEMBL)
mairgvdfkwydgFFLSMLATSVIIVAINWkryhlctypLHIWIVVDYTTVFVFRLLMFVDNglasgmgldlGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGtlwftsardclpeegQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHsiraqqgipvseyGVLLDMIRVPEWAFEAAGQEMRgigqdtaayhpglYLTAAQREAVEALIQELPKfrlkavptdcsecpicleefhvgnevrglpcahnfhIECIDEWLrlnvkcprcrcsvfpnldlsalsnlrtadserssassvvtttryvrtqpssqSYLVRMQgllspvhmgntrlpndtdialqtvenggvlsatqnriamgpfsstgrvlvspstqpqh
Flexible Loop (DISEMBL)
MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSiraqqgipvseYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSalsnlrtadserssassvvtttryvrtqpssqsyLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQNRiamgpfsstgrvlvspstqpqh
Low Complexity Region (SEG)
MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRvvvlsilslllYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLrtadserssassvvtttryvrtQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQNRIAMGPFSSTGRVLVSPSTQPQH
Disordered region (IsUnstruct)
**IRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSAL*******************************YLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLS***************************
Disordered Region (DISOPRED)
***RGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGL******************GRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDC**EEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAF***********************************QELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCS*********************************************************************************************************
Disordered Region (DISEMBL)
MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNL****************TRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQNRIAMGPFSSTG************
Disordered Region (DISPRO)
***RGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP******************************************************************************************************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSSASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQNRIAMGPFSSTGRVLVSPSTQPQH
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	383	2.2.26 [Sep-21-2011]
Q8GYT9	358	E3 ubiquitin-protein liga	yes	no	0.900	0.963	0.763	1e-159
Q9FKX5	221	NEP1-interacting protein-	no	no	0.250	0.434	0.350	6e-12
Q93Z92	390	E3 ubiquitin-protein liga	no	no	0.214	0.210	0.339	3e-11
Q8GT74	241	NEP1-interacting protein	no	no	0.201	0.319	0.385	4e-10
Q67YI6	411	RING-H2 finger protein AT	no	no	0.140	0.131	0.509	4e-10
Q9C1X4	513	Uncharacterized RING fing	yes	no	0.336	0.251	0.303	5e-10
Q9FHG8	210	Putative RING-H2 finger p	no	no	0.172	0.314	0.442	1e-09
Q9LN71	408	E3 ubiquitin-protein liga	no	no	0.219	0.205	0.293	2e-09
Q7T037	757	E3 ubiquitin-protein liga	N/A	no	0.120	0.060	0.5	2e-09
Q641J8	622	E3 ubiquitin-protein liga	N/A	no	0.120	0.073	0.5	2e-09

>sp|Q8GYT9|SIS3_ARATH E3 ubiquitin-protein ligase SIS3 OS=Arabidopsis thaliana GN=SIS3 PE=2 SV=2

 Score =  561 bits (1445), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 271/355 (76%), Positives = 308/355 (86%), Gaps = 10/355 (2%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MA+RGVDFKWYDGFFLSMLATSVIIVA+NW RY  C YPLHIWIVVDYTTVF+FR+ MFV
Sbjct: 1   MAMRGVDFKWYDGFFLSMLATSVIIVAVNWNRYRACEYPLHIWIVVDYTTVFIFRVFMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLASG+GLD G QQR A FCGRVVVLS+LSLLLYPFLWAWT+IGT WFT ++ CLPEE
Sbjct: 61  DNGLASGLGLDFGSQQRNAMFCGRVVVLSVLSLLLYPFLWAWTVIGTQWFTKSKTCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWL+FSYCGLLCIA + +GKWLTRRQ H +RAQQGIP+SE+G+L+DMIRVP+W
Sbjct: 121 GQKWGFLIWLMFSYCGLLCIAFICVGKWLTRRQVHLLRAQQGIPISEFGILVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQEMRGI QD A YHPGLYLT AQ EAVEALIQELPKFRLKAVP DC EC ICLE
Sbjct: 181 AFEAAGQEMRGISQDAATYHPGLYLTPAQTEAVEALIQELPKFRLKAVPDDCGECLICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EFH+G+EVRGLPCAHNFH+ECID+WLRLNVKCPRCRCSVFP+LDLSALSNL+++ +E+ S
Sbjct: 241 EFHIGHEVRGLPCAHNFHVECIDQWLRLNVKCPRCRCSVFPDLDLSALSNLQSSGTEQHS 300

Query: 301 ASSVVTT-TRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGV 354
             +  T+  RY+R+QP S+SY +R+Q L+ PVH         TD AL+T ENGGV
Sbjct: 301 QVNTETSEARYIRSQPQSESYFLRVQSLIHPVH---------TDTALETAENGGV 346

E3 ubiquitin protein ligase that acts as positive regulator of sugar signaling during early seedling development. Possesses E3 ligase activity in vitro.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9FKX5|NIPL1_ARATH NEP1-interacting protein-like 1 OS=Arabidopsis thaliana GN=ATL27 PE=2 SV=1

 Score = 72.0 bits (175), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 34/97 (35%), Positives = 49/97 (50%), Gaps = 1/97 (1%)

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           A  +A Q   G  +     H  ++ TA  +      +  +PK R+     +   C +CL+
Sbjct: 122 AMLSAVQSQMGAVESQFQDHTDIFDTAISKGLTGDSLNRIPKVRITDTSPEIVSCSVCLQ 181

Query: 241 EFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCR 276
           +F VG  VR LP C H FH+ CID+WLR +  CP CR
Sbjct: 182 DFQVGETVRSLPHCHHMFHLPCIDKWLRRHASCPLCR 218

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q93Z92|RING4_ARATH E3 ubiquitin-protein ligase At4g11680 OS=Arabidopsis thaliana GN=At4g11680 PE=2 SV=1

 Score = 69.7 bits (169), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/109 (33%), Positives = 54/109 (49%), Gaps = 27/109 (24%)

Query: 203 LYLTAAQREAVEALIQELPKFRL-------------KAVPTDC--------------SEC 235
           LY  A Q  A +  I ++PKFR              + + T+C              +EC
Sbjct: 279 LYAVADQEGASKNDIDQMPKFRFTKTGNVEKLSGKARGIMTECGTDSPIERSLSPEDAEC 338

Query: 236 PICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLD 284
            ICL E+  G E+R LPC H+FH  CID+WL +N +CP C+ ++  N +
Sbjct: 339 CICLCEYEDGVELRELPCNHHFHCTCIDKWLHINSRCPLCKFNILKNAN 387

Mediates E2-dependent protein ubiquitination in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8GT74|NIP2_ARATH NEP1-interacting protein 2 OS=Arabidopsis thaliana GN=NIP2 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 45/83 (54%), Gaps = 6/83 (7%)

Query: 200 HPGLYLTAAQREAVEALIQELPKFRLKAVP-TDCSE----CPICLEEFHVGNEVRGLP-C 253
           H  L+ T   +     L++++PK  +     TD SE    C +CL++F +G  VR LP C
Sbjct: 156 HTSLFDTGGSKGLTGDLVEKIPKMTITGNNNTDASENTDSCSVCLQDFQLGETVRSLPHC 215

Query: 254 AHNFHIECIDEWLRLNVKCPRCR 276
            H FH+ CID WL  +  CP CR
Sbjct: 216 HHMFHLPCIDNWLLRHGSCPMCR 238

Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q67YI6|ATL65_ARATH RING-H2 finger protein ATL65 OS=Arabidopsis thaliana GN=ATL65 PE=2 SV=2

 Score = 66.2 bits (160), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 28/55 (50%), Positives = 36/55 (65%), Gaps = 1/55 (1%)

Query: 226 KAVPTDCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 279
           K    +C +C +CL EF  G+ VR LP C H FH+ECIDEWLR +  CP CR ++
Sbjct: 147 KTSAANCRDCAVCLLEFEEGDYVRTLPLCFHAFHLECIDEWLRSHPNCPLCRTAI 201

Arabidopsis thaliana (taxid: 3702)

>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 = 65.9 bits (159), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 41/135 (30%), Positives = 64/135 (47%), Gaps = 6/135 (4%)

Query: 222 KFRLKAVPTDC----SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC 277
           K +++  P +      EC IC+E F + ++V  LPC H FH  CI  WLR+N  C  CR 
Sbjct: 379 KMKVQKPPKELIDEEGECTICMEMFKINDDVIQLPCKHYFHENCIKPWLRVNGTCAICRA 438

Query: 278 SVFPNLDLSALSNLRTADSERSS--ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGN 335
            V PN      ++  +A+    S  A+   +TT        ++S+    Q  LS  H  +
Sbjct: 439 PVDPNSQQRNNTSTDSANGHNPSNHANPSTSTTNDQGATLRNESFNAASQSNLSSEHGHS 498

Query: 336 TRLPNDTDIALQTVE 350
           +R P D  +  + +E
Sbjct: 499 SRTPMDDFVDEEPLE 513

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

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

 Score = 64.7 bits (156), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 40/70 (57%), Gaps = 4/70 (5%)

Query: 211 EAVEALIQELPKFRLKA---VPTDCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWL 266
           E  ++ I  LP    K    +  D S+C +CL EF   +E+R LP C+H FH+ECID WL
Sbjct: 95  EIDQSFIDALPLLHYKTMIGLRHDLSDCAVCLREFTAEDELRLLPKCSHAFHVECIDTWL 154

Query: 267 RLNVKCPRCR 276
             N  CP CR
Sbjct: 155 LTNSTCPLCR 164

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN71|RING1_ARATH E3 ubiquitin-protein ligase At1g12760 OS=Arabidopsis thaliana GN=At1g12760 PE=2 SV=1

 Score = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 53/116 (45%), Gaps = 32/116 (27%)

Query: 203 LYLTAAQREAVEALIQELPKFRLK------------------AVPTDC------------ 232
           LY  A Q  A +  I++L KF+ +                   + T+C            
Sbjct: 289 LYAVADQEGASKEDIEQLTKFKFRKLGDANKHTNDEAQGTTEGIMTECGTDSPIEHTLLQ 348

Query: 233 --SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLS 286
             +EC ICL  +  G E+R LPC H+FH  C+D+WL +N  CP C+ ++  + +L 
Sbjct: 349 EDAECCICLSAYEDGTELRELPCGHHFHCSCVDKWLYINATCPLCKYNILKSSNLD 404

Mediates E2-dependent protein ubiquitination in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7T037|RF12B_XENLA E3 ubiquitin-protein ligase RNF12-B OS=Xenopus laevis GN=rnf12-b PE=2 SV=1

 Score = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 23/46 (50%), Positives = 31/46 (67%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF 280
           C +C+ E+  GN++R LPC+H +HI CID WL  N  CP CR +V 
Sbjct: 703 CSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVL 748

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q641J8|RF12A_XENLA E3 ubiquitin-protein ligase RNF12-A OS=Xenopus laevis GN=rnf12-a PE=1 SV=1

 Score = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 23/46 (50%), Positives = 31/46 (67%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF 280
           C +C+ E+  GN++R LPC+H +HI CID WL  N  CP CR +V 
Sbjct: 568 CSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVL 613

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus laevis (taxid: 8355)

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	383
255540693	381	protein binding protein, putative [Ricin	0.994	1.0	0.825	0.0
225457054	381	PREDICTED: E3 ubiquitin-protein ligase S	0.992	0.997	0.832	0.0
356513598	382	PREDICTED: E3 ubiquitin-protein ligase S	0.934	0.937	0.855	0.0
224119306	391	predicted protein [Populus trichocarpa]	0.992	0.971	0.776	1e-172
356562736	383	PREDICTED: E3 ubiquitin-protein ligase S	0.960	0.960	0.816	1e-171
357477371	365	RING finger protein [Medicago truncatula	0.869	0.912	0.868	1e-171
449440682	377	PREDICTED: E3 ubiquitin-protein ligase S	0.929	0.944	0.802	1e-166
224133512	333	predicted protein [Populus trichocarpa]	0.859	0.987	0.876	1e-165
219886093	374	unknown [Zea mays]	0.913	0.935	0.767	1e-162
242057653	374	hypothetical protein SORBIDRAFT_03g02403	0.921	0.943	0.769	1e-159

>gi|255540693|ref|XP_002511411.1| protein binding protein, putative [Ricinus communis] gi|223550526|gb|EEF52013.1| protein binding protein, putative [Ricinus communis]

 Score =  665 bits (1716), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 316/383 (82%), Positives = 342/383 (89%), Gaps = 2/383 (0%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MAIRGVDFKWYDGFFLSMLATSV+IVAINWKRYH CTYPLHIWIVVDYTTVFVFRLLMF+
Sbjct: 1   MAIRGVDFKWYDGFFLSMLATSVVIVAINWKRYHHCTYPLHIWIVVDYTTVFVFRLLMFI 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLD GWQQRYARFCGR+ VLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE
Sbjct: 61  DNGLAAGMGLDFGWQQRYARFCGRIAVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWL+FSYCGLLCIACM MGKWLTRRQAH +RAQQGIP+SEYGVL+DM+RVP+W
Sbjct: 121 GQKWGFLIWLVFSYCGLLCIACMCMGKWLTRRQAHLLRAQQGIPISEYGVLVDMVRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQEMRG+GQD AAYHPGLYLT  QREAVEALIQELPKFRLK VPTDCSECPICLE
Sbjct: 181 AFEAAGQEMRGMGQDAAAYHPGLYLTPTQREAVEALIQELPKFRLKTVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EFHVGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR AD ER  
Sbjct: 241 EFHVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR-ADPERPP 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQN 360
           A+  VTT RYVRTQPSSQSYL+R+QGLL P+   +    +D D+ L+ VE+G  + AT+ 
Sbjct: 300 AAD-VTTNRYVRTQPSSQSYLLRLQGLLRPIRTEDAGSSSDVDVDLEAVEHGREVVATRE 358

Query: 361 RIAMGPFSSTGRVLVSPSTQPQH 383
            + M P S  G +LV  S+ PQH
Sbjct: 359 AMVMEPVSLVGSMLVGQSSPPQH 381

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225457054|ref|XP_002282957.1| PREDICTED: E3 ubiquitin-protein ligase SIS3 [Vitis vinifera]

 Score =  639 bits (1648), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/382 (83%), Positives = 336/382 (87%), Gaps = 2/382 (0%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRY LCTYPLHIWI+VDYTTVFVFRLLMFV
Sbjct: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYDLCTYPLHIWIMVDYTTVFVFRLLMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLD GWQQRYARFCGR+VVLSILSLLLYPFLWAWT+IGTLWFT ARDCLPEE
Sbjct: 61  DNGLAAGMGLDFGWQQRYARFCGRIVVLSILSLLLYPFLWAWTVIGTLWFTRARDCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWLLFSYCGLLCIACMSMGKW +RRQAH +RAQQGIPVSEYGVL+DMIRVP+W
Sbjct: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWFSRRQAHLLRAQQGIPVSEYGVLVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQEMRG+GQD AAYHPGLYLT  QREAVEALIQELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAAGQEMRGMGQDAAAYHPGLYLTPTQREAVEALIQELPKFRLKAVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EFHVGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSAL++ R ADSERSS
Sbjct: 241 EFHVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSALTHFR-ADSERSS 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQN 360
           A SVVT TRYVR QP SQ Y++R+QG L PV   N    ND D AL+  ENGG+   T +
Sbjct: 300 A-SVVTATRYVRVQPPSQGYMLRLQGFLRPVRTENAGAGNDADNALENAENGGLPVVTDD 358

Query: 361 RIAMGPFSSTGRVLVSPSTQPQ 382
                P      VLV  ST PQ
Sbjct: 359 LTNTEPAPFDNGVLVHHSTPPQ 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513598|ref|XP_003525499.1| PREDICTED: E3 ubiquitin-protein ligase SIS3-like [Glycine max]

 Score =  639 bits (1648), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 308/360 (85%), Positives = 325/360 (90%), Gaps = 2/360 (0%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MAIRGVDFKWYDGFFLSMLATSV+IVAINWKRYH CTYPLHIWIVVDYTTVFVFRLLMFV
Sbjct: 1   MAIRGVDFKWYDGFFLSMLATSVVIVAINWKRYHSCTYPLHIWIVVDYTTVFVFRLLMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLD GWQQRYARFCGRVVV SIL LLLYPFLWAWT+IGTLWF+SA++CLPE 
Sbjct: 61  DNGLAAGMGLDFGWQQRYARFCGRVVVFSILVLLLYPFLWAWTVIGTLWFSSAKNCLPEV 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           G KWGFLIWLLFSYCGLLCIACMS+GKWLTRRQAH +RAQQGIPVSEYGVL+DMIRVP+W
Sbjct: 121 GTKWGFLIWLLFSYCGLLCIACMSLGKWLTRRQAHLLRAQQGIPVSEYGVLVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQE RG+GQD AAYHPGLYLT AQREAVEALIQELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAAGQETRGMGQDAAAYHPGLYLTPAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EF+VGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR A+ E SS
Sbjct: 241 EFYVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR-AEPEESS 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQN 360
           A SVVTTTRYVR QPSSQSY +R+QGLL PV         D D  L+  ENG V   TQN
Sbjct: 300 A-SVVTTTRYVRGQPSSQSYRLRLQGLLRPVGAEIAGPVGDIDNVLENAENGSVSIVTQN 358

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119306|ref|XP_002318038.1| predicted protein [Populus trichocarpa] gi|222858711|gb|EEE96258.1| predicted protein [Populus trichocarpa]

 Score =  611 bits (1576), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 306/394 (77%), Positives = 332/394 (84%), Gaps = 14/394 (3%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSV-----------IIVAINWKRYHLCTYPLHIWIVVDYT 49
           MA+RG+DFKWYDGFFLSMLAT +           IIVAINW+RYH+CTYPLHIWI+VDYT
Sbjct: 1   MAMRGIDFKWYDGFFLSMLATKIVCSFFNNVTHRIIVAINWRRYHICTYPLHIWIMVDYT 60

Query: 50  TVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLW 109
           TVFVFRLLMF+DNGLA+GMGLD G QQRYARFCGR+VVLSILSLLLYPFLWAWTI GTLW
Sbjct: 61  TVFVFRLLMFIDNGLAAGMGLDFGRQQRYARFCGRIVVLSILSLLLYPFLWAWTITGTLW 120

Query: 110 FTSARDCLPEEGQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYG 169
           FT ARDCLPEEGQKWGFLIWLLFSYCGL+ IAC+S+GKW  RRQAH +RAQQGIP+SEYG
Sbjct: 121 FTRARDCLPEEGQKWGFLIWLLFSYCGLIGIACISVGKWRVRRQAHHLRAQQGIPISEYG 180

Query: 170 VLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVP 229
           VL+D+IRVP+WAFEAAGQEMRG+GQD AAY PGLYLT  QREAVEALIQELPKFRLKAVP
Sbjct: 181 VLVDLIRVPDWAFEAAGQEMRGMGQDAAAYQPGLYLTPTQREAVEALIQELPKFRLKAVP 240

Query: 230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 289
           TDCSEC ICLEEF+VGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSA+S
Sbjct: 241 TDCSECLICLEEFYVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSAIS 300

Query: 290 NLRTADSERSSASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTV 349
           NLR ADSERS A+  VTT RYVRT PSS SYL+R+QGLL PV  GN   P D DI ++  
Sbjct: 301 NLR-ADSERSPAT--VTTNRYVRTVPSSHSYLLRLQGLLWPVQSGNAGDPTDADIDVEAA 357

Query: 350 ENGGVLSATQNRIAMGPFSSTGRVLVSPSTQPQH 383
           ENG    AT  R      SS G  LV  STQ  H
Sbjct: 358 ENGSAHMATGERTGTESVSSAGLALVGQSTQTHH 391

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562736|ref|XP_003549625.1| PREDICTED: E3 ubiquitin-protein ligase SIS3-like [Glycine max]

 Score =  606 bits (1562), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 302/370 (81%), Positives = 328/370 (88%), Gaps = 2/370 (0%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MAIRGVDFKWYDGFFL MLATSV+IVAINWKRYH CTYPLHIWIVVDYTTVFVFR+LMFV
Sbjct: 1   MAIRGVDFKWYDGFFLFMLATSVVIVAINWKRYHSCTYPLHIWIVVDYTTVFVFRVLMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGL++GMGLD GWQQRYARFCGRVVVLSIL LLLYPFLWAWT+IGTLWF+SA++CLPE 
Sbjct: 61  DNGLSAGMGLDFGWQQRYARFCGRVVVLSILVLLLYPFLWAWTVIGTLWFSSAKNCLPEV 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           G+KWGFLIWLLFSYCGL CIACMS+GKWLTRRQAH +RAQQGIPVSEYGVL+DMIRVP+W
Sbjct: 121 GKKWGFLIWLLFSYCGLFCIACMSLGKWLTRRQAHLLRAQQGIPVSEYGVLVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQE RG+GQD AAYHPGLYLT AQREAVEALI ELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAAGQETRGMGQDAAAYHPGLYLTPAQREAVEALILELPKFRLKAVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EF+VGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSALS+LR A+ E+ S
Sbjct: 241 EFYVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSALSSLR-AEPEQFS 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGVLSATQN 360
           A SVVTT RYVR QPSS SY +R+QGLL PV         D D AL+  +NG V   TQN
Sbjct: 300 A-SVVTTARYVRGQPSSLSYRLRLQGLLCPVRAEIAGPVGDIDNALKNAQNGVVSIVTQN 358

Query: 361 RIAMGPFSST 370
             + G  +S+
Sbjct: 359 ASSSGDQASS 368

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357477371|ref|XP_003608971.1| RING finger protein [Medicago truncatula] gi|355510026|gb|AES91168.1| RING finger protein [Medicago truncatula]

 Score =  606 bits (1562), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 291/335 (86%), Positives = 307/335 (91%), Gaps = 2/335 (0%)

Query: 18  MLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQR 77
           MLATSV+IVAINWKRYH CTYPLHIWIVVDYT VFVFRLLMFVDNG A+GMGLD GWQQR
Sbjct: 1   MLATSVVIVAINWKRYHSCTYPLHIWIVVDYTAVFVFRLLMFVDNGFAAGMGLDFGWQQR 60

Query: 78  YARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCGL 137
           YARFCGRVVVLSIL LLLYPFLWAWTIIGT+WF+SA+ CLPEEGQKWGFLIWLLFSYCGL
Sbjct: 61  YARFCGRVVVLSILGLLLYPFLWAWTIIGTMWFSSAKSCLPEEGQKWGFLIWLLFSYCGL 120

Query: 138 LCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTA 197
           LCIACMS+GKWLTRRQAH +RAQQGIP+SEYG+L+DMIRVP+WAFEAAGQE RG+GQDTA
Sbjct: 121 LCIACMSVGKWLTRRQAHLVRAQQGIPLSEYGILVDMIRVPDWAFEAAGQETRGMGQDTA 180

Query: 198 AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNF 257
           +YHPGLYLT AQREAVEALIQELPKFRLKAVPTDCSECPICLEEF VGNEVRGLPCAHNF
Sbjct: 181 SYHPGLYLTPAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFRVGNEVRGLPCAHNF 240

Query: 258 HIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSSASSVVTTTRYVRTQPSS 317
           H+ECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR  DSERSS  SVVTTTRYVR QPSS
Sbjct: 241 HVECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR-PDSERSS-DSVVTTTRYVRGQPSS 298

Query: 318 QSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENG 352
           QSYL+R+QGLL PV         DTD ALQ  ENG
Sbjct: 299 QSYLLRLQGLLRPVRTEIAGPVGDTDNALQNAENG 333

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440682|ref|XP_004138113.1| PREDICTED: E3 ubiquitin-protein ligase SIS3-like [Cucumis sativus] gi|449518937|ref|XP_004166492.1| PREDICTED: E3 ubiquitin-protein ligase SIS3-like [Cucumis sativus]

 Score =  589 bits (1518), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 289/360 (80%), Positives = 314/360 (87%), Gaps = 4/360 (1%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MA RGVDFKWYDGFFLSMLATSV+IV+INWKRYH C +PLHIWIVVDYTTVFVFRLLMFV
Sbjct: 1   MAARGVDFKWYDGFFLSMLATSVVIVSINWKRYHTCVHPLHIWIVVDYTTVFVFRLLMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLD GWQQRYARFCGR+VVLS+L++LLYPFLWAWT IGT+WF  A  CLPE+
Sbjct: 61  DNGLAAGMGLDFGWQQRYARFCGRIVVLSVLAVLLYPFLWAWTAIGTIWFREAHKCLPEQ 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWLLFSYC L+CIACMS+GKWLTRRQA   RAQQGIPVSEYGVL+DM+RVP+W
Sbjct: 121 GQKWGFLIWLLFSYCALVCIACMSLGKWLTRRQALLFRAQQGIPVSEYGVLVDMVRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQE R +GQD AAYHPGLYLT AQREAVEALI+ELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAAGQETRVMGQDAAAYHPGLYLTPAQREAVEALIEELPKFRLKAVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EFHVGNEVRGLPCAHNFH+ CIDEWLRLNVKCPRCRCSVFPNLDLSALSNLR+ D++R S
Sbjct: 241 EFHVGNEVRGLPCAHNFHVGCIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRS-DTDRPS 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVHMGNTRLPNDTD--IALQTVENGGVLSAT 358
           A SV+T  RYV +QPSSQSYLVR+QGLL PV         D     AL+  ENG     T
Sbjct: 300 A-SVLTANRYVGSQPSSQSYLVRLQGLLRPVRTEENDAHGDLGPASALEAAENGSAHEQT 358

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133512|ref|XP_002321588.1| predicted protein [Populus trichocarpa] gi|222868584|gb|EEF05715.1| predicted protein [Populus trichocarpa]

 Score =  587 bits (1513), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 291/332 (87%), Positives = 309/332 (93%), Gaps = 3/332 (0%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           MAIRGVDFKWYDGFFLSMLATS IIVAINWKRY LCTYPLHIWI+VDYTTVFVFRLLMF+
Sbjct: 1   MAIRGVDFKWYDGFFLSMLATSAIIVAINWKRYRLCTYPLHIWIMVDYTTVFVFRLLMFI 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLD GWQQRYARFCGR+VVLSILSLLLYPFLWAWTIIGTLWFT+ARDCLPEE
Sbjct: 61  DNGLAAGMGLDFGWQQRYARFCGRIVVLSILSLLLYPFLWAWTIIGTLWFTNARDCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWLLFSYCGL+ IAC+S+GKW  RRQAH +RAQQGIP+SEYGVL+D+IRVP+W
Sbjct: 121 GQKWGFLIWLLFSYCGLIGIACISVGKWWVRRQAHHLRAQQGIPISEYGVLVDLIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEAAGQEMRG+GQD AAY PGLYLT  QREAVEALIQELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAAGQEMRGMGQDAAAYQPGLYLTPTQREAVEALIQELPKFRLKAVPTDCSECPICLE 240

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTADSERSS 300
           EF+VGNEVRGLPCAHNFH+ECIDEWLRLNVKCPRCRCSVFPNLDLSALSNL  ADSERS 
Sbjct: 241 EFYVGNEVRGLPCAHNFHVECIDEWLRLNVKCPRCRCSVFPNLDLSALSNL-LADSERSP 299

Query: 301 ASSVVTTTRYVRTQPSSQSYLVRMQGLLSPVH 332
           A+   TT RYVRT P SQ YL+RMQGLL PV 
Sbjct: 300 ATP--TTNRYVRTVPFSQIYLLRMQGLLWPVR 329

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|219886093|gb|ACL53421.1| unknown [Zea mays]

 Score =  578 bits (1491), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 284/370 (76%), Positives = 317/370 (85%), Gaps = 20/370 (5%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           M +RGVDFKWYDGFFLSMLATSVIIV+INWKRY LC +PLHIWIVVDYTTVF+FRLLMFV
Sbjct: 1   MPMRGVDFKWYDGFFLSMLATSVIIVSINWKRYRLCAHPLHIWIVVDYTTVFIFRLLMFV 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLDLGWQQRYARFCGR++VLS+L  LLYPFLW WT+IGTLWF++AR CLPEE
Sbjct: 61  DNGLAAGMGLDLGWQQRYARFCGRIIVLSVLVPLLYPFLWVWTVIGTLWFSTARGCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWLLFSYCGL CIAC+++GKWL RR A   RAQQGIPVSE+GVL+DMIRVP+W
Sbjct: 121 GQKWGFLIWLLFSYCGLACIACVAIGKWLHRRHALQQRAQQGIPVSEHGVLVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEA G EMR +GQDT AYHPGLYLT AQREAVEALIQELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAVGLEMR-VGQDT-AYHPGLYLTDAQREAVEALIQELPKFRLKAVPTDCSECPICLE 238

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTA---DSE 297
           EFHVGNEVRGLPCAHNFH+ECID+WLRLNVKCPRCRCSVFPNLDLSAL+NLR+    D  
Sbjct: 239 EFHVGNEVRGLPCAHNFHVECIDQWLRLNVKCPRCRCSVFPNLDLSALNNLRSTSEPDHP 298

Query: 298 RSSASSVVT---TTRYVRTQPSSQSYLVRMQG-LLSPVH-----------MGNTRLPNDT 342
            +SAS+V T    TRYVR+QP+ QSYLVR+QG LL PV            +GN+RL    
Sbjct: 299 SASASNVTTATAATRYVRSQPAGQSYLVRLQGLLLRPVRHDSVESDGEPAVGNSRLVGTE 358

Query: 343 DIALQTVENG 352
           ++    V++G
Sbjct: 359 ELPSILVDDG 368

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242057653|ref|XP_002457972.1| hypothetical protein SORBIDRAFT_03g024030 [Sorghum bicolor] gi|241929947|gb|EES03092.1| hypothetical protein SORBIDRAFT_03g024030 [Sorghum bicolor]

 Score =  568 bits (1465), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 287/373 (76%), Positives = 318/373 (85%), Gaps = 20/373 (5%)

Query: 1   MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
           M +RGVDFKWYDGFFLSMLATSVIIV+INWKRY LC +PLHIWIVVDYTTVF+FRLLMF+
Sbjct: 1   MPMRGVDFKWYDGFFLSMLATSVIIVSINWKRYRLCAHPLHIWIVVDYTTVFIFRLLMFL 60

Query: 61  DNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEE 120
           DNGLA+GMGLDLGWQQRYARFCGR+VVLS+L LLLYPFLW WT+IGTLWF++AR CLPEE
Sbjct: 61  DNGLAAGMGLDLGWQQRYARFCGRIVVLSVLVLLLYPFLWVWTVIGTLWFSTARGCLPEE 120

Query: 121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
           GQKWGFLIWLLFSYCGL CIAC+++GKWL RR A   RAQQGIPVSEYGVL+DMIRVP+W
Sbjct: 121 GQKWGFLIWLLFSYCGLACIACVAIGKWLNRRHALQQRAQQGIPVSEYGVLVDMIRVPDW 180

Query: 181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
           AFEA G EMR +GQDT AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE
Sbjct: 181 AFEAVGLEMR-VGQDT-AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 238

Query: 241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTA---DSE 297
           EFHVGNEVRGLPCAHNFH+ECID+WLRLNVKCPRCRCSVFPNLDLSAL+NLR+    D  
Sbjct: 239 EFHVGNEVRGLPCAHNFHVECIDQWLRLNVKCPRCRCSVFPNLDLSALNNLRSTSEPDHP 298

Query: 298 RSSASSVVT---TTRYVRTQPSSQSYLVRMQG-LLSPVH-----------MGNTRLPNDT 342
            +SAS V T    TRYVR+QP+ QSYLVR+QG LL PV            + N+RL    
Sbjct: 299 SASASDVTTATAATRYVRSQPAGQSYLVRLQGLLLRPVRHESVESDGEPAVANSRLVGTE 358

Query: 343 DIALQTVENGGVL 355
           ++    V++G  L
Sbjct: 359 ELPSIVVDDGHQL 371

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	383
TAIR|locus:2097830	358	SIS3 "SUGAR-INSENSITIVE 3" [Ar	0.900	0.963	0.718	4.2e-143
GENEDB_PFALCIPARUM|PF10_0276	274	PF10_0276 "hypothetical protei	0.295	0.412	0.256	2.5e-16
UNIPROTKB|Q8IJC2	274	PF10_0276 "Zinc finger, C3HC4	0.295	0.412	0.256	2.5e-16
WB|WBGene00007226	170	C01G6.4 [Caenorhabditis elegan	0.232	0.523	0.361	7e-12
TAIR|locus:2156867	245	AT5G66070 [Arabidopsis thalian	0.201	0.314	0.384	1.2e-11
TAIR|locus:2825708	197	AT1G20823 [Arabidopsis thalian	0.271	0.527	0.348	1.5e-11
TAIR|locus:2172550	210	AT5G57750 [Arabidopsis thalian	0.221	0.404	0.397	7e-11
TAIR|locus:2011686	185	ATL8 [Arabidopsis thaliana (ta	0.198	0.410	0.407	9e-11
TAIR|locus:2053863	185	RHA3A "RING-H2 finger A3A" [Ar	0.133	0.275	0.519	1.5e-10
TAIR|locus:2062008	227	AT2G47560 [Arabidopsis thalian	0.201	0.339	0.380	1.8e-10

TAIR|locus:2097830 SIS3 "SUGAR-INSENSITIVE 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 1399 (497.5 bits), Expect = 4.2e-143, P = 4.2e-143
 Identities = 255/355 (71%), Positives = 282/355 (79%)

Query:     1 MAIRGVDFKWYDGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFV 60
             MA+RGVDFKWYDGFFLSMLATSVIIVA+NW RY  C YPLHIWIVVDYTTVF+FR+ MFV
Sbjct:     1 MAMRGVDFKWYDGFFLSMLATSVIIVAVNWNRYRACEYPLHIWIVVDYTTVFIFRVFMFV 60

Query:    61 DNGLASGMGLDLGWQQRYARFCGRXXXXXXXXXXXYPFLWAWTIIGTLWFTSARDCLPEE 120
             DNGLASG+GLD G QQR A FCGR           YPFLWAWT+IGT WFT ++ CLPEE
Sbjct:    61 DNGLASGLGLDFGSQQRNAMFCGRVVVLSVLSLLLYPFLWAWTVIGTQWFTKSKTCLPEE 120

Query:   121 GQKWGFLIWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQGIPVSEYGVLLDMIRVPEW 180
             GQKWGFLIWL+FSYCGLLCIA + +GKWLTRRQ H +RAQQGIP+SE+G+L+DMIRVP+W
Sbjct:   121 GQKWGFLIWLMFSYCGLLCIAFICVGKWLTRRQVHLLRAQQGIPISEFGILVDMIRVPDW 180

Query:   181 AFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLE 240
             AFEAAGQEMRGI QD A YHPGLYLT AQ EAVEALIQELPKFRLKAVP DC EC ICLE
Sbjct:   181 AFEAAGQEMRGISQDAATYHPGLYLTPAQTEAVEALIQELPKFRLKAVPDDCGECLICLE 240

Query:   241 EFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLXXXXXXXXX 300
             EFH+G+EVRGLPCAHNFH+ECID+WLRLNVKCPRCRCSVFP+LDLSALSNL         
Sbjct:   241 EFHIGHEVRGLPCAHNFHVECIDQWLRLNVKCPRCRCSVFPDLDLSALSNLQSSGTEQHS 300

Query:   301 XXXXXXXXXXXX-XQPSSQSYLVRMQGLLSPVHMGNTRLPNDTDIALQTVENGGV 354
                           QP S+SY +R+Q L+ PVH         TD AL+T ENGGV
Sbjct:   301 QVNTETSEARYIRSQPQSESYFLRVQSLIHPVH---------TDTALETAENGGV 346

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

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

GO:0010182 "sugar mediated signaling pathway" evidence=IMP

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

GENEDB_PFALCIPARUM|PF10_0276 PF10_0276 "hypothetical protein" [Plasmodium falciparum (taxid:5833)]

 Score = 136 (52.9 bits), Expect = 2.5e-16, Sum P(2) = 2.5e-16
 Identities = 31/121 (25%), Positives = 52/121 (42%)

Query:    22 SVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARF 81
             SV  + + W  +  C  P+ +W+VV + ++ ++RL  F    LA  +  D      Y R 
Sbjct:    28 SVGDIFVQWNEFSKCYKPIQLWLVVSFISIVLYRLSHF----LAQYLSNDNDDFIIYRRN 83

Query:    82 CGRXXXXXXXXXXXYPFLWAWTIIGTLWFTS----ARDCLPEEGQKWGFLIWLLFSYCGL 137
                           +PF + W IIGT+W         +CLP     W  ++W++  Y  +
Sbjct:    84 NPPYYISFLVLFILFPFFFIWNIIGTIWIYQIIKYTPNCLPRNNHPWFIVLWIVLCYIWI 143

Query:   138 L 138
             L
Sbjct:   144 L 144

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8IJC2 PF10_0276 "Zinc finger, C3HC4 type, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 136 (52.9 bits), Expect = 2.5e-16, Sum P(2) = 2.5e-16
 Identities = 31/121 (25%), Positives = 52/121 (42%)

Query:    22 SVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARF 81
             SV  + + W  +  C  P+ +W+VV + ++ ++RL  F    LA  +  D      Y R 
Sbjct:    28 SVGDIFVQWNEFSKCYKPIQLWLVVSFISIVLYRLSHF----LAQYLSNDNDDFIIYRRN 83

Query:    82 CGRXXXXXXXXXXXYPFLWAWTIIGTLWFTS----ARDCLPEEGQKWGFLIWLLFSYCGL 137
                           +PF + W IIGT+W         +CLP     W  ++W++  Y  +
Sbjct:    84 NPPYYISFLVLFILFPFFFIWNIIGTIWIYQIIKYTPNCLPRNNHPWFIVLWIVLCYIWI 143

Query:   138 L 138
             L
Sbjct:   144 L 144

GO:0008150 "biological_process" evidence=ND

WB|WBGene00007226 C01G6.4 [Caenorhabditis elegans (taxid:6239)]

 Score = 166 (63.5 bits), Expect = 7.0e-12, P = 7.0e-12
 Identities = 34/94 (36%), Positives = 53/94 (56%)

Query:   198 AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNF 257
             A   G  L  A++  +  L++++P    +   T  +EC IC+ +F  G  +R LPC H+F
Sbjct:    59 AQEQGKELDEAKKNRIRGLLEQIPADVFRGDMTS-NECAICMIDFEPGERIRFLPCMHSF 117

Query:   258 HIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNL 291
             H EC+DEWL  +  CP C   + P +D + LS+L
Sbjct:   118 HQECVDEWLMKSFTCPSC---LEP-VDSTILSSL 147

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2156867 AT5G66070 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 1.2e-11, P = 1.2e-11
 Identities = 30/78 (38%), Positives = 43/78 (55%)

Query:   200 HPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLP-CAHNFH 258
             H  ++ TA  +      +  +PK R+     +   C +CL++F VG  VR LP C H FH
Sbjct:   165 HTDIFDTAISKGLTGDSLNRIPKVRITDTSPEIVSCSVCLQDFQVGETVRSLPHCHHMFH 224

Query:   259 IECIDEWLRLNVKCPRCR 276
             + CID+WLR +  CP CR
Sbjct:   225 LPCIDKWLRRHASCPLCR 242

GO:0005739 "mitochondrion" evidence=ISM

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

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

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

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2825708 AT1G20823 [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 1.5e-11, P = 1.5e-11
 Identities = 39/112 (34%), Positives = 53/112 (47%)

Query:   171 LLDMIRVPE--WAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAV 228
             +L +I V    W    A       G  T +  P +   AA +   + ++Q LPK      
Sbjct:    44 VLGLIAVSRCVWLRRLAAGNRTVSGSQTQSPQPPV--AAANKGLKKKVLQSLPKLTFSPE 101

Query:   229 PTDC---SECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCR 276
               +    +EC ICL EF  G+E+R LP C H FH+ CID WL  +  CP CR
Sbjct:   102 SPESEKFAECAICLAEFSAGDELRVLPQCGHGFHVACIDTWLGSHSSCPSCR 153

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

GO:0009507 "chloroplast" evidence=ISM

GO:0010200 "response to chitin" evidence=IEP

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

 Score = 157 (60.3 bits), Expect = 7.0e-11, P = 7.0e-11
 Identities = 37/93 (39%), Positives = 48/93 (51%)

Query:   191 GIGQDTAAYHPGLYLTAAQ---REAVEALIQELPKFRLKAV---PTDCSECPICLEEFHV 244
             GI + + A   G Y T       E  ++ I  LP    K +     D S+C +CL EF  
Sbjct:    73 GITESSTALQ-GRYQTRFNLHDAEIDQSFIDALPLLHYKTMIGLRHDLSDCAVCLREFTA 131

Query:   245 GNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCR 276
              +E+R LP C+H FH+ECID WL  N  CP CR
Sbjct:   132 EDELRLLPKCSHAFHVECIDTWLLTNSTCPLCR 164

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

TAIR|locus:2011686 ATL8 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 9.0e-11, P = 9.0e-11
 Identities = 33/81 (40%), Positives = 45/81 (55%)

Query:   200 HPGLYLTAAQREAVEALIQELPKFRLK--AVPTD-CSECPICLEEFHVGNEVRGLP-CAH 255
             HP   + AA +   + +++ LPK      + P +   EC ICL EF  G+E+R LP C H
Sbjct:    67 HPPP-VAAANKGLKKKVLRSLPKLTYSPDSPPAEKLVECAICLTEFAAGDELRVLPQCGH 125

Query:   256 NFHIECIDEWLRLNVKCPRCR 276
              FH+ CID WL  +  CP CR
Sbjct:   126 GFHVSCIDTWLGSHSSCPSCR 146

GO:0005634 "nucleus" evidence=ISM

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

GO:0009744 "response to sucrose stimulus" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

TAIR|locus:2053863 RHA3A "RING-H2 finger A3A" [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 27/52 (51%), Positives = 34/52 (65%)

Query:   231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSVFP 281
             D +EC ICL +F  G E+R LP C H+FH+ECID+WL     CP CR  + P
Sbjct:    98 DSTECAICLTDFADGEEIRVLPLCGHSFHVECIDKWLVSRSSCPSCRRILTP 149

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2062008 AT2G47560 [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 1.8e-10, Sum P(2) = 1.8e-10
 Identities = 32/84 (38%), Positives = 47/84 (55%)

Query:   205 LTAAQREAV--EALIQELPKFRLKAV----PTDCSECPICLEEFHVGNEVRGLP-CAHNF 257
             L+A+ R+    +A++ ++P F   +     P +  EC +CL EF   +E R LP C H+F
Sbjct:    72 LSASPRDQALDQAVLDKIPIFVYSSKNPPPPEEKEECSVCLSEFEEEDEGRLLPKCGHSF 131

Query:   258 HIECIDEWLRLNVKCPRCRCSVFP 281
             H++CID W R    CP CR  V P
Sbjct:   132 HVDCIDTWFRSRSTCPLCRAPVQP 155

GO:0005634 "nucleus" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8GYT9	SIS3_ARATH	6, ., 3, ., 2, ., -	0.7633	0.9007	0.9636	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00016103001 SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (381 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	383
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	7e-09
smart00184	40	smart00184, RING, Ring finger	3e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-06
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.002
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.002
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.004

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

 Score = 68.6 bits (168), Expect = 4e-15
 Identities = 27/43 (62%), Positives = 31/43 (72%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           ECPICL+EF  G EV  LPC H FH EC+D+WLR +  CP CR
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 = 60.9 bits (148), Expect = 2e-12
 Identities = 24/47 (51%), Positives = 27/47 (57%), Gaps = 3/47 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSV 279
           ECPICLEEF     V  LPC H F   CID+WL+     CP CR  +
Sbjct: 1   ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 57.7 bits (139), Expect = 3e-09
 Identities = 22/49 (44%), Positives = 31/49 (63%), Gaps = 1/49 (2%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWL-RLNVKCPRCRCSVFP 281
           EC IC+  F   + +R LPC H FH+ C+D+WL   + KCP CR ++ P
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373

Length = 374

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

 Score = 51.0 bits (122), Expect = 7e-09
 Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           ECPICL+     + V   PC H F  ECI  +L+   KCP CR
Sbjct: 4   ECPICLDLL--RDPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 49.0 bits (117), Expect = 3e-08
 Identities = 20/42 (47%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRC 275
           CPICLEE+    +   LPC H F   CI +WL   N  CP C
Sbjct: 1   CPICLEEY--LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 46.3 bits (110), Expect = 2e-07
 Identities = 22/42 (52%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRC 275
           CPICLEE    + V  LPC H F  +CI  WL   NV CP C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 51.1 bits (122), Expect = 5e-07
 Identities = 39/166 (23%), Positives = 60/166 (36%), Gaps = 38/166 (22%)

Query: 235 CPICLEE-FHVGNEV---------RGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLD 284
           C IC++E FH  +E          + LPC H  H+ C+  WL     CP CR  V     
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV----- 344

Query: 285 LSALSNLRTADSERSSASSVVTTTRYVRTQPS---SQSYLVRMQGLLSPVHMGNTR---- 337
                     D    + +S       + TQ     +      + G+ +  + G+ +    
Sbjct: 345 --------IFDQSSPTPASPNVRNTQIATQVPNPDNTPTTTAVPGITNSSNQGDPQASTF 396

Query: 338 --LP--NDTDIALQTVENGGVLSATQNRIAMGPFSSTGRVLVSPST 379
             +P  N +  A  T +    LS+      M P   T R+  S ST
Sbjct: 397 NGVPNANSSGFAAHTQD----LSSVIPGWTMLPIPGTRRISQSTST 438

Length = 491

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

 Score = 48.2 bits (115), Expect = 2e-06
 Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 5/48 (10%)

Query: 234 ECPICLEEFH---VGNEVRG-LP-CAHNFHIECIDEWLRLNVKCPRCR 276
           EC IC+E+ +   + N   G L  C H F IECID W +    CP CR
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 18/52 (34%), Positives = 22/52 (42%), Gaps = 10/52 (19%)

Query: 235 CPICLEEFHV--------GNE--VRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           C IC   F          G++  V    C H FH+ CI  WL+    CP CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 40.4 bits (94), Expect = 0.002
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 10/54 (18%)

Query: 234  ECPICLEEFHVGNEVRGLP------CAHNFHIECIDEWLRL--NVKCPRCRCSV 279
            EC IC     + +  R LP      C + FH  C+ +W        CP CR  +
Sbjct: 1471 ECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 3/43 (6%)

Query: 235 CPICLEEFH-VGNEVRGLPCAHNFHIECIDEWLRLN--VKCPR 274
           CPI  E      N    LPC H +  + +++  +     KCP 
Sbjct: 13  CPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCPY 55

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

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

 Score = 36.0 bits (83), Expect = 0.004
 Identities = 18/45 (40%), Positives = 20/45 (44%), Gaps = 4/45 (8%)

Query: 235 CPICLEEFHVGNE---VRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           CP C      G+E   V G+ C H FH  CI  WL     CP  R
Sbjct: 34  CPECQFGMTPGDECPVVWGV-CNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	383
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	99.93
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.62
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.59
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.4
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.1
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.08
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.06
PHA02929	238	N1R/p28-like protein; Provisional	99.06
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.06
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.04
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.93
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.89
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.85
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.84
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.74
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.73
PF14634	44	zf-RING_5: zinc-RING finger domain	98.66
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.65
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.62
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.6
PHA02926	242	zinc finger-like protein; Provisional	98.57
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.53
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.5
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.5
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.43
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.31
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.18
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.18
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.16
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.11
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.99
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.93
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.93
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.81
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.77
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.64
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.63
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.62
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.57
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.47
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.44
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.08
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.07
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.0
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.84
COG5152	259	Uncharacterized conserved protein, contains RING a	96.84
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.81
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.75
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.74
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.71
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.7
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.52
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.52
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.42
KOG2660	331	consensus Locus-specific chromosome binding protei	96.34
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.32
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.3
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.93
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.85
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.68
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.57
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.48
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.16
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.13
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.09
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.05
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.0
KOG4739	233	consensus Uncharacterized protein involved in syna	94.93
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	94.86
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.81
PHA02862	156	5L protein; Provisional	94.78
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.42
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.18
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.07
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.68
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	93.59
PHA03096	284	p28-like protein; Provisional	93.52
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.93
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.84
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.58
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.3
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.12
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.05
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.8
PF04641	260	Rtf2: Rtf2 RING-finger	91.62
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.16
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	90.95
KOG1940	276	consensus Zn-finger protein [General function pred	90.56
KOG3002	299	consensus Zn finger protein [General function pred	90.22
COG5175	480	MOT2 Transcriptional repressor [Transcription]	89.97
KOG4367	699	consensus Predicted Zn-finger protein [Function un	88.66
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	86.85
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	86.15
KOG0298	1394	consensus DEAD box-containing helicase-like transc	85.56
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	85.42
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	83.6
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	83.18
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	82.57
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	82.43
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	80.96

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

Probab=99.93  E-value=5.4e-27  Score=213.78  Aligned_cols=201  Identities=21%  Similarity=0.391  Sum_probs=162.0

Q ss_pred             HHHHHHHHH--HhhhcccccccCCCc----eeeeehhhHHHHHHHHHHHhhhcccccccCCccchhhccccchhhHHHHH
Q 016747           16 LSMLATSVI--IVAINWKRYHLCTYP----LHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLS   89 (383)
Q Consensus        16 ~~~~~~~~~--~~~~~w~~~~~c~~p----~~~W~~v~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   89 (383)
                      ++++++.|+  +++++||+.|..+|.    ++||.++.|+++...                       +.||..-|++.+
T Consensus        57 ~I~~i~lvIaQi~lv~WKkrh~RSy~~~tll~m~~iPlyf~~~~~-----------------------w~rfl~~WlmF~  113 (328)
T KOG1734|consen   57 AIFSIYLVIAQIFLVVWKKRHKRSYDVCTLLIMLFIPLYFFLYMQ-----------------------WYRFLFCWLMFC  113 (328)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHhhhhhhhhHH-----------------------HHHHHHHHHHHH
Confidence            455666666  888999999999999    899999999888775                       667888888877


Q ss_pred             H-HHHhhhcceeeeEEEEEEEEeecCCCCCCCCCc----hhhhHH------HHHHHHHHHHHHHHHhhhhccccchhhhh
Q 016747           90 I-LSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQK----WGFLIW------LLFSYCGLLCIACMSMGKWLTRRQAHSIR  158 (383)
Q Consensus        90 ~-l~~~l~~f~~~w~i~G~~~~~~~~~~lp~~~~~----w~~~i~------li~~~~~ll~i~~~~~~~~~~rr~~~~~~  158 (383)
                      . ++++.+              +++++++..++||    ||+++|      +++||+++++..+.+...+...   ...-
T Consensus       114 ~~tafi~~--------------ka~rkp~~g~tpRlVYkwFl~lyklSy~~g~vGyl~im~~~~g~n~~F~~~---~~~~  176 (328)
T KOG1734|consen  114 GFTAFITL--------------KALRKPISGDTPRLVYKWFLFLYKLSYLLGVVGYLAIMFAQFGLNFTFFYL---KTTY  176 (328)
T ss_pred             HHHHHHHH--------------HHHhcccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhceeeEEeec---chhH
Confidence            5 666666              8999999999997    887777      3444444454445444444444   4444


Q ss_pred             hhcCCcccccccchhcccchhhHHHhhchhhhcCCccccccCCCCCCcHHHHHHHHHHHHhcCccccccCCCCCCccccc
Q 016747          159 AQQGIPVSEYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPIC  238 (383)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~~~~~~~~~~~C~IC  238 (383)
                      .+.|+.+.+||+          |++.+++|+.++++|.++...|.|.+           +.+|+...++     +.|+||
T Consensus       177 md~gi~~lfygl----------YyGvlgRdfa~icsd~mAs~iGfYs~-----------~glPtkhl~d-----~vCaVC  230 (328)
T KOG1734|consen  177 MDFGISFLFYGL----------YYGVLGRDFAEICSDYMASTIGFYSP-----------SGLPTKHLSD-----SVCAVC  230 (328)
T ss_pred             hhhhHHHHHHHH----------HHHhhhhHHHHHHHHHHHHHhcccCC-----------CCCCCCCCCc-----chhHhh
Confidence            558899999998          99999999999999999999999987           8889888765     899999


Q ss_pred             cccccCCC-------ceeeeCCCCccchhhHHHHH--hcCCCCcccCCCCCCC
Q 016747          239 LEEFHVGN-------EVRGLPCAHNFHIECIDEWL--RLNVKCPRCRCSVFPN  282 (383)
Q Consensus       239 ~~~~~~~~-------~~~~lpC~H~Fh~~Ci~~wl--~~~~~CP~CR~~v~~~  282 (383)
                      ...+....       +..+|.|+|+||+.||+.|-  .++++||.|++++..+
T Consensus       231 g~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  231 GQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             cchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            99886554       67889999999999999994  4889999999988544

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

Probab=99.62  E-value=2.8e-15  Score=144.81  Aligned_cols=74  Identities=32%  Similarity=0.822  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhcCccccccCCCCC--CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCC-CcccCCCCCCCC
Q 016747          210 REAVEALIQELPKFRLKAVPTDC--SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVK-CPRCRCSVFPNL  283 (383)
Q Consensus       210 ~~~~~~~~~~lp~~~~~~~~~~~--~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~-CP~CR~~v~~~~  283 (383)
                      ++..+++.+++|..++....+.+  ..|+||+|+|+.||..+.|||+|.||..||++||.++.+ ||+||+++....
T Consensus       205 ~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            34556677888888877655432  489999999999999999999999999999999997755 999999886553

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

Probab=99.59  E-value=7.6e-15  Score=139.94  Aligned_cols=70  Identities=31%  Similarity=0.732  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhcCccccccCCCCCCccccccccc-cCC---------CceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          210 REAVEALIQELPKFRLKAVPTDCSECPICLEEF-HVG---------NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       210 ~~~~~~~~~~lp~~~~~~~~~~~~~C~IC~~~~-~~~---------~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      +.+.+.+.+-+|....++...++..|.||++++ +.+         .+|++|||||.+|.+|++.|++++++||+||.++
T Consensus       265 ~r~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         265 RRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             HHHhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            556667778888888888888889999999994 433         2578999999999999999999999999999995

>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=99.40  E-value=8.5e-14  Score=96.01  Aligned_cols=44  Identities=61%  Similarity=1.323  Sum_probs=40.3

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR  276 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR  276 (383)
                      ++|+||++.+..++.+..++|||.||.+|+.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            47999999998888999999999999999999999999999997

...

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

Probab=99.10  E-value=1.4e-10  Score=105.46  Aligned_cols=60  Identities=23%  Similarity=0.513  Sum_probs=48.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh---cCCCCcccCCCCCCCCccccccccc
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR---LNVKCPRCRCSVFPNLDLSALSNLR  292 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~---~~~~CP~CR~~v~~~~~~~~~~~~~  292 (383)
                      ....+|.||++.-+   +++++.|||.||+.||.+|++   ..+.||+||..|..+...+......
T Consensus        45 ~~~FdCNICLd~ak---dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~  107 (230)
T KOG0823|consen   45 GGFFDCNICLDLAK---DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS  107 (230)
T ss_pred             CCceeeeeeccccC---CCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence            44579999999988   899999999999999999998   3345999999997776555554443

>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=99.08  E-value=9.1e-11  Score=89.82  Aligned_cols=45  Identities=40%  Similarity=0.916  Sum_probs=35.6

Q ss_pred             CCccccccccccCC----------CceeeeCCCCccchhhHHHHHhcCCCCcccC
Q 016747          232 CSECPICLEEFHVG----------NEVRGLPCAHNFHIECIDEWLRLNVKCPRCR  276 (383)
Q Consensus       232 ~~~C~IC~~~~~~~----------~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR  276 (383)
                      ++.|+||++.+...          -.+...+|||.||..||.+|++.+.+||+||
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            35699999999322          1234557999999999999999999999998

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

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

Probab=99.06  E-value=7.6e-11  Score=110.22  Aligned_cols=50  Identities=44%  Similarity=1.097  Sum_probs=45.9

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      +-+|+||++++..+|..+.+||.|.||..|+++|+. -+..||+||.+++|
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            368999999999899999999999999999999988 66789999999875

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.06  E-value=1.1e-10  Score=108.39  Aligned_cols=68  Identities=28%  Similarity=0.567  Sum_probs=49.4

Q ss_pred             HHHHHHhcCccccccC----CCCCCccccccccccCCCc-----eeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          213 VEALIQELPKFRLKAV----PTDCSECPICLEEFHVGNE-----VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       213 ~~~~~~~lp~~~~~~~----~~~~~~C~IC~~~~~~~~~-----~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .+++++.+|....+..    ..++.+|+||++.+..++.     ...++|+|.||..||.+|+..+.+||+||.++.
T Consensus       151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            4455666666643221    1335799999998764321     244579999999999999999999999998774

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.06  E-value=2.7e-10  Score=101.73  Aligned_cols=53  Identities=28%  Similarity=0.620  Sum_probs=43.5

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc----------------CCCCcccCCCCCCCCccc
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL----------------NVKCPRCRCSVFPNLDLS  286 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~----------------~~~CP~CR~~v~~~~~~~  286 (383)
                      ++.+|+||++.++   +++.++|||.||..||.+|+..                ...||+||.++....-.+
T Consensus        17 ~~~~CpICld~~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP   85 (193)
T PLN03208         17 GDFDCNICLDQVR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP   85 (193)
T ss_pred             CccCCccCCCcCC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence            3478999999988   7888999999999999999852                246999999996654333

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

Probab=99.04  E-value=9.7e-11  Score=109.40  Aligned_cols=53  Identities=34%  Similarity=0.805  Sum_probs=47.0

Q ss_pred             CCCCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCCC
Q 016747          228 VPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNL  283 (383)
Q Consensus       228 ~~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~~  283 (383)
                      ..+....|.+|++..+   .+..+||||+||..||.+|...+..||+||.++.+.+
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            3455578999999998   8999999999999999999999889999999987654

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

Probab=98.93  E-value=6.6e-10  Score=78.64  Aligned_cols=46  Identities=43%  Similarity=0.879  Sum_probs=40.4

Q ss_pred             CCccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      +..|.||++...   ....+||||. ||..|+.+|+.....||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            368999999987   7899999999 999999999999999999999874

...

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

Probab=98.89  E-value=1.3e-09  Score=113.87  Aligned_cols=64  Identities=36%  Similarity=0.849  Sum_probs=50.3

Q ss_pred             HhcCcccccc--CCCCCCccccccccccCCCc--eeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          218 QELPKFRLKA--VPTDCSECPICLEEFHVGNE--VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       218 ~~lp~~~~~~--~~~~~~~C~IC~~~~~~~~~--~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..++....+.  ....++.|+||+|.+..+.+  ++++||+|.||..|+++|+++.++||.||..+..
T Consensus       275 ~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  275 TGLPGATLEERGLALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             ccccccChHHhhhhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            3444444443  33446899999999995544  8999999999999999999999999999995543

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

Probab=98.85  E-value=2e-09  Score=73.29  Aligned_cols=38  Identities=39%  Similarity=1.100  Sum_probs=30.5

Q ss_pred             cccccccccCCCceeeeCCCCccchhhHHHHHhcC----CCCccc
Q 016747          235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN----VKCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~----~~CP~C  275 (383)
                      |+||++.+.   +|+.|+|||.||..||.+|++..    ..||.|
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   99999999999999999999843    359987

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

Probab=98.84  E-value=1.8e-09  Score=72.34  Aligned_cols=38  Identities=50%  Similarity=1.184  Sum_probs=33.0

Q ss_pred             cccccccccCCCce-eeeCCCCccchhhHHHHHhcCCCCccc
Q 016747          235 CPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~-~~lpC~H~Fh~~Ci~~wl~~~~~CP~C  275 (383)
                      |+||++.+.   ++ ..++|||.||.+|+.+|++.+..||.|
T Consensus         1 C~iC~~~~~---~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELR---DPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-S---SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCccc---CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999998   56 678999999999999999998899998

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

Probab=98.74  E-value=5e-09  Score=91.48  Aligned_cols=52  Identities=31%  Similarity=0.684  Sum_probs=42.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +....|+||++.+.. ..+..+.|||+||..||+.-++....||+||++|..+
T Consensus       129 ~~~~~CPiCl~~~se-k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSE-KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccCCCceecchhh-ccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            445789999999972 1234578999999999999999999999999987543

>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=98.73  E-value=8.9e-09  Score=69.99  Aligned_cols=44  Identities=55%  Similarity=1.213  Sum_probs=35.8

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSV  279 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v  279 (383)
                      +|+||++.+.  +.....+|||.||..|++.|+.. +..||.||..+
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            5999999984  23444459999999999999986 77799999753

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.66  E-value=1.8e-08  Score=69.37  Aligned_cols=44  Identities=34%  Similarity=0.764  Sum_probs=38.5

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC  277 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~  277 (383)
                      .|.||.+.+.....+..++|||.||..|+.........||+||+
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            49999999965667889999999999999998866678999984

>smart00504 Ubox Modified RING finger domain

Probab=98.65  E-value=2.2e-08  Score=73.97  Aligned_cols=46  Identities=24%  Similarity=0.400  Sum_probs=41.7

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||.+.+.   ++..++|||+|+..||.+|+..+.+||+|+.++..
T Consensus         2 ~~Cpi~~~~~~---~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMK---DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCC---CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            57999999998   78889999999999999999988899999988743

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

>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=98.62  E-value=2.1e-08  Score=67.74  Aligned_cols=38  Identities=53%  Similarity=1.274  Sum_probs=33.6

Q ss_pred             cccccccccCCCcee-eeCCCCccchhhHHHHHh--cCCCCccc
Q 016747          235 CPICLEEFHVGNEVR-GLPCAHNFHIECIDEWLR--LNVKCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~~-~lpC~H~Fh~~Ci~~wl~--~~~~CP~C  275 (383)
                      |+||++.+.   .+. .++|||.||..|+.+|++  ....||.|
T Consensus         1 C~iC~~~~~---~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFE---DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCS---SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCcccc---CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999998   555 889999999999999998  56679988

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 ....

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

Probab=98.60  E-value=3.1e-08  Score=76.91  Aligned_cols=48  Identities=38%  Similarity=0.825  Sum_probs=36.8

Q ss_pred             CCccccccccccC--------CCc-eeee-CCCCccchhhHHHHHhc---CCCCcccCCCC
Q 016747          232 CSECPICLEEFHV--------GNE-VRGL-PCAHNFHIECIDEWLRL---NVKCPRCRCSV  279 (383)
Q Consensus       232 ~~~C~IC~~~~~~--------~~~-~~~l-pC~H~Fh~~Ci~~wl~~---~~~CP~CR~~v  279 (383)
                      ++.|.||+..|..        ++. +..+ .|+|.||..||.+|+..   +..||+||++.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            4789999988862        222 3333 49999999999999984   46799999865

>PHA02926 zinc finger-like protein; Provisional

Probab=98.57  E-value=3.2e-08  Score=89.56  Aligned_cols=50  Identities=34%  Similarity=0.602  Sum_probs=36.7

Q ss_pred             CCCccccccccccCCC-----c-eeeeCCCCccchhhHHHHHhcC------CCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGN-----E-VRGLPCAHNFHIECIDEWLRLN------VKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~-----~-~~~lpC~H~Fh~~Ci~~wl~~~------~~CP~CR~~v~  280 (383)
                      .+.+|+||+|....+.     . ....+|+|.||..||+.|...+      .+||+||....
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            3479999999864221     1 2334699999999999998742      35999998663

>smart00184 RING Ring finger

Probab=98.53  E-value=6.2e-08  Score=63.48  Aligned_cols=38  Identities=53%  Similarity=1.230  Sum_probs=33.7

Q ss_pred             cccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCccc
Q 016747          235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~C  275 (383)
                      |+||++...   .+..++|||.||..|++.|+. .+..||.|
T Consensus         1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999855   888899999999999999998 66679987

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)

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

Probab=98.50  E-value=5.4e-08  Score=90.12  Aligned_cols=52  Identities=33%  Similarity=0.744  Sum_probs=44.6

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHH-HHhcCCC-CcccCCCCCCCCc
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDE-WLRLNVK-CPRCRCSVFPNLD  284 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~-wl~~~~~-CP~CR~~v~~~~~  284 (383)
                      ..+..|+||++...   .+..++|||+||..||-. |-.++.. ||+||+++.+++.
T Consensus       213 ~~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            34589999999998   899999999999999999 8665555 9999999977643

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.50  E-value=6.4e-08  Score=96.28  Aligned_cols=48  Identities=31%  Similarity=0.576  Sum_probs=42.8

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ....|+||.+.+.   .++.++|||.||..|+..|+.....||.||..+..
T Consensus        25 ~~l~C~IC~d~~~---~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        25 TSLRCHICKDFFD---VPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccCCCcCchhhh---CccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            3479999999998   77889999999999999999987889999997743

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

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

Probab=98.43  E-value=7.6e-07  Score=88.60  Aligned_cols=52  Identities=31%  Similarity=0.892  Sum_probs=40.1

Q ss_pred             CCCCccccccccccCCC--------------ceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGN--------------EVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~--------------~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      +....|+||+.+...-.              ....+||.|+||..|+..|+. .+-.||.||+++++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            34478999999864211              123469999999999999999 55589999998864

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

Probab=98.31  E-value=3.6e-07  Score=62.34  Aligned_cols=34  Identities=38%  Similarity=0.856  Sum_probs=21.7

Q ss_pred             cccccccccC-CCceeeeCCCCccchhhHHHHHhcC
Q 016747          235 CPICLEEFHV-GNEVRGLPCAHNFHIECIDEWLRLN  269 (383)
Q Consensus       235 C~IC~~~~~~-~~~~~~lpC~H~Fh~~Ci~~wl~~~  269 (383)
                      |+||.| +.. ...++.|+|||+||.+|+++++..+
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 653 3457899999999999999998843

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

Probab=98.22  E-value=6.2e-07  Score=90.11  Aligned_cols=48  Identities=31%  Similarity=0.638  Sum_probs=40.3

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhc-----CCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-----NVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-----~~~CP~CR~~v~~~  282 (383)
                      +..|+||++...   .+..+.|||+||..||-+.+..     ...||+||..|.+.
T Consensus       186 ~~~CPICL~~~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            478999999988   6777779999999999998763     34599999998764

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

Probab=98.18  E-value=1.1e-06  Score=67.19  Aligned_cols=47  Identities=26%  Similarity=0.375  Sum_probs=38.6

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      ...|+||.+.|.   +|+.+||||.|...||..|+.. +.+||.|+.++..
T Consensus         4 ~f~CpIt~~lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    4 EFLCPITGELMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGB-TTTSSB-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             ccCCcCcCcHhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            478999999999   9999999999999999999997 8889999988754

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

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

Probab=98.18  E-value=5.2e-07  Score=85.98  Aligned_cols=46  Identities=35%  Similarity=0.763  Sum_probs=42.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|-||.+.|.   .+..+||+|.||..||+..|..+..||.|+..+..
T Consensus        24 LRC~IC~eyf~---ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   24 LRCGICFEYFN---IPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHhHHHHHhc---CceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence            68999999999   89999999999999999999999999999987743

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

Probab=98.16  E-value=1.5e-06  Score=65.91  Aligned_cols=47  Identities=34%  Similarity=0.665  Sum_probs=34.5

Q ss_pred             ccccccccccCCCceee-e-CCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          234 ECPICLEEFHVGNEVRG-L-PCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~-l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .|+-|...+.++++... . -|+|.||..||.+||..+..||++|++..
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            34444444444554433 3 39999999999999999999999998763

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

Probab=98.14  E-value=1.2e-06  Score=84.57  Aligned_cols=50  Identities=32%  Similarity=0.592  Sum_probs=43.5

Q ss_pred             CCCccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFPNL  283 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~~~  283 (383)
                      ...+|.||+.+.+   +...|||.|. .|..|-+..-.+++.||+||+++....
T Consensus       289 ~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll  339 (349)
T KOG4265|consen  289 SGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELL  339 (349)
T ss_pred             CCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhh
Confidence            3579999999998   8899999997 999999987768889999999986543

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

Probab=98.11  E-value=1.3e-06  Score=81.81  Aligned_cols=44  Identities=30%  Similarity=0.536  Sum_probs=41.2

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ..|-||-+.+.   .+..++|||.||..||+..|..+..||+||.+.
T Consensus        26 lrC~IC~~~i~---ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          26 LRCRICDCRIS---IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             HHhhhhhheee---cceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            58999999999   888899999999999999999999999999865

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.99  E-value=4.7e-06  Score=80.01  Aligned_cols=51  Identities=22%  Similarity=0.423  Sum_probs=36.6

Q ss_pred             CCccccccccccCCCce--eeeCCCCccchhhHHHHHh-cCCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEV--RGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~--~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~  282 (383)
                      +..|++|..+-......  ..-+|||.||.+|+...+. ....||.|+..+..+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            36899999963322222  2227999999999999765 455799999877554

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

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

Probab=97.93  E-value=7.9e-06  Score=57.46  Aligned_cols=42  Identities=29%  Similarity=0.725  Sum_probs=33.4

Q ss_pred             ccccccccccCCCceeeeCCC-----CccchhhHHHHHhc--CCCCcccC
Q 016747          234 ECPICLEEFHVGNEVRGLPCA-----HNFHIECIDEWLRL--NVKCPRCR  276 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~-----H~Fh~~Ci~~wl~~--~~~CP~CR  276 (383)
                      .|.||++ ...++++...||.     |.+|..|+.+|+..  +.+||+|+
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 4445567788985     78999999999973  45799995

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

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

Probab=97.93  E-value=1.9e-06  Score=64.83  Aligned_cols=47  Identities=36%  Similarity=0.764  Sum_probs=35.0

Q ss_pred             CccccccccccC--------C-CceeeeC-CCCccchhhHHHHHh---cCCCCcccCCCC
Q 016747          233 SECPICLEEFHV--------G-NEVRGLP-CAHNFHIECIDEWLR---LNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~--------~-~~~~~lp-C~H~Fh~~Ci~~wl~---~~~~CP~CR~~v  279 (383)
                      ..|-||+-.|..        + +-|..+- |.|.||..||.+|+.   .+..||+||+..
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            478888888742        2 2344443 999999999999998   334599999864

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

Probab=97.91  E-value=5.1e-06  Score=78.40  Aligned_cols=48  Identities=27%  Similarity=0.526  Sum_probs=41.4

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPNL  283 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~~  283 (383)
                      .+|+||+....   .+..|+|+|.||..||+.-.. ...+|++||.+|....
T Consensus         8 ~eC~IC~nt~n---~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    8 KECLICYNTGN---CPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CcceeeeccCC---cCccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            68999999887   788999999999999998766 4556999999997653

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

Probab=97.91  E-value=2.3e-06  Score=60.18  Aligned_cols=45  Identities=29%  Similarity=0.565  Sum_probs=36.1

Q ss_pred             CccccccccccCCCceeeeCCCCc-cchhhHHHHHh-cCCCCcccCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLR-LNVKCPRCRCSVF  280 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~-~~~~CP~CR~~v~  280 (383)
                      ++|.||+|...   +.+..-|||. .|..|-.+.++ .+..||+||+++.
T Consensus         8 dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            79999998876   5555679997 99999665555 7778999999874

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

Probab=97.87  E-value=4.7e-06  Score=79.15  Aligned_cols=44  Identities=43%  Similarity=0.868  Sum_probs=38.5

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC  277 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~  277 (383)
                      +...|+||++.+.   .++.+||+|.||..|+..++.....||.||.
T Consensus        12 ~~~~C~iC~~~~~---~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEYFR---EPVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHHhh---cCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            4479999999999   6688999999999999999885556999993

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

Probab=97.81  E-value=4.8e-06  Score=63.13  Aligned_cols=48  Identities=29%  Similarity=0.724  Sum_probs=22.6

Q ss_pred             Ccccccccccc-CCCceeee----CCCCccchhhHHHHHhc---CC--------CCcccCCCCC
Q 016747          233 SECPICLEEFH-VGNEVRGL----PCAHNFHIECIDEWLRL---NV--------KCPRCRCSVF  280 (383)
Q Consensus       233 ~~C~IC~~~~~-~~~~~~~l----pC~H~Fh~~Ci~~wl~~---~~--------~CP~CR~~v~  280 (383)
                      .+|.||++... .++.+...    .|++.||..||.+|+..   .+        +||.|+++|.
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            68999999875 33333222    48999999999999872   11        3999998773

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

Probab=97.77  E-value=5.6e-06  Score=87.88  Aligned_cols=51  Identities=27%  Similarity=0.785  Sum_probs=38.2

Q ss_pred             CCCCccccccccccCCCc--e--eeeCCCCccchhhHHHHHh--cCCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNE--V--RGLPCAHNFHIECIDEWLR--LNVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~--~--~~lpC~H~Fh~~Ci~~wl~--~~~~CP~CR~~v~  280 (383)
                      ++..+|+||+..+..-+.  |  +.-.|.|.||..|+.+|++  .+.+||+||..+.
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            456799999998762221  1  1223899999999999998  5667999997663

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

Probab=97.77  E-value=3.4e-06  Score=81.18  Aligned_cols=51  Identities=35%  Similarity=0.705  Sum_probs=41.6

Q ss_pred             CCccccccccccCCCceeeeC-CCCccchhhHHHHHh-cCCCCcccCCCCCCCCcc
Q 016747          232 CSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLR-LNVKCPRCRCSVFPNLDL  285 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~~~~  285 (383)
                      +..|+||++.++   ..+..+ |.|.||.+||..-+. .++.||.||+++...+.+
T Consensus        43 ~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL   95 (381)
T KOG0311|consen   43 QVICPICLSLLK---KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL   95 (381)
T ss_pred             hhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence            368999999998   555555 999999999988887 667899999988655444

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

Probab=97.64  E-value=0.00012  Score=71.62  Aligned_cols=45  Identities=33%  Similarity=0.829  Sum_probs=38.5

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHh--cCCCCcccCCCCCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR--LNVKCPRCRCSVFP  281 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~--~~~~CP~CR~~v~~  281 (383)
                      -|-||-|.-+   .++.=||||..|..|+..|-.  ..++||.||..|..
T Consensus       371 LCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCC---CcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            5999988766   777789999999999999975  46889999998743

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

Probab=97.63  E-value=1.6e-05  Score=58.35  Aligned_cols=43  Identities=30%  Similarity=0.783  Sum_probs=23.5

Q ss_pred             CccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ..|++|.+.++   +++.+ .|.|+||..|+..-+.  ..||+|+.+.-
T Consensus         8 LrCs~C~~~l~---~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw   51 (65)
T PF14835_consen    8 LRCSICFDILK---EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW   51 (65)
T ss_dssp             TS-SSS-S--S---S-B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred             cCCcHHHHHhc---CCceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence            67999999998   77654 5999999999988655  35999987663

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

Probab=97.62  E-value=2.1e-05  Score=76.53  Aligned_cols=47  Identities=32%  Similarity=0.874  Sum_probs=35.1

Q ss_pred             CccccccccccCCCceeeeC-CCCccchhhHHHHHh---cCCCCcccCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLR---LNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~---~~~~CP~CR~~v  279 (383)
                      ..|.||.+-+....+..-+. |||+||..|+..|++   .+.+||+||-++
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            58999955554444444455 999999999999998   235799999433

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

Probab=97.57  E-value=3.5e-05  Score=61.41  Aligned_cols=49  Identities=29%  Similarity=0.667  Sum_probs=35.9

Q ss_pred             CCCcccccccccc------------CCCce-eee-CCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          231 DCSECPICLEEFH------------VGNEV-RGL-PCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       231 ~~~~C~IC~~~~~------------~~~~~-~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ..+.|+||+.-+-            ..++. +.. .|+|.||..||.+||+.++.||+|.++-
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            3467888876541            11222 222 4999999999999999999999997654

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

Probab=97.47  E-value=3.5e-05  Score=81.15  Aligned_cols=48  Identities=25%  Similarity=0.612  Sum_probs=41.5

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPNL  283 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~~  283 (383)
                      ..|++|-...+   ......|+|.||..|+.+-+. ++..||.|.+.+.++.
T Consensus       644 LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  644 LKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             eeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            57999998877   677778999999999999988 7788999999887654

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

Probab=97.44  E-value=4.6e-05  Score=75.55  Aligned_cols=47  Identities=32%  Similarity=0.890  Sum_probs=37.0

Q ss_pred             CCccccccccccCCC-ceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGN-EVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~-~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      -.+|+||+|.+.... -.....|.|.||..|+..|..  .+||+||.-..
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            358999999997432 235566999999999999965  58999997554

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

Probab=97.33  E-value=0.00012  Score=73.11  Aligned_cols=49  Identities=31%  Similarity=0.685  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..+.+|.||...+.   .+..+||||.||..||.+-+.+...||.||..+..
T Consensus        82 ~sef~c~vc~~~l~---~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALY---PPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcC---CCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            34589999999998   88899999999999999988888889999998864

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

Probab=97.08  E-value=0.00036  Score=68.60  Aligned_cols=49  Identities=33%  Similarity=0.917  Sum_probs=37.4

Q ss_pred             CCCccccccccccCCCc--eeeeCCCCccchhhHHHHHhcC--CCCcccCCCC
Q 016747          231 DCSECPICLEEFHVGNE--VRGLPCAHNFHIECIDEWLRLN--VKCPRCRCSV  279 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~--~~~lpC~H~Fh~~Ci~~wl~~~--~~CP~CR~~v  279 (383)
                      ....|+||++.+....+  ...+.|||.|...||++|+.+.  ..||.|..+-
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            34789999999875432  3445699999999999999732  2499998754

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

Probab=97.07  E-value=0.00027  Score=69.34  Aligned_cols=49  Identities=37%  Similarity=0.872  Sum_probs=36.4

Q ss_pred             CCCccccccccccCCC--c--eeeeC-CCCccchhhHHHHHh--c-----CCCCcccCCCC
Q 016747          231 DCSECPICLEEFHVGN--E--VRGLP-CAHNFHIECIDEWLR--L-----NVKCPRCRCSV  279 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~--~--~~~lp-C~H~Fh~~Ci~~wl~--~-----~~~CP~CR~~v  279 (383)
                      .+.+|.||++......  .  -..+| |.|.||..||+.|-.  +     .+.||.||...
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            3579999999876322  0  11234 999999999999974  3     46799999765

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

Probab=97.00  E-value=0.00014  Score=76.26  Aligned_cols=47  Identities=32%  Similarity=0.605  Sum_probs=38.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ..|++|+..+.........+|+|.||..|+..|-+-.++||+||..+
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            46788887776554555667999999999999999999999999865

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

Probab=96.84  E-value=0.00011  Score=71.21  Aligned_cols=43  Identities=28%  Similarity=0.550  Sum_probs=32.3

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ..-|.||+++..   +...+||||.-|  |..-- +...+||+||+.+.
T Consensus       305 p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  305 PDLCVVCLDEPK---SAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCceEEecCCcc---ceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            468999999998   788999999855  44332 23345999998774

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

Probab=96.84  E-value=0.00052  Score=61.22  Aligned_cols=44  Identities=20%  Similarity=0.433  Sum_probs=39.6

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ..|-||-++|+   .++...|||.||..|.-.-.+....|-+|-+..
T Consensus       197 F~C~iCKkdy~---spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYE---SPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             eeehhchhhcc---chhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            58999999999   899999999999999888888888999997644

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

Probab=96.81  E-value=0.00049  Score=67.25  Aligned_cols=46  Identities=37%  Similarity=0.854  Sum_probs=37.4

Q ss_pred             CCccccccccccCC-CceeeeCCCCccchhhHHHHHhcC--CCCcccCC
Q 016747          232 CSECPICLEEFHVG-NEVRGLPCAHNFHIECIDEWLRLN--VKCPRCRC  277 (383)
Q Consensus       232 ~~~C~IC~~~~~~~-~~~~~lpC~H~Fh~~Ci~~wl~~~--~~CP~CR~  277 (383)
                      +..|..|.+.+-.. +....|||.|+||..|+...|.++  .+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            46799999988644 345668999999999999999854  46999994

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

Probab=96.75  E-value=0.00087  Score=67.52  Aligned_cols=51  Identities=29%  Similarity=0.622  Sum_probs=43.3

Q ss_pred             CCCCccccccccccCCCceee-eCCCCccchhhHHHHHhcCCCCcccCCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRG-LPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNL  283 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~-lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~~  283 (383)
                      ..+..|++|...+.   .+.. ..|||.||..|+..|+..+..||.|+..+....
T Consensus        19 ~~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   19 DENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             cccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            44579999999998   6666 589999999999999999999999998775443

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

Probab=96.74  E-value=0.0013  Score=61.70  Aligned_cols=49  Identities=31%  Similarity=0.568  Sum_probs=39.1

Q ss_pred             CCCCccccccccccCCCceeee-CCCCccchhhHHHHHh--cCCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLR--LNVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~--~~~~CP~CR~~v~~  281 (383)
                      +.+.+|++|.+...   .|... +|||+||..|+..-..  ...+||.|-+++.+
T Consensus       237 t~~~~C~~Cg~~Pt---iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  237 TSDTECPVCGEPPT---IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             cCCceeeccCCCCC---CCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            45679999999887   55554 5999999999998765  44689999887753

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

Probab=96.71  E-value=0.00051  Score=64.96  Aligned_cols=50  Identities=28%  Similarity=0.658  Sum_probs=41.1

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-----------------------CCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-----------------------NVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-----------------------~~~CP~CR~~v~  280 (383)
                      ....|.||+--|..++...+++|-|.||..|+...|..                       ...||+||..|.
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            34689999999998888899999999999999876531                       123999999773

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

Probab=96.70  E-value=0.0013  Score=63.50  Aligned_cols=72  Identities=24%  Similarity=0.467  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHhcCcccccc----CC-CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          207 AAQREAVEALIQELPKFRLKA----VP-TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       207 ~~~~~~~~~~~~~lp~~~~~~----~~-~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ......++.++..+|..+...    .+ .+++.|+||.....   ..+..||+|.-|..||.+-+...+.|=.|+..+..
T Consensus       392 ~~e~~~V~r~~~~l~~~~~~~~~~~lp~sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  392 NFESHLVNRASSQLPERKEESFNKDLPDSEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             HHHHHHHHHHHhhcchhhHHhhcCCCCCcccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            344445666777777665432    22 45689999987765   67788999999999999999999999999987753

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

Probab=96.52  E-value=0.006  Score=55.61  Aligned_cols=52  Identities=31%  Similarity=0.793  Sum_probs=41.9

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhc--------CCCCcccCCCCCCCCcc
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL--------NVKCPRCRCSVFPNLDL  285 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~--------~~~CP~CR~~v~~~~~~  285 (383)
                      ..|..|-..+..+|.. .|-|-|.||.+|+..|-..        ...||.|..+|+++.++
T Consensus        51 pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl  110 (299)
T KOG3970|consen   51 PNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL  110 (299)
T ss_pred             CCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence            4699999998877665 4779999999999999652        23499999999887544

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

Probab=96.52  E-value=0.0011  Score=62.68  Aligned_cols=46  Identities=24%  Similarity=0.350  Sum_probs=41.1

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ...|-||.+.|.   .++...|+|.||..|-..=+++...|++|-+...
T Consensus       241 Pf~c~icr~~f~---~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFY---RPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Cccccccccccc---cchhhcCCceeehhhhccccccCCcceecccccc
Confidence            357999999999   8999999999999998888888889999987663

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

Probab=96.42  E-value=0.00082  Score=63.40  Aligned_cols=42  Identities=26%  Similarity=0.588  Sum_probs=35.1

Q ss_pred             CCccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ..-|+||++...   +...|+|||. -|.+|-+..    +.||+||+.|.
T Consensus       300 ~~LC~ICmDaP~---DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPR---DCVFLECGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCc---ceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence            568999999888   8999999995 899996553    36999998764

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

Probab=96.34  E-value=0.00071  Score=65.03  Aligned_cols=46  Identities=24%  Similarity=0.563  Sum_probs=39.1

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ..+|.+|...+.  |......|-|.||++||...+.....||.|...|
T Consensus        15 ~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   15 HITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             ceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            368999999998  2334456999999999999999999999998866

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

Probab=96.32  E-value=0.0023  Score=46.41  Aligned_cols=40  Identities=30%  Similarity=0.684  Sum_probs=27.6

Q ss_pred             CCccccccccccCCCceeee-CCCCccchhhHHHHHh--cCCCCcc
Q 016747          232 CSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLR--LNVKCPR  274 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~--~~~~CP~  274 (383)
                      ...|+|.+..++   +|+.- .|||.|-++.|.+++.  ....||.
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            378999999999   66654 6999999999999994  3445998

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

Probab=96.30  E-value=0.0017  Score=65.71  Aligned_cols=50  Identities=28%  Similarity=0.630  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh-----cCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-----LNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-----~~~~CP~CR~~v~~~  282 (383)
                      .+..+|-+|.+.-+   +.....|.|.||..|+..++.     .+-+||.|...+...
T Consensus       534 k~~~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  534 KGEVECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cCceeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            44568999998877   777888999999999999876     456799998766443

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

Probab=95.93  E-value=0.0064  Score=58.75  Aligned_cols=51  Identities=24%  Similarity=0.550  Sum_probs=40.6

Q ss_pred             ccCCCCCCccccccccccCCCceeeeCCCCccchhhHHHH--HhcCCCCcccCCCC
Q 016747          226 KAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEW--LRLNVKCPRCRCSV  279 (383)
Q Consensus       226 ~~~~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~w--l~~~~~CP~CR~~v  279 (383)
                      ++.+++...|.||-+...   ....+||+|..|.-|--..  |..++.||+||..-
T Consensus        55 ddtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          55 DDTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            334455668999999887   7888999999999996554  55788999999744

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

Probab=95.85  E-value=0.0052  Score=68.50  Aligned_cols=50  Identities=28%  Similarity=0.633  Sum_probs=39.3

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcC----------CCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN----------VKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~----------~~CP~CR~~v~  280 (383)
                      .++.|.||..+--.......|.|+|+||..|.+..|+++          -.||+|+.+|.
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            457899998876555567889999999999998876632          24999999884

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

Probab=95.68  E-value=0.0099  Score=58.84  Aligned_cols=45  Identities=33%  Similarity=0.827  Sum_probs=36.5

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhc--------CCCCcccCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL--------NVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~--------~~~CP~CR~  277 (383)
                      ..|.||.+...-....+.+||+|+||..|++.....        .-.||-|+.
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            689999999875577889999999999999999761        224877765

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

Probab=95.57  E-value=0.008  Score=41.82  Aligned_cols=43  Identities=30%  Similarity=0.696  Sum_probs=21.8

Q ss_pred             cccccccccCCCceeeeC--CCCccchhhHHHHHh-cCCCCcccCCC
Q 016747          235 CPICLEEFHVGNEVRGLP--CAHNFHIECIDEWLR-LNVKCPRCRCS  278 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lp--C~H~Fh~~Ci~~wl~-~~~~CP~CR~~  278 (383)
                      |++|.+++...+ ....|  ||+..|..|...-++ ....||-||++
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            789999984332 23344  899999999988886 56779999975

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

Probab=95.48  E-value=0.0094  Score=56.53  Aligned_cols=42  Identities=36%  Similarity=0.790  Sum_probs=36.0

Q ss_pred             CccccccccccCCCceeeeC-CCCccchhhHHHHHh-cCCCCcccCC
Q 016747          233 SECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLR-LNVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~-~~~~CP~CR~  277 (383)
                      ..|+.|...+.   .+.++| |+|.||.+||..-|. ....||.|..
T Consensus       275 LkCplc~~Llr---np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLR---NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhh---CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            68999999988   777777 899999999997765 5667999976

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.16  E-value=0.022  Score=49.52  Aligned_cols=48  Identities=27%  Similarity=0.540  Sum_probs=35.0

Q ss_pred             CCCCCccccccccccCCCceeeeCCCC-----ccchhhHHHHHh--cCCCCcccCCCCC
Q 016747          229 PTDCSECPICLEEFHVGNEVRGLPCAH-----NFHIECIDEWLR--LNVKCPRCRCSVF  280 (383)
Q Consensus       229 ~~~~~~C~IC~~~~~~~~~~~~lpC~H-----~Fh~~Ci~~wl~--~~~~CP~CR~~v~  280 (383)
                      ...+..|-||.+...  +.  .-||..     .-|.+|++.|+.  +...|++|+.+..
T Consensus         5 s~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          5 SLMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            345578999998854  22  247654     469999999998  4456999998764

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

Probab=95.13  E-value=0.018  Score=39.97  Aligned_cols=40  Identities=38%  Similarity=0.811  Sum_probs=26.6

Q ss_pred             cccccccccCCCceeeeCCCC-----ccchhhHHHHHh--cCCCCccc
Q 016747          235 CPICLEEFHVGNEVRGLPCAH-----NFHIECIDEWLR--LNVKCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lpC~H-----~Fh~~Ci~~wl~--~~~~CP~C  275 (383)
                      |-||++.-..++ +...||+-     ..|.+|+..|+.  .+.+|++|
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            678998876444 56678743     589999999998  55669887

>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=95.09  E-value=0.0086  Score=50.72  Aligned_cols=44  Identities=25%  Similarity=0.497  Sum_probs=33.1

Q ss_pred             CccccccccccCCCceeeeCCC------CccchhhHHHHHhcCCCCcccC
Q 016747          233 SECPICLEEFHVGNEVRGLPCA------HNFHIECIDEWLRLNVKCPRCR  276 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~------H~Fh~~Ci~~wl~~~~~CP~CR  276 (383)
                      -+|.||++.+...+-++.++||      |.||.+|+++|-..++.=|.=|
T Consensus        27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR   76 (134)
T PF05883_consen   27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR   76 (134)
T ss_pred             eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence            5899999999875567777886      7899999999954433334433

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.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.05  E-value=0.014  Score=41.60  Aligned_cols=45  Identities=22%  Similarity=0.332  Sum_probs=33.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ..|..|...-.   ....+||||..|..|...+  +-+.||+|-.++...
T Consensus         8 ~~~~~~~~~~~---~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFVGT---KGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccccc---ccccccccceeeccccChh--hccCCCCCCCcccCC
Confidence            45666765544   6678999999999997664  556799999888543

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

Probab=95.00  E-value=0.017  Score=46.89  Aligned_cols=32  Identities=25%  Similarity=0.703  Sum_probs=26.3

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHH
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECID  263 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~  263 (383)
                      ++..|++|...+.. ......||||.||..|++
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            34689999999874 456678999999999975

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 [].

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

Probab=94.93  E-value=0.01  Score=55.06  Aligned_cols=44  Identities=23%  Similarity=0.445  Sum_probs=32.6

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .|.-|..--. ++.-..+.|+|+||..|...-.  ...||+||..+.
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIR   48 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceee
Confidence            4777765554 5666778899999999976532  237999999874

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

Probab=94.86  E-value=0.0094  Score=51.67  Aligned_cols=30  Identities=40%  Similarity=0.898  Sum_probs=26.9

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccch
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHI  259 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~  259 (383)
                      .+..+|.||+|++..++.+..|||-.++|+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            344699999999999999999999999986

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

Probab=94.81  E-value=0.019  Score=61.53  Aligned_cols=65  Identities=26%  Similarity=0.590  Sum_probs=43.2

Q ss_pred             HHHHHHHHHhcCccccccCCCCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          210 REAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       210 ~~~~~~~~~~lp~~~~~~~~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      ++..++..+.+...+..+..-....|..|...+..  ..+.-.|||.||..|+.   .+...||.|+...
T Consensus       818 k~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  818 KKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             HHHHHHHHHHHHHhhcccceeeeeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            33444444444444444433344689999988872  33455699999999998   4556799998744

>PHA02862 5L protein; Provisional

Probab=94.78  E-value=0.021  Score=48.80  Aligned_cols=45  Identities=22%  Similarity=0.555  Sum_probs=34.0

Q ss_pred             CccccccccccCCCceeeeCCCC-----ccchhhHHHHHh--cCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAH-----NFHIECIDEWLR--LNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H-----~Fh~~Ci~~wl~--~~~~CP~CR~~v~~  281 (383)
                      +.|=||.+.-.  +.  .-||+.     .-|.+|+.+|+.  ++..|++|+.+..-
T Consensus         3 diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            57999998854  22  367754     489999999998  45569999987643

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

Probab=94.42  E-value=0.024  Score=54.88  Aligned_cols=47  Identities=32%  Similarity=0.711  Sum_probs=38.9

Q ss_pred             CccccccccccCCC---ceeeeCCCCccchhhHHHHHhc-CCCCcccCCCC
Q 016747          233 SECPICLEEFHVGN---EVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~---~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v  279 (383)
                      .+|-||-++|..++   .|+.|.|||.+|..|+.+.+.. ...||.||...
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            57999999998663   4778889999999999888763 34599999985

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

Probab=94.18  E-value=0.031  Score=53.83  Aligned_cols=48  Identities=25%  Similarity=0.487  Sum_probs=38.7

Q ss_pred             CCCCCccccccccccCCCceeeeC-CCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          229 PTDCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       229 ~~~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      +.+...|++|+..-.   ++..+. -|-+||..|+-+.+..+..||+=-.+.
T Consensus       297 ~~~~~~CpvClk~r~---Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQ---NPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHhccC---CCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345579999998877   555555 599999999999999999999865444

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

Probab=94.07  E-value=0.14  Score=50.65  Aligned_cols=75  Identities=17%  Similarity=0.430  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHhcCccccccCCCCCCccccccccccCCCc-----------------eeeeC--CCCccchhhHHHHHh
Q 016747          207 AAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNE-----------------VRGLP--CAHNFHIECIDEWLR  267 (383)
Q Consensus       207 ~~~~~~~~~~~~~lp~~~~~~~~~~~~~C~IC~~~~~~~~~-----------------~~~lp--C~H~Fh~~Ci~~wl~  267 (383)
                      ..-.++-++.+++-|.....+..++.+.|--|+..-..-+-                 +...+  |....|.+|+.+|+.
T Consensus       246 drF~e~F~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFa  325 (358)
T PF10272_consen  246 DRFVEAFKEQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFA  325 (358)
T ss_pred             HHHHHHHHHHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhh
Confidence            44455666666777777766555666788889876531000                 01112  345678999999986


Q ss_pred             cC-------------CCCcccCCCCCC
Q 016747          268 LN-------------VKCPRCRCSVFP  281 (383)
Q Consensus       268 ~~-------------~~CP~CR~~v~~  281 (383)
                      .+             -+||.||+++..
T Consensus       326 srQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  326 SRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             hcCCCCChhhhhcCCCCCCCCccccee
Confidence            32             259999998743

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

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.68  E-value=0.064  Score=49.77  Aligned_cols=51  Identities=18%  Similarity=0.326  Sum_probs=42.9

Q ss_pred             CCccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ...|++|.+.+.+...+..| ||||+|+.+|..+.+.....||+|-.++...
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            35799999999876666665 5999999999999999888999998877543

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

Probab=93.59  E-value=0.057  Score=57.97  Aligned_cols=48  Identities=35%  Similarity=0.820  Sum_probs=34.9

Q ss_pred             CCCCccccccccccCCCcee-eeCCCCccchhhHHHHHhcCC-------CCcccCC
Q 016747          230 TDCSECPICLEEFHVGNEVR-GLPCAHNFHIECIDEWLRLNV-------KCPRCRC  277 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~-~lpC~H~Fh~~Ci~~wl~~~~-------~CP~CR~  277 (383)
                      .+..+|.||.+.+...+.+- --.|-|+||..||++|-....       .||.|+.
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            44579999999987544331 123889999999999976311       3999983

>PHA03096 p28-like protein; Provisional

Probab=93.52  E-value=0.036  Score=53.36  Aligned_cols=45  Identities=31%  Similarity=0.550  Sum_probs=31.4

Q ss_pred             CccccccccccCCC----ceeeeC-CCCccchhhHHHHHh---cCCCCcccCC
Q 016747          233 SECPICLEEFHVGN----EVRGLP-CAHNFHIECIDEWLR---LNVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~~----~~~~lp-C~H~Fh~~Ci~~wl~---~~~~CP~CR~  277 (383)
                      ..|.||++......    .-..|+ |.|.||..|++.|-.   ...+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            57999999876321    112355 999999999999976   2334666654

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

Probab=92.93  E-value=0.05  Score=50.00  Aligned_cols=39  Identities=33%  Similarity=0.544  Sum_probs=31.3

Q ss_pred             cccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCC
Q 016747          235 CPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      |-.|.+.-.   .+..+||.|. +|..|-.+    -..||+|+....
T Consensus       161 Cr~C~~~~~---~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGEREA---TVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcCCc---eEEeecccceEeccccccc----CccCCCCcChhh
Confidence            889988766   7889999996 99999755    346999987653

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

Probab=92.84  E-value=0.058  Score=47.59  Aligned_cols=49  Identities=29%  Similarity=0.716  Sum_probs=33.2

Q ss_pred             CccccccccccCCC----ceeeeCCCCccchhhHHHHHhc----CC-------CCcccCCCCCC
Q 016747          233 SECPICLEEFHVGN----EVRGLPCAHNFHIECIDEWLRL----NV-------KCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~----~~~~lpC~H~Fh~~Ci~~wl~~----~~-------~CP~CR~~v~~  281 (383)
                      ..|-||+..--.|.    .+-...||..||.-|+..||+.    ++       .||.|..++..
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            35777765543332    2233569999999999999972    11       39999888743

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

Probab=92.58  E-value=0.12  Score=44.96  Aligned_cols=33  Identities=33%  Similarity=0.749  Sum_probs=23.3

Q ss_pred             CCccccccccccCCCceeeeCC------------CCc-cchhhHHHHHh
Q 016747          232 CSECPICLEEFHVGNEVRGLPC------------AHN-FHIECIDEWLR  267 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC------------~H~-Fh~~Ci~~wl~  267 (383)
                      +..|+||+|...   +.+.|-|            +.. -|..|+++.-+
T Consensus         2 d~~CpICme~PH---NAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPH---NAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCC---ceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            468999999987   5555544            332 57889998754

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.

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

Probab=92.30  E-value=0.05  Score=58.45  Aligned_cols=45  Identities=29%  Similarity=0.708  Sum_probs=37.0

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHh--cCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR--LNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~--~~~~CP~CR~~v~~  281 (383)
                      ..|.+|.+ .   +.+...+|+|.||..|+..-+.  ....||.||..+..
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            68999999 3   3788889999999999999877  23359999987643

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

Probab=92.12  E-value=0.18  Score=42.54  Aligned_cols=49  Identities=33%  Similarity=0.598  Sum_probs=36.9

Q ss_pred             CCCccccccccccCCCceeee-C---CCCccchhhHHHHHh---cCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGL-P---CAHNFHIECIDEWLR---LNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~l-p---C~H~Fh~~Ci~~wl~---~~~~CP~CR~~v~~~  282 (383)
                      .-.+|.||.|...   +.+-| |   ||-..|..|-...++   .+..||.|+.+....
T Consensus        79 ~lYeCnIC~etS~---ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSA---EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccc---hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            4479999999876   33333 3   899999999777666   566799999887543

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

Probab=92.05  E-value=0.062  Score=51.43  Aligned_cols=43  Identities=30%  Similarity=0.559  Sum_probs=30.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      -.|.-|--.+.  ..-+.+||.|+||.+|-+.  ...+.||.|-.+|
T Consensus        91 HfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            35777754443  2446789999999999754  3456799998765

>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=91.80  E-value=0.088  Score=35.83  Aligned_cols=41  Identities=29%  Similarity=0.786  Sum_probs=22.8

Q ss_pred             cccccccccCCCceeeeCCCCccchhhHHHHHhcCC--CCccc
Q 016747          235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV--KCPRC  275 (383)
Q Consensus       235 C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~--~CP~C  275 (383)
                      |.+|.+....|.....-.|+=.+|..|++.++....  .||.|
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            677877776444443335888999999999998554  69987

; PDB: 3NW0_A 2CT0_A.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.62  E-value=0.22  Score=47.36  Aligned_cols=52  Identities=23%  Similarity=0.399  Sum_probs=39.3

Q ss_pred             CCCCccccccccccCCCce-eeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~-~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      .....|+|....|...... ...||||+|...+++..- ....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence            4457899999999533333 445899999999999973 356799999887643

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

Probab=91.16  E-value=0.16  Score=50.40  Aligned_cols=46  Identities=24%  Similarity=0.449  Sum_probs=38.9

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcC---CCCcccCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN---VKCPRCRCS  278 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~---~~CP~CR~~  278 (383)
                      ..|||=.+.-.++..|..|.|||+.+.+-+.+.-+..   ..||+|-..
T Consensus       335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            5799999988888899999999999999999987633   469999543

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

Probab=90.95  E-value=0.015  Score=57.04  Aligned_cols=50  Identities=26%  Similarity=0.632  Sum_probs=42.6

Q ss_pred             CccccccccccCC-CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          233 SECPICLEEFHVG-NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       233 ~~C~IC~~~~~~~-~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ..|+||.+.++.. +....+-|||..|..|+++|+.....||.|+..+..+
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            5799999998744 4566778999999999999999888999999988554

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

Probab=90.56  E-value=0.14  Score=48.83  Aligned_cols=45  Identities=31%  Similarity=0.751  Sum_probs=37.7

Q ss_pred             CccccccccccCC-CceeeeCCCCccchhhHHHHHhcCCCCcccCC
Q 016747          233 SECPICLEEFHVG-NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~-~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~  277 (383)
                      ..|+||.+.+... ..+..++|||..|..|.......+-+||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            3499999987654 34667899999999999998877789999987

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

Probab=90.22  E-value=0.16  Score=49.22  Aligned_cols=42  Identities=26%  Similarity=0.696  Sum_probs=33.2

Q ss_pred             CCccccccccccCCCceeeeCC--CCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPC--AHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC--~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      -.+|+||.+.+.   .+ ...|  ||.-|..|-.+   ....||.||.++.
T Consensus        48 lleCPvC~~~l~---~P-i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   48 LLDCPVCFNPLS---PP-IFQCDNGHLACSSCRTK---VSNKCPTCRLPIG   91 (299)
T ss_pred             hccCchhhccCc---cc-ceecCCCcEehhhhhhh---hcccCCccccccc
Confidence            468999999997   33 3457  89999999764   4567999999885

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=89.97  E-value=0.19  Score=48.65  Aligned_cols=48  Identities=27%  Similarity=0.650  Sum_probs=34.8

Q ss_pred             CccccccccccCCCce-eeeCCCCccchhhHHHHHh-cCCCCcccCCCCC
Q 016747          233 SECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVF  280 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~-~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~  280 (383)
                      +.|+.|+|.+...|+- .--|||-..|..|....-+ -+..||-||....
T Consensus        15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            4599999999765543 3356898888888766544 3456999998653

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

Probab=88.66  E-value=0.23  Score=49.59  Aligned_cols=35  Identities=31%  Similarity=0.659  Sum_probs=30.5

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR  267 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~  267 (383)
                      +++..|+||..-|+   ++..|||+|..|..|...-+.
T Consensus         2 eeelkc~vc~~f~~---epiil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYR---EPIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhcc---CceEeecccHHHHHHHHhhcc
Confidence            34578999999999   999999999999999886654

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

Probab=86.85  E-value=0.47  Score=50.93  Aligned_cols=49  Identities=31%  Similarity=0.596  Sum_probs=36.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCC-----ccchhhHHHHHh--cCCCCcccCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAH-----NFHIECIDEWLR--LNVKCPRCRCSV  279 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H-----~Fh~~Ci~~wl~--~~~~CP~CR~~v  279 (383)
                      +++..|-||..+=.. |.+---||++     ..|.+|+-+|+.  ....|-+|+.++
T Consensus        10 ~d~~~CRICr~e~~~-d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~   65 (1175)
T COG5183          10 EDKRSCRICRTEDIR-DDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY   65 (1175)
T ss_pred             ccchhceeecCCCCC-CCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence            344789999987543 4555567765     389999999998  445699999865

>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=86.15  E-value=0.52  Score=44.96  Aligned_cols=46  Identities=24%  Similarity=0.661  Sum_probs=32.3

Q ss_pred             ccccccccccCCCce--eeeCCCCccchhhHHHHHhcC-CCCcccCCCC
Q 016747          234 ECPICLEEFHVGNEV--RGLPCAHNFHIECIDEWLRLN-VKCPRCRCSV  279 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~--~~lpC~H~Fh~~Ci~~wl~~~-~~CP~CR~~v  279 (383)
                      .|++|-.+--.....  ..-+|+|..|.+|.+..+..+ ..||-|-..+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            588887754322222  223799999999999998754 4599997655

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

Probab=85.56  E-value=0.22  Score=55.93  Aligned_cols=43  Identities=28%  Similarity=0.665  Sum_probs=36.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~  277 (383)
                      ..|.||++.+..  .....-|||.+|..|...|+..+..||+|+.
T Consensus      1154 ~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            479999999872  3344569999999999999999999999985

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

Probab=85.42  E-value=0.43  Score=50.32  Aligned_cols=57  Identities=26%  Similarity=0.624  Sum_probs=41.9

Q ss_pred             cCccccccCCCCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCCC
Q 016747          220 LPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNL  283 (383)
Q Consensus       220 lp~~~~~~~~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~~  283 (383)
                      ++....++..+....|.+|+++.    ..+..+|.   |..|+++|+..+..||+|++.+..+.
T Consensus       467 ~s~~~~~~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~  523 (543)
T KOG0802|consen  467 LSEATPSQLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD  523 (543)
T ss_pred             CCCCChhhhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence            33333334445567899999988    34556787   89999999999999999998775543

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

Probab=83.60  E-value=0.51  Score=51.28  Aligned_cols=36  Identities=22%  Similarity=0.580  Sum_probs=27.2

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHH
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWL  266 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl  266 (383)
                      +.+..|.+|...+-. ..-..-||||.||.+|+.+-.
T Consensus       815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence            445789999988752 234556899999999998754

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

Probab=83.18  E-value=0.4  Score=50.26  Aligned_cols=42  Identities=33%  Similarity=0.644  Sum_probs=31.7

Q ss_pred             CccccccccccCC-CceeeeCCCCccchhhHHHHHhcCCCCcccCC
Q 016747          233 SECPICLEEFHVG-NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRC  277 (383)
Q Consensus       233 ~~C~IC~~~~~~~-~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~  277 (383)
                      ..|.||+..|... -+++.+-|||..|..|+..-.  +.+|| |+.
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence            5799998777532 356778899999999998754  46799 654

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=82.57  E-value=1.1  Score=31.95  Aligned_cols=32  Identities=28%  Similarity=0.920  Sum_probs=27.4

Q ss_pred             CccccccccccCCCceeeeC-CCCccchhhHHH
Q 016747          233 SECPICLEEFHVGNEVRGLP-CAHNFHIECIDE  264 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~  264 (383)
                      ..|.+|.+.+..++..+.-| ||-.+|++|...
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            57999999998777777777 999999999644

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

Probab=82.43  E-value=0.34  Score=51.52  Aligned_cols=45  Identities=33%  Similarity=0.744  Sum_probs=37.2

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcC---CCCcccCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN---VKCPRCRCSVF  280 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~---~~CP~CR~~v~  280 (383)
                      .+|+||.+.+.   ++..+.|.|.||..|+-.-+...   ..||+|+..+.
T Consensus        22 lEc~ic~~~~~---~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   22 LECPICLEHVK---EPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             ccCCceeEEee---ccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            68999999998   67788899999999988776633   35999997663

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

Probab=80.96  E-value=1.1  Score=45.23  Aligned_cols=36  Identities=28%  Similarity=0.691  Sum_probs=26.7

Q ss_pred             CCcccccc-ccccCCCceeeeCCCCccchhhHHHHHh
Q 016747          232 CSECPICL-EEFHVGNEVRGLPCAHNFHIECIDEWLR  267 (383)
Q Consensus       232 ~~~C~IC~-~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~  267 (383)
                      ..+|.||. ++....+.-....|+|.||.+|.++-++
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            36899999 4444333334566999999999998877

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	383
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-08
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		8e-06
2ecm_A	55	Solution Structure Of The Ring Domain Of The Ring F		1e-04
2jrj_A	52	Solution Structure Of The Human Pirh2 Ring-H2 Domai		1e-04
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		3e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		6e-04
1chc_A	68	Structure Of The C3hc4 Domain By 1h-Nuclear Magneti		7e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		7e-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 = 1e-08,   Method: Composition-based stats.
 Identities = 23/46 (50%), Positives = 29/46 (63%)
Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           ECP+C E++ +G  VR LPC H FH  CI  WL  +  CP CR S+
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/46 (50%), Positives = 28/46 (60%)
Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           +C ICL     G +VR LPC H FH  C+D+WL  N KCP CR  +
Sbjct: 16  KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

>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 = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/76 (38%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 208 AQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR 267
           A +E+++AL + L      AV  +   CPIC  E+  G+    LPC H FH  C+  WL+
Sbjct: 17  ASKESIDALPEILVTEDHGAVGQEMC-CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ 75
Query: 268 LNVKCPRCRCSVFPNL 283
            +  CP CRC   P L
Sbjct: 76  KSGTCPVCRCMFPPPL 91

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/47 (51%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 234 ECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 279
           EC +CL E   G E R LP C H FH EC+D WL  +  CP CR +V
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 219 ELPKFRLKAVPTDCSE--CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           +LP +R         +  C +C+ +F     +R LPC H FH +C+D+WL+ N  CP CR
Sbjct: 8   QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
Query: 277 CSVFPN 282
               P+
Sbjct: 68  ADSGPS 73

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 289
           C +CLE+F   +E+   PC H FH +C+ +WL +   CP C     P L L+ LS
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCN---MPVLQLAQLS 69

>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger And Chy Zinc Finger Domain-Containing Protein 1 From Mus Musculus Length = 55

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 233 SECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRC 275
           S CPICLE+ H    V   LPC H  H  C +E L+   +CP C
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49

>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain. Northeast Structural Genomics Consortium Target Ht2b Length = 52

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/42 (45%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 235 CPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRC 275
           CPICLE+ H    V   LPC H  H  C +E L+   +CP C
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           TD  EC IC++    G     LPCAH+F  +CID+W   +  CP CR
Sbjct: 13  TDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 32/110 (29%), Positives = 53/110 (48%), Gaps = 14/110 (12%)
Query: 167 EYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLK 226
           E+  L++ +   +  FEA  Q          A +  L  T  ++E ++A  +E+    + 
Sbjct: 10  EHWALMEELNRSKKDFEAIIQ----------AKNKELEQTKEEKEKMQAQKEEVLSH-MN 58
Query: 227 AVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
            V  +  +C IC E F    E   L CAH+F   CI+EW++  ++CP CR
Sbjct: 59  DVLENELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICR 105

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           CPICLE+    N    LPC H F   CI  W+R N  CP C+
Sbjct: 8   CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 198 AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNF 257
           A +  L  T  ++E ++A  +E+    +  V  +  +C IC E F    E   L CAH+F
Sbjct: 20  AKNKELEQTKEEKEKMQAQKEEVLSH-MNDVLENELQCIICSEYFI---EAVTLNCAHSF 75
Query: 258 HIECIDEWLRLNVKCPRCR 276
              CI+EW++  ++CP CR
Sbjct: 76  CSYCINEWMKRKIECPICR 94

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	383
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-26
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	8e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-21
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-20
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	9e-20
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	9e-18
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-11
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	5e-09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-09
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-08
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	5e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	8e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	8e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	5e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	8e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	4e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	7e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	8e-04

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

 Score =  100 bits (251), Expect = 1e-26
 Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 212 AVEALIQELPKFRLKAV--PTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN 269
                  +LP +R       ++ + C +C+ +F     +R LPC H FH +C+D+WL+ N
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 270 VKCPRCRCSVFPN 282
             CP CR    P+
Sbjct: 61  RTCPICRADSGPS 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 = 97.4 bits (243), Expect = 2e-25
 Identities = 26/75 (34%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 212 AVEALIQELPKFRLKA---VPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL 268
           A +  I  LP+  +            CPIC  E+  G+    LPC H FH  C+  WL+ 
Sbjct: 17  ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76

Query: 269 NVKCPRCRCSVFPNL 283
           +  CP CRC   P L
Sbjct: 77  SGTCPVCRCMFPPPL 91

>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 = 91.7 bits (228), Expect = 2e-23
 Identities = 24/55 (43%), Positives = 30/55 (54%)

Query: 233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSA 287
            +C ICL     G +VR LPC H FH  C+D+WL  N KCP CR  +   L   +
Sbjct: 15  EKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

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

 Score = 90.2 bits (224), Expect = 8e-23
 Identities = 21/61 (34%), Positives = 30/61 (49%)

Query: 230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 289
                C +CLE+F   +E+   PC H FH +C+ +WL +   CP C   V     LS  S
Sbjct: 13  NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPS 72

Query: 290 N 290
           +
Sbjct: 73  S 73

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

 Score = 85.9 bits (213), Expect = 3e-21
 Identities = 23/52 (44%), Positives = 29/52 (55%)

Query: 231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN 282
              ECP+C E++ +G  VR LPC H FH  CI  WL  +  CP CR S+   
Sbjct: 14  SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65

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

 Score = 82.2 bits (204), Expect = 3e-20
 Identities = 25/50 (50%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

Query: 231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 279
           D  EC +CL E   G E R LP C H FH EC+D WL  +  CP CR +V
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 81.2 bits (201), Expect = 9e-20
 Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 233 SECPICLEEFHVGNE-VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF 280
           S CPICLE+ H        LPC H  H  C +E L+   +CP C     
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 77.8 bits (192), Expect = 2e-18
 Identities = 22/52 (42%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 228 VPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           + T    CPICLE+    N    LPC H F   CI  W+R N  CP C+  V
Sbjct: 1   MATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 75.9 bits (187), Expect = 9e-18
 Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 4/61 (6%)

Query: 230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 289
           TD  EC IC++          LPCAH+F  +CID+W   +  CP CR  +    + S  S
Sbjct: 13  TDEEECCICMDGR----ADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPS 68

Query: 290 N 290
           +
Sbjct: 69  S 69

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

 Score = 66.5 bits (162), Expect = 2e-14
 Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 229 PTDCSECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           P+    CPIC++ +      G  +    C H F  +C+ + L+    CP CR  +
Sbjct: 12  PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 61.8 bits (150), Expect = 1e-12
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 4/58 (6%)

Query: 229 PTDCSECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN 282
           P+    CPIC++ +      G  +    C H F  +C+ + L+    CP CR  +   
Sbjct: 7   PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 64

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

 Score = 61.5 bits (149), Expect = 2e-12
 Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 235 CPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRC 277
           C  C  E    + V     C H+FH  C+  W++ N +CP C+ 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72

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

 Score = 60.6 bits (147), Expect = 3e-12
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 4/53 (7%)

Query: 234 ECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN 282
            CPIC++ +      G  +    C H F  +C+ + L+    CP CR  +   
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57

>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 = 60.2 bits (146), Expect = 1e-11
 Identities = 15/77 (19%), Positives = 29/77 (37%), Gaps = 3/77 (3%)

Query: 217 IQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           +    + ++  +      C +C   F   +    + C H+F   CI  +L  +  CP C 
Sbjct: 1   MHRTTRIKITELN-PHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICD 57

Query: 277 CSVFPNLDLSALSNLRT 293
             V     L  + + +T
Sbjct: 58  VQVHKTRPLLNIRSDKT 74

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

 Score = 59.0 bits (143), Expect = 1e-11
 Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 2/50 (4%)

Query: 231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF 280
               C IC       +      C H F   CI      + +CP+C   V 
Sbjct: 14  PYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

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

 Score = 59.5 bits (144), Expect = 1e-11
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 7/63 (11%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPNLDLSALSNLR 292
            C IC+E+    +      C+      CI  WL     +CP CR  +        L N R
Sbjct: 24  RCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL----RELVNCR 77

Query: 293 TAD 295
            A+
Sbjct: 78  WAE 80

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

 Score = 58.3 bits (141), Expect = 2e-11
 Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           EC ICL+     + V  LPC H F   C+     L  +C  CR  +
Sbjct: 17  ECAICLQTCV--HPVS-LPCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 57.0 bits (137), Expect = 4e-10
 Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 3/46 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
           +C IC E F    E   L CAH+F   CI+EW++  ++CP CR  +
Sbjct: 66  QCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

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

 Score = 55.6 bits (133), Expect = 9e-10
 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 4/60 (6%)

Query: 227 AVPTDCSECPICLEEFHVGNEVRG----LPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN 282
           A+ +    CPIC++ +    +         C H F  +C+ + L+    CP CR  +   
Sbjct: 2   AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61

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

 Score = 41.7 bits (97), Expect = 6e-05
 Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 229 PTDCSECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
            +    CPIC++ +      G  +    C H F  +C+ + L+    CP CR  +
Sbjct: 69  GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 14/43 (32%), Positives = 16/43 (37%), Gaps = 3/43 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
            C IC + F   N V    C H F   C  E  R   +C  C 
Sbjct: 17  RCFICRQAFQ--NPVV-TKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 52.6 bits (126), Expect = 2e-09
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 5/51 (9%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL--NVKCPRCRCSVFPN 282
            C IC      G       C    H+ C+ ++ +     +CP C    +P+
Sbjct: 17  ICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCN-DYWPH 64

>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 = 52.2 bits (125), Expect = 5e-09
 Identities = 12/66 (18%), Positives = 23/66 (34%), Gaps = 8/66 (12%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR--------LNVKCPRCRCSVFPNLDL 285
            C +CL E+ V        C   F   C+ +++           + CP   C    +L  
Sbjct: 7   GCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE 66

Query: 286 SALSNL 291
           + +  +
Sbjct: 67  NEIECM 72

>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 = 52.7 bits (126), Expect = 6e-09
 Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 7/62 (11%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFPNLDLS---ALS 289
           +C  C E            C HN   +C+D   R  V  CP CR  +  +  +     L 
Sbjct: 54  QCICCQELVF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQ 110

Query: 290 NL 291
            +
Sbjct: 111 TV 112

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

 Score = 52.2 bits (124), Expect = 7e-09
 Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 20/64 (31%)

Query: 234 ECPICLEEFHVGNE---------------VRGLPCAHNFHIECIDEWLR-----LNVKCP 273
           +C IC+E+  V +                 R   C+H FH+ C+           +++CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 274 RCRC 277
            C+ 
Sbjct: 87  SCKT 90

>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 = 51.9 bits (124), Expect = 2e-08
 Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 7/62 (11%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVK-CPRCRCSVFPNLDLS---ALS 289
            C  C E  +   +     C HN   +C+    +  V  CP CR  +  N  +     L 
Sbjct: 80  MCVCCQELVY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQ 136

Query: 290 NL 291
            L
Sbjct: 137 TL 138

>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 = 54.0 bits (129), Expect = 3e-08
 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVK-CPRCRCSV 279
            C IC E      +V+  PC H     C+  W     + CP CRC +
Sbjct: 334 LCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377

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

 Score = 49.7 bits (119), Expect = 4e-08
 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 8/64 (12%)

Query: 234 ECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLN---VKCPRCRCSVFPNLDLSALS 289
           ECPIC+E F       + L C H    +C+++ L  +   V+CP C         +++L+
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT----RITSLT 72

Query: 290 NLRT 293
            L  
Sbjct: 73  QLTD 76

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

 Score = 48.6 bits (115), Expect = 7e-08
 Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 231 DCSECPICLEEFHV-GNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCR 276
           D  ECP+C+E   +         C +     C        N  CP CR
Sbjct: 10  DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 4/50 (8%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFPN 282
           +C  C       +  +   C H F   C+   L  +  KC  C+ S+  +
Sbjct: 17  KCEKCHLVLC--SPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKD 63

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

 Score = 51.8 bits (123), Expect = 1e-07
 Identities = 14/60 (23%), Positives = 19/60 (31%), Gaps = 16/60 (26%)

Query: 233 SECPICLEEFHVGNEV-----RGLPCAHNFHIECIDEWLR-----------LNVKCPRCR 276
             C IC      G EV         C    H  C++EW +              +CP C+
Sbjct: 309 LRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCK 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 = 48.7 bits (116), Expect = 2e-07
 Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 4/47 (8%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP 281
           C  C         V    C H F   C+ +   +   CP C    + 
Sbjct: 25  CSRCTNILR--EPVCLGGCEHIFCSNCVSDC--IGTGCPVCYTPAWI 67

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

 Score = 48.4 bits (115), Expect = 2e-07
 Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 4/60 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPNLDLSALSNLR 292
           +C IC+E       V  LPC H     C    +   ++ CP CR  V          N  
Sbjct: 17  QCGICMEILV--EPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSL 73

>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 = 47.9 bits (113), Expect = 3e-07
 Identities = 13/50 (26%), Positives = 14/50 (28%), Gaps = 1/50 (2%)

Query: 229 PTDCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRC 277
              C EC                  C H FH  CI  WL+    CP    
Sbjct: 48  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97

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

 Score = 47.5 bits (113), Expect = 3e-07
 Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 7/59 (11%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV-----FPNLDLSAL 288
           C IC E F+    +    C+HN+   CI ++L    +CP C  +V       N  L  L
Sbjct: 25  CGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDEL 81

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

 Score = 45.4 bits (108), Expect = 5e-07
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 6/46 (13%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
            C  C  E       + LPC H     C++      ++CP C+   
Sbjct: 8   RCQQCQAEA---KCPKLLPCLHTLCSGCLE---ASGMQCPICQAPW 47

>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 = 47.2 bits (111), Expect = 5e-07
 Identities = 13/50 (26%), Positives = 14/50 (28%), Gaps = 1/50 (2%)

Query: 229 PTDCSECPICLEEFHVGNEVRG-LPCAHNFHIECIDEWLRLNVKCPRCRC 277
              C EC                  C H FH  CI  WL+    CP    
Sbjct: 59  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108

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

 Score = 49.0 bits (116), Expect = 7e-07
 Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 5/68 (7%)

Query: 217 IQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL--NVKCPR 274
           I E+ ++  +  P     C IC      G       C    H+ C+ ++ +     +CP 
Sbjct: 165 ILEMEQYIRETYPDAVKICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPH 222

Query: 275 CRCSVFPN 282
           C    +P+
Sbjct: 223 CN-DYWPH 229

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

 Score = 44.6 bits (105), Expect = 8e-06
 Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 3/56 (5%)

Query: 231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVK-CPRCRCSVFPNLDL 285
               CPICL+     N +    C H F  +CI   LR   K CP CR  +     L
Sbjct: 53  SELMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSL 106

>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 = 44.7 bits (105), Expect = 8e-06
 Identities = 19/60 (31%), Positives = 22/60 (36%), Gaps = 4/60 (6%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFPNLDLSALSNLR 292
           ECPICL       E    PC H F   CI + +R    KCP     +  N         R
Sbjct: 20  ECPICL---MALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKR 76

>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 = 41.7 bits (98), Expect = 2e-05
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 6/59 (10%)

Query: 235 CPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVK--CPRCRCSVFPNLDLSALSN 290
           C IC +      +   +P C +++  ECI   L  + +  CP C  +      LS  S+
Sbjct: 18  CLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGPSS 73

>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 = 44.9 bits (105), Expect = 2e-05
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN--VKCPRCRCS 278
           CPI  + +     +    C H F  + I  +L+      CP+  CS
Sbjct: 184 CPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACS 227

>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 = 41.3 bits (97), Expect = 5e-05
 Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPN 282
           ECPICL       E    PC H F   CI + +R    KCP     +  N
Sbjct: 20  ECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN 66

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

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 16/79 (20%), Positives = 26/79 (32%), Gaps = 14/79 (17%)

Query: 235 CPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVK--CPRCRCSVF------PNLDL 285
           C IC +     + V  +P C +++  ECI   L  + +  CP C  +         N  L
Sbjct: 16  CLICKDIMT--DAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFL 72

Query: 286 SALSN--LRTADSERSSAS 302
               N         +    
Sbjct: 73  RQAVNNFKNETGYTKRLRK 91

>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 = 41.3 bits (96), Expect = 8e-05
 Identities = 17/88 (19%), Positives = 24/88 (27%), Gaps = 7/88 (7%)

Query: 205 LTAAQREAVEALIQELPKFRLKAVPTDCSE---CPICLEEFHVGNEVRGLPCAHNFHIEC 261
           + AA      +L    P F    + T       C  C    +V        C H +   C
Sbjct: 1   MAAASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACR---NVLRRPFQAQCGHRYCSFC 57

Query: 262 IDEWLR-LNVKCPRCRCSVFPNLDLSAL 288
           +   L      C  C         +S L
Sbjct: 58  LASILSSGPQNCAACVHEGIYEEGISIL 85

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

 Score = 40.3 bits (94), Expect = 1e-04
 Identities = 15/49 (30%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP 281
            C IC        +     C H F   CI   L+ +   CP CR   FP
Sbjct: 25  SCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP 70

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

 Score = 37.2 bits (86), Expect = 4e-04
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 3/46 (6%)

Query: 234 ECPICLEEFHVGNEVRGL--PCAHNFHIECIDEWLRLN-VKCPRCR 276
            CP C    +    ++ +   C H     C+D         CP C 
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

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

 Score = 37.4 bits (87), Expect = 7e-04
 Identities = 20/66 (30%), Positives = 26/66 (39%), Gaps = 13/66 (19%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVK------CPRCRCSVFPNLDLS-- 286
           CPICLE      E     C H+F   CI      N        CP CR   +P  +L   
Sbjct: 22  CPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP-YPFGNLKPN 77

Query: 287 -ALSNL 291
             ++N+
Sbjct: 78  LHVANI 83

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

 Score = 37.0 bits (86), Expect = 8e-04
 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 6/45 (13%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECID---EWLRLNVKCPRCR 276
           CPICL+      +   + C HNF ++CI    E      KCP C+
Sbjct: 23  CPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	383
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.48
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.45
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.41
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.4
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.39
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.38
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.29
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.27
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.27
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.26
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.26
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.24
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.22
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.21
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.21
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.21
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.2
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.19
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.19
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.17
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.17
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.16
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.15
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.11
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.11
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.1
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.1
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.09
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.05
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.04
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.01
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.01
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.99
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.97
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.95
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.93
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.93
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.92
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.92
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.92
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.9
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.9
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.89
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.87
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.86
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.85
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.85
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.84
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.82
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.81
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.79
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.77
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.69
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.68
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.62
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.62
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.59
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.49
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.49
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.33
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.33
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.3
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.29
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.2
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.96
3nw0_A	238	Non-structural maintenance of chromosomes element	97.31
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.28
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.28
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	90.57
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	81.52
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	81.5
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	81.38

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

Probab=99.48  E-value=1.2e-14  Score=115.06  Aligned_cols=70  Identities=36%  Similarity=0.780  Sum_probs=58.5

Q ss_pred             HHHHHHHhcCccccccCC---CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          212 AVEALIQELPKFRLKAVP---TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       212 ~~~~~~~~lp~~~~~~~~---~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +.++.++.+|........   .++..|+||++.+..++.++.+||||.||..||.+|+..+.+||+||..+.+
T Consensus        17 ~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           17 ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             CCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            344567888887765533   3456899999999988889999999999999999999999999999998864

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

Probab=99.45  E-value=4.4e-14  Score=107.44  Aligned_cols=65  Identities=35%  Similarity=0.913  Sum_probs=53.4

Q ss_pred             HhcCccccccC--CCCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          218 QELPKFRLKAV--PTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       218 ~~lp~~~~~~~--~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +.+|..+.+..  ..++.+|+||++.+..++..+.+||+|.||..|+.+|++.+.+||+||+.+.+.
T Consensus         7 ~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            7 GQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            45565555432  244578999999999888889999999999999999999989999999988653

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

Probab=99.41  E-value=1.3e-13  Score=98.22  Aligned_cols=50  Identities=50%  Similarity=1.096  Sum_probs=45.4

Q ss_pred             CCCccccccccccCCCceeeeC-CCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ++.+|+||++.+..++.+..++ |||.||..|+.+|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4478999999999888888898 9999999999999999999999998763

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

Probab=99.40  E-value=3.2e-13  Score=103.27  Aligned_cols=53  Identities=43%  Similarity=0.954  Sum_probs=47.2

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      .+..+|+||++.+..++....++|+|.||..||.+|++.+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            34579999999998777788899999999999999999889999999988654

>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=99.39  E-value=3.1e-13  Score=100.92  Aligned_cols=53  Identities=43%  Similarity=0.966  Sum_probs=47.1

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+..++.++.++|||.||..|+.+|+..+.+||+||..+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            34578999999998777889999999999999999999888999999988653

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

Probab=99.38  E-value=4.1e-13  Score=101.65  Aligned_cols=52  Identities=35%  Similarity=0.832  Sum_probs=46.6

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ++..|+||++.+..++....++|+|.||..|+.+|++.+.+||+||.++...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            3478999999998877888889999999999999999888999999988653

>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=99.29  E-value=2.2e-12  Score=91.68  Aligned_cols=50  Identities=38%  Similarity=0.827  Sum_probs=43.0

Q ss_pred             CCCccccccccccCC-CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVG-NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~-~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ++.+|+||++.+..+ +.+..++|||.||..|+.+|+..+.+||+||.++.
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            347899999999643 34778899999999999999998899999998774

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

Probab=99.27  E-value=2.1e-12  Score=99.78  Aligned_cols=49  Identities=31%  Similarity=0.754  Sum_probs=40.4

Q ss_pred             CCccccccccccC-----------CCceeeeC-CCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHV-----------GNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~-----------~~~~~~lp-C~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      +..|+||++.+..           ++.++.++ |+|.||..||.+|+..+.+||+||+++.
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            4678888888853           34466665 9999999999999999999999998874

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

Probab=99.27  E-value=2.2e-12  Score=95.89  Aligned_cols=52  Identities=25%  Similarity=0.659  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCC----CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVG----NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~----~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.+...    ..+..++|||.||..|+.+|+..+.+||+||.++..
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            4457899999999732    223788999999999999999988999999988753

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

Probab=99.26  E-value=2.1e-12  Score=96.73  Aligned_cols=53  Identities=25%  Similarity=0.651  Sum_probs=44.4

Q ss_pred             CCCCccccccccccCC----CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVG----NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~----~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +++.+|+||++.+...    +.+..++|||.||..|+.+|+..+.+||+||.++...
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            3457899999999731    3347889999999999999999889999999988654

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

Probab=99.26  E-value=2.8e-12  Score=96.36  Aligned_cols=49  Identities=31%  Similarity=0.635  Sum_probs=43.9

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.+.   +++.++|||.||..|+..|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCS---SEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccC---CCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            34578999999998   78889999999999999999988999999998853

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

Probab=99.24  E-value=5.8e-12  Score=94.86  Aligned_cols=49  Identities=24%  Similarity=0.607  Sum_probs=43.2

Q ss_pred             CCCccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +...|+||++.+.   ++..+ +|||.||..||..|+..+.+||+||..+...
T Consensus        14 ~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           14 PYILCSICKGYLI---DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             GGGSCTTTSSCCS---SCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             CCCCCCCCChHHH---CcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            4478999999998   67776 9999999999999999888999999988654

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

Probab=99.22  E-value=4.8e-12  Score=92.55  Aligned_cols=51  Identities=25%  Similarity=0.664  Sum_probs=43.4

Q ss_pred             CCccccccccccCC----CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVG----NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~----~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +.+|+||++.+...    +.+..++|||.||..|+.+|+..+.+||+||.++...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            46899999999732    2347889999999999999999989999999988654

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

Probab=99.21  E-value=1.2e-11  Score=92.99  Aligned_cols=50  Identities=36%  Similarity=0.741  Sum_probs=43.2

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh---cCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR---LNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~---~~~~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+.   ++..++|||.||..|+..|+.   .+..||+||.++..+
T Consensus        18 ~~~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           18 QEEVICPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCBCTTTCSBCS---SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             ccCCEeccCCcccC---CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            44579999999998   788899999999999999997   455799999988543

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

Probab=99.21  E-value=8.4e-12  Score=96.12  Aligned_cols=48  Identities=25%  Similarity=0.407  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .+...|+||++.+.   .+..++|||.||..|+..|+....+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCC---SEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhc---CeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            34578999999998   7888999999999999999998889999999885

>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=99.21  E-value=1.7e-11  Score=100.56  Aligned_cols=50  Identities=28%  Similarity=0.635  Sum_probs=40.5

Q ss_pred             CCccccccccccCCC---------------ceeeeCCCCccchhhHHHHH-----hcCCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGN---------------EVRGLPCAHNFHIECIDEWL-----RLNVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~---------------~~~~lpC~H~Fh~~Ci~~wl-----~~~~~CP~CR~~v~~  281 (383)
                      +..|+||++.+..+.               ..+.++|+|.||..||..|+     ..+.+||+||..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            468999999996532               23368899999999999999     456789999987753

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

Probab=99.20  E-value=9.6e-12  Score=92.36  Aligned_cols=48  Identities=44%  Similarity=0.956  Sum_probs=42.2

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .+..|+||++.+.  +....++|||.||..|+.+|+..+.+||+||.++.
T Consensus         4 ~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            3478999999987  23578899999999999999998899999998885

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

Probab=99.19  E-value=2.5e-11  Score=94.58  Aligned_cols=53  Identities=30%  Similarity=0.674  Sum_probs=44.5

Q ss_pred             CCCCccccccccccCCCc-eeeeCCCCccchhhHHHHHhcC---CCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNE-VRGLPCAHNFHIECIDEWLRLN---VKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~-~~~lpC~H~Fh~~Ci~~wl~~~---~~CP~CR~~v~~~  282 (383)
                      .+..+|+||++.+...+. ++.++|||.||..|+..|+..+   .+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            345789999999985443 8889999999999999999865   6899999987543

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

Probab=99.19  E-value=1.1e-11  Score=91.60  Aligned_cols=50  Identities=24%  Similarity=0.537  Sum_probs=42.9

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+.   ++..++|||.||..|+.+|+. .+.+||+||.++..+
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEES---SCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhc---CeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            34578999999998   677799999999999999995 567899999988653

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

Probab=99.19  E-value=5.2e-12  Score=94.41  Aligned_cols=48  Identities=40%  Similarity=0.858  Sum_probs=42.9

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +...|+||++.+.   . ..++|||.||..|+.+|+..+.+||+||.++...
T Consensus        14 ~~~~C~IC~~~~~---~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           14 DEEECCICMDGRA---D-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCSSSCCSCC---S-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCeeCCcCcc---C-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            3478999999998   4 7899999999999999999999999999988654

>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=99.17  E-value=1.8e-11  Score=99.41  Aligned_cols=49  Identities=29%  Similarity=0.557  Sum_probs=41.7

Q ss_pred             CCCccccccccccCCC---------------ceeeeCCCCccchhhHHHHHhcCCCCcccCCCC
Q 016747          231 DCSECPICLEEFHVGN---------------EVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV  279 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~---------------~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v  279 (383)
                      +++.|+||++.+...-               ....++|+|.||..||.+|+..+.+||+||+++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            4578999999987431               246688999999999999999999999999875

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

Probab=99.17  E-value=2e-11  Score=92.46  Aligned_cols=48  Identities=27%  Similarity=0.576  Sum_probs=41.8

Q ss_pred             CCCccccccccccCCCceeeeC-CCCccchhhHHHHHhcC--CCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLN--VKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~--~~CP~CR~~v~~  281 (383)
                      +...|+||++.+.   .++.++ |||.||..||..|+..+  .+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           14 DELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             GGGSCSSSCCCCT---TCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCcCCChHHh---CCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            4478999999998   788899 99999999999999854  689999997543

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.16  E-value=8.8e-12  Score=106.01  Aligned_cols=47  Identities=40%  Similarity=0.886  Sum_probs=43.2

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +..|+||++.+.   .++.+||||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCS---SEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccC---CceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            368999999998   78999999999999999999999999999998854

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.15  E-value=2.9e-11  Score=92.31  Aligned_cols=49  Identities=20%  Similarity=0.537  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.+.   +++.++|||.||..||..|+.. +.+||+||.++..
T Consensus         6 ~~~~~C~IC~~~~~---~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCcccccc---CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            34579999999998   8899999999999999999986 7789999998854

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

Probab=99.11  E-value=5.7e-11  Score=86.86  Aligned_cols=43  Identities=35%  Similarity=0.801  Sum_probs=38.1

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh---cCCCCccc
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR---LNVKCPRC  275 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~---~~~~CP~C  275 (383)
                      .+...|+||++.+.   +++.++|||.||..||.+|+.   .+.+||+|
T Consensus        18 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCS---SCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhC---CeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            44579999999998   788899999999999999998   45679998

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

Probab=99.11  E-value=5.5e-11  Score=91.60  Aligned_cols=53  Identities=25%  Similarity=0.579  Sum_probs=43.3

Q ss_pred             CCCCCccccccccccCCCceeeeCCC-----CccchhhHHHHHhcC--CCCcccCCCCCCC
Q 016747          229 PTDCSECPICLEEFHVGNEVRGLPCA-----HNFHIECIDEWLRLN--VKCPRCRCSVFPN  282 (383)
Q Consensus       229 ~~~~~~C~IC~~~~~~~~~~~~lpC~-----H~Fh~~Ci~~wl~~~--~~CP~CR~~v~~~  282 (383)
                      ..++..|.||++++..++. ..+||+     |.||..||++|+..+  .+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            3445789999999876554 468996     999999999999854  4899999988654

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

Probab=99.10  E-value=6.4e-11  Score=93.29  Aligned_cols=48  Identities=27%  Similarity=0.574  Sum_probs=42.0

Q ss_pred             CCCCccccccccccCCCceeeeC-CCCccchhhHHHHHhc--CCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRL--NVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~--~~~CP~CR~~v~  280 (383)
                      .+...|+||++.+.   +++.++ |||.||..||..|+..  +..||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECS---SCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhc---CceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            44579999999998   888999 9999999999999974  358999999874

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

Probab=99.10  E-value=2.1e-11  Score=93.16  Aligned_cols=49  Identities=33%  Similarity=0.601  Sum_probs=42.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-------CCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-------NVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-------~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.+.   +++.++|||.||..|+..|+..       ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLT---EPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECS---SCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccC---CeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            34578999999998   7788999999999999999986       5679999998864

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

Probab=99.09  E-value=8.2e-11  Score=90.76  Aligned_cols=48  Identities=35%  Similarity=0.774  Sum_probs=42.7

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc------CCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL------NVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~------~~~CP~CR~~v~~  281 (383)
                      +...|+||++.+.   ++..++|||.||..|+..|+..      ...||.||..+..
T Consensus        18 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           18 EEVTCPICLELLT---QPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCTTTCSCCS---SCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCCCcccC---CceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            4579999999998   7788999999999999999986      7789999998864

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

Probab=99.09  E-value=7.2e-11  Score=91.07  Aligned_cols=49  Identities=33%  Similarity=0.622  Sum_probs=42.9

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc------CCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL------NVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~------~~~CP~CR~~v~~~  282 (383)
                      +...|+||++.+.   .+..++|||.||..|+..|+..      ...||+||..+...
T Consensus        18 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLK---EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCS---SCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhC---cceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4578999999998   7788999999999999999986      66899999988643

>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=99.08  E-value=3e-11  Score=96.99  Aligned_cols=46  Identities=30%  Similarity=0.774  Sum_probs=41.8

Q ss_pred             CccccccccccCCCceee-eCCCCccchhhHHHHHhcC-CCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRG-LPCAHNFHIECIDEWLRLN-VKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~-lpC~H~Fh~~Ci~~wl~~~-~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   .++. ++|||.||..||..|+..+ .+||+||.++..
T Consensus        23 ~~C~IC~~~~~---~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           23 FRCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             TBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCccCCcccc---CccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            78999999998   7888 8999999999999999976 689999998854

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

Probab=99.05  E-value=1.1e-10  Score=94.95  Aligned_cols=48  Identities=27%  Similarity=0.616  Sum_probs=43.3

Q ss_pred             CCccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ...|+||++.+.   ++..+ +|||.||..|+..|+..+.+||+||..+...
T Consensus        15 ~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           15 HLMCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GTBCTTTSSBCS---SEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCCccCChHHh---CcCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            478999999998   78887 9999999999999999889999999988654

>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=99.05  E-value=8.3e-11  Score=97.99  Aligned_cols=47  Identities=28%  Similarity=0.584  Sum_probs=41.9

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcC-CCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN-VKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~-~~CP~CR~~v~~  281 (383)
                      ...|+||++.+.   .++.++|||.||..||..|+..+ ..||+||.++..
T Consensus        52 ~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHc---CcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            368999999999   88899999999999999999844 489999998865

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

Probab=99.04  E-value=1.2e-10  Score=83.38  Aligned_cols=43  Identities=35%  Similarity=0.855  Sum_probs=37.0

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHh---cCCCCccc
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR---LNVKCPRC  275 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~---~~~~CP~C  275 (383)
                      .+...|+||++.+.   +++.++|||.||..|+.+|+.   .+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLK---EPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCS---SCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccC---ccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34578999999998   678899999999999999954   56789998

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

Probab=99.04  E-value=1.1e-10  Score=93.34  Aligned_cols=46  Identities=33%  Similarity=0.773  Sum_probs=41.9

Q ss_pred             CccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   .++.+ +|||.||..|+..|+..+.+||+||..+..
T Consensus        23 ~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           23 LRCGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             TBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCcccCChhhC---CcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            68999999998   67777 899999999999999988999999998854

>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=99.01  E-value=3.8e-11  Score=99.00  Aligned_cols=50  Identities=30%  Similarity=0.563  Sum_probs=1.0

Q ss_pred             CCCccccccccccCC-------------Cc--eeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVG-------------NE--VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~-------------~~--~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      +++.|+||++.+...             ++  ...++|+|.||..||.+|+..+.+||+||+++.
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            457899999999742             11  223589999999999999999999999998863

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

Probab=99.01  E-value=1.7e-10  Score=96.45  Aligned_cols=52  Identities=25%  Similarity=0.654  Sum_probs=44.3

Q ss_pred             CCCccccccccccCC----CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVG----NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~----~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      +..+|+||++.+...    +.++.++|||.||..||.+|++.+.+||+||+.+...
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            457899999999732    2338899999999999999999999999999988654

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

Probab=98.99  E-value=2.2e-10  Score=84.29  Aligned_cols=51  Identities=20%  Similarity=0.447  Sum_probs=40.1

Q ss_pred             CCccccccc-cccCCCce-eeeCCCCccchhhHHHHHhc-CCCCcccCCCCCCC
Q 016747          232 CSECPICLE-EFHVGNEV-RGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~-~~~~~~~~-~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~~  282 (383)
                      +..|+||++ .+...... ..++|||.||..|+.+|+.+ ...||+||.++..+
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            368999999 77633222 45799999999999999764 46799999988654

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

Probab=98.97  E-value=6.9e-11  Score=97.11  Aligned_cols=46  Identities=33%  Similarity=0.684  Sum_probs=41.5

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~  280 (383)
                      +..|+||++.+.   +++.++|||.||..|+..|+.. +.+||.||..+.
T Consensus        15 ~~~C~iC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           15 ECQCGICMEILV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHBCTTTCSBCS---SCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCccCCcccC---ceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            468999999998   8889999999999999999975 668999999874

>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=2.1e-10  Score=82.09  Aligned_cols=47  Identities=23%  Similarity=0.546  Sum_probs=39.9

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+.   .++.++|||.||..|+..|   ...||+||+.+...
T Consensus         4 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCB---CCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccC---CeEEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            34578999999998   7889999999999999873   56799999988643

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

Probab=98.95  E-value=3.4e-10  Score=92.16  Aligned_cols=46  Identities=35%  Similarity=0.716  Sum_probs=40.8

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcCC---CCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV---KCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~---~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   .+..++|||.||..|+..|+..+.   +||+||..+..
T Consensus        22 ~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           22 LECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             TSCSSSCCCCS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCcccChhhc---CeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            68999999998   777899999999999999998654   79999998854

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

Probab=98.93  E-value=4.1e-10  Score=97.08  Aligned_cols=48  Identities=27%  Similarity=0.556  Sum_probs=42.7

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCC-CCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~-~CP~CR~~v~~~  282 (383)
                      ...|+||++.+.   .++.++|||.||..||..|+.... .||+||..+...
T Consensus        78 ~~~C~IC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhc---CCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            368999999998   888899999999999999998654 899999988654

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

Probab=98.93  E-value=4.2e-10  Score=92.96  Aligned_cols=50  Identities=36%  Similarity=0.644  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCC-CCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~-~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+.   .++.++|||.||..|+..|+..+. +||+||.++...
T Consensus        16 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           16 ESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCcCChhhc---CeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            44579999999998   788899999999999999998654 899999988653

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

Probab=98.92  E-value=9.3e-10  Score=83.19  Aligned_cols=49  Identities=22%  Similarity=0.596  Sum_probs=40.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcC--CCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN--VKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~--~~CP~CR~~v~  280 (383)
                      +...+|+||.+.+..++..  ..|+|.||..||.+|++.+  .+||+||....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C--~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEEC--SSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCcc--CCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            3447899999999865443  3799999999999999976  78999998774

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

Probab=98.92  E-value=4.9e-10  Score=97.95  Aligned_cols=48  Identities=35%  Similarity=0.755  Sum_probs=42.0

Q ss_pred             CCccccccccccCCCceeee-CCCCccchhhHHHHHhc-CCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~~  282 (383)
                      ...|+||++.+.   .++.+ +|||.||..|+..|+.. +..||+||.++...
T Consensus        54 ~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  103 (165)
T 2ckl_B           54 ELMCPICLDMLK---NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK  103 (165)
T ss_dssp             HHBCTTTSSBCS---SEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSG
T ss_pred             CCCCcccChHhh---CcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCc
Confidence            358999999998   67776 89999999999999996 77899999988543

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.92  E-value=6.9e-10  Score=86.38  Aligned_cols=48  Identities=17%  Similarity=0.025  Sum_probs=43.8

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +...|+||++.|.   +|+.++|||.||..||..|+..+.+||.||.++..
T Consensus        13 ~~~~CpI~~~~m~---dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMT---DPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hheECcccCchhc---CCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            3479999999999   89999999999999999999988899999988753

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.90  E-value=5.5e-10  Score=82.17  Aligned_cols=47  Identities=21%  Similarity=0.385  Sum_probs=41.1

Q ss_pred             CCCccccccccccCCCceeee--CCCCc-cchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGL--PCAHN-FHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~l--pC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ++.+|.||++...   ++..+  ||||. ||..|+..|...+..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPK---NGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCS---CEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCC---CEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            3468999999987   66666  99999 899999999998889999999884

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=98.90  E-value=1e-09  Score=88.03  Aligned_cols=48  Identities=17%  Similarity=0.041  Sum_probs=44.2

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +...|+||++.|.   +|+.++|||.||..||..|+..+.+||.||.++..
T Consensus        28 ~~~~CpI~~~~m~---dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMT---DPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCS---SEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             HhhCCcCccCccc---CCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            4579999999999   99999999999999999999988899999998854

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

Probab=98.89  E-value=5.4e-10  Score=93.33  Aligned_cols=53  Identities=25%  Similarity=0.651  Sum_probs=44.3

Q ss_pred             CCCCccccccccccCC----CceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVG----NEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~----~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ++...|+||++.+...    .....++|||.||..|+.+|++.+.+||+||.++..+
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            4457899999998731    2237889999999999999999999999999988654

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

Probab=98.87  E-value=3.9e-10  Score=92.69  Aligned_cols=46  Identities=33%  Similarity=0.721  Sum_probs=41.9

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   ++..++|||.||..|+..|+.. +.+||+||.++..
T Consensus        24 ~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           24 ISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             TBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCcHhc---CcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            68999999998   7888999999999999999986 7789999998854

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=98.86  E-value=1.8e-09  Score=86.34  Aligned_cols=48  Identities=19%  Similarity=0.066  Sum_probs=44.1

Q ss_pred             CCCccccccccccCCCceeeeCCC-CccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCA-HNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~-H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +...|+||++.|.   +|+.++|| |.||..||..|+..+.+||+||.++..
T Consensus        21 ~~~~CpI~~~~m~---dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMC---DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCcccccc---CCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            3479999999999   99999999 999999999999988899999998854

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.85  E-value=9e-10  Score=80.75  Aligned_cols=47  Identities=15%  Similarity=0.376  Sum_probs=40.8

Q ss_pred             CCCccccccccccCCCceeee--CCCCc-cchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGL--PCAHN-FHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~l--pC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ....|.||++...   ++..+  ||||. ||..|+..|...+..||+||+++.
T Consensus         6 ~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPR---DGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBS---CEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCC---CeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3468999999887   66666  99998 999999999988889999999884

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

Probab=98.85  E-value=6.9e-10  Score=94.70  Aligned_cols=50  Identities=16%  Similarity=0.327  Sum_probs=43.1

Q ss_pred             CCCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCC-CCcccCCCCCC
Q 016747          229 PTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSVFP  281 (383)
Q Consensus       229 ~~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~-~CP~CR~~v~~  281 (383)
                      .++...|+||++.+.   +++.++|||.||..||.+|+.... +||+||.++..
T Consensus        28 l~~~~~C~IC~~~~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLR---RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhc---CcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            345579999999998   788899999999999999998554 89999998743

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

Probab=98.84  E-value=3e-09  Score=81.42  Aligned_cols=52  Identities=27%  Similarity=0.606  Sum_probs=40.1

Q ss_pred             CCCCccccccccccCCCceeeeC--CCCccchhhHHHHHh-cCCCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLP--CAHNFHIECIDEWLR-LNVKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lp--C~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~  282 (383)
                      +++.+|+||++.+... .+..+|  |||.||..|+..++. ....||.||+++...
T Consensus         9 ~~~~~CpICle~~~~~-d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            9 EDPVECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCBCTTTCCBCCTT-TTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccCCcCCccCccCccc-cccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            4557999999988532 234444  999999999999875 456799999988653

>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=98.82  E-value=1.8e-09  Score=105.94  Aligned_cols=47  Identities=32%  Similarity=0.786  Sum_probs=42.7

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      ...|+||++.+.   .++.+||||.||..|+..|+. .+.+||+||.++..
T Consensus       332 ~~~C~ICle~~~---~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBC---CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCC---CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            368999999998   889999999999999999998 78899999998854

>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=98.81  E-value=4.3e-09  Score=86.69  Aligned_cols=44  Identities=25%  Similarity=0.635  Sum_probs=40.0

Q ss_pred             CccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   .++.+ +|||.||..||..|+.  ..||+||..+..
T Consensus        23 ~~C~IC~~~~~---~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           23 LRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             TSCSSSCSCCS---SCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCCChHhh---CccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            78999999998   78888 9999999999999988  789999998743

>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=98.79  E-value=6.2e-09  Score=97.78  Aligned_cols=49  Identities=20%  Similarity=0.158  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.|.   +|+.+||||.||..||..|+.. +.+||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~---dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhc---CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            45679999999999   9999999999999999999985 4459999998853

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.77  E-value=1.5e-09  Score=82.12  Aligned_cols=42  Identities=26%  Similarity=0.592  Sum_probs=38.1

Q ss_pred             CccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   ++..+||||. ||..|+..|    ..||+||.++..
T Consensus        25 ~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           25 KLCKICMDRNI---AIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             TBCTTTSSSBC---CEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCC---CEEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            68999999998   8889999999 999999988    789999998853

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=1.3e-08  Score=75.80  Aligned_cols=47  Identities=26%  Similarity=0.548  Sum_probs=39.6

Q ss_pred             CCCCCCccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCC
Q 016747          228 VPTDCSECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       228 ~~~~~~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ...+...|.||++...   .+..+||||. ||..|+..    ...||+||.++..
T Consensus        11 ~~~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            3345578999999987   8889999999 99999984    4689999998854

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.68  E-value=1.3e-08  Score=89.80  Aligned_cols=49  Identities=20%  Similarity=0.148  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      .+...|+||++.|.   .|+.+||||.||..||..|+.. +.+||+||.++..
T Consensus       104 p~~f~CPI~~elm~---DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMR---EPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCC---CCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            45689999999999   8999999999999999999985 3579999988743

>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=98.62  E-value=1.4e-08  Score=89.03  Aligned_cols=50  Identities=36%  Similarity=0.653  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcC-CCCcccCCCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN-VKCPRCRCSVFPN  282 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~-~~CP~CR~~v~~~  282 (383)
                      .+...|+||++.+.   .++.++|||.||..|+.+|+... .+||.||..+...
T Consensus        16 ~~~~~C~IC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           16 ESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCChhhc---CcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            44579999999998   78889999999999999999854 4899999988653

>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=98.62  E-value=1.5e-08  Score=80.23  Aligned_cols=45  Identities=24%  Similarity=0.554  Sum_probs=39.6

Q ss_pred             CCCccccccccccCCCceeeeC-CCCccchhhHHHHHhcC------CCCcc--cCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLN------VKCPR--CRCS  278 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~------~~CP~--CR~~  278 (383)
                      +...|+||++.|.   +|+.++ |||.||..||..|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~---dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMK---KPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCS---SEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhc---CCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4478999999999   899996 99999999999999853      48999  9866

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.59  E-value=2.1e-08  Score=75.87  Aligned_cols=42  Identities=26%  Similarity=0.595  Sum_probs=36.8

Q ss_pred             CccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   ++..+||||. ||..|+..    ...||+||.++..
T Consensus        26 ~~C~IC~~~~~---~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           26 KLCKICMDRNI---AIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HSCSSSCSSCC---CBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCcCCCCCC---CEEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            58999999988   7888999999 99999964    3689999998854

>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=98.49  E-value=5.3e-08  Score=74.54  Aligned_cols=42  Identities=31%  Similarity=0.597  Sum_probs=37.3

Q ss_pred             CccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|.||++.+.   .+..+||||. ||..|+..|    ..||+||.++..
T Consensus        19 ~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           19 MLCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             TBCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CEeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            58999999988   8899999999 999999876    389999998854

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

Probab=98.49  E-value=3.7e-08  Score=94.34  Aligned_cols=52  Identities=23%  Similarity=0.604  Sum_probs=39.4

Q ss_pred             CCCCccccccccccC-CCce----eeeCCCCccchhhHHHHHhcC-----------CCCcccCCCCCC
Q 016747          230 TDCSECPICLEEFHV-GNEV----RGLPCAHNFHIECIDEWLRLN-----------VKCPRCRCSVFP  281 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~-~~~~----~~lpC~H~Fh~~Ci~~wl~~~-----------~~CP~CR~~v~~  281 (383)
                      +...+|+||++.+.. +.-+    ...+|+|.||..|+.+|++..           .+||+||+++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            345689999999886 2222    224699999999999999732           359999998753

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

Probab=98.33  E-value=3.6e-07  Score=66.08  Aligned_cols=48  Identities=33%  Similarity=0.645  Sum_probs=37.2

Q ss_pred             CCCCccccccccccCCCceeeeCCC--C---ccchhhHHHHHh--cCCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCA--H---NFHIECIDEWLR--LNVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~--H---~Fh~~Ci~~wl~--~~~~CP~CR~~v~  280 (383)
                      ++...|.||+++..   +...+||.  |   .||..|+.+|+.  .+.+||+||..+.
T Consensus         4 ~~~~~CrIC~~~~~---~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELG---NERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS---CCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCC---CceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            34578999999743   34468965  4   899999999997  3678999998763

>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=98.33  E-value=1.4e-07  Score=91.74  Aligned_cols=43  Identities=30%  Similarity=0.646  Sum_probs=38.5

Q ss_pred             CCccccccccccCCCceeeeCCCCc-cchhhHHHHHhcCCCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHN-FHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~-Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +..|+||++.+.   .+..+||||. ||..|+..|    ..||+||.++..
T Consensus       295 ~~~C~IC~~~~~---~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEV---SVVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBC---CEEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCC---ceEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            468999999998   8999999999 999999988    689999998853

>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=98.30  E-value=1.8e-07  Score=73.72  Aligned_cols=47  Identities=28%  Similarity=0.700  Sum_probs=36.7

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhc--------CCCCcc--cCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL--------NVKCPR--CRCS  278 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~--------~~~CP~--CR~~  278 (383)
                      ..+|+||++++..++.....+|||.||..|+..++..        ...||.  |+..
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4689999999874333333479999999999999862        236999  9987

>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=98.29  E-value=2.8e-07  Score=66.88  Aligned_cols=46  Identities=9%  Similarity=-0.007  Sum_probs=41.9

Q ss_pred             CccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   +++.+ +|||.|++.||.+|+.++.+||+++.++..
T Consensus         4 ~~CpIs~~~m~---dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            4 MLCAISGKVPR---RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             CCCTTTCSCCS---SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             EEecCCCCCCC---CCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            67999999999   88888 899999999999999988889999988753

>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=98.20  E-value=5.1e-07  Score=83.73  Aligned_cols=46  Identities=26%  Similarity=0.499  Sum_probs=39.6

Q ss_pred             CCccccccccccCCCceeee-CCCCccchhhHHHHHhcC--CCCcc--cCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLN--VKCPR--CRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~--~~CP~--CR~~v~  280 (383)
                      ...|+||++.|.   .|+.. .|||.||..||..|+..+  .+||+  ||+.+.
T Consensus       181 el~CPIcl~~f~---DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          181 ELTCPITCKPYE---APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             CSBCTTTSSBCS---SEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             eeECcCccCccc---CCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            458999999999   78775 899999999999999854  46999  998764

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.96  E-value=4.5e-06  Score=65.70  Aligned_cols=46  Identities=26%  Similarity=0.440  Sum_probs=38.2

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      .|.+|--.+.  ...+.+||+|+||.+|+..|.+ +.++||.|+++|..
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4888877766  3668899999999999999976 56789999998853

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

Probab=97.31  E-value=0.00012  Score=67.53  Aligned_cols=48  Identities=23%  Similarity=0.625  Sum_probs=38.2

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcC--CCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN--VKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~--~~CP~CR~~v~~  281 (383)
                      ...|.||.+....+..+.  .|+|.||..|+..|++.+  ..||.|+.....
T Consensus       180 i~~C~iC~~iv~~g~~C~--~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCEECS--SSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCcccC--ccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            468999999988554332  399999999999999854  489999987643

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=92.28  E-value=0.063  Score=41.95  Aligned_cols=32  Identities=16%  Similarity=0.401  Sum_probs=24.8

Q ss_pred             CCccccccccccCCCceee--eCCCCccchhhHHHH
Q 016747          232 CSECPICLEEFHVGNEVRG--LPCAHNFHIECIDEW  265 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~--lpC~H~Fh~~Ci~~w  265 (383)
                      +..|.||.+.+..  .+..  +.|+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~~--~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQ--DAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCC--BCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCC--CceEECCcCChHHhHHHCHHH
Confidence            3689999986432  3333  889999999999983

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=90.57  E-value=0.24  Score=35.90  Aligned_cols=47  Identities=23%  Similarity=0.468  Sum_probs=31.8

Q ss_pred             CCCCccccccccccCCCceeeeCCCCccchhhHHHHHhcCC----CCcccCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV----KCPRCRCSV  279 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~----~CP~CR~~v  279 (383)
                      .....|.||.+.   ++-..--.|...||..|+...+....    .||.|+...
T Consensus        10 ~~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           10 APGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            344689999753   22222224888999999988876433    499997654

>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=81.52  E-value=1.2  Score=48.25  Aligned_cols=48  Identities=19%  Similarity=0.107  Sum_probs=42.9

Q ss_pred             CCCccccccccccCCCceeeeCCC-CccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCA-HNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~-H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      +...|+|-.+.|.   +|+.+|.| +.+-..+|.+|+..+.+||.=|.++..
T Consensus       890 ~~F~cPIs~~lM~---DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~  938 (968)
T 3m62_A          890 DEFLDPLMYTIMK---DPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL  938 (968)
T ss_dssp             GGGBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             HHhCCcchhhHHh---CCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc
Confidence            4578999999999   99999998 589999999999999999999988753

>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=81.50  E-value=1.4  Score=33.38  Aligned_cols=31  Identities=23%  Similarity=0.495  Sum_probs=21.7

Q ss_pred             CCCccccccccccCCCceeeeC---CCCccchhhHHHH
Q 016747          231 DCSECPICLEEFHVGNEVRGLP---CAHNFHIECIDEW  265 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lp---C~H~Fh~~Ci~~w  265 (383)
                      .+..|.||-.--.    -..+|   |+-+||..|+++-
T Consensus        14 ~D~~C~VC~~~t~----~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEVWTA----ESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCCCCS----SCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCccccccc----cceeccccccccccHhhcccc
Confidence            4578999963321    22344   7889999999996

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=81.38  E-value=0.34  Score=35.73  Aligned_cols=50  Identities=22%  Similarity=0.477  Sum_probs=31.3

Q ss_pred             CCCCccccccccccCCCceee-eCCCCccchhhHHHHHhc----CCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRG-LPCAHNFHIECIDEWLRL----NVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~-lpC~H~Fh~~Ci~~wl~~----~~~CP~CR~~v~  280 (383)
                      .+...|.+|..... ++.... =.|...||..|+..-...    .-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            34457999987653 222222 137778999998764432    234999986553

---

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	383
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-17
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	7e-15
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-12
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-10
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-07
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	5e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	5e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 72.2 bits (177), Expect = 5e-17
 Identities = 25/50 (50%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

Query: 231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 279
           D  EC +CL E   G E R LP C H FH EC+D WL  +  CP CR +V
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 66.5 bits (162), Expect = 7e-15
 Identities = 21/46 (45%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 279
            CPICLE+    N    LPC H F   CI  W+R N  CP C+  V
Sbjct: 7   RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 62.3 bits (151), Expect = 3e-13
 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 4/53 (7%)

Query: 228 VPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV-KCPRCRCSV 279
           + +    C IC E      +V+  PC H     C+  W       CP CRC +
Sbjct: 19  MGSTFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 58.7 bits (142), Expect = 3e-12
 Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 6/55 (10%)

Query: 234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSAL 288
            C  C  E       + LPC H     C++      ++CP C+       D  AL
Sbjct: 8   RCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGADTPAL 56

>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 = 58.6 bits (141), Expect = 1e-11
 Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 8/74 (10%)

Query: 230 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWL--------RLNVKCPRCRCSVFP 281
           +  S C +CL E+ V        C   F   C+ +++           + CP   C    
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Query: 282 NLDLSALSNLRTAD 295
           +L  + +  +  A+
Sbjct: 63  HLQENEIECMVAAE 76

>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 = 55.5 bits (133), Expect = 5e-11
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 2/51 (3%)

Query: 234 ECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN 282
           ECP+C+E   + +       C +     C        N  CP CR     +
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.1 bits (132), Expect = 1e-10
 Identities = 14/61 (22%), Positives = 15/61 (24%), Gaps = 15/61 (24%)

Query: 231 DCSECPICLEEFH---------------VGNEVRGLPCAHNFHIECIDEWLRLNVKCPRC 275
               C IC                        V    C H FH  CI  WL+    CP  
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 276 R 276
            
Sbjct: 80  N 80

>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 = 53.6 bits (128), Expect = 2e-10
 Identities = 10/53 (18%), Positives = 17/53 (32%), Gaps = 3/53 (5%)

Query: 233 SECPICLEEFHVGNEVRGL--PCAHNFHIECIDEWLRLN-VKCPRCRCSVFPN 282
             CP C    +    ++ +   C H     C+D         CP C   +  +
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS 56

>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 = 54.7 bits (131), Expect = 3e-10
 Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 15/81 (18%)

Query: 205 LTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDE 264
           L+A + E V+ +I  + K           ECPICLE      E     C H F   C+ +
Sbjct: 3   LSALRVEEVQNVINAMQKIL---------ECPICLELI---KEPVSTKCDHIFCKFCMLK 50

Query: 265 WL---RLNVKCPRCRCSVFPN 282
            L   +   +CP C+  +   
Sbjct: 51  LLNQKKGPSQCPLCKNDITKR 71

>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 = 49.6 bits (117), Expect = 2e-08
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 21/80 (26%)

Query: 218 QELPKFRLKAVPTDCSE-CPICLEEFHVGNE---------------VRGLPCAHNFHIEC 261
           +++ +   + +     E C IC+E+  V +                 R   C+H FH+ C
Sbjct: 10  EQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLC 69

Query: 262 IDEWLR-----LNVKCPRCR 276
           +           +++CP C+
Sbjct: 70  LLAMYCNGNKDGSLQCPSCK 89

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 47.9 bits (113), Expect = 3e-08
 Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 4/50 (8%)

Query: 231 DCSECPICLEEFHVGNEV--RGLPCAHNFHIECIDEWLRLN--VKCPRCR 276
           D   C IC EE                N H  C+  WL ++    C  C 
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.4 bits (115), Expect = 3e-08
 Identities = 15/49 (30%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN 282
           C IC        +     C H F   CI   L++    CP CR   FP 
Sbjct: 26  CQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>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 = 45.9 bits (108), Expect = 3e-07
 Identities = 14/78 (17%), Positives = 22/78 (28%), Gaps = 17/78 (21%)

Query: 205 LTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDE 264
             A  R A++ L + L              C  C         +    C H F   C+ +
Sbjct: 8   AWAHSRAALDRLEKLL-------------RCSRCTNILREPVCL--GGCEHIFCSNCVSD 52

Query: 265 WLRLNVKCPRCRCSVFPN 282
              +   CP C    +  
Sbjct: 53  C--IGTGCPVCYTPAWIQ 68

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 42.0 bits (98), Expect = 5e-06
 Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 3/60 (5%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRTA 294
           CPI LE      +   +     +    I +WL    K          +  L+    L++ 
Sbjct: 11  CPISLELMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSL 67

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.9 bits (82), Expect = 5e-04
 Identities = 5/42 (11%), Positives = 12/42 (28%), Gaps = 2/42 (4%)

Query: 235 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 276
           C I  +       V        F    ++++++     P   
Sbjct: 3   CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITN 42

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	383
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.54
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.36
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.26
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.24
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.23
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.22
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.16
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.15
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.14
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.09
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.98
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.97
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.94
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.87
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.66
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.28
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	86.32
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	85.92

>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=99.54  E-value=1.6e-15  Score=106.93  Aligned_cols=50  Identities=50%  Similarity=1.096  Sum_probs=45.3

Q ss_pred             CCCccccccccccCCCceeeeC-CCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ++.+|+||++++..++.+..++ |+|.||..|+.+|++.+.+||+||.++.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4468999999999888888875 9999999999999999999999998874

>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=99.36  E-value=1.5e-13  Score=100.99  Aligned_cols=47  Identities=45%  Similarity=0.997  Sum_probs=41.5

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      .++|+||++.+.  +..+.+||||.||..|+.+|++.+.+||+||.++.
T Consensus         5 ~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            468999999987  34566899999999999999999999999998874

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=8.5e-13  Score=99.74  Aligned_cols=47  Identities=32%  Similarity=0.796  Sum_probs=42.1

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFPN  282 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~~  282 (383)
                      ..|+||++.+.   .++.+||||.||..||..|+. ++++||+||..+...
T Consensus        24 ~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          24 QLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TBCTTTSSSBC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCccCCCcCC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            57999999998   889999999999999999997 557899999999654

>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=99.26  E-value=6.5e-13  Score=92.20  Aligned_cols=48  Identities=25%  Similarity=0.510  Sum_probs=39.9

Q ss_pred             ccccccccccCCCc-eeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCC
Q 016747          234 ECPICLEEFHVGNE-VRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFP  281 (383)
Q Consensus       234 ~C~IC~~~~~~~~~-~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~  281 (383)
                      +|+||++++..++. +..++|||.||..|+++|++. +.+||+||+++..
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            79999999976544 455689999999999999985 4579999998754

>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=99.24  E-value=2.5e-12  Score=99.15  Aligned_cols=49  Identities=29%  Similarity=0.550  Sum_probs=41.0

Q ss_pred             CCccccccccccCCC---------------ceeeeCCCCccchhhHHHHHhcCCCCcccCCCCC
Q 016747          232 CSECPICLEEFHVGN---------------EVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVF  280 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~---------------~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~  280 (383)
                      ++.|+||++.+....               .+..++|||.||..||.+||+.+.+||+||++..
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            457999998886432               2567889999999999999999999999998763

>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=99.23  E-value=1.2e-12  Score=92.10  Aligned_cols=48  Identities=25%  Similarity=0.559  Sum_probs=41.0

Q ss_pred             CCccccccccccCCCceeeeCCCCccchhhHHHHHhcCCCCcccCCCCCCCCcc
Q 016747          232 CSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDL  285 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~~~~  285 (383)
                      ..+|+||++.+.   +++.+||||.||..|+++|   +.+||+||+++....+.
T Consensus         6 ~l~C~IC~~~~~---~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~~   53 (56)
T d1bora_           6 FLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGADT   53 (56)
T ss_dssp             CSSCSSSCSSCB---CCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSSC
T ss_pred             CCCCcccCcccC---CCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCCC
Confidence            368999999998   7889999999999999765   56799999999766443

>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=99.22  E-value=3.9e-12  Score=92.40  Aligned_cols=51  Identities=20%  Similarity=0.417  Sum_probs=40.1

Q ss_pred             CCccccccccccCCC--ceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCCC
Q 016747          232 CSECPICLEEFHVGN--EVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN  282 (383)
Q Consensus       232 ~~~C~IC~~~~~~~~--~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~~  282 (383)
                      +..|+||++.+..+.  ....++|||.||..||.+|+.. +.+||+||+++..+
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            478999999864322  3455689999999999999964 55799999988543

>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=99.16  E-value=1.6e-11  Score=99.02  Aligned_cols=50  Identities=28%  Similarity=0.608  Sum_probs=39.2

Q ss_pred             CCccccccccccCC---------------CceeeeCCCCccchhhHHHHHhcC-----CCCcccCCCCCC
Q 016747          232 CSECPICLEEFHVG---------------NEVRGLPCAHNFHIECIDEWLRLN-----VKCPRCRCSVFP  281 (383)
Q Consensus       232 ~~~C~IC~~~~~~~---------------~~~~~lpC~H~Fh~~Ci~~wl~~~-----~~CP~CR~~v~~  281 (383)
                      +..|+||++.+...               .....++|||.||..||..|+..+     .+||+||+.+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            35799999998532               234567899999999999999843     479999987743

>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=99.15  E-value=3.1e-12  Score=97.91  Aligned_cols=46  Identities=33%  Similarity=0.728  Sum_probs=41.4

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   +++.++|||.||..||.+|++ ++.+||.||.++.+
T Consensus        24 l~C~IC~~~~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          24 ISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             TBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCccCCcchh---cceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            68999999998   899999999999999999997 55689999988754

>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=99.14  E-value=6.3e-12  Score=88.47  Aligned_cols=46  Identities=11%  Similarity=0.069  Sum_probs=41.6

Q ss_pred             ccccccccccCCCceeeeC-CCCccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          234 ECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lp-C~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      .|+||++.++   +++.++ |||.||.+||.+|++++.+||+||+++..+
T Consensus         2 ~C~Ic~~~~~---~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPR---RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCS---SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHH---hcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            6999999998   888886 999999999999999999999999987543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.09  E-value=4.8e-11  Score=94.45  Aligned_cols=46  Identities=35%  Similarity=0.721  Sum_probs=40.6

Q ss_pred             CccccccccccCCCceeeeCCCCccchhhHHHHHhcC---CCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLN---VKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~---~~CP~CR~~v~~  281 (383)
                      ..|+||++.+.   +++.++|||.||..||..|+..+   ..||.||.++..
T Consensus        22 l~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          22 LECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             TSCSSSCCCCS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCccCchhC---CeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            68999999998   78889999999999999999754   369999998854

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.98  E-value=1.8e-10  Score=86.75  Aligned_cols=48  Identities=21%  Similarity=0.188  Sum_probs=42.5

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHh-cCCCCcccCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR-LNVKCPRCRCSVFP  281 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~-~~~~CP~CR~~v~~  281 (383)
                      ++..|+||++.|.   +|+.++|||.||..||.+|+. .+.+||.||.++..
T Consensus         6 ~~l~CpIc~~l~~---dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           6 DYLCGKISFELMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             STTBCTTTCSBCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccccCcCcCchhh---hhcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            4589999999999   889999999999999999997 45679999988753

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=2.4e-10  Score=89.32  Aligned_cols=44  Identities=25%  Similarity=0.635  Sum_probs=37.7

Q ss_pred             CccccccccccCCCceeee-CCCCccchhhHHHHHhcCCCCcccCCCCCC
Q 016747          233 SECPICLEEFHVGNEVRGL-PCAHNFHIECIDEWLRLNVKCPRCRCSVFP  281 (383)
Q Consensus       233 ~~C~IC~~~~~~~~~~~~l-pC~H~Fh~~Ci~~wl~~~~~CP~CR~~v~~  281 (383)
                      ..|+||++.|.   .++.+ +|||.||..||.+|+.  ..||.||.++..
T Consensus        23 l~C~IC~~~~~---~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCS---SCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCccCCchhh---cCceeCCCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            68999999998   66665 7999999999999985  469999987754

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.94  E-value=3.8e-10  Score=84.54  Aligned_cols=49  Identities=20%  Similarity=0.534  Sum_probs=43.2

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-CCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-NVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-~~~CP~CR~~v~~~  282 (383)
                      ++..|+||++.|.   +++.++|||.||..||..|+.. ..+||.|+.++...
T Consensus         7 ~~l~CpIc~~~m~---dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhh---CceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            4589999999999   8899999999999999999985 46799999987543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.87  E-value=5.4e-10  Score=79.40  Aligned_cols=48  Identities=33%  Similarity=0.646  Sum_probs=37.6

Q ss_pred             CCCCccccccccccCCCceeeeCC-----CCccchhhHHHHHh--cCCCCcccCCCCC
Q 016747          230 TDCSECPICLEEFHVGNEVRGLPC-----AHNFHIECIDEWLR--LNVKCPRCRCSVF  280 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lpC-----~H~Fh~~Ci~~wl~--~~~~CP~CR~~v~  280 (383)
                      ++...|.||++.+.   .....||     +|.||..||.+|+.  .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~---~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELG---NERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS---CCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCC---CceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45578999999886   3344454     59999999999986  5568999998764

>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=98.66  E-value=7.6e-09  Score=80.73  Aligned_cols=49  Identities=18%  Similarity=0.097  Sum_probs=43.6

Q ss_pred             CCCccccccccccCCCceeeeCCCC-ccchhhHHHHHhcCCCCcccCCCCCCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAH-NFHIECIDEWLRLNVKCPRCRCSVFPN  282 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H-~Fh~~Ci~~wl~~~~~CP~CR~~v~~~  282 (383)
                      ++..|+||.+.|.   +|+.++|+| .||..||..|+..+.+||.||+++...
T Consensus        21 ~~f~CPI~~~lm~---dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMC---DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHH---HHHhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            3589999999999   999999765 799999999999999999999988643

>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=98.28  E-value=1.3e-07  Score=72.64  Aligned_cols=47  Identities=28%  Similarity=0.706  Sum_probs=36.7

Q ss_pred             CCCccccccccccCCCceeeeCCCCccchhhHHHHHhc-----C---CCCcccCC
Q 016747          231 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL-----N---VKCPRCRC  277 (383)
Q Consensus       231 ~~~~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~-----~---~~CP~CR~  277 (383)
                      ...+|+||++++...+.+..++|+|.||.+|+..|+..     .   -+||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            34689999999875555666689999999999999861     1   25998754

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.32  E-value=0.21  Score=35.77  Aligned_cols=32  Identities=25%  Similarity=0.656  Sum_probs=23.6

Q ss_pred             CCCCccccccccccCCCceeeeC---CCCccchhhHHHH
Q 016747          230 TDCSECPICLEEFHVGNEVRGLP---CAHNFHIECIDEW  265 (383)
Q Consensus       230 ~~~~~C~IC~~~~~~~~~~~~lp---C~H~Fh~~Ci~~w  265 (383)
                      ..+..|.|| +.+.   .-.++|   |+-+||..|+++-
T Consensus        13 ~~D~mC~vC-~v~t---~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWT---AESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCC---SSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Cccc---ccceecceeecchhhHHHHHHh
Confidence            345789999 6666   333456   6789999999987

>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=85.92  E-value=0.16  Score=32.88  Aligned_cols=44  Identities=23%  Similarity=0.527  Sum_probs=27.9

Q ss_pred             ccccccccccCCCceeeeCCCCccchhhHHHHHhcCC----CCcccCC
Q 016747          234 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV----KCPRCRC  277 (383)
Q Consensus       234 ~C~IC~~~~~~~~~~~~lpC~H~Fh~~Ci~~wl~~~~----~CP~CR~  277 (383)
                      .|.||...-..+.-+.--.|...||..|+..-+....    .||.||.
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            5888876543222121123888999999988765332    3999974