Citrus Sinensis ID: 023376

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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---
Protein Sequence
MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSPHARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKSV
Secondary Structure (PSIPRED)
ccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHcccccccccccHHHHHHHHHHHHHHHHHcccccccccHHHHHccccEEEcccccccccccccccccccccccccccccEEEEcccccccccccHHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccEccccccccccccccccccccccEEEEcccccccccccccccccccccccHccccHHHHHHHHHHcccccccccHHHHHHccEEEEEEEEEccccccccccccccEEHHHccccccEEEccccccccHHHHHHHHHHccccccccccccccccccc
Coil and Loop (DISEMBL)
MTSASELFYTrrsrvgradqdlgldsftserglhnrrhhhnhnhrhdldgcdplrrspharhlshrpspserasvwldqgtsqhvssnpmnsevsrgtsspswngnerlpGTVLLARARLLERLRgvslsengrsgrglssnnqrgnifgdelrlvdagdwaaetsagwsavsspfselMTSQTERLQLVQQkrkkppgltqeALDCLHVEIFNSfaissegeasktsldcsiclesftdgdeliclpckhrfhsdcldpwvrscgdcpycrrnivvnsdksv
Flexible Loop (DISEMBL)
mtsaselfytrrsrvgradqdlglDSFTSERGLhnrrhhhnhnhrhdldgcdPLRRSPHArhlshrpspserASVWLDQGTSqhvssnpmnsevsrgtsspswngnerlPGTVLLARARLLERLrgvslsengrsgrglssnnqrgniFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVrscgdcpycrrnivvnsdksv
Low Complexity Region (SEG)
MTSASELFYTRRSRVGRADQDLGLDSFTSERGLhnrrhhhnhnhrhDLDGCDPLRRSPHARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVllararllerlrGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKSV
Disordered region (IsUnstruct)
**************************************************************************************************************GTVLLARARLLERL***********************IFGDELRLVDAGDWAAETSAGWS********************************EALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV******
Disordered Region (DISOPRED)
********Y***********************************************************************************************************************************************LRLVDAGDWA**T**GW***********************************LDCLHVEIFN************TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR**********
Disordered Region (DISEMBL)
MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSP****************VWLD************************WNGNERLPGTVLLARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQL**********LTQEALDCLHVEIFNSFAISS********LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKSV
Disordered Region (DISPRO)
************SRVG******************************DLDGCDPLRRSPHARHL*******************************************ERLPGTVLLARARLLERLRGVSLSENGRSGR***SNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSPHARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKSV
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	283	2.2.26 [Sep-21-2011]
Q641J8	622	E3 ubiquitin-protein liga	N/A	no	0.272	0.123	0.383	5e-12
Q5SSZ7	913	E3 ubiquitin-protein liga	yes	no	0.272	0.084	0.411	5e-12
Q4KLR8	784	E3 ubiquitin-protein liga	N/A	no	0.293	0.105	0.354	7e-12
Q9C1X4	513	Uncharacterized RING fing	yes	no	0.487	0.269	0.313	7e-12
Q9NVW2	624	E3 ubiquitin-protein liga	yes	no	0.272	0.123	0.360	1e-11
Q07G42	639	E3 ubiquitin-protein liga	yes	no	0.272	0.120	0.372	2e-11
Q9WTV7	600	E3 ubiquitin-protein liga	no	no	0.272	0.128	0.360	2e-11
Q7T037	757	E3 ubiquitin-protein liga	N/A	no	0.257	0.096	0.378	6e-11
A5WWA0	868	E3 ubiquitin-protein liga	no	no	0.162	0.052	0.543	6e-11
Q9ULT6	936	E3 ubiquitin-protein liga	no	no	0.162	0.049	0.543	6e-11

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

 Score = 72.0 bits (175), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 33/86 (38%), Positives = 50/86 (58%), Gaps = 9/86 (10%)

Query: 196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
           +P GLT+E +D L    F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct: 542 QPRGLTKEQIDNLSTRNF------GENDALKT---CSVCITEYTEGNKLRKLPCSHEYHI 592

Query: 256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
            C+D W+     CP CRR ++V S++
Sbjct: 593 HCIDRWLSENSTCPICRRAVLVASNR 618

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: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q5SSZ7|ZNRF3_MOUSE E3 ubiquitin-protein ligase ZNRF3 OS=Mus musculus GN=Znrf3 PE=2 SV=1

 Score = 71.6 bits (174), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 35/85 (41%), Positives = 50/85 (58%), Gaps = 8/85 (9%)

Query: 200 LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLESFTDGDELICLPCKH 251
           L  +AL+ +    FNS +    EG        +S ++ DC+ICLE + DG+EL  +PC H
Sbjct: 251 LAVQALEKMETRKFNSKSKGRREGSCGALDTLSSGSTSDCAICLEKYIDGEELRVIPCTH 310

Query: 252 RFHSDCLDPWVRSCGDCPYCRRNIV 276
           RFH  C+DPW+     CP+CR NI+
Sbjct: 311 RFHRKCVDPWLLQHHTCPHCRHNII 335

Mus musculus (taxid: 10090)

>sp|Q4KLR8|ZNRF3_XENLA E3 ubiquitin-protein ligase ZNRF3 OS=Xenopus laevis GN=znrf3 PE=2 SV=1

 Score = 71.2 bits (173), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 33/93 (35%), Positives = 51/93 (54%), Gaps = 10/93 (10%)

Query: 184 TERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDE 243
            + L+ ++ ++ K  G       C  ++  +S +IS          DC+ICLE + DG+E
Sbjct: 165 VQALEKMETRKFKAKGKVSREGSCGGLDTLSSSSIS----------DCAICLEKYIDGEE 214

Query: 244 LICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           L  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct: 215 LRVIPCTHRFHKRCVDPWLLQNHTCPHCRHNII 247

E3 ubiquitin-protein ligase that acts as a negative regulator of the Wnt signaling pathway by mediating the ubiquitination and subsequent degradation of Wnt receptor complex components.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 71.2 bits (173), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 52/166 (31%), Positives = 77/166 (46%), Gaps = 28/166 (16%)

Query: 120 LLERLRGVSLSENG-RSGRGLSSNNQRGNIFGDELRLV-DAGDWAAETSAGWSA--VSSP 175
           +LER+ G SL++ G + G G   N    N+F +   L  + GD+A      W A  +   
Sbjct: 305 ILERIFG-SLNQPGAQQGEGEPFN--PANMFSNIFNLSGNPGDYA------WGARGLDDI 355

Query: 176 FSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICL 235
            S+LM           Q    P    ++ +  + V+      I  EGE       C+IC+
Sbjct: 356 ISQLMEQA--------QGHNAPAPAPEDVIAKMKVQKPPKELIDEEGE-------CTICM 400

Query: 236 ESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDK 281
           E F   D++I LPCKH FH +C+ PW+R  G C  CR  +  NS +
Sbjct: 401 EMFKINDDVIQLPCKHYFHENCIKPWLRVNGTCAICRAPVDPNSQQ 446

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

>sp|Q9NVW2|RNF12_HUMAN E3 ubiquitin-protein ligase RLIM OS=Homo sapiens GN=RLIM PE=1 SV=3

 Score = 70.9 bits (172), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 50/86 (58%), Gaps = 9/86 (10%)

Query: 196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
           +P GLT+E +D L +  F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct: 544 QPRGLTKEQIDNLAMRSF------GENDALKT---CSVCITEYTEGNKLRKLPCSHEYHV 594

Query: 256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
            C+D W+     CP CRR ++ + ++
Sbjct: 595 HCIDRWLSENSTCPICRRAVLASGNR 620

E3 ubiquitin-protein ligase. Acts as a negative coregulator for LIM homeodomain transcription factors by mediating the ubiquitination and subsequent degradation of LIM cofactors LDB1 and LDB2 and by mediating the recruitment the SIN3a/histone deacetylase corepressor complex. Ubiquitination and degradation of LIM cofactors LDB1 and LDB2 allows DNA-bound LIM homeodomain transcription factors to interact with other protein partners such as RLIM. Plays a role in telomere length-mediated growth suppression by mediating the ubiquitination and degradation of TERF1. Acts as an activator of random inactivation of X chromosome in the embryo, a stochastic process in which one X chromosome is inactivated to minimize sex-related dosage differences of X-encoded genes in somatic cells of female placental mammals.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q07G42|RNF12_XENTR E3 ubiquitin-protein ligase RNF12 OS=Xenopus tropicalis GN=rnf12 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 49/86 (56%), Gaps = 9/86 (10%)

Query: 196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
           +P GLT+E +D L    F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct: 559 QPRGLTKEQIDNLSTRNFG------ENDALKT---CSVCITEYTEGNKLRKLPCSHEYHV 609

Query: 256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
            C+D W+     CP CRR ++V  ++
Sbjct: 610 HCIDRWLSENSTCPICRRAVLVAGNR 635

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 tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9WTV7|RNF12_MOUSE E3 ubiquitin-protein ligase RLIM OS=Mus musculus GN=Rlim PE=1 SV=2

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 50/86 (58%), Gaps = 9/86 (10%)

Query: 196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
           +P GLT+E +D L +  F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct: 520 QPRGLTKEQIDNLAMRSFG------ENDALKT---CSVCITEYTEGNKLRKLPCSHEYHV 570

Query: 256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
            C+D W+     CP CRR ++ + ++
Sbjct: 571 HCIDRWLSENSTCPICRRAVLSSGNR 596

E3 ubiquitin-protein ligase. Acts as a negative coregulator for LIM homeodomain transcription factors by mediating the ubiquitination and subsequent degradation of LIM cofactors LDB1 and LDB2 and by mediating the recruitment the SIN3a/histone deacetylase corepressor complex. Ubiquitination and degradation of LIM cofactors LDB1 and LDB2 allows DNA-bound LIM homeodomain transcription factors to interact with other protein partners such as RLIM. Plays a role in telomere length-mediated growth suppression by mediating the ubiquitination and degradation of TERF1. Acts as an activator of random inactivation of X chromosome in the embryo, a stochastic process in which one X chromosome is inactivated to minimize sex-related dosage differences of X-encoded genes in somatic cells of female placental mammals.

Mus musculus (taxid: 10090)

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 = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 9/82 (10%)

Query: 196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
           +P GLT+E +D L    +       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct: 677 QPRGLTKEQIDNLSTRNYG------ENDALKT---CSVCITEYTEGNKLRKLPCSHEYHI 727

Query: 256 DCLDPWVRSCGDCPYCRRNIVV 277
            C+D W+     CP CRR ++V
Sbjct: 728 HCIDRWLSENSTCPICRRAVLV 749

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|A5WWA0|ZNRF3_DANRE E3 ubiquitin-protein ligase ZNRF3 OS=Danio rerio GN=znrf3 PE=3 SV=2

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 33/46 (71%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           C+ICLE + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct: 267 CAICLEKYIDGEELRVIPCAHRFHKKCVDPWLLQHHTCPHCRHNII 312

E3 ubiquitin-protein ligase that acts as a negative regulator of the Wnt signaling pathway by mediating the ubiquitination and subsequent degradation of Wnt receptor complex components.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9ULT6|ZNRF3_HUMAN E3 ubiquitin-protein ligase ZNRF3 OS=Homo sapiens GN=ZNRF3 PE=1 SV=3

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 33/46 (71%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           C+ICLE + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct: 293 CAICLEKYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNII 338

Homo sapiens (taxid: 9606)

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	283
255573109	282	conserved hypothetical protein [Ricinus	0.985	0.989	0.589	5e-77
224105679	233	predicted protein [Populus trichocarpa]	0.809	0.982	0.517	5e-63
225428928	278	PREDICTED: uncharacterized protein LOC10	0.964	0.982	0.485	4e-58
147810867	688	hypothetical protein VITISV_034287 [Viti	0.957	0.393	0.453	3e-52
449520120	258	PREDICTED: uncharacterized protein LOC10	0.886	0.972	0.456	5e-50
449438341	258	PREDICTED: uncharacterized protein LOC10	0.886	0.972	0.456	5e-50
351726136	246	RING-H2 finger protein [Glycine max] gi|	0.855	0.983	0.466	2e-48
297852682	248	ring-H2 finger protein RHY1a [Arabidopsi	0.851	0.971	0.462	2e-46
217071222	251	unknown [Medicago truncatula] gi|3884975	0.876	0.988	0.444	8e-45
21592374	250	RING-H2 finger protein RHY1a [Arabidopsi	0.862	0.976	0.460	2e-44

>gi|255573109|ref|XP_002527484.1| conserved hypothetical protein [Ricinus communis] gi|223533124|gb|EEF34882.1| conserved hypothetical protein [Ricinus communis]

 Score =  293 bits (750), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 168/285 (58%), Positives = 198/285 (69%), Gaps = 6/285 (2%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLD-SFTSERGLHNRRHHHNHNHRHDLDGCDPLRRS-P 58
           MTSASELFY RRSRVGRAD +L  D +F       +  HH + + RHDLDGCDP RRS P
Sbjct: 1   MTSASELFYQRRSRVGRADLELESDRNFHFNYTRRHPHHHTHTHSRHDLDGCDPSRRSSP 60

Query: 59  HARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLARA 118
           H RH     S S+RASV LDQ TSQ    N +N+E    TS P   GN+RLPG VLLARA
Sbjct: 61  HFRH--RLSSHSDRASVRLDQATSQLAPGNSINTETLSSTSRPRMTGNDRLPGAVLLARA 118

Query: 119 RLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSE 178
           RLLERLRGVSLS N RS R       R   FGD+LR+VD GDW  + + G S+  + F+E
Sbjct: 119 RLLERLRGVSLSGNRRSSRASFGIYDREFTFGDDLRIVDTGDWRTDIAPGRSSRGTSFTE 178

Query: 179 LMTSQTERLQLVQQK-RKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLES 237
            + + TERLQL ++  +KKPPGLT E L+CL +EIF+S+    EG  S+ S DCSICLES
Sbjct: 179 SIYT-TERLQLAEESYKKKPPGLTPEDLECLQLEIFSSWEKGVEGIVSQASWDCSICLES 237

Query: 238 FTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKS 282
           F DGD+LICLPC HRFHS CLDPWVR+CGDCPYCRR+I V+S  S
Sbjct: 238 FKDGDKLICLPCNHRFHSSCLDPWVRTCGDCPYCRRDIAVSSRSS 282

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224105679|ref|XP_002313898.1| predicted protein [Populus trichocarpa] gi|222850306|gb|EEE87853.1| predicted protein [Populus trichocarpa]

 Score =  247 bits (630), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 147/284 (51%), Positives = 173/284 (60%), Gaps = 55/284 (19%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRH---DLDGCDPLRRS 57
           MTSASELFY RRSRV RA+ DLGL+   S+R  +   +  +HN+ +   DLDGCDPLRRS
Sbjct: 1   MTSASELFYQRRSRVSRANTDLGLEPSVSDRIFYQNYNRRHHNNHNHRHDLDGCDPLRRS 60

Query: 58  PHARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLAR 117
           PH RH   R   SERAS  LDQGTSQ V SN  ++E    TS P    N+RLPG V+LAR
Sbjct: 61  PHVRHPCQR-FLSERASSRLDQGTSQFVPSNNNSTETLSSTSRPRVTVNDRLPGAVVLAR 119

Query: 118 ARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFS 177
           ARLLERLRGVSLS N                                             
Sbjct: 120 ARLLERLRGVSLSGN--------------------------------------------- 134

Query: 178 ELMTSQTERLQLVQQK-RKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLE 236
                + +RL  VQ+  +KKPPGLTQ+AL CL  E+F+S     EG  S+ S DCSICLE
Sbjct: 135 -----RQKRLHTVQESHKKKPPGLTQDALHCLQSEVFSSVEKGIEGGVSQVSWDCSICLE 189

Query: 237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
           SFT+GDELI LPC+HRFHS CLDPWVR+CGDCPYCRR++VV +D
Sbjct: 190 SFTEGDELIRLPCEHRFHSACLDPWVRTCGDCPYCRRDVVVTND 233

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428928|ref|XP_002262757.1| PREDICTED: uncharacterized protein LOC100249808 [Vitis vinifera] gi|296083083|emb|CBI22487.3| unnamed protein product [Vitis vinifera]

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 138/284 (48%), Positives = 176/284 (61%), Gaps = 11/284 (3%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSF--TSERGLHNRRHHHNHNHRHDLDGCDPLRRSP 58
           MTSASELF +RRSR+GRA      +      +R  H   +   H+HRHD DGCDPLRR+ 
Sbjct: 1   MTSASELF-SRRSRLGRAAPPADFEGLELPDDRSFHYISNRRRHHHRHDPDGCDPLRRAQ 59

Query: 59  HARHLSHRPSPSERASVWLDQGTSQHVSS--NPMNSEVSRGTS-SPSWNGNERLPGTVLL 115
           H RH+SHR    +R  V LDQ T Q  SS  N +++++  G S    + G++RLPG VLL
Sbjct: 60  HFRHISHRVYRPDREPVRLDQATRQPSSSGINSVSADILSGISHRQRFTGSDRLPGAVLL 119

Query: 116 ARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSP 175
           AR RLL RLRGV LS N R  R     +     FGD+ RL+D GDW    S GW    +P
Sbjct: 120 ARERLLARLRGVPLSGNRRISRPSLDFHLDDFTFGDDFRLIDVGDW----STGWLTGGTP 175

Query: 176 FSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICL 235
            S+L +       + +  +KKPPGLTQEALD LH  +F+    + EG   + S DCSICL
Sbjct: 176 SSDLNSETMLPPLMREPSKKKPPGLTQEALDSLHRAVFSRAEGAEEG-MPRASRDCSICL 234

Query: 236 ESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS 279
           + + +GD+L CLPC H+FHS CLDPWVR+CGDCPYCR  I ++S
Sbjct: 235 DGYREGDKLTCLPCGHKFHSACLDPWVRTCGDCPYCRSVIDISS 278

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147810867|emb|CAN60716.1| hypothetical protein VITISV_034287 [Vitis vinifera]

 Score =  211 bits (537), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 138/304 (45%), Positives = 176/304 (57%), Gaps = 33/304 (10%)

Query: 1   MTSASELFYTRRSRVGRA--DQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSP 58
           MTSASELF +RRSR+GRA    D        +   H   +   H+HRHD DGCDPLRR+ 
Sbjct: 1   MTSASELF-SRRSRLGRAAPPADFEGLELPDDXSFHYISNRRRHHHRHDPDGCDPLRRAQ 59

Query: 59  HARHLSHRPS--PS------------------ERASVWLDQGTSQHVSS--NPMNSEVSR 96
           H +  +H PS  PS                  +R  V LDQ T Q  SS  N +++++  
Sbjct: 60  HFQ--AHLPSRVPSAITSSVFDMKCVNQTIDPDREPVRLDQATRQPSSSGINSVSADILS 117

Query: 97  GTS-SPSWNGNERLPGTVLLARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRL 155
           G S    + G++RLPG VLLAR RLL RLRGV LS N R  R     +     FGD+ RL
Sbjct: 118 GISHRQRFTGSDRLPGAVLLARERLLARLRGVPLSGNRRISRPSLDFHLDDFTFGDDFRL 177

Query: 156 VDAGDWAAETSAGWSAVSSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNS 215
           +D GDW    S GW    +P S+L +       + +  +KKPPGLTQEALD LH  +F+ 
Sbjct: 178 IDVGDW----STGWLTGGTPSSDLNSETMLPPLMREPSKKKPPGLTQEALDSLHRAVFSR 233

Query: 216 FAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
              + EG   + S DCSICL+ + +GD+L CLPC H+FHS CLDPWVR+CGDCPYCR  I
Sbjct: 234 AEGAEEG-MPRASRDCSICLDGYREGDKLTCLPCGHKFHSACLDPWVRTCGDCPYCRSVI 292

Query: 276 VVNS 279
            ++S
Sbjct: 293 DISS 296

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520120|ref|XP_004167082.1| PREDICTED: uncharacterized protein LOC101226549 [Cucumis sativus]

 Score =  204 bits (518), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 130/285 (45%), Positives = 167/285 (58%), Gaps = 34/285 (11%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGL-HNRRHH-HNHNHRHDLDGCDPLRRSP 58
           MTSASELFY RR R GR D DLGLDS   +R L + RRHH HN NHR DL+ C   RRS 
Sbjct: 1   MTSASELFYCRRYRFGRTDSDLGLDSEPPDRHLQYQRRHHGHNGNHRRDLNSCGDFRRSS 60

Query: 59  -HARHLSHR---PSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVL 114
              R  S R   P   +R+    D  TS   S N +N        S   +G+ RLPG+VL
Sbjct: 61  VQERRQSPRFFNPLSVDRSPAQSDSATSV-ASRNNINGNTQNSLRS-GLSGDSRLPGSVL 118

Query: 115 LARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSS 174
           LAR RLLERLRG S S   R+                   LV+A +   ET+   S    
Sbjct: 119 LARERLLERLRGAS-SPTTRNA------------------LVEASNGNPETTTSRS---- 155

Query: 175 PFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIF-NSFAISSEGEASKTSLDCSI 233
               +     +R++LV    K+PPGL+Q+A++ L +E+F N+  I ++G  + TS DCSI
Sbjct: 156 --QRISLVDADRMRLVAVPSKRPPGLSQDAINRLQLEVFINTDHIINDGVMTITSTDCSI 213

Query: 234 CLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN 278
           CLESFTDGD+LI LPC+H+FH  CLD W+R+CG+CPYCR++I +N
Sbjct: 214 CLESFTDGDKLIHLPCEHKFHHPCLDRWIRTCGECPYCRQHIAIN 258

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438341|ref|XP_004136947.1| PREDICTED: uncharacterized protein LOC101217568 [Cucumis sativus]

 Score =  204 bits (518), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 130/285 (45%), Positives = 167/285 (58%), Gaps = 34/285 (11%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGL-HNRRHH-HNHNHRHDLDGCDPLRRSP 58
           MTSASELFY RR R GR D DLGLDS   +R L + RRHH HN NHR DL+ C   RRS 
Sbjct: 1   MTSASELFYCRRYRFGRTDSDLGLDSEPPDRHLQYQRRHHGHNGNHRRDLNSCGDFRRSS 60

Query: 59  -HARHLSHR---PSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVL 114
              R  S R   P   +R+    D  TS   S N +N        S   +G+ RLPG+VL
Sbjct: 61  LQERRQSPRFFNPLSVDRSPAQSDSATSV-ASRNNINGNTQNSLRS-GLSGDSRLPGSVL 118

Query: 115 LARARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSS 174
           LAR RLLERLRG S S   R+                   LV+A +   ET+   S    
Sbjct: 119 LARERLLERLRGAS-SPTTRNA------------------LVEASNGNPETTTSRS---- 155

Query: 175 PFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIF-NSFAISSEGEASKTSLDCSI 233
               +     +R++LV    K+PPGL+Q+A++ L +E+F N+  I ++G  + TS DCSI
Sbjct: 156 --QRISLVDADRMRLVAVPSKRPPGLSQDAINRLQLEVFINTDHIINDGVMTITSTDCSI 213

Query: 234 CLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN 278
           CLESFTDGD+LI LPC+H+FH  CLD W+R+CG+CPYCR++I +N
Sbjct: 214 CLESFTDGDKLIHLPCEHKFHHPCLDRWIRTCGECPYCRQHIAIN 258

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726136|ref|NP_001237884.1| RING-H2 finger protein [Glycine max] gi|22597166|gb|AAN03470.1| RING-H2 finger protein [Glycine max]

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 132/283 (46%), Positives = 163/283 (57%), Gaps = 41/283 (14%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSPHA 60
           MTSASELF+TRR R+GR   DLGLD+                    +L   D LR+    
Sbjct: 1   MTSASELFHTRRHRLGRNALDLGLDT--------------------ELHAADSLRQL-RL 39

Query: 61  RHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLARARL 120
           RH   R    ERAS  +D    +   S  ++SE     SS   + +ERLP  V+LARARL
Sbjct: 40  RHYYLRRHHPERASDRIDGRYRRSFVSESVDSE-ENVRSSLRGSSSERLPVGVVLARARL 98

Query: 121 LERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELM 180
           L+RLRG  LS N +  R         + FG++       + + E  +G S V+      +
Sbjct: 99  LQRLRGEPLSTNRQYDR---------DSFGED----PESESSNEDPSGASLVTE-----L 140

Query: 181 TSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTD 240
           TSQ  R Q +Q+   KPPGLTQEALDCLH E+F+S A S  G  S+   DCSICLESFTD
Sbjct: 141 TSQMARSQFLQELSTKPPGLTQEALDCLHQEVFSSNA-SEIGLDSRVLQDCSICLESFTD 199

Query: 241 GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKSV 283
           GDELI LPC H+FHS CLDPW+R CGDCPYCRR IVVN+  S+
Sbjct: 200 GDELIRLPCGHKFHSVCLDPWIRCCGDCPYCRRCIVVNTHSSL 242

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297852682|ref|XP_002894222.1| ring-H2 finger protein RHY1a [Arabidopsis lyrata subsp. lyrata] gi|297340064|gb|EFH70481.1| ring-H2 finger protein RHY1a [Arabidopsis lyrata subsp. lyrata]

 Score =  192 bits (488), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 129/279 (46%), Positives = 163/279 (58%), Gaps = 38/279 (13%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFT---SERGLHNRRHHHNHNHRHDLDGCDPLRRS 57
           MTSASELF TRRSR GR+D DL  ++ +        H R   H+HN RHD DGCDPLRR 
Sbjct: 1   MTSASELFSTRRSRPGRSDPDLESNTSSYRHHGTHHHRRHGTHHHNQRHDSDGCDPLRRP 60

Query: 58  PHARH-LSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLA 116
                   H P   ER  +   QGT Q+++++  ++E ++ +S  + NG+ERLPG VLLA
Sbjct: 61  TPRLRRFCHHP---ERRPIRDVQGTGQYLNTDSTDTE-TQSSSFVNLNGSERLPGAVLLA 116

Query: 117 RARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPF 176
           RARL ERLRGVSLS N R  R    ++QR + F                    S    P 
Sbjct: 117 RARLFERLRGVSLSSNSRGNRVSVGDDQRESSF-------------------HSVDGDPI 157

Query: 177 SELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLE 236
            +L     E LQ+  +  KKP GLTQ+A++CLH + F S  + +E        DCSICLE
Sbjct: 158 FQL-----EGLQVTYECNKKPQGLTQDAINCLHRQTFRSAEVKTEMR------DCSICLE 206

Query: 237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           SFT GD LI LPC H FHS CL+PW+++CGDCPYCRR I
Sbjct: 207 SFTKGDMLISLPCTHSFHSSCLNPWLKACGDCPYCRRAI 245

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217071222|gb|ACJ83971.1| unknown [Medicago truncatula] gi|388497556|gb|AFK36844.1| unknown [Medicago truncatula]

 Score =  186 bits (473), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 124/279 (44%), Positives = 156/279 (55%), Gaps = 31/279 (11%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNHNHRHDLDGCDPLRRSPHA 60
           MTSASELF+ RR R+GR D        +      +  HHH+  H  D D    +RR  + 
Sbjct: 1   MTSASELFHIRRHRLGRNDI-----DSSFHSSPSSDFHHHHRLHDSDDDDSPRIRRHYNV 55

Query: 61  RHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLARARL 120
           R L H    SER      +     V+    + E  RG  +P  +G+ERLP  V LAR RL
Sbjct: 56  RRLRHHERVSERFDGRYRRSL---VNEGVESGESVRG--APRASGSERLPVDVRLARERL 110

Query: 121 LERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPFSELM 180
           L+RLRG  +  N          N R ++  DE       D  +E S+      S  ++L 
Sbjct: 111 LQRLRGDPVDRN--------RQNDRDSV--DE-------DQESELSSEVPTEDSLITDL- 152

Query: 181 TSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTD 240
           TSQ  R QL+ ++ +KPPGLTQEAL+CLH+E+F+S    SE   SK   DC ICLESF D
Sbjct: 153 TSQMARFQLLHEQTRKPPGLTQEALNCLHLEVFSSIDTESE---SKVLQDCGICLESFMD 209

Query: 241 GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS 279
           GD+LI L C H+FHS  LDPW+RSCGDCPYCRR IVVNS
Sbjct: 210 GDKLIHLQCGHKFHSAGLDPWIRSCGDCPYCRRCIVVNS 248

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592374|gb|AAM64325.1| RING-H2 finger protein RHY1a [Arabidopsis thaliana]

 Score =  185 bits (470), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 129/280 (46%), Positives = 162/280 (57%), Gaps = 36/280 (12%)

Query: 1   MTSASELFYTRRSRVGRADQDLGLDSFTSERGLHNRRHHHNH---NHRHDLDGCDPLRR- 56
           MTSASELF TRRSR GR+D  L  D+ +     H+    H     N RHD DGCDPLRR 
Sbjct: 1   MTSASELFSTRRSRPGRSDPALESDTSSYRHHSHHHHRRHGVHHHNQRHDSDGCDPLRRP 60

Query: 57  SPHARHLSHRPSPSERASVWLDQGTSQHVSSNPMNSEVSRGTSSPSWNGNERLPGTVLLA 116
           +P  R   H P       +   QGTSQ+++++  ++E ++ +S  + NG+ERLPG VLLA
Sbjct: 61  TPRIRRFFHHPIQERSRPIRDVQGTSQYLNTDSTDTE-TQSSSFVNLNGSERLPGAVLLA 119

Query: 117 RARLLERLRGVSLSENGRSGRGLSSNNQRGNIFGDELRLVDAGDWAAETSAGWSAVSSPF 176
           R RL ERLRGVSLS N RS R  S ++QR + F                    S    P 
Sbjct: 120 RDRLFERLRGVSLSSNSRSNRV-SLDDQRESSF-------------------HSIDGDPI 159

Query: 177 SELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLE 236
            +L       LQ+  +  KKP GLTQ+A++CLH + F+S  + SE        DCSICLE
Sbjct: 160 FQLAG-----LQVTYECNKKPQGLTQDAINCLHRQTFSSAEVKSEMR------DCSICLE 208

Query: 237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           SFT GD LI LPC H FHS CL+PW+R+CGDCP CRR I 
Sbjct: 209 SFTKGDMLISLPCTHSFHSSCLNPWLRACGDCPCCRRAIA 248

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	283
TAIR|locus:2007273	250	AT1G49850 [Arabidopsis thalian	0.307	0.348	0.569	7.6e-46
UNIPROTKB|I3LA46	218	I3LA46 "Uncharacterized protei	0.321	0.417	0.37	3.8e-14
UNIPROTKB|Q641J8	622	rnf12-a "E3 ubiquitin-protein	0.272	0.123	0.383	4.8e-13
UNIPROTKB|G5E5R5	796	G5E5R5 "Uncharacterized protei	0.332	0.118	0.368	1.2e-12
TAIR|locus:2053863	185	RHA3A "RING-H2 finger A3A" [Ar	0.289	0.443	0.413	4.4e-12
UNIPROTKB|F1RFJ1	786	ZNRF3 "Uncharacterized protein	0.321	0.115	0.37	6.8e-12
UNIPROTKB|F1PD69	827	ZNRF3 "Uncharacterized protein	0.321	0.110	0.37	7.3e-12
UNIPROTKB|Q9ULT6	936	ZNRF3 "E3 ubiquitin-protein li	0.321	0.097	0.37	8.7e-12
UNIPROTKB|Q07G42	639	rnf12 "E3 ubiquitin-protein li	0.272	0.120	0.372	1.1e-11
UNIPROTKB|F1P2W8	712	ZNRF3 "Uncharacterized protein	0.183	0.073	0.547	1.7e-11

TAIR|locus:2007273 AT1G49850 [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 7.6e-46, Sum P(2) = 7.6e-46
 Identities = 53/93 (56%), Positives = 64/93 (68%)

Query:   183 QTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGD 242
             Q   LQ+  +  KKP GLTQ+A++CLH + F+S  + SE        DCSICLESFT GD
Sbjct:   161 QLAGLQVTYECNKKPQGLTQDAINCLHRQTFSSAEVKSEMR------DCSICLESFTKGD 214

Query:   243 ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
              LI LPC H FHS CL+PW+R+CGDCP CRR I
Sbjct:   215 MLISLPCTHSFHSSCLNPWLRACGDCPCCRRAI 247

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|I3LA46 I3LA46 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:   186 RLQLVQQKRKKPPG-LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLE 236
             +++L Q++ +     L  +AL+ +    FNS +    EG        +S ++ DC+ICLE
Sbjct:    48 KIKLKQRRSQNSMNRLAVQALEKMETRKFNSKSKGRREGSCGALDTLSSSSTSDCAICLE 107

Query:   237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
              + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct:   108 KYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNII 147

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q641J8 rnf12-a "E3 ubiquitin-protein ligase RNF12-A" [Xenopus laevis (taxid:8355)]

 Score = 169 (64.5 bits), Expect = 4.8e-13, Sum P(2) = 4.8e-13
 Identities = 33/86 (38%), Positives = 50/86 (58%)

Query:   196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
             +P GLT+E +D L    F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct:   542 QPRGLTKEQIDNLSTRNFG------ENDALKT---CSVCITEYTEGNKLRKLPCSHEYHI 592

Query:   256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
              C+D W+     CP CRR ++V S++
Sbjct:   593 HCIDRWLSENSTCPICRRAVLVASNR 618

GO:0000578 "embryonic axis specification" evidence=IMP

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

GO:0005515 "protein binding" evidence=IPI

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISS

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

GO:0008134 "transcription factor binding" evidence=IPI

GO:0016567 "protein ubiquitination" evidence=ISS

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

GO:0042802 "identical protein binding" evidence=IPI

UNIPROTKB|G5E5R5 G5E5R5 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 186 (70.5 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 38/103 (36%), Positives = 60/103 (58%)

Query:   186 RLQLVQQKRKKPPG-LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLE 236
             +++L Q++ +     L  +AL+ +    FNS +    EG        +S ++ DC+ICLE
Sbjct:   104 KIKLKQRRSQNSMNRLAVQALEKMETRKFNSKSKGRREGSCGALDTLSSSSTSDCAICLE 163

Query:   237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS 279
              + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+ N+
Sbjct:   164 KYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNIIGNA 206

GO:2000051 "negative regulation of non-canonical Wnt receptor signaling pathway" evidence=IEA

GO:0090090 "negative regulation of canonical Wnt receptor signaling pathway" evidence=IEA

GO:0072089 "stem cell proliferation" evidence=IEA

GO:0060071 "Wnt receptor signaling pathway, planar cell polarity pathway" evidence=IEA

GO:0060070 "canonical Wnt receptor signaling pathway" evidence=IEA

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

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

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

GO:0005109 "frizzled binding" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 163 (62.4 bits), Expect = 4.4e-12, P = 4.4e-12
 Identities = 36/87 (41%), Positives = 51/87 (58%)

Query:   199 GLTQEALDCLHVEIFNSFAISSEGEASKT--SLDCSICLESFTDGDELICLP-CKHRFHS 255
             GL ++AL  L    F + A S+ G A++   S +C+ICL  F DG+E+  LP C H FH 
Sbjct:    69 GLKKKALQSLPRSTFTA-AESTSGAAAEEGDSTECAICLTDFADGEEIRVLPLCGHSFHV 127

Query:   256 DCLDPWVRSCGDCPYCRRNIV-VNSDK 281
             +C+D W+ S   CP CRR +  V  D+
Sbjct:   128 ECIDKWLVSRSSCPSCRRILTPVRCDR 154

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|F1RFJ1 ZNRF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 6.8e-12, P = 6.8e-12
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:   186 RLQLVQQKRKKPPG-LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLE 236
             +++L Q++ +     L  +AL+ +    FNS +    EG        +S ++ DC+ICLE
Sbjct:   104 KIKLKQRRSQNSMNRLAVQALEKMETRKFNSKSKGRREGSCGALDTLSSSSTSDCAICLE 163

Query:   237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
              + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct:   164 KYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNII 203

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1PD69 ZNRF3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 182 (69.1 bits), Expect = 7.3e-12, P = 7.3e-12
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:   186 RLQLVQQKRKKPPG-LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLE 236
             +++L Q++ +     L  +AL+ +    FNS +    EG        +S ++ DC+ICLE
Sbjct:   139 KIKLKQRRSQNSMNRLAVQALEKMETRKFNSKSKGRREGSCGALDTLSSSSTSDCAICLE 198

Query:   237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
              + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct:   199 KYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNII 238

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9ULT6 ZNRF3 "E3 ubiquitin-protein ligase ZNRF3" [Homo sapiens (taxid:9606)]

 Score = 182 (69.1 bits), Expect = 8.7e-12, P = 8.7e-12
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:   186 RLQLVQQKRKKPPG-LTQEALDCLHVEIFNSFAISS-EGE-------ASKTSLDCSICLE 236
             +++L Q++ +     L  +AL+ +    FNS +    EG        +S ++ DC+ICLE
Sbjct:   239 KIKLKQRRSQNSMNRLAVQALEKMETRKFNSKSKGRREGSCGALDTLSSSSTSDCAICLE 298

Query:   237 SFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
              + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct:   299 KYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNII 338

GO:0008270 "zinc ion binding" evidence=IEA

GO:0060070 "canonical Wnt receptor signaling pathway" evidence=IEA

GO:0060071 "Wnt receptor signaling pathway, planar cell polarity pathway" evidence=IEA

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

GO:0072089 "stem cell proliferation" evidence=ISS

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0090090 "negative regulation of canonical Wnt receptor signaling pathway" evidence=IMP

GO:2000051 "negative regulation of non-canonical Wnt receptor signaling pathway" evidence=IMP

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005109 "frizzled binding" evidence=IPI

UNIPROTKB|Q07G42 rnf12 "E3 ubiquitin-protein ligase RNF12" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 165 (63.1 bits), Expect = 1.1e-11, Sum P(2) = 1.1e-11
 Identities = 32/86 (37%), Positives = 49/86 (56%)

Query:   196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHS 255
             +P GLT+E +D L    F       E +A KT   CS+C+  +T+G++L  LPC H +H 
Sbjct:   559 QPRGLTKEQIDNLSTRNFG------ENDALKT---CSVCITEYTEGNKLRKLPCSHEYHV 609

Query:   256 DCLDPWVRSCGDCPYCRRNIVVNSDK 281
              C+D W+     CP CRR ++V  ++
Sbjct:   610 HCIDRWLSENSTCPICRRAVLVAGNR 635

GO:0000578 "embryonic axis specification" evidence=ISS

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

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISS

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

GO:0008134 "transcription factor binding" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

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

GO:0042802 "identical protein binding" evidence=ISS

UNIPROTKB|F1P2W8 ZNRF3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 179 (68.1 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query:   224 ASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
             +S TS DC+ICLE + DG+EL  +PC HRFH  C+DPW+     CP+CR NI+
Sbjct:   192 SSSTS-DCAICLEKYIDGEELRVIPCTHRFHKKCVDPWLLQHHTCPHCRHNII 243

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	283
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-11
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-09
smart00184	40	smart00184, RING, Ring finger	7e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-06
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	8e-06
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	4e-05
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	7e-04
pfam00628	51	pfam00628, PHD, PHD-finger	0.001
pfam05883	135	pfam05883, Baculo_RING, Baculovirus U-box/Ring-lik	0.002
smart00249	47	smart00249, PHD, PHD zinc finger	0.003
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.004

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

 Score = 71.7 bits (176), Expect = 1e-16
 Identities = 23/44 (52%), Positives = 30/44 (68%)

Query: 230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR 273
           +C ICL+ F  G+E++ LPC H FH +CLD W+RS   CP CR 
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 55.5 bits (134), Expect = 9e-11
 Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 3/47 (6%)

Query: 230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
           +C ICLE F +   ++ LPC H F   C+D W++S  + CP CR  I
Sbjct: 1   ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 60.4 bits (146), Expect = 2e-10
 Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 230 DCSICLESFTDGDELICLPCKHRFHSDCLDPW-VRSCGDCPYCRRNI 275
           +C+IC+ +F   D L  LPC HRFH  C+D W +     CP CR  I
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 52.1 bits (125), Expect = 1e-09
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR 273
             L+C ICL+   D   ++  PC H F  +C+  +++    CP CR 
Sbjct: 1   EELECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 47.5 bits (113), Expect = 7e-08
 Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYC 271
           C ICLE +    + + LPC H F   C+  W+ S  + CP C
Sbjct: 1   CPICLEEYLK--DPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 44.0 bits (104), Expect = 1e-06
 Identities = 18/42 (42%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYC 271
           C ICLE   D   +  LPC H F S C+  W+ S    CP C
Sbjct: 1   CPICLEEPKDPVTI--LPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 42.8 bits (101), Expect = 8e-06
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 10/53 (18%)

Query: 230 DCSICLESFTD--------GDE--LICLPCKHRFHSDCLDPWVRSCGDCPYCR 272
            C+IC   F          GD+  ++   C H FH  C+  W+++   CP CR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 40.5 bits (95), Expect = 4e-05
 Identities = 21/70 (30%), Positives = 27/70 (38%), Gaps = 16/70 (22%)

Query: 227 TSLDCSICLESFTDGDEL---IC--LPCKHRFHSDCLDPWVRSC-----------GDCPY 270
             ++C IC     DG E+    C    C   FH  CL  W+R+            G CPY
Sbjct: 1   FEIECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPY 60

Query: 271 CRRNIVVNSD 280
           C+  I V   
Sbjct: 61  CKAKISVKFS 70

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 5/46 (10%)

Query: 231 CSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNI 275
           C ICLE   +   ++ LPC H     +C    +RS   CP CR+ I
Sbjct: 5   CVICLERPRN---VVFLPCGHLCLCEECAK-RLRSKKKCPICRQPI 46

Length = 49

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

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 25/109 (22%), Positives = 40/109 (36%), Gaps = 8/109 (7%)

Query: 175  PFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTS--LDCS 232
            P   +     +R+   +   K    L Q  +   +    +   +  +    K S   +C+
Sbjct: 1414 PLKNVQVEGIKRVGTSEIGWKSWINLRQNEMIKKNGSFMDLLGLWKKNIDEKFSGHEECA 1473

Query: 233  ICLESFTDGDELI----CLPCKHRFHSDCLDPWVRSCGD--CPYCRRNI 275
            IC       D  +    C  CK++FH+ CL  W  S     CP CR  I
Sbjct: 1474 ICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

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

 Score = 40.3 bits (94), Expect = 7e-04
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 10/63 (15%)

Query: 231 CSICLESFTDGDELIC----------LPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
           C+IC++     D              LPC H  H  CL  W+     CP CRR ++ +  
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349

Query: 281 KSV 283
              
Sbjct: 350 SPT 352

Length = 491

>gnl|CDD|201356 pfam00628, PHD, PHD-finger

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 6/48 (12%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD------CPYCR 272
           C++C +   DG+ L+C  C   FH  CL P +           CP C+
Sbjct: 2   CAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECK 49

PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains. Several PHD fingers have been identified as binding modules of methylated histone H3. Length = 51

>gnl|CDD|218794 pfam05883, Baculo_RING, Baculovirus U-box/Ring-like domain

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 7/57 (12%)

Query: 225 SKTSLDCSICLESFTDGDELICLPC------KHRFHSDCLDPWVRSCGDCPYCRRNI 275
            + +++C+ICL+   D D ++ +        +  FH++C   W R     P+  RNI
Sbjct: 23  PRCTVECAICLDRINDNDGVVAVTDGGTLNLEKMFHAECDKRWKRERKRDPF-NRNI 78

This family consists of several Baculovirus proteins of around 130 residues in length. 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. Length = 135

>gnl|CDD|214584 smart00249, PHD, PHD zinc finger

 Score = 34.9 bits (80), Expect = 0.003
 Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 5/46 (10%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDP---WVRSCGD--CPYC 271
           CS+C +    G+ L C  C   +H  CL P        G   CP C
Sbjct: 2   CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers. Length = 47

>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 = 35.6 bits (82), Expect = 0.004
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 231 CSICLESFTDGDE--LICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
           C  C    T GDE  ++   C H FH  C+  W+ + G CP  R+  V+
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	283
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.58
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.51
PHA02929	238	N1R/p28-like protein; Provisional	99.24
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.22
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.17
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.15
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.08
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.03
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.01
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.97
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.96
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.95
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.91
PHA02926	242	zinc finger-like protein; Provisional	98.79
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.76
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.76
PF14634	44	zf-RING_5: zinc-RING finger domain	98.75
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.74
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.74
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.72
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.7
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.59
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.5
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.47
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.47
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.26
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.25
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.24
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.21
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.2
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.17
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.16
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.07
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.95
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.84
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.77
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.75
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.67
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.64
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.59
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.53
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.37
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.01
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.95
KOG2660	331	consensus Locus-specific chromosome binding protei	96.94
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.9
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	96.85
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.82
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.68
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.66
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.65
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.57
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.56
COG5152	259	Uncharacterized conserved protein, contains RING a	96.53
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.26
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.21
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.21
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.17
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.97
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.9
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.9
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.82
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.7
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.32
PHA02862	156	5L protein; Provisional	95.3
PHA03096	284	p28-like protein; Provisional	95.25
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.1
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.94
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.9
PF04641	260	Rtf2: Rtf2 RING-finger	94.66
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.6
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.25
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.74
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.68
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.64
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.64
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	93.55
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.54
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	92.74
KOG1940	276	consensus Zn-finger protein [General function pred	92.61
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.93
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.57
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.33
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.1
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	90.96
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.87
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.31
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	88.34
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	87.68
KOG3002	299	consensus Zn finger protein [General function pred	87.5
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	86.32
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	86.22
KOG0825	1134	consensus PHD Zn-finger protein [General function	86.17
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	85.44
KOG1609	323	consensus Protein involved in mRNA turnover and st	84.51
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	84.08
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	83.16
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	83.09
KOG3899	381	consensus Uncharacterized conserved protein [Funct	82.65
KOG3053	293	consensus Uncharacterized conserved protein [Funct	82.62
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	80.73
KOG1829	580	consensus Uncharacterized conserved protein, conta	80.12

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

Probab=99.58  E-value=1.2e-15  Score=143.81  Aligned_cols=80  Identities=36%  Similarity=0.818  Sum_probs=67.5

Q ss_pred             CCCCCCHHHHhhccceeeccccccccccCCCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCC-CCCcccc
Q 023376          196 KPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRN  274 (283)
Q Consensus       196 ~~~~ls~~~i~~L~~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~t-CPlCR~~  274 (283)
                      ....+.+..++++|..+|.......      ....|+||||+|..|+++++|||+|.||..||++||..+.+ ||+||.+
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~------~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~d  276 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDED------ATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRD  276 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccC------CCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCc
Confidence            4456788899999999998765442      12799999999999999999999999999999999998755 9999998


Q ss_pred             eecCCCC
Q 023376          275 IVVNSDK  281 (283)
Q Consensus       275 l~~~~~~  281 (283)
                      +......
T Consensus       277 i~~~~~~  283 (348)
T KOG4628|consen  277 IRTDSGS  283 (348)
T ss_pred             CCCCCCC
Confidence            8766543

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.51  E-value=5.4e-15  Score=99.86  Aligned_cols=44  Identities=45%  Similarity=1.237  Sum_probs=40.4

Q ss_pred             CcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcc
Q 023376          229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCR  272 (283)
Q Consensus       229 ~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR  272 (283)
                      ++|+||++.|..++.++.|+|+|.||..||..|++.+++||+||
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            36999999999889999999999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=6.6e-12  Score=113.64  Aligned_cols=75  Identities=23%  Similarity=0.503  Sum_probs=55.2

Q ss_pred             CCCCHHHHhhccceeeccccccccccCCCCCCcCccccCccCCCCe-----eEEcCCCCccChhhHHHHHhcCCCCCCcc
Q 023376          198 PGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDE-----LICLPCKHRFHSDCLDPWVRSCGDCPYCR  272 (283)
Q Consensus       198 ~~ls~~~i~~L~~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~-----l~~LPCgH~FH~~CI~~WL~~~~tCPlCR  272 (283)
                      .+..+..++.+|..........    ......+|+||++.+..+..     ...++|+|.||..||.+|+..+.+||+||
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~----~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR  223 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLY----NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR  223 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhh----cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCC
Confidence            3447777888877654433221    12446899999999876531     23346999999999999999999999999


Q ss_pred             ccee
Q 023376          273 RNIV  276 (283)
Q Consensus       273 ~~l~  276 (283)
                      ..+.
T Consensus       224 ~~~~  227 (238)
T PHA02929        224 TPFI  227 (238)
T ss_pred             CEee
Confidence            9875

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

Probab=99.22  E-value=7.4e-12  Score=93.77  Aligned_cols=46  Identities=35%  Similarity=0.946  Sum_probs=36.8

Q ss_pred             CCCcCccccCccCCC----------CeeEEcCCCCccChhhHHHHHhcCCCCCCcc
Q 023376          227 TSLDCSICLESFTDG----------DELICLPCKHRFHSDCLDPWVRSCGDCPYCR  272 (283)
Q Consensus       227 ~~~~C~ICle~~~~~----------~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR  272 (283)
                      .+..|+||++.|...          ..+...+|||.||..||.+||..+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            355699999999332          2445568999999999999999999999997

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

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

Probab=99.17  E-value=1.4e-11  Score=116.07  Aligned_cols=56  Identities=29%  Similarity=0.813  Sum_probs=46.3

Q ss_pred             CCCCcCccccCcc-CCCC---------eeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCCC
Q 023376          226 KTSLDCSICLESF-TDGD---------ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDK  281 (283)
Q Consensus       226 ~~~~~C~ICle~~-~~~~---------~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  281 (283)
                      ..+..|.|||+++ ..+.         ....|||||+||.+|++.|++.+.+||+||.++..+..+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~  350 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS  350 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence            5678999999995 3331         336789999999999999999999999999997666544

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

Probab=99.15  E-value=1.4e-11  Score=113.31  Aligned_cols=51  Identities=41%  Similarity=1.056  Sum_probs=47.1

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh-cCCCCCCcccceec
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR-SCGDCPYCRRNIVV  277 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~  277 (283)
                      ...+|+|||+.|..++.++.|||.|.||..||..|+. -+..||+||.++++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            4579999999999999999999999999999999998 57789999999875

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

Probab=99.08  E-value=6.2e-11  Score=108.56  Aligned_cols=53  Identities=28%  Similarity=0.741  Sum_probs=46.6

Q ss_pred             CCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          225 SKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      ......|.|||+....+...   ||||+||+.||..|...+..||+||..+.+.+.
T Consensus       236 ~~a~~kC~LCLe~~~~pSaT---pCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSAT---PCGHIFCWSCILEWCSEKAECPLCREKFQPSKV  288 (293)
T ss_pred             CCCCCceEEEecCCCCCCcC---cCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence            35568999999998887666   999999999999999999999999998877653

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

Probab=99.03  E-value=9.5e-11  Score=104.49  Aligned_cols=52  Identities=29%  Similarity=0.718  Sum_probs=43.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC---CCCCCcccceecCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC---GDCPYCRRNIVVNSD  280 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~---~tCPlCR~~l~~~~~  280 (283)
                      ...++|.|||+.-+++...   .|||+||+.||.+||..+   +.||+||..|..++.
T Consensus        45 ~~~FdCNICLd~akdPVvT---lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVT---LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCceeeeeeccccCCCEEe---ecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            5679999999998876433   799999999999999873   459999999876654

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.01  E-value=2.2e-10  Score=100.33  Aligned_cols=51  Identities=27%  Similarity=0.766  Sum_probs=41.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc----------------CCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS----------------CGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~----------------~~tCPlCR~~l~~~~  279 (283)
                      .+..+|+||++.+..+   ++++|||+||+.||..|+..                ...||+||..|...+
T Consensus        16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            4678999999998766   34589999999999999853                246999999886543

>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=98.97  E-value=4.2e-10  Score=74.02  Aligned_cols=39  Identities=33%  Similarity=1.072  Sum_probs=33.2

Q ss_pred             CccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCc
Q 023376          231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlC  271 (283)
                      |+||++.+..  .++.++|||.||..||..|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999887  44567999999999999999998899998

>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=98.96  E-value=4.4e-10  Score=77.81  Aligned_cols=46  Identities=35%  Similarity=0.886  Sum_probs=38.7

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          228 SLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      +..|.||++....   +..+||||. ||..|+..|+.....||+||++|.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4679999998654   566799999 999999999999999999999874

...

>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=98.95  E-value=6.1e-10  Score=73.35  Aligned_cols=44  Identities=45%  Similarity=1.191  Sum_probs=36.2

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccce
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNI  275 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l  275 (283)
                      .|+||++.+.  ..+..++|||.||..|+..|+.. ...||+|+..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999983  33444569999999999999998 77899998764

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

Probab=98.91  E-value=5.1e-10  Score=96.20  Aligned_cols=53  Identities=28%  Similarity=0.740  Sum_probs=44.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      +....|+|||+.+.+...+ -..|||+||..||+..+.....||+|++.|..+.
T Consensus       129 ~~~~~CPiCl~~~sek~~v-sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPV-STKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhcccc-ccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            4568899999999876543 3579999999999999999999999998776543

>PHA02926 zinc finger-like protein; Provisional

Probab=98.79  E-value=3.3e-09  Score=94.37  Aligned_cols=53  Identities=28%  Similarity=0.673  Sum_probs=40.1

Q ss_pred             CCCCcCccccCccCCCC-----eeEEc-CCCCccChhhHHHHHhcC------CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGD-----ELICL-PCKHRFHSDCLDPWVRSC------GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~-----~l~~L-PCgH~FH~~CI~~WL~~~------~tCPlCR~~l~~~  278 (283)
                      ..+.+|+|||+.+..+.     .-.+| +|+|.||..||..|...+      ..||+||..+..-
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            45789999999874321     22344 599999999999999753      3599999987543

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

Probab=98.76  E-value=3.3e-09  Score=71.16  Aligned_cols=38  Identities=42%  Similarity=0.967  Sum_probs=30.0

Q ss_pred             CccccCccCCCCeeEEcCCCCccChhhHHHHHhcC----CCCCCc
Q 023376          231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC----GDCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~----~tCPlC  271 (283)
                      |+||++.|.++..+   +|||.||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l---~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL---PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc---CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999988555   999999999999999874    359987

>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=98.76  E-value=4.2e-09  Score=69.57  Aligned_cols=39  Identities=51%  Similarity=1.215  Sum_probs=33.8

Q ss_pred             CccccCccCCCCeeEEcCCCCccChhhHHHHHh--cCCCCCCc
Q 023376          231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVR--SCGDCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~--~~~tCPlC  271 (283)
                      |+||++.+..+.  ..++|||.||..||..|+.  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988765  4679999999999999999  45679998

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 ....

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.75  E-value=6.2e-09  Score=70.30  Aligned_cols=44  Identities=30%  Similarity=0.777  Sum_probs=38.0

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccc
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR  273 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~  273 (283)
                      .|.||++.|........++|||+||..||..+......||+|++
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            49999999955556778899999999999999866778999984

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

Probab=98.74  E-value=7.2e-09  Score=79.45  Aligned_cols=52  Identities=35%  Similarity=0.842  Sum_probs=40.1

Q ss_pred             CCCcCccccCccCC--------CC--eeEEcCCCCccChhhHHHHHhc---CCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTD--------GD--ELICLPCKHRFHSDCLDPWVRS---CGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~--------~~--~l~~LPCgH~FH~~CI~~WL~~---~~tCPlCR~~l~~~  278 (283)
                      .++.|.||...|..        ++  .+..-.|+|.||..||.+||..   ++.||+||.+...+
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            47789999888862        11  2333459999999999999986   46799999987654

>smart00504 Ubox Modified RING finger domain

Probab=98.74  E-value=7.5e-09  Score=74.22  Aligned_cols=47  Identities=23%  Similarity=0.531  Sum_probs=41.2

Q ss_pred             CcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       229 ~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ..|+||++.+..+   ..++|||+|+..||..|+..+++||+|+..+..+
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~   48 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE   48 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence            4699999999986   3459999999999999999999999999887543

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

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

Probab=98.72  E-value=3.6e-09  Score=106.46  Aligned_cols=50  Identities=38%  Similarity=0.864  Sum_probs=43.9

Q ss_pred             CCCCcCccccCccCCCCe--eEEcCCCCccChhhHHHHHhcCCCCCCcccce
Q 023376          226 KTSLDCSICLESFTDGDE--LICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI  275 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~--l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l  275 (283)
                      .....|+||++.+..+..  ...|||+|+||..||+.|++..++||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            347889999999998644  56779999999999999999999999999944

>smart00184 RING Ring finger

Probab=98.70  E-value=1.2e-08  Score=64.79  Aligned_cols=38  Identities=39%  Similarity=1.188  Sum_probs=31.9

Q ss_pred             CccccCccCCCCeeEEcCCCCccChhhHHHHHh-cCCCCCCc
Q 023376          231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVR-SCGDCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~-~~~tCPlC  271 (283)
                      |+||++...   ....++|+|.||..|+..|+. ....||+|
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            889998833   455679999999999999998 56779987

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.59  E-value=3.2e-08  Score=95.76  Aligned_cols=50  Identities=32%  Similarity=0.616  Sum_probs=43.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|..+.   +++|||.||..||..|+.....||+|+..+...
T Consensus        24 e~~l~C~IC~d~~~~Pv---itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        24 DTSLRCHICKDFFDVPV---LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccccCCCcCchhhhCcc---CCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            45678999999998764   459999999999999999988999999987643

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

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

Probab=98.50  E-value=4.9e-08  Score=88.74  Aligned_cols=52  Identities=29%  Similarity=0.638  Sum_probs=43.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHH-HHhcCCC-CCCcccceecCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDP-WVRSCGD-CPYCRRNIVVNSD  280 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~-WL~~~~t-CPlCR~~l~~~~~  280 (283)
                      ..+..|+||++....+...   +|||+||..||.. |-.++.. ||+||+.+..++.
T Consensus       213 ~~d~kC~lC~e~~~~ps~t---~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT---PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCcccc---cccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            4578999999997776544   9999999999999 8777665 9999998876653

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

Probab=98.47  E-value=7.3e-08  Score=94.48  Aligned_cols=51  Identities=27%  Similarity=0.602  Sum_probs=41.4

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC-----CCCCCcccceecCCCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC-----GDCPYCRRNIVVNSDK  281 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~-----~tCPlCR~~l~~~~~~  281 (283)
                      ...|+|||+....+...   .|||+||..||.++|...     ..||+|+..|...+..
T Consensus       186 ~~~CPICL~~~~~p~~t---~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT---NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCccccc---ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            67899999987765444   699999999999998763     4699999998775543

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

Probab=98.47  E-value=1.4e-07  Score=71.09  Aligned_cols=33  Identities=33%  Similarity=0.856  Sum_probs=29.7

Q ss_pred             CCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          248 PCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       248 PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      -|.|.||..||.+||..++.||+||++....+.
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~   85 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG   85 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence            499999999999999999999999998876543

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

Probab=98.26  E-value=2.7e-07  Score=68.53  Aligned_cols=51  Identities=39%  Similarity=0.976  Sum_probs=25.1

Q ss_pred             CCcCccccCccCCCCee---EE--cCCCCccChhhHHHHHhc-----------CCCCCCcccceecC
Q 023376          228 SLDCSICLESFTDGDEL---IC--LPCKHRFHSDCLDPWVRS-----------CGDCPYCRRNIVVN  278 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l---~~--LPCgH~FH~~CI~~WL~~-----------~~tCPlCR~~l~~~  278 (283)
                      +.+|.||+..+.....+   .-  -.|+..||..||..||..           .+.||+|+.+|..+
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            45799999987633222   11  149999999999999974           12499999998754

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

Probab=98.25  E-value=7.3e-07  Score=60.14  Aligned_cols=38  Identities=39%  Similarity=0.937  Sum_probs=22.3

Q ss_pred             CccccCccCCCC-eeEEcCCCCccChhhHHHHHhcC----CCCC
Q 023376          231 CSICLESFTDGD-ELICLPCKHRFHSDCLDPWVRSC----GDCP  269 (283)
Q Consensus       231 C~ICle~~~~~~-~l~~LPCgH~FH~~CI~~WL~~~----~tCP  269 (283)
                      |+||.+ |...+ .-..|+|||+|+.+||..|+...    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 75533 44678999999999999999854    2476

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

Probab=98.24  E-value=3.2e-07  Score=89.54  Aligned_cols=52  Identities=31%  Similarity=0.794  Sum_probs=40.6

Q ss_pred             CCCCcCccccCccCCCC---e-----------eEEcCCCCccChhhHHHHHhcCC-CCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGD---E-----------LICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~---~-----------l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~  277 (283)
                      ....+|+|||..+..-.   .           -...||.|+||..||.+|...-+ .||+||++++.
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            45678999998874321   1           12459999999999999999654 89999999874

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

Probab=98.24  E-value=2.2e-07  Score=84.71  Aligned_cols=53  Identities=25%  Similarity=0.678  Sum_probs=42.4

Q ss_pred             CCCCcCccccCccCCCC-------eeEEcCCCCccChhhHHHHH--hcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGD-------ELICLPCKHRFHSDCLDPWV--RSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~-------~l~~LPCgH~FH~~CI~~WL--~~~~tCPlCR~~l~~~  278 (283)
                      .++..|+||-..+....       .+-+|.|+|+||..||+-|-  .++.+||+|+..+..+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            45778999977765443       55678999999999999995  5678999999887654

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

Probab=98.21  E-value=4.4e-07  Score=80.87  Aligned_cols=44  Identities=41%  Similarity=0.896  Sum_probs=39.1

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCR  272 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR  272 (283)
                      .+...|+||++.|..+   ..|||+|.||..||..|+.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            4678999999999998   5679999999999999998556799999

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

Probab=98.21  E-value=1.1e-06  Score=60.88  Aligned_cols=42  Identities=29%  Similarity=0.922  Sum_probs=32.6

Q ss_pred             cCccccCccCCCCeeEEcCCC-----CccChhhHHHHHhcC--CCCCCcc
Q 023376          230 DCSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRSC--GDCPYCR  272 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCg-----H~FH~~CI~~WL~~~--~tCPlCR  272 (283)
                      .|.||++. ..++...++||.     |.||..||.+|+...  .+||+|+
T Consensus         1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48999993 334444578985     899999999999764  4799995

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

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

Probab=98.20  E-value=5.4e-07  Score=67.27  Aligned_cols=49  Identities=22%  Similarity=0.499  Sum_probs=38.3

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~  278 (283)
                      +.+.|+||.+.|.++..+   ||||.|...||..|+.. ..+||+|+..+...
T Consensus         3 ~~f~CpIt~~lM~dPVi~---~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVIL---PSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEE---TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhhCceeC---CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            357899999999988544   99999999999999999 88999999887654

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=98.17  E-value=4.3e-07  Score=85.19  Aligned_cols=50  Identities=30%  Similarity=0.650  Sum_probs=43.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|.||.+.|..+..   +||+|.||.-||..+|..+..||.|+.++...
T Consensus        21 D~lLRC~IC~eyf~ip~i---tpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPMI---TPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHHHhHHHHHhcCcee---ccccchHHHHHHHHHhccCCCCCceecccchh
Confidence            345789999999998744   49999999999999999999999999887544

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

Probab=98.16  E-value=7.4e-07  Score=82.14  Aligned_cols=48  Identities=29%  Similarity=0.560  Sum_probs=42.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|-||-+.|..+...   +|||.||.-||...|..+..||+||.+..
T Consensus        23 Ds~lrC~IC~~~i~ip~~T---tCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISIPCET---TCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeecceec---ccccchhHHHHHHHhcCCCCCccccccHH
Confidence            3467899999999987555   99999999999999999999999998754

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

Probab=98.07  E-value=1.2e-06  Score=65.60  Aligned_cols=53  Identities=34%  Similarity=0.863  Sum_probs=38.3

Q ss_pred             CCCCcCccccCccCC--------CCe--eEEcCCCCccChhhHHHHHhc---CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTD--------GDE--LICLPCKHRFHSDCLDPWVRS---CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~--------~~~--l~~LPCgH~FH~~CI~~WL~~---~~tCPlCR~~l~~~  278 (283)
                      ...+.|.||...|..        ++.  ++.-.|.|.||..||..|+..   +..||+||.+....
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~   83 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK   83 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence            345689999888743        221  211139999999999999976   45699999987653

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

Probab=97.95  E-value=1.4e-06  Score=90.47  Aligned_cols=52  Identities=35%  Similarity=0.886  Sum_probs=38.5

Q ss_pred             CCCCcCccccCccCC-CCee---EEcCCCCccChhhHHHHHhc--CCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTD-GDEL---ICLPCKHRFHSDCLDPWVRS--CGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~-~~~l---~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~~  277 (283)
                      ....+|+||...+.. ...+   +.-.|.|.||..||..|++.  +++||+||.+++.
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            457899999876651 1111   11239999999999999987  5679999988763

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

Probab=97.84  E-value=5.1e-06  Score=79.56  Aligned_cols=52  Identities=33%  Similarity=0.678  Sum_probs=41.3

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc--CCCCCCcccceecCCCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS--CGDCPYCRRNIVVNSDK  281 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~  281 (283)
                      ....|.||-|.-   ..+.+-||||+.|..||..|-..  ..+||+||++|.-.+..
T Consensus       368 TFeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  368 TFELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             hHHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            457899998863   34556699999999999999855  56899999998765543

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

Probab=97.77  E-value=1e-05  Score=58.90  Aligned_cols=49  Identities=31%  Similarity=0.674  Sum_probs=25.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      ...|++|.+.+.++..+.  .|.|+||..||..-+..  .||+|..+....+.
T Consensus         7 lLrCs~C~~~l~~pv~l~--~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~   55 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCLG--GCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDI   55 (65)
T ss_dssp             TTS-SSS-S--SS-B-----SSS--B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred             hcCCcHHHHHhcCCceec--cCccHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence            467999999999876542  79999999999886553  49999998766543

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

Probab=97.76  E-value=1.5e-05  Score=75.46  Aligned_cols=48  Identities=33%  Similarity=0.809  Sum_probs=39.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      +...+|.|||.+-.+   +.+|||.|. .|..|.+..--..+.||+||.+|.
T Consensus       288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            446899999998553   567899997 699999988777899999999874

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

Probab=97.75  E-value=1.9e-05  Score=62.43  Aligned_cols=31  Identities=29%  Similarity=0.839  Sum_probs=27.6

Q ss_pred             CCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          248 PCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       248 PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      -|.|.||..||.+||+.++.||+|.++-...
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~~q  110 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ  110 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence            3999999999999999999999998875543

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

Probab=97.71  E-value=4e-06  Score=79.15  Aligned_cols=51  Identities=33%  Similarity=0.703  Sum_probs=40.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~  278 (283)
                      ..+..|+|||+.++..-.+  .-|.|.||..||..-++. ++.||.||+.+...
T Consensus        41 ~~~v~c~icl~llk~tmtt--keClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKTMTT--KECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhccHHHHHHHHhhccc--HHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            4478899999998754333  249999999999888876 67899999987543

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

Probab=97.67  E-value=1.6e-05  Score=77.18  Aligned_cols=50  Identities=30%  Similarity=0.788  Sum_probs=39.5

Q ss_pred             CCCCCcCccccCccCCCC-eeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          225 SKTSLDCSICLESFTDGD-ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~-~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ..+...|+||||.+.... .+....|.|.||..|+..|..  .+||+||....
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            355789999999998654 334446999999999999964  56999997654

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

Probab=97.64  E-value=7.7e-06  Score=83.69  Aligned_cols=53  Identities=26%  Similarity=0.473  Sum_probs=45.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|+||+..+.+.......+|+|+||..||..|-+.-.+||+||..+...
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            44678999999988776666668999999999999999999999999976543

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

Probab=97.60  E-value=1.6e-05  Score=55.99  Aligned_cols=47  Identities=32%  Similarity=0.589  Sum_probs=35.1

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHh-cCCCCCCccccee
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVR-SCGDCPYCRRNIV  276 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~-~~~tCPlCR~~l~  276 (283)
                      ...+|.||+|.-.+.   +.-.|||. .|.+|-.+.++ .+..||+||++|.
T Consensus         6 ~~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    6 WSDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            348999999874432   22359986 68889777666 6889999999873

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

Probab=97.59  E-value=2.9e-05  Score=74.06  Aligned_cols=51  Identities=29%  Similarity=0.866  Sum_probs=39.8

Q ss_pred             CCCCcCccccCccCCCC----eeEEcC-CCCccChhhHHHHH--hc-----CCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGD----ELICLP-CKHRFHSDCLDPWV--RS-----CGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~----~l~~LP-CgH~FH~~CI~~WL--~~-----~~tCPlCR~~l~  276 (283)
                      ..+.+|.|||+.+.+..    ...+|| |.|.||..||..|-  ..     .+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            45788999999987654    134556 99999999999997  33     467999998653

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

Probab=97.53  E-value=2.1e-05  Score=72.91  Aligned_cols=54  Identities=28%  Similarity=0.695  Sum_probs=45.0

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-----------------------CCCCCCcccceecCCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-----------------------CGDCPYCRRNIVVNSD  280 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-----------------------~~tCPlCR~~l~~~~~  280 (283)
                      ....|.|||--|..++..++++|-|.||..|+.++|..                       ...||+||..|..+..
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~  190 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN  190 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence            35679999999999998889999999999999988652                       2249999999876644

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

Probab=97.37  E-value=5.5e-05  Score=77.61  Aligned_cols=53  Identities=26%  Similarity=0.634  Sum_probs=42.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNSDK  281 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~~  281 (283)
                      .....|++|-..+++.   ++..|+|+||..||..-+.. ...||.|.+.+...+..
T Consensus       641 K~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             HhceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            4567899999776653   34479999999999999976 67899999988777654

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

Probab=97.26  E-value=0.00013  Score=70.93  Aligned_cols=49  Identities=29%  Similarity=0.769  Sum_probs=43.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      ..+++|.||+..+..+...   ||||.||..||.+-+.....||.||..++.
T Consensus        82 ~sef~c~vc~~~l~~pv~t---pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVT---PCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccc---cccccccHHHHHHHhccCCCCccccccccc
Confidence            4579999999998887555   999999999999988888889999998864

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

Probab=97.01  E-value=0.0002  Score=68.73  Aligned_cols=47  Identities=43%  Similarity=0.921  Sum_probs=39.9

Q ss_pred             CCCcCccccCccCC-CCeeEEcCCCCccChhhHHHHHhcCC--CCCCccc
Q 023376          227 TSLDCSICLESFTD-GDELICLPCKHRFHSDCLDPWVRSCG--DCPYCRR  273 (283)
Q Consensus       227 ~~~~C~ICle~~~~-~~~l~~LPCgH~FH~~CI~~WL~~~~--tCPlCR~  273 (283)
                      .+..|..|-+.+.. ++.+.-|||.|+||..|+...|.++.  +||-||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            36789999999874 45677889999999999999998765  6999994

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

Probab=97.00  E-value=0.00046  Score=65.56  Aligned_cols=48  Identities=23%  Similarity=0.692  Sum_probs=40.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .++..|+||...-.   ..+..||+|.-|+.||.+.+.+++.|=+|++++-
T Consensus       420 sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            56788999987633   3445699999999999999999999999999875

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

Probab=96.95  E-value=0.00043  Score=67.36  Aligned_cols=52  Identities=29%  Similarity=0.680  Sum_probs=44.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||+..+.++...  ..|||.||..|+..|+..+..||.|+..+....
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             cccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCcccccccchhh
Confidence            5568899999999988663  379999999999999999999999988776543

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

Probab=96.94  E-value=0.0002  Score=67.31  Aligned_cols=51  Identities=22%  Similarity=0.583  Sum_probs=42.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|.+|-..|.+...+  .-|-|.||..||...|..++.||.|...|-..
T Consensus        13 n~~itC~LC~GYliDATTI--~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTI--TECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ccceehhhccceeecchhH--HHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            4567899999988876555  25999999999999999999999998876544

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

Probab=96.90  E-value=0.00088  Score=61.67  Aligned_cols=49  Identities=22%  Similarity=0.446  Sum_probs=39.6

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc--CCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS--CGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~  276 (283)
                      ....+|++|-+.-..+-..  .+|+|+||..||..-+..  ..+||.|-.++.
T Consensus       237 t~~~~C~~Cg~~PtiP~~~--~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVI--GKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeee--ccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            5578999999886666443  479999999999987664  468999988876

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=96.85  E-value=0.00061  Score=64.05  Aligned_cols=36  Identities=28%  Similarity=0.646  Sum_probs=28.6

Q ss_pred             eEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCC
Q 023376          244 LICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNS  279 (283)
Q Consensus       244 l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  279 (283)
                      +.+.+|||.||..||...+.. ...||.|+.++....
T Consensus        21 l~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570        21 LMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             cccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            334499999999999996644 567999999887654

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).

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

Probab=96.82  E-value=0.0063  Score=63.49  Aligned_cols=48  Identities=33%  Similarity=0.905  Sum_probs=35.8

Q ss_pred             CCCCcCccccCccCCCCee-EEcCCCCccChhhHHHHHhcCC-------CCCCccc
Q 023376          226 KTSLDCSICLESFTDGDEL-ICLPCKHRFHSDCLDPWVRSCG-------DCPYCRR  273 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l-~~LPCgH~FH~~CI~~WL~~~~-------tCPlCR~  273 (283)
                      ....+|.||.+.+..-..+ .--.|-|+||..||..|-....       .||.|..
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            3467899999999865533 2223889999999999987521       3999984

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

Probab=96.68  E-value=0.00067  Score=65.07  Aligned_cols=26  Identities=38%  Similarity=1.074  Sum_probs=23.2

Q ss_pred             CCCCccChhhHHHHHhcC---CCCCCccc
Q 023376          248 PCKHRFHSDCLDPWVRSC---GDCPYCRR  273 (283)
Q Consensus       248 PCgH~FH~~CI~~WL~~~---~tCPlCR~  273 (283)
                      .|||+||..|+.+|+...   ..||+|+-
T Consensus        25 ~cGhifh~~cl~qwfe~~Ps~R~cpic~i   53 (465)
T KOG0827|consen   25 TCGHIFHTTCLTQWFEGDPSNRGCPICQI   53 (465)
T ss_pred             chhhHHHHHHHHHHHccCCccCCCCceee
Confidence            799999999999999974   46999993

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

Probab=96.66  E-value=0.0006  Score=48.70  Aligned_cols=43  Identities=28%  Similarity=0.627  Sum_probs=28.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc--CCCCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS--CGDCPY  270 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~--~~tCPl  270 (283)
                      .....|+|.+..|.++.  +...|+|+|-.+.|.+||..  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~PV--~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPV--KSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEE--EESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCCc--CcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            34678999999998764  33479999999999999944  345998

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

Probab=96.65  E-value=0.0014  Score=58.87  Aligned_cols=52  Identities=29%  Similarity=0.666  Sum_probs=42.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--------CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--------GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--------~tCPlCR~~l~~~  278 (283)
                      +-...|..|-..+..++.+ .|-|-|+||++|+.+|-..-        -.||.|-.+|+..
T Consensus        48 DY~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            3456799999999988876 57799999999999998752        2499999988654

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=96.57  E-value=0.0011  Score=55.08  Aligned_cols=40  Identities=23%  Similarity=0.663  Sum_probs=32.8

Q ss_pred             CCCcCccccCccCCCCeeEEcCCC------CccChhhHHHHHhcCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCK------HRFHSDCLDPWVRSCG  266 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCg------H~FH~~CI~~WL~~~~  266 (283)
                      ...+|.||++.+.....++.++||      |.||..|+++|-..++
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence            367899999999986667777887      9999999999954433

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

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

Probab=96.56  E-value=0.0013  Score=71.51  Aligned_cols=50  Identities=28%  Similarity=0.603  Sum_probs=41.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC----------CCCCCcccce
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC----------GDCPYCRRNI  275 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~----------~tCPlCR~~l  275 (283)
                      ..++.|.||+.+-......++|-|+|+||..|....|++.          -.||+|+.+|
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            5678999999988777778899999999999998877652          2599998875

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

Probab=96.53  E-value=0.00084  Score=59.23  Aligned_cols=44  Identities=23%  Similarity=0.515  Sum_probs=38.8

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccc
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRN  274 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~  274 (283)
                      .+.|.||-.+|..+...   .|||.||..|...-++....|-+|-+.
T Consensus       196 PF~C~iCKkdy~spvvt---~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYESPVVT---ECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccchhhh---hcchhHHHHHHHHHhccCCcceecchh
Confidence            57899999999987555   899999999999999989999999654

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

Probab=96.26  E-value=0.002  Score=62.33  Aligned_cols=49  Identities=29%  Similarity=0.619  Sum_probs=39.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--------CCCCCcccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--------GDCPYCRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--------~tCPlCR~~  274 (283)
                      ...+.|.||+++..-..-...|||+|+||..|++.++...        -.||-|...
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            4568999999997766788899999999999999998752        248766543

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

Probab=96.21  E-value=0.0018  Score=64.48  Aligned_cols=50  Identities=28%  Similarity=0.716  Sum_probs=39.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-----CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-----CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-----~~tCPlCR~~l~~~  278 (283)
                      ....+|.+|-+.-++....   .|.|.||..||++++..     +.+||.|-..+..+
T Consensus       534 k~~~~C~lc~d~aed~i~s---~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIES---SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cCceeecccCChhhhhHhh---hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            5578899998886655444   89999999999999865     45799998877654

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

Probab=96.21  E-value=0.0029  Score=43.35  Aligned_cols=40  Identities=38%  Similarity=1.021  Sum_probs=27.5

Q ss_pred             CccccCccCCCCeeEEcCCC-----CccChhhHHHHHhc--CCCCCCc
Q 023376          231 CSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRS--CGDCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCg-----H~FH~~CI~~WL~~--~~tCPlC  271 (283)
                      |-||++...+...+ +.||.     -..|..||..|+..  +..|++|
T Consensus         1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            67999987766533 56865     37899999999985  4569887

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

Probab=96.17  E-value=0.0026  Score=43.85  Aligned_cols=44  Identities=27%  Similarity=0.693  Sum_probs=22.3

Q ss_pred             CccccCccCCCCeeEEcC--CCCccChhhHHHHHh-cCCCCCCcccce
Q 023376          231 CSICLESFTDGDELICLP--CKHRFHSDCLDPWVR-SCGDCPYCRRNI  275 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LP--CgH~FH~~CI~~WL~-~~~tCPlCR~~l  275 (283)
                      |++|.+++...+. ..+|  ||..+|..|....+. ..+.||-||.+.
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999843332 2335  999999999988886 478899999863

>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=95.97  E-value=0.0039  Score=48.77  Aligned_cols=33  Identities=27%  Similarity=0.779  Sum_probs=27.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHH
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLD  259 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~  259 (283)
                      .....|+||-..+... .....||||+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~-~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNS-VFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCc-eEEEeCCCeEEeccccc
Confidence            4567799999999874 45577999999999985

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 [].

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

Probab=95.90  E-value=0.0045  Score=59.03  Aligned_cols=45  Identities=27%  Similarity=0.549  Sum_probs=32.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|.||+++......+   ||||+-|  |..-- +....||+||..|.
T Consensus       303 ~~p~lcVVcl~e~~~~~fv---pcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSAVFV---PCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccceeee---cCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            4468899999998775444   9999976  65443 23445999998764

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

Probab=95.90  E-value=0.0054  Score=53.37  Aligned_cols=54  Identities=33%  Similarity=0.784  Sum_probs=36.9

Q ss_pred             CCcCccccCccCCCC----eeEEcCCCCccChhhHHHHHhc-----------CCCCCCcccceecCCCC
Q 023376          228 SLDCSICLESFTDGD----ELICLPCKHRFHSDCLDPWVRS-----------CGDCPYCRRNIVVNSDK  281 (283)
Q Consensus       228 ~~~C~ICle~~~~~~----~l~~LPCgH~FH~~CI~~WL~~-----------~~tCPlCR~~l~~~~~~  281 (283)
                      ...|.||+..-..|.    ..-...||--||.-||..||+.           -+.||+|-.+|..+-++
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmSg  233 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMSG  233 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeeccC
Confidence            345777765433332    1123369999999999999975           23499999998776543

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

Probab=95.82  E-value=0.0034  Score=58.41  Aligned_cols=45  Identities=22%  Similarity=0.426  Sum_probs=39.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccce
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI  275 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l  275 (283)
                      .+.|-||...|..+...   .|+|.||..|...-++....|++|-..+
T Consensus       241 Pf~c~icr~~f~~pVvt---~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT---KCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccchhh---cCCceeehhhhccccccCCcceeccccc
Confidence            47799999999988555   8999999999999999999999997654

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

Probab=95.70  E-value=0.0036  Score=53.64  Aligned_cols=30  Identities=37%  Similarity=0.823  Sum_probs=27.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccCh
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHS  255 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~  255 (283)
                      +..-+|.||||++..++.+..|||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            456799999999999999999999999986

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

Probab=95.32  E-value=0.004  Score=57.91  Aligned_cols=42  Identities=31%  Similarity=0.757  Sum_probs=31.8

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          228 SLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ...|+|||+...   ....|+|||. -|..|-+..    +.||+||.-|.
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            678999998744   4567799995 477786553    48999998764

>PHA02862 5L protein; Provisional

Probab=95.30  E-value=0.011  Score=49.89  Aligned_cols=47  Identities=21%  Similarity=0.536  Sum_probs=35.2

Q ss_pred             CCcCccccCccCCCCeeEEcCCC-----CccChhhHHHHHhc--CCCCCCcccceecC
Q 023376          228 SLDCSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRS--CGDCPYCRRNIVVN  278 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCg-----H~FH~~CI~~WL~~--~~tCPlCR~~l~~~  278 (283)
                      ...|=||.+.-.+.  +  -||.     -..|.+||.+|+..  +..|++|+.+...+
T Consensus         2 ~diCWIC~~~~~e~--~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDER--N--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCCC--c--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            35799999985433  2  3765     57899999999976  45699999876543

>PHA03096 p28-like protein; Provisional

Probab=95.25  E-value=0.0078  Score=56.28  Aligned_cols=47  Identities=26%  Similarity=0.416  Sum_probs=33.9

Q ss_pred             CcCccccCccCCCC----eeEEcC-CCCccChhhHHHHHhcC------CCCCCcccce
Q 023376          229 LDCSICLESFTDGD----ELICLP-CKHRFHSDCLDPWVRSC------GDCPYCRRNI  275 (283)
Q Consensus       229 ~~C~ICle~~~~~~----~l~~LP-CgH~FH~~CI~~WL~~~------~tCPlCR~~l  275 (283)
                      ..|.||++......    .-..|+ |.|.||..||..|-...      ..||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            67999999887542    234566 99999999999997652      2355555443

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

Probab=95.10  E-value=0.011  Score=55.36  Aligned_cols=48  Identities=29%  Similarity=0.766  Sum_probs=36.5

Q ss_pred             CCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHh-cCCCCCCc-ccceecC
Q 023376          228 SLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVR-SCGDCPYC-RRNIVVN  278 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~-~~~tCPlC-R~~l~~~  278 (283)
                      ...|+.|-.....+...   | |+|.||.+||..-|. .-..||.| |..|..+
T Consensus       274 ~LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld  324 (427)
T COG5222         274 SLKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD  324 (427)
T ss_pred             cccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence            36799998887776544   5 999999999997765 46789999 4455443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.94  E-value=0.024  Score=51.67  Aligned_cols=53  Identities=15%  Similarity=0.306  Sum_probs=45.3

Q ss_pred             CCCCcCccccCccCCCCeeEEc-CCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICL-PCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~L-PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ..-+.|+||.+.+.....+..| ||||+|+.+|+...+..-..||+|-.++...
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            4578999999999887766666 6999999999999999999999998776544

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.90  E-value=0.023  Score=48.60  Aligned_cols=49  Identities=20%  Similarity=0.583  Sum_probs=36.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCC-----ccChhhHHHHHhcC--CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKH-----RFHSDCLDPWVRSC--GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH-----~FH~~CI~~WL~~~--~tCPlCR~~l~~~  278 (283)
                      .....|=||.++...  .  .-||.-     ..|.+|+..|+...  ..|++|..+....
T Consensus         6 ~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            457789999988532  2  237654     56999999999874  4699999876443

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.66  E-value=0.029  Score=51.68  Aligned_cols=53  Identities=19%  Similarity=0.419  Sum_probs=40.9

Q ss_pred             CCCCCcCccccCccCCCC-eeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          225 SKTSLDCSICLESFTDGD-ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~-~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ....+.|||+..+|.... .+...||||+|...+|.+.- ....||+|-.++...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE  163 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence            356789999999995444 44455899999999999973 356799998876643

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

Probab=94.60  E-value=0.024  Score=54.01  Aligned_cols=47  Identities=28%  Similarity=0.632  Sum_probs=37.6

Q ss_pred             CCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHH--HhcCCCCCCcccc
Q 023376          225 SKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPW--VRSCGDCPYCRRN  274 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~W--L~~~~tCPlCR~~  274 (283)
                      .++...|.||.+.+.-   +..+||+|..|-.|..+.  |...+.||+||.+
T Consensus        58 DEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          58 DEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            3567889999987553   456799999999998664  5668899999985

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

Probab=94.25  E-value=0.054  Score=51.26  Aligned_cols=49  Identities=20%  Similarity=0.364  Sum_probs=39.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|+||+.....+..+.  --|-+||..||-..+.+.+.||+--.++.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             CccccChhHHhccCCCceEE--ecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            45678999999988775542  36999999999999999999998655543

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

Probab=93.74  E-value=0.027  Score=58.58  Aligned_cols=45  Identities=29%  Similarity=0.696  Sum_probs=35.4

Q ss_pred             CcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--CCCCCcccceec
Q 023376          229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--GDCPYCRRNIVV  277 (283)
Q Consensus       229 ~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--~tCPlCR~~l~~  277 (283)
                      ..|.||++    .+.....+|+|.||..|+..-+...  ..||+||..+..
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            78999999    3334455899999999999988763  359999987644

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

Probab=93.68  E-value=0.0038  Score=60.02  Aligned_cols=53  Identities=30%  Similarity=0.622  Sum_probs=45.4

Q ss_pred             CCCcCccccCccCCC-CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDG-DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~-~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      -...|+||.+.++.. +.+..+-|||.+|..||..||.....||.|+.+++...
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG  248 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence            357899999999876 55666679999999999999999999999999987653

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

Probab=93.64  E-value=0.034  Score=58.52  Aligned_cols=37  Identities=30%  Similarity=0.536  Sum_probs=29.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR  263 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~  263 (283)
                      +....|.||.-.+...... +.||||.||..||..-..
T Consensus       815 ep~d~C~~C~~~ll~~pF~-vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIKPFY-VFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhcCcce-eeeccchHHHHHHHHHHH
Confidence            4578899998887755433 569999999999988754

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

Probab=93.64  E-value=0.036  Score=37.24  Aligned_cols=41  Identities=34%  Similarity=0.843  Sum_probs=24.7

Q ss_pred             CccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC--CCCCc
Q 023376          231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG--DCPYC  271 (283)
Q Consensus       231 C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~--tCPlC  271 (283)
                      |.+|.+.+..|..-..-.|+=.+|..|+..+++...  .||.|
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            778888888876552223888999999999998865  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=93.55  E-value=0.046  Score=45.48  Aligned_cols=52  Identities=23%  Similarity=0.524  Sum_probs=41.2

Q ss_pred             CCCcCccccCccCCCCeeEEcC---CCCccChhhHHHHHhc---CCCCCCcccceecCCC
Q 023376          227 TSLDCSICLESFTDGDELICLP---CKHRFHSDCLDPWVRS---CGDCPYCRRNIVVNSD  280 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LP---CgH~FH~~CI~~WL~~---~~tCPlCR~~l~~~~~  280 (283)
                      ...+|.||.|...+...+.  |   ||-..|..|-...|+.   ...||+|+..+.....
T Consensus        79 ~lYeCnIC~etS~ee~FLK--PneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~  136 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLK--PNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS  136 (140)
T ss_pred             CceeccCcccccchhhcCC--cccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence            5789999999877655443  3   9999999999888876   5679999998876543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.54  E-value=0.041  Score=38.97  Aligned_cols=47  Identities=23%  Similarity=0.564  Sum_probs=32.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      ...|..|...-..   -..+||||+.+..|..-  ..-+.||+|-.++...+
T Consensus         7 ~~~~~~~~~~~~~---~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVGTK---GTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEccccccc---cccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            4456666554333   34669999999999654  34567999988876554

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

Probab=92.74  E-value=0.076  Score=51.62  Aligned_cols=33  Identities=30%  Similarity=0.894  Sum_probs=26.1

Q ss_pred             eeEEcCCCCccChhhHHHHHhc--CCCCCCcccce
Q 023376          243 ELICLPCKHRFHSDCLDPWVRS--CGDCPYCRRNI  275 (283)
Q Consensus       243 ~l~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l  275 (283)
                      .+..|.|||.|-..||..||.+  ...||.|....
T Consensus        21 r~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen   21 RIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             EEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            4556679999999999999964  23599997653

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

Probab=92.61  E-value=0.054  Score=50.41  Aligned_cols=46  Identities=28%  Similarity=0.651  Sum_probs=38.1

Q ss_pred             CCcCccccCccCCCC-eeEEcCCCCccChhhHHHHHhcCCCCCCccc
Q 023376          228 SLDCSICLESFTDGD-ELICLPCKHRFHSDCLDPWVRSCGDCPYCRR  273 (283)
Q Consensus       228 ~~~C~ICle~~~~~~-~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~  273 (283)
                      ...|+||.+.+.... .+..++|||.-|..|+......+-.||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            455999999887654 4456799999999999998888888999977

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.93  E-value=0.098  Score=49.86  Aligned_cols=52  Identities=25%  Similarity=0.536  Sum_probs=35.5

Q ss_pred             CCCCcCccccCccCCCCee-EEcCCCCccChhhHHHHHhc-CCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDEL-ICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l-~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~  277 (283)
                      .+++.|+.|+|.+...++- .-.|||-..|.-|....-+. ++-||-||.....
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            3456699999999866643 22369987777775544332 6779999986543

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

Probab=91.57  E-value=0.089  Score=55.26  Aligned_cols=41  Identities=27%  Similarity=0.735  Sum_probs=32.3

Q ss_pred             CcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccc
Q 023376          229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRN  274 (283)
Q Consensus       229 ~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~  274 (283)
                      ..|.+|--.+..|  .+...|||.||..|+.   .+...||-|+.+
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence            5899998776665  3455799999999998   455679999874

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

Probab=91.33  E-value=0.094  Score=36.06  Aligned_cols=31  Identities=23%  Similarity=0.667  Sum_probs=22.7

Q ss_pred             CCC-CccChhhHHHHHhcCCCCCCcccceecC
Q 023376          248 PCK-HRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       248 PCg-H~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .|. |..|..||.-.|.....||+|..+++..
T Consensus        17 ~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   17 KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            687 9999999999999999999999998864

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

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

Probab=91.10  E-value=0.091  Score=49.50  Aligned_cols=44  Identities=27%  Similarity=0.505  Sum_probs=29.1

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccce
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI  275 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l  275 (283)
                      .-.|.-|=-.+..  .-+.+||.|+||.+|...  ..-+.||.|-..|
T Consensus        90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            4456667444332  224459999999999643  4466899996654

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

Probab=90.96  E-value=0.24  Score=47.77  Aligned_cols=32  Identities=25%  Similarity=0.738  Sum_probs=25.3

Q ss_pred             CCCccChhhHHHHHhc-------------CCCCCCcccceecCCC
Q 023376          249 CKHRFHSDCLDPWVRS-------------CGDCPYCRRNIVVNSD  280 (283)
Q Consensus       249 CgH~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~~  280 (283)
                      |.-.+|.+|+-+|+..             +..||+||+.+..-+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            6678899999999865             3359999999876543

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

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

Probab=89.87  E-value=0.23  Score=48.18  Aligned_cols=51  Identities=24%  Similarity=0.507  Sum_probs=40.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC---CCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC---GDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~---~tCPlCR~~l~  276 (283)
                      -..+.|||=.+.-.+......|.|||+....-|.+..++.   ..||+|-.+..
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~  385 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL  385 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence            4578999988777766667788999999999999987764   36999965443

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

Probab=89.31  E-value=0.1  Score=57.00  Aligned_cols=46  Identities=24%  Similarity=0.694  Sum_probs=37.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR  273 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~  273 (283)
                      .....|.||++.+..-..  +..|||.||..|+..|+..+..||+|+.
T Consensus      1151 ~~~~~c~ic~dil~~~~~--I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGG--IAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcCC--eeeechhHhhhHHHHHHHHhccCcchhh
Confidence            345689999999873222  2369999999999999999999999974

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

Probab=88.34  E-value=0.28  Score=51.47  Aligned_cols=53  Identities=26%  Similarity=0.649  Sum_probs=40.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC-----CccChhhHHHHHhcC--CCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRSC--GDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg-----H~FH~~CI~~WL~~~--~tCPlCR~~l~~~~  279 (283)
                      .+...|-||..+-..++.+ .-||.     -..|.+|+.+|+.-.  ..|-+|..++..++
T Consensus        10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            3457899999887777665 34776     468999999999864  45999998876543

>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=87.68  E-value=0.69  Score=39.65  Aligned_cols=36  Identities=36%  Similarity=0.874  Sum_probs=23.0

Q ss_pred             CCcCccccCccCCCCeeEEc-------C--CC-CccChhhHHHHHh
Q 023376          228 SLDCSICLESFTDGDELICL-------P--CK-HRFHSDCLDPWVR  263 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~L-------P--Cg-H~FH~~CI~~WL~  263 (283)
                      +..|+|||+--.....+..-       |  |+ -.-|..||+++-+
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            45799999986655433211       1  54 2347899998844

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.

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

Probab=87.50  E-value=0.39  Score=45.31  Aligned_cols=46  Identities=26%  Similarity=0.486  Sum_probs=34.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ....+|+||.+.+..+..-  -+=||+-|..|-.   +..+.||.||.++.
T Consensus        46 ~~lleCPvC~~~l~~Pi~Q--C~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPIFQ--CDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhhccCchhhccCccccee--cCCCcEehhhhhh---hhcccCCccccccc
Confidence            4578999999999886432  1236888888854   45778999998876

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

Probab=86.32  E-value=0.19  Score=52.03  Aligned_cols=50  Identities=34%  Similarity=0.712  Sum_probs=39.3

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC---CCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG---DCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~---tCPlCR~~l~~~~  279 (283)
                      ...+|+||+..+..+.   .+.|-|.|+..|+..-|...+   .||+|+..+.+..
T Consensus        20 k~lEc~ic~~~~~~p~---~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s   72 (684)
T KOG4362|consen   20 KILECPICLEHVKEPS---LLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS   72 (684)
T ss_pred             hhccCCceeEEeeccc---hhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence            3678999999999883   448999999999877665544   5999997766543

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

Probab=86.22  E-value=0.36  Score=50.43  Aligned_cols=26  Identities=35%  Similarity=0.885  Sum_probs=22.9

Q ss_pred             EEcCCCCccChhhHHHHHhcCCCCCC
Q 023376          245 ICLPCKHRFHSDCLDPWVRSCGDCPY  270 (283)
Q Consensus       245 ~~LPCgH~FH~~CI~~WL~~~~tCPl  270 (283)
                      ....|+|+.|..|...|+.....||.
T Consensus      1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             hhccccccccHHHHHHHHhcCCcCCC
Confidence            34569999999999999999999984

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

Probab=86.17  E-value=0.37  Score=50.49  Aligned_cols=49  Identities=12%  Similarity=0.213  Sum_probs=35.3

Q ss_pred             CCCcCccccCccCCCC-eeEEcC---CCCccChhhHHHHHhc------CCCCCCcccce
Q 023376          227 TSLDCSICLESFTDGD-ELICLP---CKHRFHSDCLDPWVRS------CGDCPYCRRNI  275 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~-~l~~LP---CgH~FH~~CI~~WL~~------~~tCPlCR~~l  275 (283)
                      ....|.||.-++..++ ...++|   |+|.||..||..|+..      +-.|++|...|
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            3566777777776532 344456   9999999999999865      33589997654

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

Probab=85.44  E-value=0.33  Score=47.28  Aligned_cols=38  Identities=29%  Similarity=0.700  Sum_probs=28.4

Q ss_pred             CCCcCccccCccCCC-CeeEEcCCCCccChhhHHHHHhc
Q 023376          227 TSLDCSICLESFTDG-DELICLPCKHRFHSDCLDPWVRS  264 (283)
Q Consensus       227 ~~~~C~ICle~~~~~-~~l~~LPCgH~FH~~CI~~WL~~  264 (283)
                      ...+|.||+.+.... .....+.|+|.||..|+++.+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            467899999444433 33335579999999999998875

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

Probab=84.51  E-value=0.55  Score=43.43  Aligned_cols=48  Identities=27%  Similarity=0.662  Sum_probs=35.8

Q ss_pred             CCcCccccCccCCCCe-eEEcCCC-----CccChhhHHHHHhc--CCCCCCcccce
Q 023376          228 SLDCSICLESFTDGDE-LICLPCK-----HRFHSDCLDPWVRS--CGDCPYCRRNI  275 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~-l~~LPCg-----H~FH~~CI~~WL~~--~~tCPlCR~~l  275 (283)
                      ...|-||.++...... ....||.     ...|..|+..|+..  ...|.+|....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~  133 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF  133 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence            5789999998765432 3455765     67899999999984  55699998754

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

Probab=84.08  E-value=0.53  Score=47.81  Aligned_cols=49  Identities=24%  Similarity=0.623  Sum_probs=39.9

Q ss_pred             CCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          225 SKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      .+....|.||+..+    ..+..+|.   |..|+..|+..+..||+|...+..++.
T Consensus       476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF  524 (543)
T ss_pred             hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence            35578899999998    34455788   899999999999999999988766554

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

Probab=83.16  E-value=0.64  Score=42.50  Aligned_cols=49  Identities=24%  Similarity=0.648  Sum_probs=35.5

Q ss_pred             CCCcCccccCccC-CCC-eeEEcC-CCCccChhhHHHHHhcCC-CCC--Ccccce
Q 023376          227 TSLDCSICLESFT-DGD-ELICLP-CKHRFHSDCLDPWVRSCG-DCP--YCRRNI  275 (283)
Q Consensus       227 ~~~~C~ICle~~~-~~~-~l~~LP-CgH~FH~~CI~~WL~~~~-tCP--lCR~~l  275 (283)
                      .+..|+||..+.. .++ .+.+-| |-|..|..|+.+.+.... .||  -|-+-+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            4568999987654 343 333446 999999999999998754 599  675443

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=83.09  E-value=1.4  Score=31.21  Aligned_cols=44  Identities=32%  Similarity=0.932  Sum_probs=32.4

Q ss_pred             CCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcCCCCCC--cccc
Q 023376          227 TSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPY--CRRN  274 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~~tCPl--CR~~  274 (283)
                      ....|.+|-+.|..++.+++-| ||-.+|..|...    ...|-+  |...
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            3457999999998666666667 999999999543    556655  5443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.65  E-value=0.49  Score=44.37  Aligned_cols=31  Identities=26%  Similarity=0.764  Sum_probs=24.8

Q ss_pred             CCCccChhhHHHHHhc-------------CCCCCCcccceecCC
Q 023376          249 CKHRFHSDCLDPWVRS-------------CGDCPYCRRNIVVNS  279 (283)
Q Consensus       249 CgH~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~  279 (283)
                      |.-.+|.+||-+|+..             +-+||+||+.+...+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            6788999999999754             346999999876544

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.62  E-value=0.49  Score=43.59  Aligned_cols=50  Identities=26%  Similarity=0.676  Sum_probs=35.3

Q ss_pred             CCCCcCccccCccCCCCee-EEcCCC-----CccChhhHHHHHhcCC--------CCCCcccce
Q 023376          226 KTSLDCSICLESFTDGDEL-ICLPCK-----HRFHSDCLDPWVRSCG--------DCPYCRRNI  275 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l-~~LPCg-----H~FH~~CI~~WL~~~~--------tCPlCR~~l  275 (283)
                      +.+..|-||+..-++.... -+-||.     |..|..||..|+..+.        .||-|+++.
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            4567899999875544311 122664     8999999999996522        499998864

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

Probab=80.73  E-value=0.8  Score=42.45  Aligned_cols=31  Identities=26%  Similarity=0.675  Sum_probs=25.1

Q ss_pred             EEcCCCCccChhhHHHHHhcC-CCCCCcccce
Q 023376          245 ICLPCKHRFHSDCLDPWVRSC-GDCPYCRRNI  275 (283)
Q Consensus       245 ~~LPCgH~FH~~CI~~WL~~~-~tCPlCR~~l  275 (283)
                      +.|.|||.||..|+...+... ..||+||...
T Consensus        23 ~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   23 RVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             cccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            455799999999998877653 4699999984

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

Probab=80.12  E-value=0.68  Score=47.36  Aligned_cols=43  Identities=28%  Similarity=0.736  Sum_probs=27.7

Q ss_pred             CCCCcCccccCc-----cCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCc
Q 023376          226 KTSLDCSICLES-----FTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYC  271 (283)
Q Consensus       226 ~~~~~C~ICle~-----~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlC  271 (283)
                      ...+.|.||...     |.........-|+++||..|+..   ...-||.|
T Consensus       509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC  556 (580)
T KOG1829|consen  509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC  556 (580)
T ss_pred             cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence            346788888432     22222344556999999999654   34449999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	283
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		3e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		3e-05
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		4e-05
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		6e-05

>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 = 50.4 bits (119), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 198 PGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDC 257
           P  ++E++D L  EI     ++ +  A    + C IC   +  GD    LPC H FH  C
Sbjct: 15  PPASKESIDALP-EIL----VTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPC 69
Query: 258 LDPWVRSCGDCPYCR 272
           +  W++  G CP CR
Sbjct: 70  VSIWLQKSGTCPVCR 84

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 30/54 (55%)
Query: 223 EASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           E   + L+C +C E +  G+ +  LPC H FH  C+ PW+     CP CR+++ 
Sbjct: 10  EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 224 ASKTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
           A    ++C++CL    DG+E   LP C H FH++C+D W+ S   CP CR  +VV
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/45 (42%), Positives = 28/45 (62%)
Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           C+ICL    +G+++  LPC H FH  C+D W+ +   CP CR +I
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 220 SEGEASKTSLD--CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV 276
           S G+  + +L   C++CLE F   DEL   PCKH FH  CL  W+     CP C   ++
Sbjct: 5   SSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/100 (24%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 176 FSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICL 235
           F  ++ ++ + L+  +++++K     +E L             S   +  +  L C IC 
Sbjct: 14  FEAIIQAKNKELEQTKEEKEKMQAQKEEVL-------------SHMNDVLENELQCIICS 60
Query: 236 ESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           E F +    + L C H F S C++ W++   +CP CR++I
Sbjct: 61  EYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDI 97

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/100 (24%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 176 FSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICL 235
           F  ++ ++ + L+  +++++K     +E L             S   +  +  L C IC 
Sbjct: 25  FEAIIQAKNKELEQTKEEKEKMQAQKEEVL-------------SHMNDVLENELQCIICS 71
Query: 236 ESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           E F +    + L C H F S C++ W++   +CP CR++I
Sbjct: 72  EYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/100 (24%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 176 FSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICL 235
           F  ++ ++ + L+  +++++K     +E L             S   +  +  L C IC 
Sbjct: 14  FEAIIQAKNKELEQTKEEKEKMQAQKEEVL-------------SHMNDVLENELQCIICS 60
Query: 236 ESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           E F +    + L C H F S C++ W++   +CP CR++I
Sbjct: 61  EYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDI 97

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 215 SFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCR 272
           S+  +     S+ +L C +C+  F     L  LPC H FH+ C+D W+++   CP CR
Sbjct: 11  SYRFNPNNHQSEQTL-CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	283
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	8e-23
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-21
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-20
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	9e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	7e-19
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-15
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	9e-13
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-12
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-10
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	7e-10
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-08
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	7e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	7e-08
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-06
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-06
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	6e-06
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	5e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	6e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	8e-05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	1e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	5e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	6e-04

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

 Score = 88.9 bits (221), Expect = 8e-23
 Identities = 23/91 (25%), Positives = 35/91 (38%), Gaps = 5/91 (5%)

Query: 185 ERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDEL 244
                        P  ++E++D L         ++ +  A    + C IC   +  GD  
Sbjct: 2   GHHHHHHSHMVANPPASKESIDAL-----PEILVTEDHGAVGQEMCCPICCSEYVKGDVA 56

Query: 245 ICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
             LPC H FH  C+  W++  G CP CR   
Sbjct: 57  TELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

>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 = 84.3 bits (209), Expect = 3e-21
 Identities = 22/62 (35%), Positives = 31/62 (50%)

Query: 221 EGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
           EG    T   C+ICL    +G+++  LPC H FH  C+D W+ +   CP CR +I     
Sbjct: 7   EGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66

Query: 281 KS 282
             
Sbjct: 67  SE 68

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

 Score = 82.0 bits (203), Expect = 2e-20
 Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 6/75 (8%)

Query: 201 TQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDP 260
           +  +   L    F      +          C +C+  F     L  LPC H FH+ C+D 
Sbjct: 2   SSGSSGQLPSYRF------NPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDK 55

Query: 261 WVRSCGDCPYCRRNI 275
           W+++   CP CR + 
Sbjct: 56  WLKANRTCPICRADS 70

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

 Score = 80.2 bits (198), Expect = 9e-20
 Identities = 22/64 (34%), Positives = 30/64 (46%)

Query: 219 SSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN 278
           S + +       C++CLE F   DEL   PCKH FH  CL  W+     CP C   ++  
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL 65

Query: 279 SDKS 282
           +  S
Sbjct: 66  AQLS 69

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

 Score = 77.9 bits (192), Expect = 7e-19
 Identities = 19/60 (31%), Positives = 32/60 (53%)

Query: 223 EASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDKS 282
           E   + L+C +C E +  G+ +  LPC H FH  C+ PW+     CP CR+++   +  +
Sbjct: 10  EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT 69

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

 Score = 75.7 bits (187), Expect = 3e-18
 Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 224 ASKTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
           A    ++C++CL    DG+E   LP C H FH++C+D W+ S   CP CR  +VV
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

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

 Score = 69.0 bits (169), Expect = 1e-15
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 215 SFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRN 274
           S   S   +      +C IC++    G   + LPC H F   C+D W     +CP CR  
Sbjct: 2   SSGSSGRVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57

Query: 275 IVVNSDKS 282
           +   ++ S
Sbjct: 58  MTGANESS 65

>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 = 67.7 bits (166), Expect = 3e-15
 Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 224 ASKTSLDCSICLESFTDGDELI-CLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
            S  S  C ICLE       +   LPC H  H  C +  ++    CP C    
Sbjct: 1   GSSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 65.7 bits (160), Expect = 2e-14
 Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 4/65 (6%)

Query: 215 SFAISSEGEASKTSLDCSICLESFTD----GDELICLPCKHRFHSDCLDPWVRSCGDCPY 270
           S   S  G     ++ C IC++ +++    G  ++   C H F S CL   +++   CP 
Sbjct: 2   SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61

Query: 271 CRRNI 275
           CR+ I
Sbjct: 62  CRKKI 66

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           C ICLE  ++    + LPC H F   C+  W+R    CP C+  +
Sbjct: 8   CPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 61.4 bits (149), Expect = 9e-13
 Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 4/64 (6%)

Query: 220 SEGEASKTSLDCSICLESFTD----GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           + G     ++ C IC++ +++    G  ++   C H F S CL   +++   CP CR+ I
Sbjct: 2   TTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

Query: 276 VVNS 279
               
Sbjct: 62  NHKR 65

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

 Score = 60.7 bits (147), Expect = 2e-12
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 231 CSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
           C  C       D ++    C H FH+ C+  WV+    CP C+++ VV
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76

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

 Score = 60.2 bits (146), Expect = 2e-12
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 4/55 (7%)

Query: 229 LDCSICLESFTD----GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS 279
           + C IC++ +++    G  ++   C H F S CL   +++   CP CR+ I    
Sbjct: 4   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

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

 Score = 59.9 bits (144), Expect = 2e-10
 Identities = 19/97 (19%), Positives = 34/97 (35%), Gaps = 19/97 (19%)

Query: 200 LTQEALDCLHVEIFNSFAISSEGEASKTS---LDCSICLESFTDGDELI-----CLPCKH 251
           + +  L    +  F     S   +  +     L C+IC     DG E+         C  
Sbjct: 277 IHKNLLRMFDLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVL 336

Query: 252 RFHSDCLDPWVRSC-----------GDCPYCRRNIVV 277
           + H+ CL+ W ++            G CP+C+  +  
Sbjct: 337 KCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST 373

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

 Score = 54.8 bits (132), Expect = 3e-10
 Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 3/57 (5%)

Query: 219 SSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           S   E  +    C IC ++F +    +   C+H F   C     R+   C  C +  
Sbjct: 6   SGGSEEEEIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPT 59

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

 Score = 54.1 bits (130), Expect = 4e-10
 Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 215 SFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRN 274
           S   S     S T  +C+ICL++       + LPCKH F   C+         C  CR+ 
Sbjct: 2   SSGSSGNTAPSLTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQE 58

Query: 275 I 275
           I
Sbjct: 59  I 59

>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 = 59.0 bits (142), Expect = 4e-10
 Identities = 29/104 (27%), Positives = 34/104 (32%), Gaps = 5/104 (4%)

Query: 174 SPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEI-FNSFAISSEGEASKTSLDCS 232
             F  L+    E   L    R + P LT          I           E   T   C 
Sbjct: 277 PLFQALIDGFREGFYLFPDGRNQNPDLTGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCK 336

Query: 233 ICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNI 275
           IC E+  D       PC H   + CL  W  S G  CP+CR  I
Sbjct: 337 ICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377

>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 = 53.4 bits (128), Expect = 7e-10
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 9/64 (14%)

Query: 219 SSEGEASKTSL-----DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD--CPYC 271
            S G + + +       C+IC      G    C  C  R H  C+  + +S  +  CP+C
Sbjct: 1   GSSGSSGRETYPDAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHC 58

Query: 272 RRNI 275
               
Sbjct: 59  NDYW 62

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

 Score = 52.0 bits (125), Expect = 4e-09
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 4/67 (5%)

Query: 217 AISSEGEASKTSLDCSICLESFTDGDEL-ICLPCKHRFHSDCLDPWVRSCGD---CPYCR 272
             S   +A +  L+C IC+ESFT+       L C H     CL+  + S  +   CP+C 
Sbjct: 4   GSSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

Query: 273 RNIVVNS 279
           +   + S
Sbjct: 64  KITRITS 70

>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 = 49.9 bits (119), Expect = 3e-08
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWV-RSCGDCPYCRRNI 275
              C IC+E   D    +C  C       C+  W+      CP+CR  +
Sbjct: 22  VFRCFICMEKLRD--ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 48.6 bits (116), Expect = 3e-08
 Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 2/47 (4%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           + CSIC     D        C H F   C+         CP C   +
Sbjct: 16  ILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 51.7 bits (123), Expect = 5e-08
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD--CPYCRRNI 275
            C+IC      G    C  C  R H  C+  + +S  +  CP+C    
Sbjct: 182 ICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

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

 Score = 49.8 bits (118), Expect = 6e-08
 Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 222 GEASKTSLDCSICLESFTDGDEL----ICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           G     ++ C IC++ +++  +     +   C H F S CL   +++   CP CR+ I
Sbjct: 1   GAMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 39.0 bits (90), Expect = 3e-04
 Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 4/51 (7%)

Query: 229 LDCSICLESFTD----GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           + C IC++ +++    G  ++   C H F S CL   +++   CP CR+ I
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 49.7 bits (118), Expect = 7e-08
 Identities = 26/103 (25%), Positives = 47/103 (45%), Gaps = 6/103 (5%)

Query: 173 SSPFSELMTSQTERLQLVQQKRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCS 232
            +   EL  S+ +   ++Q K K+     +E      ++      +S   +  +  L C 
Sbjct: 12  WALMEELNRSKKDFEAIIQAKNKELEQTKEEKEK---MQAQKEEVLSHMNDVLENELQCI 68

Query: 233 ICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           IC E F +    + L C H F S C++ W++   +CP CR++I
Sbjct: 69  ICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

>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 = 48.7 bits (116), Expect = 7e-08
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 2/47 (4%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           L C +C   F D      + C H F   C+  ++ +   CP C   +
Sbjct: 16  LMCVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 1e-07
 Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 4/60 (6%)

Query: 217 AISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNI 275
           A+  +   S +   C IC+E   +    + LPC H     C    V      CP+CRR +
Sbjct: 4   ALPKDAIPSLSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60

>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 = 47.5 bits (112), Expect = 2e-07
 Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 1/56 (1%)

Query: 223 EASKTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
                 ++C     S T  +  +    C H FH  C+  W+++   CP   R    
Sbjct: 46  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 101

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

 Score = 45.9 bits (109), Expect = 2e-07
 Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 4/48 (8%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
             C  C              C HRF   C+   + S    C  C+ +I
Sbjct: 16  YKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESI 60

>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 = 47.3 bits (112), Expect = 3e-07
 Identities = 19/77 (24%), Positives = 26/77 (33%), Gaps = 4/77 (5%)

Query: 200 LTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLD 259
           L  E L  L     +           + +  C  C E        I   C+H    DCLD
Sbjct: 24  LWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVFR---PITTVCQHNVCKDCLD 80

Query: 260 PWVRSCGD-CPYCRRNI 275
              R+    CP CR ++
Sbjct: 81  RSFRAQVFSCPACRYDL 97

>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 = 46.0 bits (108), Expect = 7e-07
 Identities = 14/64 (21%), Positives = 17/64 (26%), Gaps = 20/64 (31%)

Query: 230 DCSICLESFTDGDE---------------LICLPCKHRFHSDCLDPWVRS-----CGDCP 269
           DC IC+E                           C H FH  CL     +        CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 270 YCRR 273
            C+ 
Sbjct: 87  SCKT 90

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

 Score = 44.3 bits (105), Expect = 1e-06
 Identities = 15/52 (28%), Positives = 19/52 (36%), Gaps = 6/52 (11%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
           L C  C            LPC H   S CL+    S   CP C+    + +D
Sbjct: 7   LRCQQCQAEAKC---PKLLPCLHTLCSGCLE---ASGMQCPICQAPWPLGAD 52

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 217 AISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD--CPYCRRN 274
             S E +     L C IC +  TD   + C  C + +  +C+   +    +  CP C +N
Sbjct: 4   GSSGEDDPIPDELLCLICKDIMTDAVVIPC--CGNSYCDECIRTALLESDEHTCPTCHQN 61

Query: 275 IV 276
            V
Sbjct: 62  DV 63

>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 = 45.2 bits (106), Expect = 2e-06
 Identities = 11/58 (18%), Positives = 20/58 (34%)

Query: 216 FAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRR 273
            AI             +    + ++   +    C H FH  C+  W+++   CP   R
Sbjct: 51  CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108

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

 Score = 43.9 bits (103), Expect = 2e-06
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 2/58 (3%)

Query: 218 ISSEGEASKTSLDCSICLESFTDGDELIC-LPCKHRFHSDCLDPWVRSC-GDCPYCRR 273
           +S   +A +  ++C +C+E     D       C ++    C         G CP CR+
Sbjct: 1   MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

>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 = 42.9 bits (101), Expect = 6e-06
 Identities = 10/42 (23%), Positives = 15/42 (35%)

Query: 224 ASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC 265
            S  S  C +CL  +          C+  F + CL  +V   
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELL 42

>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 = 44.2 bits (104), Expect = 7e-06
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
             C  C E        +   C H    DCL    ++    CP CR ++
Sbjct: 79  FMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

>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 = 42.9 bits (101), Expect = 1e-05
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
             +C ICL +  +    +  PC HRF   C+   +R  G  CP     +
Sbjct: 18  KYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

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

 Score = 42.4 bits (100), Expect = 1e-05
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
            L C IC E F     +I   C H + S C+  ++     CP C   +
Sbjct: 22  LLRCGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 4e-05
 Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 4/61 (6%)

Query: 218 ISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD--CPYCRRNI 275
           + SE +     L C IC +  TD   + C  C + +  +C+   +    +  CP C +N 
Sbjct: 3   LGSEDDPIPDELLCLICKDIMTDAVVIPC--CGNSYCDECIRTALLESDEHTCPTCHQND 60

Query: 276 V 276
           V
Sbjct: 61  V 61

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

 Score = 41.1 bits (96), Expect = 5e-05
 Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
           S+ C IC     D    +   CKH F   C+   ++  G  CP CR   
Sbjct: 23  SISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

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

 Score = 41.6 bits (97), Expect = 6e-05
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 4/57 (7%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNIVVNSDKSV 283
             +C ICL +  +    +  PC HRF   C+   +R  G  CP     ++ N     
Sbjct: 18  KYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD 71

>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 = 40.9 bits (95), Expect = 8e-05
 Identities = 13/56 (23%), Positives = 17/56 (30%), Gaps = 4/56 (7%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD-CPYCRRNIVVNSDKSV 283
             CS C              C HR+ S CL   + S    C  C    +     S+
Sbjct: 32  YLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISI 84

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 2/47 (4%)

Query: 230 DCSICLESFTDGDELICLPCKHRFH-SDCLDPWVRSCGDCPYCRRNI 275
            CS+C +   DG+ +I     H      C     ++   CP C++ I
Sbjct: 9   PCSLCEKRPRDGN-IIHGRTGHLVTCFHCARRLKKAGASCPICKKEI 54

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

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 12/60 (20%), Positives = 20/60 (33%), Gaps = 6/60 (10%)

Query: 217 AISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD---CPYCRR 273
           A        +  + C ICL+        + + C H F   C+     +      CP C+ 
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKT 65

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 9/61 (14%)

Query: 219 SSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD------CPYCR 272
           SS  E  K  + C ICLE   +    +   C H F   C+     S  +      CP CR
Sbjct: 10  SSVLEMIKEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

Query: 273 R 273
            
Sbjct: 67  V 67

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

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 17/61 (27%), Positives = 21/61 (34%), Gaps = 8/61 (13%)

Query: 219 SSEGEASKTSLDCSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRSCGD--CPYC 271
           S       +   C IC     D   LI  PC      H  H  CL  W++S     C  C
Sbjct: 6   SGTSITPSSQDICRICHCEGDDESPLIT-PCHCTGSLHFVHQACLQQWIKSSDTRCCELC 64

Query: 272 R 272
           +
Sbjct: 65  K 65

>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 = 38.7 bits (90), Expect = 3e-04
 Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 9/56 (16%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCR-----RNIVVN 278
            L CS C       + +    C+H F S+C+   + +   CP C      +++ +N
Sbjct: 22  LLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGTG--CPVCYTPAWIQDLKIN 73

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

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 6/46 (13%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD---CPYC 271
             CS+CLE   +    + + C H F   C+  W         CP C
Sbjct: 16  ASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 36.6 bits (85), Expect = 6e-04
 Identities = 12/58 (20%), Positives = 19/58 (32%), Gaps = 6/58 (10%)

Query: 217 AISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD---CPYC 271
           A        +  + C ICL+        + + C H F   C+     +      CP C
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	283
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.68
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.58
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.52
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.52
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.52
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.51
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.43
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.42
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.4
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.38
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.37
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.37
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.36
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.35
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.34
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.31
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.3
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.3
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.29
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.26
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.25
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.24
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.24
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.23
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.19
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.19
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.18
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.17
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.17
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.15
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.15
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.14
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.14
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.13
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.11
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.11
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.1
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.1
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.01
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.01
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.0
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.98
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.98
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.97
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.97
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.94
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.94
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.9
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.88
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.86
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.8
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.77
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.74
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.7
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.61
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.59
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.59
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.56
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.51
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.46
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.4
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.35
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.35
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.98
3nw0_A	238	Non-structural maintenance of chromosomes element	97.79
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.52
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.38
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.98
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	91.92
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.27
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	86.68
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	85.88
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	85.79
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	85.08
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	85.01
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	84.65
1we9_A	64	PHD finger family protein; structural genomics, PH	84.14
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	83.41
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	82.58
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	81.8
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	81.29

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

Probab=99.68  E-value=5.4e-17  Score=124.65  Aligned_cols=80  Identities=28%  Similarity=0.612  Sum_probs=68.4

Q ss_pred             cCCCCCCCCHHHHhhccceeeccccccccccCCCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcc
Q 023376          193 KRKKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCR  272 (283)
Q Consensus       193 ~~~~~~~ls~~~i~~L~~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR  272 (283)
                      ......+++++.|+.|+...+......     ......|+||++.|..++.+..|||||.||..||..|+..+.+||+||
T Consensus        10 ~~~~~~~~s~~~i~~lp~~~~~~~~~~-----~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr   84 (91)
T 2l0b_A           10 HMVANPPASKESIDALPEILVTEDHGA-----VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR   84 (91)
T ss_dssp             CSSCCCCCCHHHHHTSCEEECCTTCSS-----SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTC
T ss_pred             CCcCCCCCCHHHHHhCCCeeecccccc-----cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcC
Confidence            345678899999999998887654322     245788999999999999888999999999999999999999999999


Q ss_pred             cceec
Q 023376          273 RNIVV  277 (283)
Q Consensus       273 ~~l~~  277 (283)
                      ..+..
T Consensus        85 ~~~~~   89 (91)
T 2l0b_A           85 CMFPP   89 (91)
T ss_dssp             CBSSC
T ss_pred             ccCCC
Confidence            98864

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

Probab=99.58  E-value=6.5e-16  Score=113.97  Aligned_cols=68  Identities=29%  Similarity=0.658  Sum_probs=55.7

Q ss_pred             HhhccceeeccccccccccCCCCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          205 LDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       205 i~~L~~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ++.|+...+.....      ......|+||++.|..++.+..|||+|.||..||..|+..+.+||+||..+...
T Consensus         6 i~~lp~~~~~~~~~------~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNNH------QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSSC------SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCccc------cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            45566665554321      245678999999999998888999999999999999999999999999988764

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

Probab=99.52  E-value=5.5e-15  Score=102.27  Aligned_cols=51  Identities=41%  Similarity=1.095  Sum_probs=46.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ++..+|+||++.|..++.+..++ |||.||..||.+|+..+.+||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45678999999999988888888 9999999999999999999999999875

>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=99.52  E-value=1.2e-14  Score=105.18  Aligned_cols=54  Identities=37%  Similarity=0.910  Sum_probs=48.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.|..+..+..++|||.||..||..|+..+.+||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            557889999999988888888999999999999999999999999999987654

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

Probab=99.52  E-value=1.2e-14  Score=106.67  Aligned_cols=54  Identities=37%  Similarity=0.799  Sum_probs=49.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.|..+..+..|+|+|.||..||..|+..+..||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            557889999999999988889999999999999999999999999999986543

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

Probab=99.51  E-value=1.6e-14  Score=106.99  Aligned_cols=54  Identities=33%  Similarity=0.985  Sum_probs=49.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.|..+..+..|+|+|.||..||..|+..+..||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            557899999999999888888999999999999999999999999999987654

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

Probab=99.43  E-value=4.5e-14  Score=102.34  Aligned_cols=56  Identities=25%  Similarity=0.701  Sum_probs=48.0

Q ss_pred             CCCCcCccccCccCCC----CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCCC
Q 023376          226 KTSLDCSICLESFTDG----DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSDK  281 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~----~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~~  281 (283)
                      .+...|+||++.|..+    ..+..++|||.||..||..|+..+..||+||..+...+..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            5578899999998764    4556789999999999999999999999999998876544

>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=99.42  E-value=1.1e-13  Score=95.52  Aligned_cols=51  Identities=29%  Similarity=0.641  Sum_probs=44.1

Q ss_pred             CCCCcCccccCccCCC-CeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDG-DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~-~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|+||++.|..+ ..+..++|+|.||..||..|+.....||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            3467899999999654 45677899999999999999999999999998764

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

Probab=99.40  E-value=8.4e-14  Score=104.65  Aligned_cols=52  Identities=33%  Similarity=0.830  Sum_probs=42.3

Q ss_pred             CCCcCccccCccCC-----------CCeeEEcC-CCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTD-----------GDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~-----------~~~l~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      +...|+||++.|..           ++.++.++ |+|.||..||.+||..+++||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45678888888854           34455555 999999999999999999999999988654

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

Probab=99.38  E-value=1.7e-13  Score=98.41  Aligned_cols=52  Identities=27%  Similarity=0.765  Sum_probs=44.9

Q ss_pred             CCCCcCccccCccCCC----CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDG----DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~----~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      .....|+||++.|..+    ..+..++|||.||..||..|+..+..||+||..|..
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            5678899999998754    344678999999999999999999999999998753

>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=99.37  E-value=2.7e-13  Score=107.37  Aligned_cols=52  Identities=27%  Similarity=0.476  Sum_probs=42.3

Q ss_pred             CCCcCccccCccCCCC---------------eeEEcCCCCccChhhHHHHHh-----cCCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGD---------------ELICLPCKHRFHSDCLDPWVR-----SCGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~---------------~l~~LPCgH~FH~~CI~~WL~-----~~~tCPlCR~~l~~~  278 (283)
                      .+..|+||++.|..+.               .+..++|+|+||..||..||.     .+.+||+||..+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3568999999997653               344679999999999999994     467899999987654

>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=99.37  E-value=2.4e-13  Score=107.71  Aligned_cols=53  Identities=25%  Similarity=0.555  Sum_probs=44.8

Q ss_pred             CCCCcCccccCccCCCC---------------eeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGD---------------ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~---------------~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|....               .+..++|+|.||..||.+||..+.+||+||+++...
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~~  102 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ  102 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcceee
Confidence            35678999999998651               356779999999999999999999999999986543

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

Probab=99.36  E-value=1.1e-13  Score=98.04  Aligned_cols=53  Identities=26%  Similarity=0.746  Sum_probs=45.4

Q ss_pred             CCCcCccccCccCCC----CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDG----DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~----~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      +...|+||++.+..+    ..+..++|||.||..||..|+..+..||+||..+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            357899999998754    44567799999999999999999999999999987654

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

Probab=99.35  E-value=3.3e-13  Score=97.84  Aligned_cols=51  Identities=31%  Similarity=0.905  Sum_probs=44.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      .....|+||++.+..    ..+||||.||..||..|+.....||+||..+.....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            557899999999876    567999999999999999999999999999876543

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

Probab=99.34  E-value=1.4e-12  Score=98.18  Aligned_cols=54  Identities=33%  Similarity=0.758  Sum_probs=46.2

Q ss_pred             CCCCcCccccCccCCCCe-eEEcCCCCccChhhHHHHHhcC---CCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDE-LICLPCKHRFHSDCLDPWVRSC---GDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~-l~~LPCgH~FH~~CI~~WL~~~---~tCPlCR~~l~~~~  279 (283)
                      .+...|+||++.|...+. .+.++|||.||..||..|+...   ..||+||..+...+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            557889999999987653 5677999999999999999986   78999999887654

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

Probab=99.31  E-value=2e-12  Score=94.50  Aligned_cols=53  Identities=23%  Similarity=0.472  Sum_probs=44.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      .....|+||++.+..+  +..++|||.||..||..|+.....||+||..+...+.
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCCChHHHCc--CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            5578899999998874  2234899999999999999999999999999876543

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

Probab=99.30  E-value=1.3e-12  Score=94.00  Aligned_cols=49  Identities=33%  Similarity=0.826  Sum_probs=42.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|+||++.+..+  ...+||||.||..||..|+..+..||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            3467899999998754  356799999999999999999999999999875

>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=99.30  E-value=1.7e-13  Score=110.51  Aligned_cols=71  Identities=23%  Similarity=0.470  Sum_probs=8.1

Q ss_pred             hhccceeeccccccccccCCCCCCcCccccCccCCCC---------------eeEEcCCCCccChhhHHHHHhcCCCCCC
Q 023376          206 DCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGD---------------ELICLPCKHRFHSDCLDPWVRSCGDCPY  270 (283)
Q Consensus       206 ~~L~~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~---------------~l~~LPCgH~FH~~CI~~WL~~~~tCPl  270 (283)
                      ..+..+++.......   +......|+||++.|..+.               .+..++|+|.||..||.+||..+.+||+
T Consensus        29 ~r~~ikkw~ava~w~---wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~  105 (117)
T 4a0k_B           29 KRFEVKKWNAVALWA---WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL  105 (117)
T ss_dssp             CSEEEEEEEEEEEEE---ECCCC---------------------------------------------------------
T ss_pred             CceEEEEEEEEEEEe---ecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCC
Confidence            444444444433332   1234678999999997532               2334589999999999999999999999


Q ss_pred             cccceecCC
Q 023376          271 CRRNIVVNS  279 (283)
Q Consensus       271 CR~~l~~~~  279 (283)
                      ||.++...+
T Consensus       106 Cr~~~~~~k  114 (117)
T 4a0k_B          106 DNREWEFQK  114 (117)
T ss_dssp             ---------
T ss_pred             CCCeeeeec
Confidence            999875543

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

Probab=99.29  E-value=1.2e-12  Score=95.31  Aligned_cols=49  Identities=33%  Similarity=0.664  Sum_probs=42.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      .....|+||++.+..+   +.++|||.||..||..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            4568899999998765   455999999999999999999999999998754

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

Probab=99.26  E-value=3.9e-12  Score=95.78  Aligned_cols=53  Identities=28%  Similarity=0.709  Sum_probs=45.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC-----CccChhhHHHHHhcCC--CCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK-----HRFHSDCLDPWVRSCG--DCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg-----H~FH~~CI~~WL~~~~--tCPlCR~~l~~~~  279 (283)
                      .....|.||+++|..++.+ ++||.     |.||..||.+||..++  +||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            4567899999999877766 58996     9999999999998864  8999999987654

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

Probab=99.25  E-value=4.6e-12  Score=93.15  Aligned_cols=50  Identities=28%  Similarity=0.666  Sum_probs=42.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcC--CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSC--GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~--~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|..+.   .++ |||.||..||..|+...  ..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           13 PDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             CGGGSCSSSCCCCTTCE---ECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCCcCCChHHhCCe---EcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            55789999999998764   369 99999999999999876  6899999976543

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

Probab=99.24  E-value=4.6e-12  Score=92.20  Aligned_cols=51  Identities=24%  Similarity=0.660  Sum_probs=43.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh---cCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR---SCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~---~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.+..+   ..++|||.||..||..|+.   ....||+||..+..++
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            5678999999998864   3459999999999999997   4568999999987664

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

Probab=99.24  E-value=6.2e-12  Score=90.17  Aligned_cols=51  Identities=24%  Similarity=0.612  Sum_probs=43.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh-cCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR-SCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~~~  279 (283)
                      .+...|+||++.+..+..   ++|||.||..||..|+. ....||+||..+..++
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQ---TECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEESSCCC---CSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHhcCeeE---CCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            557889999999987755   49999999999999995 5678999999987653

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

Probab=99.23  E-value=5.7e-12  Score=93.94  Aligned_cols=48  Identities=23%  Similarity=0.592  Sum_probs=42.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .....|+||++.|..+   +.++|||.||..||..|+.....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4568899999999764   34699999999999999999999999999875

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

Probab=99.19  E-value=4.9e-12  Score=103.89  Aligned_cols=47  Identities=38%  Similarity=0.976  Sum_probs=41.5

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceec
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      ...|+||++.|..+   +.+||||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            46799999999865   356999999999999999999999999998753

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

Probab=99.19  E-value=1.8e-11  Score=90.97  Aligned_cols=50  Identities=32%  Similarity=0.700  Sum_probs=43.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc------CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS------CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~------~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|..+.   .++|||.||..||..|+..      ...||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           17 KEEVTCPICLELLKEPV---SADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CTTTSCTTTCSCCSSCE---ECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             ccCCCCcCCChhhCcce---eCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            55789999999998764   4699999999999999988      67899999988754

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

Probab=99.18  E-value=1.2e-11  Score=91.25  Aligned_cols=50  Identities=16%  Similarity=0.456  Sum_probs=43.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|..+.   .++|||.||..||..|+.. ..+||+||..+...
T Consensus         6 ~~~~~C~IC~~~~~~Pv---~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPV---IVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSSEE---EETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cccCCCCCccccccCCE---EcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            45789999999998764   3599999999999999987 77899999988654

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

Probab=99.17  E-value=3e-11  Score=89.78  Aligned_cols=51  Identities=33%  Similarity=0.683  Sum_probs=43.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc------CCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS------CGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~------~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.+..+..   ++|||.||..||..|+..      ...||+||..+...+
T Consensus        17 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELLTQPLS---LDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCCSSCBC---CSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             cCCCCCCCCCcccCCcee---CCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            557899999999987644   499999999999999987      778999999887543

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

Probab=99.17  E-value=7.7e-12  Score=100.32  Aligned_cols=54  Identities=26%  Similarity=0.741  Sum_probs=46.1

Q ss_pred             CCCCcCccccCccCCC----CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDG----DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~----~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .+...|+||++.|..+    ..++.++|||.||..||..|+..+.+||+||..+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            4567899999999764    44567899999999999999999999999999886543

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

Probab=99.15  E-value=2.3e-11  Score=92.54  Aligned_cols=49  Identities=29%  Similarity=0.680  Sum_probs=41.6

Q ss_pred             CCCCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcC--CCCCCccccee
Q 023376          225 SKTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSC--GDCPYCRRNIV  276 (283)
Q Consensus       225 ~~~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~--~tCPlCR~~l~  276 (283)
                      ..+...|+||++.|..+.   .++ |||.||..||..|+...  ..||+||..+.
T Consensus        10 ~~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSSCE---ECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcCce---ECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            356789999999998764   459 99999999999999764  58999999873

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

Probab=99.15  E-value=9e-12  Score=96.94  Aligned_cols=50  Identities=26%  Similarity=0.771  Sum_probs=42.2

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC-CCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC-GDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~-~tCPlCR~~l~~~  278 (283)
                      +...|+||++.|..+  +..++|||.||..||..|+... ..||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA--RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHTBCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCccCCccccCc--cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            467899999999864  3226999999999999999988 6999999998654

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

Probab=99.14  E-value=7.7e-12  Score=92.26  Aligned_cols=50  Identities=26%  Similarity=0.614  Sum_probs=43.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-------CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-------CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-------~~tCPlCR~~l~~~  278 (283)
                      .+...|+||++.|..+..   |+|||.||..||..|+..       ...||+||..+...
T Consensus        10 ~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           10 QEEVTCPICLELLTEPLS---LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCEETTTTEECSSCCC---CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             ccCCCCcCCCcccCCeeE---CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            567889999999987654   599999999999999987       56899999988654

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

Probab=99.14  E-value=4.6e-11  Score=84.72  Aligned_cols=43  Identities=26%  Similarity=0.676  Sum_probs=37.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh---cCCCCCCc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR---SCGDCPYC  271 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~---~~~tCPlC  271 (283)
                      .+...|+||++.+..+.   .++|||.||..||..|+.   ....||+|
T Consensus        18 ~~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKPV---TIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSCE---ECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCeE---EeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            56789999999998763   459999999999999998   45689998

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

Probab=99.13  E-value=2.4e-11  Score=86.83  Aligned_cols=52  Identities=21%  Similarity=0.573  Sum_probs=42.1

Q ss_pred             CCcCccccC-ccCCCCe-eEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCC
Q 023376          228 SLDCSICLE-SFTDGDE-LICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle-~~~~~~~-l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  279 (283)
                      ...|+||++ .+..+.. ...++|||.||..||..|+.. ...||+||..+...+
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            567999999 7777653 245699999999999999765 467999999987654

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

Probab=99.11  E-value=2.4e-11  Score=93.87  Aligned_cols=49  Identities=29%  Similarity=0.680  Sum_probs=41.7

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceec
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      +...|+||++.|..+  +..++|||.||..||..|+..+..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIA--MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCc--CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            356899999999864  2224899999999999999999999999998765

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

Probab=99.11  E-value=4.4e-11  Score=100.73  Aligned_cols=50  Identities=36%  Similarity=0.850  Sum_probs=41.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~  277 (283)
                      .....|+||++.|..+  +..++|||.||..||..|+.. ...||+||..+..
T Consensus        52 ~~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKNT--MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHhhCc--CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            3457899999999864  334599999999999999997 7789999998853

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

Probab=99.10  E-value=7e-11  Score=81.96  Aligned_cols=43  Identities=30%  Similarity=0.796  Sum_probs=36.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh---cCCCCCCc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR---SCGDCPYC  271 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~---~~~tCPlC  271 (283)
                      .....|+||++.+..+..   ++|||.||..||..|+.   ....||+|
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEPVI---IECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSCCC---CSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCccEe---CCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            567899999999988744   59999999999999954   56789998

>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=99.10  E-value=1.1e-11  Score=99.67  Aligned_cols=48  Identities=29%  Similarity=0.580  Sum_probs=41.2

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceec
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVV  277 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~  277 (283)
                      ....|+||++.|..+.   .++|||.||..||..|+.... .||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPI---TTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEE---ECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcE---EeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4578999999998653   459999999999999998654 89999999865

>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=99.09  E-value=4.6e-11  Score=93.82  Aligned_cols=51  Identities=24%  Similarity=0.615  Sum_probs=43.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.|..+  +..++|||.||..||..|+.....||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhCc--CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            4467899999999764  33349999999999999999999999999988654

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

Probab=99.07  E-value=9e-11  Score=87.13  Aligned_cols=52  Identities=23%  Similarity=0.507  Sum_probs=44.1

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--CCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--GDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--~tCPlCR~~l~~~~  279 (283)
                      +...+|+||.+.+..++...  .|+|.||..||..||+.+  .+||+||.++....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~--~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS--SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCCcCcchhhHcccCCccC--CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            45689999999998765442  799999999999999987  88999999876544

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

Probab=99.06  E-value=8.5e-11  Score=92.20  Aligned_cols=49  Identities=31%  Similarity=0.689  Sum_probs=41.7

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC---CCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG---DCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~---tCPlCR~~l~~~~  279 (283)
                      ...|+||++.+..+..   ++|||.||..||..|+....   .||+||..+....
T Consensus        21 ~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKEPVS---TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSSCCB---CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcCeEE---CCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            5679999999987654   49999999999999998754   8999999887643

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

Probab=99.06  E-value=4.4e-11  Score=95.88  Aligned_cols=54  Identities=26%  Similarity=0.741  Sum_probs=46.1

Q ss_pred             CCCCcCccccCccCCC----CeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDG----DELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~----~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .....|+||++.|..+    .....++|||.||..||.+|+...++||+||..+..++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            4578899999998753    34467799999999999999999999999999987654

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.01  E-value=1.9e-10  Score=89.89  Aligned_cols=50  Identities=12%  Similarity=0.137  Sum_probs=44.6

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ...+.|+||++.|.++..+   +|||.|+..||..||..+.+||+|+.++...
T Consensus        27 p~~~~CpI~~~~m~dPV~~---~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDPVRL---PSGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             STTTBCTTTCSBCSSEEEE---TTTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             cHhhCCcCccCcccCCeEC---CCCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            5678999999999987554   9999999999999999889999999988654

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

Probab=99.01  E-value=1.2e-10  Score=97.27  Aligned_cols=49  Identities=29%  Similarity=0.554  Sum_probs=42.0

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~~  278 (283)
                      ....|+||++.|..+..   ++|||.||..||..|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVT---TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSEEE---CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCCEE---cCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            35789999999987543   69999999999999999765 799999998765

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.00  E-value=2e-10  Score=87.00  Aligned_cols=50  Identities=12%  Similarity=0.122  Sum_probs=44.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ...+.|+||++.|.++..   ++|||.|+..||..||..+.+||+|+..+...
T Consensus        12 p~~~~CpI~~~~m~dPV~---~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDPVR---LPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CTTTBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             chheECcccCchhcCCeE---CCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            457899999999998754   49999999999999999999999999987653

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.98  E-value=1e-10  Score=93.33  Aligned_cols=50  Identities=30%  Similarity=0.775  Sum_probs=42.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~~  278 (283)
                      .....|+||++.+..+   +.++|||.||..||..|+.... .||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            4567899999999876   3469999999999999998865 899999988654

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

Probab=98.98  E-value=5.5e-11  Score=94.27  Aligned_cols=48  Identities=31%  Similarity=0.803  Sum_probs=41.1

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~  276 (283)
                      .+...|+||++.|..+.   .|+|||.||..||..|+.. ...||+||..+.
T Consensus        13 ~~~~~C~iC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEPV---TLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSCE---ECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCcee---EcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            34678999999998764   4599999999999999977 668999999875

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

Probab=98.97  E-value=3.3e-10  Score=84.72  Aligned_cols=54  Identities=20%  Similarity=0.514  Sum_probs=41.4

Q ss_pred             CCCCcCccccCccCCCCe-eEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDE-LICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~-l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  279 (283)
                      .+...|+||++.+...+. +..++|||.||..||..|+.. ...||+||..+....
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            567899999998865432 222349999999999999854 567999999886543

>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=98.97  E-value=3.6e-10  Score=88.01  Aligned_cols=50  Identities=14%  Similarity=0.115  Sum_probs=44.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC-CccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK-HRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg-H~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ...+.|+||++.|.++..   ++|| |.|+..||..||..+.+||+|+.++...
T Consensus        20 p~~~~CpI~~~~m~dPV~---~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVV---LPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cHhcCCcCccccccCCeE---CCCCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            457899999999998754   4999 9999999999999989999999988754

>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=2.2e-10  Score=79.87  Aligned_cols=49  Identities=29%  Similarity=0.564  Sum_probs=40.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      .+...|+||++.|..+..   |||||.||..||..|   ...||+||..+.....
T Consensus         4 ~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKL---LPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSC---STTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             ccCCCceEeCCccCCeEE---cCCCCcccHHHHccC---CCCCCcCCcEeecCCc
Confidence            456789999999998744   599999999999885   6689999999876554

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

Probab=98.94  E-value=2.6e-10  Score=90.45  Aligned_cols=50  Identities=28%  Similarity=0.561  Sum_probs=42.4

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  279 (283)
                      +...|+||++.+..+.   .++|||.||..||..|+.. ...||+||..+...+
T Consensus        22 ~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILADPV---ETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcCcE---EcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            3578999999998653   3699999999999999987 678999999986543

>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=98.94  E-value=3.4e-10  Score=81.24  Aligned_cols=50  Identities=22%  Similarity=0.406  Sum_probs=40.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .+...|.||++.+.... +..+||||. ||..|+..|+..+..||+||..+.
T Consensus         6 ~~~~~C~IC~~~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGC-IVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCEE-EEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCEE-EECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34668999999866531 223499999 899999999999999999999874

>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=98.90  E-value=2.4e-10  Score=94.60  Aligned_cols=49  Identities=24%  Similarity=0.467  Sum_probs=41.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~  277 (283)
                      .....|+||++.+..+.   .++|||.||..||..|+.... .||+||.++..
T Consensus        29 ~~~~~C~IC~~~~~~pv---~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPF---QAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSEE---ECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCcE---ECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            55788999999998873   459999999999999998765 89999997643

>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=98.88  E-value=6.6e-10  Score=88.50  Aligned_cols=47  Identities=30%  Similarity=0.729  Sum_probs=40.0

Q ss_pred             CCCcCccccCccCCCCeeEEc-CCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICL-PCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~L-PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ....|+||++.|..+.   .+ +|||.||..||..|+.  ..||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~pv---~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           21 KLLRCSRCTNILREPV---CLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HTTSCSSSCSCCSSCB---CCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hCCCCCCCChHhhCcc---EeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            3678999999998763   44 8999999999999998  7899999988543

>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=98.86  E-value=7e-10  Score=79.33  Aligned_cols=49  Identities=24%  Similarity=0.506  Sum_probs=40.4

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ....|.||++...... +..+||||. ||..|+..|+.....||+||.++.
T Consensus         6 ~~~~C~IC~~~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN-IIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEE-EEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCeE-EEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4568999999865432 334599998 999999999998889999999874

>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=98.86  E-value=7.4e-10  Score=105.61  Aligned_cols=49  Identities=35%  Similarity=0.711  Sum_probs=41.8

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh-cCCCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR-SCGDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~-~~~tCPlCR~~l~~~  278 (283)
                      ....|+||++.+..+   +.+||||.||..||..|+. ....||+||..+...
T Consensus       331 ~~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          331 TFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            347899999998654   4569999999999999999 678999999987654

>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=98.80  E-value=1.4e-09  Score=83.66  Aligned_cols=46  Identities=22%  Similarity=0.526  Sum_probs=38.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcC------CCCCC--cccc
Q 023376          226 KTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSC------GDCPY--CRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~------~tCPl--CR~~  274 (283)
                      ...+.|+||++.|.++..   ++ |||+|+..||..||..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dPV~---~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVK---NKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEE---ESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCCEE---cCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            457889999999998644   46 99999999999999864      48999  9855

>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=98.80  E-value=1.6e-09  Score=97.04  Aligned_cols=50  Identities=14%  Similarity=0.172  Sum_probs=42.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~~  278 (283)
                      ...+.|+||++.|.++..   +||||+||..||..||...+ +||+||.++...
T Consensus       206 ~~~~~c~i~~~~~~dPv~---~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEE---CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CcccCCcCcCCHhcCCeE---CCCCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            457899999999998754   49999999999999998744 599999988643

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

Probab=98.77  E-value=2.1e-09  Score=100.67  Aligned_cols=53  Identities=30%  Similarity=0.866  Sum_probs=41.9

Q ss_pred             CCCCcCccccCccCCCCee----E-EcCCCCccChhhHHHHHhcC-----------CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDEL----I-CLPCKHRFHSDCLDPWVRSC-----------GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l----~-~LPCgH~FH~~CI~~WL~~~-----------~tCPlCR~~l~~~  278 (283)
                      ....+|+||++.+..+..+    . ..+|+|.||..||.+||+..           +.||+||.+|...
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            5678999999999873322    1 23699999999999999762           4699999998754

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.74  E-value=2.3e-09  Score=78.83  Aligned_cols=43  Identities=26%  Similarity=0.644  Sum_probs=36.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCcccceec
Q 023376          228 SLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      ...|+||++.+...   +.+||||. ||..|+..|    ..||+||..+..
T Consensus        24 ~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            56799999987764   45699999 999999999    789999998753

>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=98.70  E-value=3.7e-09  Score=89.22  Aligned_cols=50  Identities=30%  Similarity=0.775  Sum_probs=42.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC-CCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~-tCPlCR~~l~~~  278 (283)
                      .+...|+||++.+..+   +.++|||.||..||..|+.... .||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            4578999999999876   3469999999999999998754 899999988654

>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=98.61  E-value=1.7e-08  Score=77.18  Aligned_cols=49  Identities=24%  Similarity=0.568  Sum_probs=40.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--------CCCCC--cccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--------GDCPY--CRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--------~tCPl--CR~~  274 (283)
                      .....|+||++.+..++.+..++|||.||..||..++...        ..||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3467899999999877666556899999999999999741        36999  9987

>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=2e-08  Score=73.79  Aligned_cols=44  Identities=25%  Similarity=0.610  Sum_probs=35.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCcccceecC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      ...|+||++.+....   .+||||. ||..|+..    ...||+||..+...
T Consensus        25 ~~~C~IC~~~~~~~~---~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIAIV---FVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCCBC---CSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCCEE---EecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            456999999987653   4599999 99999965    47899999988653

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.59  E-value=1.6e-08  Score=86.99  Aligned_cols=50  Identities=12%  Similarity=0.118  Sum_probs=42.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC-CCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC-GDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~-~tCPlCR~~l~~~  278 (283)
                      ...+.|+||++.|.++..   +||||+|+..||..||..+ .+||+|+.++...
T Consensus       104 p~~f~CPI~~elm~DPV~---~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCCeE---CCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            457899999999998744   4999999999999999875 4699999987653

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

Probab=98.56  E-value=3.5e-08  Score=70.08  Aligned_cols=49  Identities=24%  Similarity=0.531  Sum_probs=38.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC--C---ccChhhHHHHHhc--CCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK--H---RFHSDCLDPWVRS--CGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg--H---~FH~~CI~~WL~~--~~tCPlCR~~l~~  277 (283)
                      .....|.||+++..  +.+ ++||.  +   .||..||.+|+..  +.+||+|+..+..
T Consensus         4 ~~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            45678999999843  334 57955  4   9999999999975  5789999998754

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.51  E-value=8.2e-08  Score=69.61  Aligned_cols=45  Identities=29%  Similarity=0.801  Sum_probs=36.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      .+...|.||++....   ++.+||||. ||..|+..    ...||+||..|..
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            456889999998654   456799999 99999984    5789999998753

>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=98.46  E-value=3.6e-08  Score=73.53  Aligned_cols=42  Identities=26%  Similarity=0.683  Sum_probs=35.0

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCccccee
Q 023376          228 SLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ...|+||++.+..   ...+||||. ||..|+..|    ..||+||..+.
T Consensus        18 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            4579999998765   345699999 999999987    38999999864

>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=98.40  E-value=8.2e-08  Score=68.30  Aligned_cols=49  Identities=14%  Similarity=0.309  Sum_probs=41.8

Q ss_pred             CCcCccccCccCCCCeeEEc-CCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICL-PCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~L-PCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .+.|+||++.+.++   +.+ +|||+|...||.+||..+++||+++.++..++
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            46799999999975   345 79999999999999999889999999886554

>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=98.35  E-value=1e-07  Score=89.68  Aligned_cols=45  Identities=24%  Similarity=0.679  Sum_probs=37.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCc-cChhhHHHHHhcCCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHR-FHSDCLDPWVRSCGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~-FH~~CI~~WL~~~~tCPlCR~~l~~  277 (283)
                      .+...|+||++.+..+   +.+||||. ||..|+..|    ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCce---EEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            3567899999998764   45599999 999999998    789999998753

>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=98.35  E-value=1.5e-07  Score=85.18  Aligned_cols=51  Identities=24%  Similarity=0.576  Sum_probs=42.1

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--CCCCC--cccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--GDCPY--CRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--~tCPl--CR~~l~~~  278 (283)
                      .....|+||++.|..+..  .+.|||.||..||..|+..+  ..||+  |+..+...
T Consensus       179 ~~el~CPIcl~~f~DPVt--s~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          179 KIELTCPITCKPYEAPLI--SRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             BCCSBCTTTSSBCSSEEE--ESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             ceeeECcCccCcccCCee--eCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            557899999999987743  34899999999999999865  46999  99977543

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.98  E-value=3.8e-06  Score=65.26  Aligned_cols=45  Identities=27%  Similarity=0.440  Sum_probs=36.2

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCccccee
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIV  276 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~  276 (283)
                      .|.+|--.+..  ..+.+||+|+||.+|+..|.++ .+.||.|+.+|.
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            48888766553  4566799999999999999855 688999999874

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

Probab=97.79  E-value=1.7e-05  Score=70.88  Aligned_cols=51  Identities=24%  Similarity=0.528  Sum_probs=42.2

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC--CCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG--DCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~--tCPlCR~~l~~~~  279 (283)
                      ....|.||.+.+..+....  .|+|.||..|+..|++.+.  .||.|+...+...
T Consensus       179 ~i~~C~iC~~iv~~g~~C~--~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECS--SSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             CCCcCcchhhHHhCCcccC--ccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            4788999999999875552  3999999999999998754  8999999876553

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.38  E-value=0.009  Score=45.36  Aligned_cols=35  Identities=17%  Similarity=0.551  Sum_probs=27.6

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHH-HH
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDP-WV  262 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~-WL  262 (283)
                      +..|.||++.+..+....-+.|+|.||..|+.. |.
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            467999998765544555579999999999998 54

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.98  E-value=0.084  Score=37.62  Aligned_cols=47  Identities=28%  Similarity=0.591  Sum_probs=34.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCcccce
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNI  275 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l  275 (283)
                      .....|.||.+.   ++.+.--.|...||..|+.+.|....    .||.|....
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            345679999753   44454445999999999999887643    599997654

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=91.92  E-value=0.16  Score=38.09  Aligned_cols=32  Identities=28%  Similarity=0.685  Sum_probs=23.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcC---CCCccChhhHHHH
Q 023376          226 KTSLDCSICLESFTDGDELICLP---CKHRFHSDCLDPW  261 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP---CgH~FH~~CI~~W  261 (283)
                      ..+..|.||- .|...+..   |   |+-+||..||.+.
T Consensus        13 ~~D~~C~VC~-~~t~~~l~---pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLF---PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCS---SCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccc-ccccccee---ccccccccccHhhcccc
Confidence            4578899994 33333333   5   8899999999996

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=89.27  E-value=0.14  Score=36.83  Aligned_cols=54  Identities=19%  Similarity=0.366  Sum_probs=36.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc----CCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS----CGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~----~~tCPlCR~~l~~~~  279 (283)
                      .+...|.||.........+.--.|.-.||..|+..-+..    .-.||.|+..+....
T Consensus        16 ~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k~k   73 (75)
T 2k16_A           16 NQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKDK   73 (75)
T ss_dssp             CEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCSCC
T ss_pred             CCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhhcc
Confidence            345679999877543234433349999999999765543    335999988775543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=86.68  E-value=0.5  Score=32.79  Aligned_cols=46  Identities=28%  Similarity=0.811  Sum_probs=32.8

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC----CCCCCcccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC----GDCPYCRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~----~tCPlCR~~  274 (283)
                      .....|.||...   ++.+.--.|.-.||..|+.+-+...    -.||.|...
T Consensus         9 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            456789999863   4444444588999999999865432    259999754

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=85.88  E-value=0.29  Score=34.00  Aligned_cols=48  Identities=27%  Similarity=0.673  Sum_probs=33.0

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l~  276 (283)
                      .....|.||...   ++.+.--.|.-.||..|+.+-|....    .||.|.....
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            456779999753   44443334889999999987655422    4999976543

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=85.79  E-value=0.41  Score=31.72  Aligned_cols=44  Identities=30%  Similarity=0.766  Sum_probs=30.0

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCccc
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRR  273 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~  273 (283)
                      .|.||...-..++.+.--.|.-.||..|+.+=|....    .||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            4889987644444454445999999999976554422    4999964

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=85.08  E-value=0.52  Score=35.89  Aligned_cols=47  Identities=26%  Similarity=0.467  Sum_probs=32.3

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc---CCCCCCccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS---CGDCPYCRR  273 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~---~~tCPlCR~  273 (283)
                      .+...| ||-.....+..+.--.|.-.||..|+..=+..   .-.||.|+.
T Consensus        26 ~d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           26 TDVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            344567 89777666655554459999999999764332   236999964

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=85.01  E-value=0.18  Score=34.89  Aligned_cols=49  Identities=35%  Similarity=0.816  Sum_probs=34.6

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCcccceecC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l~~~  278 (283)
                      .+..|.||...   ++.+.--.|.-.||..|+.+-|....    .||.|.......
T Consensus         4 ~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~~   56 (60)
T 2puy_A            4 HEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK   56 (60)
T ss_dssp             CCSSCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHT
T ss_pred             CCCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhch
Confidence            46779999864   45554445999999999997655422    499997765543

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.65  E-value=0.71  Score=34.74  Aligned_cols=48  Identities=27%  Similarity=0.672  Sum_probs=34.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l~  276 (283)
                      .....|.||...   ++.+.--.|--.||..|+.+=|....    .||.|...-.
T Consensus        23 ~n~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~~   74 (88)
T 1fp0_A           23 DSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   74 (88)
T ss_dssp             SSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCcCcCcCCC---CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCCc
Confidence            557789999864   44444345889999999988665532    4999976543

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=84.14  E-value=0.34  Score=33.68  Aligned_cols=49  Identities=27%  Similarity=0.590  Sum_probs=33.7

Q ss_pred             CCCCcCccccCccCCCC-eeEEcCCCCccChhhHHHHHh-----cCCCCCCcccc
Q 023376          226 KTSLDCSICLESFTDGD-ELICLPCKHRFHSDCLDPWVR-----SCGDCPYCRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~-~l~~LPCgH~FH~~CI~~WL~-----~~~tCPlCR~~  274 (283)
                      .+...|+||...+..+. .+.--.|...||..|+.--..     ..-.||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            45678999998875443 343335999999999864322     24569999653

>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=83.41  E-value=0.46  Score=49.89  Aligned_cols=50  Identities=12%  Similarity=0.147  Sum_probs=42.9

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC-CccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK-HRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg-H~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .+.+.|+|-++.|.++..   +|.| +.|-..+|..||..+.+||+=|.++...
T Consensus       889 P~~F~cPIs~~lM~DPVi---lpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDPVI---LPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             cHHhCCcchhhHHhCCeE---cCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            457899999999998754   4987 6899999999999999999999887643

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.58  E-value=0.27  Score=33.47  Aligned_cols=45  Identities=38%  Similarity=0.850  Sum_probs=31.6

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCccc
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRR  273 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~  273 (283)
                      .....|.||...   ++.+.--.|.-.||..|+.+-|....    .||.|..
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            456789999874   44444445999999999987655422    4888853

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=81.80  E-value=0.47  Score=33.40  Aligned_cols=47  Identities=30%  Similarity=0.769  Sum_probs=33.1

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCcccce
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNI  275 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l  275 (283)
                      ..+..|.||...   ++.+.--.|.-.||..|+.+-|....    .||.|...-
T Consensus         6 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~   56 (66)
T 1xwh_A            6 KNEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQAT   56 (66)
T ss_dssp             SCCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTC
T ss_pred             CCCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCcc
Confidence            457789999864   44444335999999999987655422    499996643

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=81.29  E-value=0.76  Score=35.38  Aligned_cols=38  Identities=26%  Similarity=0.621  Sum_probs=27.7

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHh
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVR  263 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~  263 (283)
                      ..+..|.||.+.-...+.+.--.|+..||..||...+.
T Consensus         5 ~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccc
Confidence            56788999987633333344446999999999988765

---

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	283
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-17
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	9e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	6e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-05
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	7e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.002
d1f62a_	51	g.50.1.2 (A:) Williams-Beuren syndrome transcripti	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 73.0 bits (179), Expect = 1e-17
 Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 1/51 (1%)

Query: 228 SLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIVV 277
            ++C++CL    DG+E   LP C H FH++C+D W+ S   CP CR  +VV
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

>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 = 61.9 bits (150), Expect = 2e-13
 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 2/51 (3%)

Query: 225 SKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           +  +  C ICLE  ++    + LPC H F   C+  W+R    CP C+  +
Sbjct: 2   ATVAERCPICLEDPSNYS--MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 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 = 56.2 bits (135), Expect = 3e-11
 Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 17/77 (22%)

Query: 200 LTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLD 259
           +TQE  + L+ E+ ++F +            C IC E+  D   +   PC H   + CL 
Sbjct: 8   VTQEQYE-LYCEMGSTFQL------------CKICAENDKD---VKIEPCGHLMCTSCLT 51

Query: 260 PWVRS-CGDCPYCRRNI 275
            W  S    CP+CR  I
Sbjct: 52  SWQESEGQGCPFCRCEI 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 = 55.7 bits (134), Expect = 3e-11
 Identities = 14/52 (26%), Positives = 18/52 (34%), Gaps = 6/52 (11%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
           L C  C            LPC H   S CL+        CP C+    + +D
Sbjct: 7   LRCQQCQAEAKCP---KLLPCLHTLCSGCLEASGMQ---CPICQAPWPLGAD 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 = 9e-11
 Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 15/63 (23%)

Query: 230 DCSICLESFTD---------------GDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRN 274
           +C+IC     D                  +    C H FH  C+  W+++   CP   R 
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

Query: 275 IVV 277
              
Sbjct: 83  WEF 85

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.0 bits (124), Expect = 5e-10
 Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 2/49 (4%)

Query: 229 LDCSICLESFTDGDELIC-LPCKHRFHSDCLDPWVRSCGD-CPYCRRNI 275
           ++C +C+E     D       C ++    C           CP CR+  
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (124), Expect = 6e-10
 Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 3/50 (6%)

Query: 229 LDCSICLESFTDGDELICL--PCKHRFHSDCLDPWVR-SCGDCPYCRRNI 275
             C  C  +      L  +   C H     C+D       G+CP C   +
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 47.0 bits (111), Expect = 1e-07
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 6/56 (10%)

Query: 223 EASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWV---RSCGDCPYCRRNI 275
            A +  L+C ICLE   +    +   C H F   C+   +   +    CP C+ +I
Sbjct: 16  NAMQKILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>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 = 45.6 bits (107), Expect = 1e-07
 Identities = 11/49 (22%), Positives = 14/49 (28%), Gaps = 4/49 (8%)

Query: 231 CSICLESFTDGDEL--ICLPCKHRFHSDCLDPWVRSCGD--CPYCRRNI 275
           C IC E   +       C       H  CL  W+    +  C  C    
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY 57

>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 = 46.2 bits (109), Expect = 1e-07
 Identities = 12/56 (21%), Positives = 17/56 (30%), Gaps = 8/56 (14%)

Query: 225 SKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD--------CPYCR 272
           S  S  C +CL  +          C+  F + CL  +V             CP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 43.7 bits (103), Expect = 1e-06
 Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG-DCPYCRRNI 275
           S+ C IC     D    +   CKH F   C+   ++  G  CP CR   
Sbjct: 23  SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 42.7 bits (99), Expect = 4e-06
 Identities = 15/86 (17%), Positives = 25/86 (29%), Gaps = 5/86 (5%)

Query: 195 KKPPGLTQEALDCLHVEIFNSFAISSEGEASKTSLDCSICLESFTDGDELICLPCKHRFH 254
            +P  + ++  + L V       I  E  A  +        ++           C H FH
Sbjct: 7   GEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFH 66

Query: 255 SDCLDPWVRSCGD-----CPYCRRNI 275
             CL     +        CP C+   
Sbjct: 67  LLCLLAMYCNGNKDGSLQCPSCKTIY 92

>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 = 39.0 bits (90), Expect = 2e-05
 Identities = 7/47 (14%), Positives = 17/47 (36%), Gaps = 2/47 (4%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNI 275
           + C+I  +        +    +  F    L+ +V+  G+ P     +
Sbjct: 1   MLCAISGKVPRRPV--LSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>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 = 39.4 bits (91), Expect = 5e-05
 Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 4/57 (7%)

Query: 223 EASKTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS 279
           +  +  L CS C     +        C+H F S+C+   + +   CP C     +  
Sbjct: 17  DRLEKLLRCSRCTNILREPV--CLGGCEHIFCSNCVSDCIGTG--CPVCYTPAWIQD 69

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 35.0 bits (80), Expect = 7e-04
 Identities = 15/57 (26%), Positives = 21/57 (36%), Gaps = 6/57 (10%)

Query: 224 ASKTSLDCSICLESFTDGDELI-CLPCKHRFHSDCLDPWVRSCGD-----CPYCRRN 274
           +S +S  C  C ES+   +  I C  C+  FH  C+              CP C   
Sbjct: 2   SSGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK 58

>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 = 34.3 bits (78), Expect = 0.002
 Identities = 6/52 (11%), Positives = 17/52 (32%), Gaps = 3/52 (5%)

Query: 229 LDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD 280
             C I LE   D    + +     +    +  W+ +        +  ++++ 
Sbjct: 9   FRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG 57

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]} Length = 51

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]

 Score = 33.4 bits (76), Expect = 0.002
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 231 CSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGD----CPYCR 272
           C +C +   D   ++C  C   FH  CL P +    D    CP C+
Sbjct: 3   CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	283
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.63
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.43
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.39
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.34
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.34
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.29
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.19
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.16
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.14
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.11
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.0
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.0
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.95
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.94
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.76
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.51
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.63
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	89.22
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	88.96
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	87.53
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	86.29
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	83.35

>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=99.63  E-value=5.6e-17  Score=112.39  Aligned_cols=51  Identities=41%  Similarity=1.095  Sum_probs=46.5

Q ss_pred             CCCCcCccccCccCCCCeeEEcC-CCCccChhhHHHHHhcCCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLP-CKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP-CgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      ++..+|+||+++|..++.+..++ |+|.||..||.+|++.+++||+||.+|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45678999999999999888875 9999999999999999999999999875

>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=99.43  E-value=3e-14  Score=102.21  Aligned_cols=47  Identities=34%  Similarity=0.860  Sum_probs=41.5

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCccccee
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIV  276 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~  276 (283)
                      .++|+||++.|..+  ++.+||||.||..||.+|++.+.+||+||.++.
T Consensus         5 ~d~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            46799999998754  456899999999999999999999999999874

>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=99.39  E-value=7.1e-14  Score=105.13  Aligned_cols=53  Identities=25%  Similarity=0.555  Sum_probs=44.0

Q ss_pred             CCCCcCccccCccCCCC---------------eeEEcCCCCccChhhHHHHHhcCCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGD---------------ELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~---------------~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~  278 (283)
                      .....|+||++.+....               .+..++|||.||..||.+||+.+++||+||++....
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            34667999999886533               256779999999999999999999999999987643

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=6.4e-14  Score=95.49  Aligned_cols=48  Identities=23%  Similarity=0.537  Sum_probs=40.3

Q ss_pred             cCccccCccCCCCe-eEEcCCCCccChhhHHHHHhc-CCCCCCcccceec
Q 023376          230 DCSICLESFTDGDE-LICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVV  277 (283)
Q Consensus       230 ~C~ICle~~~~~~~-l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~  277 (283)
                      +|+||+++|..++. +..++|||.||..||.+|+.. ++.||+||+++..
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            79999999986654 345689999999999999986 4569999998764

>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=99.34  E-value=3.1e-13  Score=105.73  Aligned_cols=52  Identities=27%  Similarity=0.445  Sum_probs=41.1

Q ss_pred             CCCcCccccCccCCC---------------CeeEEcCCCCccChhhHHHHHhcC-----CCCCCcccceecC
Q 023376          227 TSLDCSICLESFTDG---------------DELICLPCKHRFHSDCLDPWVRSC-----GDCPYCRRNIVVN  278 (283)
Q Consensus       227 ~~~~C~ICle~~~~~---------------~~l~~LPCgH~FH~~CI~~WL~~~-----~tCPlCR~~l~~~  278 (283)
                      .+..|+||++.|..+               ..+..++|+|+||..||..||...     .+||+||+.+...
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            356799999988542               235667899999999999999853     3799999877554

>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=99.34  E-value=2.5e-13  Score=96.57  Aligned_cols=53  Identities=21%  Similarity=0.501  Sum_probs=41.9

Q ss_pred             CCCcCccccCccCCC--CeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCC
Q 023376          227 TSLDCSICLESFTDG--DELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNS  279 (283)
Q Consensus       227 ~~~~C~ICle~~~~~--~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~  279 (283)
                      ++..|+||++.+..+  ..+..++|||.||..||..|+.. ...||+||..|....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            357899999986433  23456789999999999999965 557999999886543

>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=99.29  E-value=8.9e-13  Score=97.20  Aligned_cols=50  Identities=34%  Similarity=0.724  Sum_probs=41.8

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecCCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVNSD  280 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~  280 (283)
                      ...|+||++.+..   .+.+||||.||..||..||.. .+.||+||..|.....
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            4569999998775   456799999999999999985 5689999999876543

>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=99.19  E-value=1.5e-12  Score=89.77  Aligned_cols=48  Identities=15%  Similarity=0.231  Sum_probs=41.2

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      .|+||++.+.++..+  ..|||+||..||.+||..+++||+||.++..++
T Consensus         2 ~C~Ic~~~~~~Pv~~--~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRPVLS--PKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSEEEE--TTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhcCcc--CCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999876433  249999999999999999999999999887654

>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=99.16  E-value=4.4e-12  Score=87.60  Aligned_cols=48  Identities=29%  Similarity=0.599  Sum_probs=40.6

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCCC
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNSD  280 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~~  280 (283)
                      ...+|+||++.|..+..   |||||.||..||..|   +..||+||.++.....
T Consensus         5 ~~l~C~IC~~~~~~p~~---lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKL---LPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCSSCSSSCSSCBCCSC---STTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCCcccCcccCCCEE---ecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            35689999999987644   599999999999877   6689999999987654

>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=99.14  E-value=1.1e-11  Score=95.28  Aligned_cols=49  Identities=31%  Similarity=0.689  Sum_probs=41.1

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC---CCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG---DCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~---tCPlCR~~l~~~~  279 (283)
                      ...|+||++.|..+..   ++|||.||..||..|+....   .||+||..+...+
T Consensus        21 ~l~CpIC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKEPVS---TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSSCCB---CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCCeEE---cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            4579999999988754   49999999999999997753   7999999886543

>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=99.11  E-value=9.9e-12  Score=93.08  Aligned_cols=49  Identities=29%  Similarity=0.620  Sum_probs=40.9

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC-CCCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC-GDCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~-~tCPlCR~~l~~~~  279 (283)
                      ...|+||++.+..+   +.++|||.||..||..|++.+ ..||+||.++...+
T Consensus        23 ~l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            46799999998875   456999999999999999754 57999999876543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.00  E-value=1.1e-10  Score=81.18  Aligned_cols=52  Identities=21%  Similarity=0.401  Sum_probs=38.7

Q ss_pred             CCCCcCccccCccCCCCee--EEcCCCCccChhhHHHHHhc--CCCCCCcccceec
Q 023376          226 KTSLDCSICLESFTDGDEL--ICLPCKHRFHSDCLDPWVRS--CGDCPYCRRNIVV  277 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l--~~LPCgH~FH~~CI~~WL~~--~~tCPlCR~~l~~  277 (283)
                      ++...|.||++.+......  ....|+|.||..||..|+..  +.+||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            5577899999988755333  01113599999999999964  5589999998753

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=5.9e-11  Score=90.14  Aligned_cols=48  Identities=27%  Similarity=0.586  Sum_probs=39.4

Q ss_pred             CCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          228 SLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       228 ~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      ...|+||++.|..+..+  .+|||.||..||..|+.  +.||+||..+...+
T Consensus        22 ~l~C~IC~~~~~~pv~~--~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          22 LLRCSRCTNILREPVCL--GGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             TTSCSSSCSCCSSCBCC--CSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             cCCCccCCchhhcCcee--CCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            56799999999887433  37999999999999985  45999998876543

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.95  E-value=1.4e-10  Score=85.01  Aligned_cols=50  Identities=12%  Similarity=0.116  Sum_probs=42.4

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc-CCCCCCcccceecC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS-CGDCPYCRRNIVVN  278 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~-~~tCPlCR~~l~~~  278 (283)
                      .+.+.|+||++.|.++.   .++|||.||..||..||.. ...||+|+..+...
T Consensus         5 P~~l~CpIc~~l~~dPv---~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMREPC---ITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSSEE---ECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhhhc---ccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            45788999999999874   4599999999999999976 45799999987654

>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=2.5e-10  Score=83.18  Aligned_cols=51  Identities=16%  Similarity=0.445  Sum_probs=43.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC-CCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC-GDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~-~tCPlCR~~l~~~~  279 (283)
                      .+.+.|+||++.|.++.   .++|||.||..||..|+..+ ..||.|+..+...+
T Consensus         6 P~~l~CpIc~~~m~dPV---~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPV---IVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSSEE---EETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CccCCCcCcCchhhCce---EccCCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            45789999999999874   45999999999999999875 56999999886543

>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=98.76  E-value=2.4e-09  Score=81.50  Aligned_cols=51  Identities=14%  Similarity=0.115  Sum_probs=43.6

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCC-CccChhhHHHHHhcCCCCCCcccceecCC
Q 023376          226 KTSLDCSICLESFTDGDELICLPCK-HRFHSDCLDPWVRSCGDCPYCRRNIVVNS  279 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCg-H~FH~~CI~~WL~~~~tCPlCR~~l~~~~  279 (283)
                      -+.+.|+||++.|.++..   ++|+ |.|+..||..||..+..||+|+.+|..++
T Consensus        20 P~~f~CPI~~~lm~dPV~---~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~   71 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVV---LPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             cHHhCCcCchhHHHHHHh---cccccchhhHHHHHHHHHhcCCcccccccccchh
Confidence            457999999999998754   4866 58999999999999999999999887653

>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=98.51  E-value=1.8e-08  Score=75.32  Aligned_cols=47  Identities=23%  Similarity=0.476  Sum_probs=38.1

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcC--------CCCCCccc
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSC--------GDCPYCRR  273 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~--------~tCPlCR~  273 (283)
                      ...+|+||++++...+.+..++|+|.||..||..|+...        -.||.|..
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            467899999999877767667899999999999999641        14998654

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.63  E-value=0.027  Score=36.10  Aligned_cols=44  Identities=30%  Similarity=0.766  Sum_probs=31.1

Q ss_pred             cCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCccc
Q 023376          230 DCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRR  273 (283)
Q Consensus       230 ~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~  273 (283)
                      .|.||...-..+..+.--.|...||..|+.+-+....    .||.|+.
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            4889976654444443335999999999998765533    4999964

>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=89.22  E-value=0.14  Score=36.38  Aligned_cols=32  Identities=31%  Similarity=0.751  Sum_probs=25.2

Q ss_pred             CCCCcCccccCccCCCCeeEEcC---CCCccChhhHHHH
Q 023376          226 KTSLDCSICLESFTDGDELICLP---CKHRFHSDCLDPW  261 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LP---CgH~FH~~CI~~W  261 (283)
                      ..+..|.|| +.|......   |   |+-+||..||.+.
T Consensus        13 ~~D~mC~vC-~v~t~~~l~---pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAESLF---PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSCCS---SCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Cccccccee---cceeecchhhHHHHHHh
Confidence            457889999 666655444   6   8899999999997

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.96  E-value=0.12  Score=35.17  Aligned_cols=46  Identities=28%  Similarity=0.711  Sum_probs=31.8

Q ss_pred             CCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhcCC----CCCCcccce
Q 023376          227 TSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRSCG----DCPYCRRNI  275 (283)
Q Consensus       227 ~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~~~----tCPlCR~~l  275 (283)
                      ....|.||..   .++.+.-=.|...||..|+.+.+....    .||.|+...
T Consensus         6 ~c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            3456777754   355444335999999999998876533    499996543

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=87.53  E-value=0.097  Score=34.87  Aligned_cols=49  Identities=29%  Similarity=0.604  Sum_probs=34.1

Q ss_pred             CCCCcCccccCccCCCCeeE-EcCCCCccChhhHHHHHh-----cCCCCCCcccc
Q 023376          226 KTSLDCSICLESFTDGDELI-CLPCKHRFHSDCLDPWVR-----SCGDCPYCRRN  274 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~-~LPCgH~FH~~CI~~WL~-----~~~tCPlCR~~  274 (283)
                      .....|.||...+..+..++ --.|+..||..|+..-..     ..-.||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            34668999998877665543 335999999999964211     13469999753

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.29  E-value=0.12  Score=34.25  Aligned_cols=48  Identities=27%  Similarity=0.643  Sum_probs=32.6

Q ss_pred             CCCCcCccccCccCCCCeeEEcCCCCccChhhHHHHHhc----CCCCCCccccee
Q 023376          226 KTSLDCSICLESFTDGDELICLPCKHRFHSDCLDPWVRS----CGDCPYCRRNIV  276 (283)
Q Consensus       226 ~~~~~C~ICle~~~~~~~l~~LPCgH~FH~~CI~~WL~~----~~tCPlCR~~l~  276 (283)
                      .....|.||.+.   ++.+.--.|.-.||..||...+..    .-.||.|+....
T Consensus         7 ~~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            345679999753   444433348899999999876654    225999976543

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.35  E-value=0.11  Score=36.70  Aligned_cols=49  Identities=29%  Similarity=0.762  Sum_probs=31.5

Q ss_pred             CCcCccccCccCCC-CeeE-EcCCCCccChhhHHHHHh-----c---CCCCCCccccee
Q 023376          228 SLDCSICLESFTDG-DELI-CLPCKHRFHSDCLDPWVR-----S---CGDCPYCRRNIV  276 (283)
Q Consensus       228 ~~~C~ICle~~~~~-~~l~-~LPCgH~FH~~CI~~WL~-----~---~~tCPlCR~~l~  276 (283)
                      ...|.||....... ..++ --.|...||..|+.+.+.     .   .-.||.|.....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            45699998654432 2232 224999999999876532     1   235999976543