Citrus Sinensis ID: 028791

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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---
Protein Sequence
MISMQLRLSPSHLLRKSRERRKYRTARKTDRIWSSLHRTNMAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Secondary Structure (PSIPRED)
cEEEEEEccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHcHHHHcccccccccccccccccccccccEEEcccccccccccHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccHHHHHHHcccEEEcHHHHcccccccccccccccccccccccHHHccccHHHcccccccccccccEHHHHHHcccccccccccEcc
Coil and Loop (DISEMBL)
mismqlrlspshlLRKSRERRKYRTARKTDRIWSSLHRTnmagmlpgvgvpqrrkiiskqhrqdspcsrceipltelreplATCISDLDENALRARQRLEQKLAslhprsrpgevpqnkssgnegmkdtrlgskllwgshlrhlklrgsksntkICSVCLEefqeeqpvtrlpcshkyhsdcvlpwlaahpqcpycrrpalvw
Flexible Loop (DISEMBL)
mismqlrlspshllrksrerrkyrtarktdriwsslhrtnmagmlpgvgvPQRRKIIskqhrqdspcsrcEIPLTELREPLATCISDLDENALRARQRLEQKlaslhprsrpgevpqnkssgnegmkDTRLGSKLLWGSHLrhlklrgsksnTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Low Complexity Region (SEG)
MISMQLRLSPSHLLRKSRERRKYRTARKTDRIWSSLHRTNMAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Disordered region (IsUnstruct)
*******************************IWSSLH******ML************************CEIPLTELREPLATCIS***********************************************KLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL**
Disordered Region (DISOPRED)
*******************************************************************************************ALR*********************************************************NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Disordered Region (DISEMBL)
MISMQLRLSPSHLLRKSRERRKYRTARKTDRIWSSLHRTNMAGMLPGVGVPQRRKI***********SRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPR****************MKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Disordered Region (DISPRO)
*ISMQLRLSPSHLLRKSRERRKYRTARKTDRIWSSLHRTNMAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISMQLRLSPSHLLRKSRERRKYRTARKTDRIWSSLHRTNMAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALVW
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	203	2.2.26 [Sep-21-2011]
Q7T037	757	E3 ubiquitin-protein liga	N/A	no	0.645	0.173	0.313	1e-10
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.236	0.146	0.479	2e-09
Q9NVW2	624	E3 ubiquitin-protein liga	yes	no	0.330	0.107	0.391	2e-09
Q641J8	622	E3 ubiquitin-protein liga	N/A	no	0.330	0.107	0.405	2e-09
Q9WTV7	600	E3 ubiquitin-protein liga	yes	no	0.374	0.126	0.382	3e-09
Q07G42	639	E3 ubiquitin-protein liga	yes	no	0.330	0.104	0.405	3e-09
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.206	0.124	0.5	8e-09
Q9LX93	301	E3 ubiquitin-protein liga	no	no	0.231	0.156	0.5	1e-08
P0C041	310	Putative RING-H2 finger p	no	no	0.571	0.374	0.316	3e-08
Q9CY62	165	E3 ubiquitin-protein liga	no	no	0.251	0.309	0.461	4e-08

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

 Score = 66.6 bits (161), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 66/153 (43%), Gaps = 22/153 (14%)

Query: 63  QDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSG 122
           Q++P +    P+ E  EP+A   SD   N   +  R E +       SR G   +   S 
Sbjct: 606 QNNPSAEVRAPIAEPAEPVAPVESDEGSNVATSATRREGR------NSRGGVTLEESGSL 659

Query: 123 -----------NEGMKDTRLGSKLLWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPV 169
                      NE   D   G   L    + +L  R  G     K CSVC+ E+ E   +
Sbjct: 660 PFLSLAQFFLLNEDDDDQPRG---LTKEQIDNLSTRNYGENDALKTCSVCITEYTEGNKL 716

Query: 170 TRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
            +LPCSH+YH  C+  WL+ +  CP CRR  LV
Sbjct: 717 RKLPCSHEYHIHCIDRWLSENSTCPICRRAVLV 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: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

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

 Score = 62.4 bits (150), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 23/48 (47%), Positives = 32/48 (66%)

Query: 150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           KS    C+VC++EF++   V ++PC H +H DC+LPWL  H  CP CR
Sbjct: 210 KSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPVCR 257

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 62.4 bits (150), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 2/69 (2%)

Query: 136 LWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQC 193
           L    + +L +R  G     K CSVC+ E+ E   + +LPCSH+YH  C+  WL+ +  C
Sbjct: 548 LTKEQIDNLAMRSFGENDALKTCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTC 607

Query: 194 PYCRRPALV 202
           P CRR  L 
Sbjct: 608 PICRRAVLA 616

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

 Score = 62.0 bits (149), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 2/69 (2%)

Query: 136 LWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQC 193
           L    + +L  R  G     K CSVC+ E+ E   + +LPCSH+YH  C+  WL+ +  C
Sbjct: 546 LTKEQIDNLSTRNFGENDALKTCSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTC 605

Query: 194 PYCRRPALV 202
           P CRR  LV
Sbjct: 606 PICRRAVLV 614

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

 Score = 62.0 bits (149), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 43/81 (53%), Gaps = 5/81 (6%)

Query: 123 NEGMKDTRLGSKLLWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHS 180
           NE  +D   G   L    + +L +R  G     K CSVC+ E+ E   + +LPCSH+YH 
Sbjct: 514 NEDDEDQPRG---LTKEQIDNLAMRSFGENDALKTCSVCITEYTEGNKLRKLPCSHEYHV 570

Query: 181 DCVLPWLAAHPQCPYCRRPAL 201
            C+  WL+ +  CP CRR  L
Sbjct: 571 HCIDRWLSENSTCPICRRAVL 591

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

 Score = 62.0 bits (149), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 2/69 (2%)

Query: 136 LWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQC 193
           L    + +L  R  G     K CSVC+ E+ E   + +LPCSH+YH  C+  WL+ +  C
Sbjct: 563 LTKEQIDNLSTRNFGENDALKTCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTC 622

Query: 194 PYCRRPALV 202
           P CRR  LV
Sbjct: 623 PICRRAVLV 631

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

 Score = 60.5 bits (145), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 29/42 (69%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           C+VC+++F+E     ++PC H YH DC+LPWL  H  CP CR
Sbjct: 224 CAVCMDDFEEGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCR 265

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

Gossypium hirsutum (taxid: 3635)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LX93|ATL55_ARATH E3 ubiquitin-protein ligase RING1 OS=Arabidopsis thaliana GN=ATL55 PE=1 SV=1

 Score = 60.1 bits (144), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/48 (50%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
           CSVCL EF+E++ +  LP CSH +H +C+  WL +H  CP CR P L+
Sbjct: 135 CSVCLNEFEEDESLRLLPKCSHAFHLNCIDTWLLSHKNCPLCRAPVLL 182

E3 ubiquitin-protein ligase that may be involved in positive regulation of programmed cell death (PCD) by facilitating degradation of negative regulators of PCD. May be involved in the early steps of the plant defense signaling pathway. Undergoes auto-ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P0C041|ATL53_ARATH Putative RING-H2 finger protein ATL53 OS=Arabidopsis thaliana GN=ATL53 PE=3 SV=2

 Score = 58.2 bits (139), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/120 (31%), Positives = 54/120 (45%), Gaps = 4/120 (3%)

Query: 84  CISDLDENALRARQRLEQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRH 143
           C +D    A     R +  L    P     + P    S   G+ DT L  K+ +    +H
Sbjct: 86  CANDTTNEAASESGRSDIILDVNSPERGDQDDPFALESSTAGLDDT-LIKKIGFFKLKKH 144

Query: 144 LKLRGSKSNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
               G K N   CS+CL EF E++ +  LP C+H +H  C+  WL +H  CP CR   +V
Sbjct: 145 QN--GFKINGTDCSICLGEFNEDESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCRAKIIV 202

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CY62|RN181_MOUSE E3 ubiquitin-protein ligase RNF181 OS=Mus musculus GN=Rnf181 PE=2 SV=1

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 35/52 (67%), Gaps = 1/52 (1%)

Query: 146 LRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           +  +K++ K C VCL EF+ E+ V  +PC H +HS+C+LPWL+    CP CR
Sbjct: 79  ISSAKADLK-CPVCLLEFEAEETVIEMPCHHLFHSNCILPWLSKTNSCPLCR 129

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

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	203
225432770	164	PREDICTED: RING finger protein 126 [Viti	0.758	0.939	0.455	5e-26
217069846	161	unknown [Medicago truncatula] gi|2170723	0.753	0.950	0.437	3e-25
351727246	166	uncharacterized protein LOC100527548 [Gl	0.768	0.939	0.434	3e-25
147775249	164	hypothetical protein VITISV_025062 [Viti	0.758	0.939	0.449	4e-25
388500134	152	unknown [Lotus japonicus]	0.704	0.940	0.424	7e-22
356535980	173	PREDICTED: RING finger protein 43-like [	0.768	0.901	0.420	2e-21
255638348	173	unknown [Glycine max]	0.768	0.901	0.414	4e-21
357156341	180	PREDICTED: RING-H2 finger protein ATL32-	0.743	0.838	0.346	4e-12
226497808	199	protein binding protein [Zea mays] gi|19	0.275	0.281	0.614	5e-12
413925381	199	putative RING zinc finger domain superfa	0.275	0.281	0.614	6e-12

>gi|225432770|ref|XP_002283255.1| PREDICTED: RING finger protein 126 [Vitis vinifera]

 Score =  123 bits (308), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 76/167 (45%), Positives = 99/167 (59%), Gaps = 13/167 (7%)

Query: 41  MAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLE 100
           MAG LPGVGV  RR +   +HRQD P    E P    R   +T ++ + E AL ARQRL+
Sbjct: 1   MAGTLPGVGVGSRR-MSHHRHRQDDPLVFREPPPLRERLQHSTTVT-MGETALMARQRLD 58

Query: 101 QKLASLHPRSRPGEVPQNKSSGNEGMKDTR----LGSKLL---WGSHLRHLKLRGSKSNT 153
           +KLA     SR  +   N S  +   + T+    +GSK+L   W   L      GSKSN 
Sbjct: 59  RKLAHYRASSRSSKQGANGSRESNHKERTKRNSSIGSKILGRPWKLQLN----TGSKSNG 114

Query: 154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           ++CSVCLE+F+ EQ +  L CSHKYHS+C++PWLA+HP CP CR P 
Sbjct: 115 EMCSVCLEDFEGEQQMMELSCSHKYHSNCLMPWLASHPHCPTCRNPV 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217069846|gb|ACJ83283.1| unknown [Medicago truncatula] gi|217072378|gb|ACJ84549.1| unknown [Medicago truncatula] gi|388521239|gb|AFK48681.1| unknown [Medicago truncatula]

 Score =  120 bits (301), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 70/160 (43%), Positives = 90/160 (56%), Gaps = 7/160 (4%)

Query: 41  MAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTE-LREPLATCISDLDENALRARQRL 99
           MAG LPGVG+  R++     +R +   +  +  L E L  P  +  + LDE A +A+QRL
Sbjct: 1   MAGRLPGVGLSPRKRSEHYHNRHEHYATYRDSYLKESLDAPWTSMTTTLDETAFKAKQRL 60

Query: 100 EQKLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNT--KICS 157
           ++KL      SR  E    K       KD  LG KLL  S L    LRG+K     KIC+
Sbjct: 61  QKKLGHFFSSSRSSEHNPKKEGKEFQKKDAGLGRKLLESSWL----LRGNKFKKERKICA 116

Query: 158 VCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           VCLE+F +++ V  L CSHKYHS C+LPWL  HP CPYCR
Sbjct: 117 VCLEDFLQDEEVMNLSCSHKYHSACLLPWLETHPHCPYCR 156

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727246|ref|NP_001237666.1| uncharacterized protein LOC100527548 [Glycine max] gi|255632588|gb|ACU16644.1| unknown [Glycine max]

 Score =  120 bits (301), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 73/168 (43%), Positives = 95/168 (56%), Gaps = 12/168 (7%)

Query: 41  MAGMLPGVGVPQRRKIISK---QHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQ 97
           MAG LPGVG+  R++       +H+  + C +         EP    ++ LDE AL+ARQ
Sbjct: 1   MAGRLPGVGLLARKRTEQNHRYEHQHHATCRQSYHLGESSLEPPWIPLTVLDETALKARQ 60

Query: 98  RLEQKLASLHPRSRPGEVPQNKSSGNEG---MKDTRLGSKLLWGSHLRHLKLRGSK--SN 152
           RL +KL       R  E P+ +   N+     KD  +G KLL  S L    LRG+K   +
Sbjct: 61  RLHKKLGHFFSSYRSSENPRKEGKVNQSSYEKKDGGIGRKLLESSWL----LRGNKFKKD 116

Query: 153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
            K+C+VCLE+  +EQ V  L CSHKYHS C+LPWLAAHP CPYCR P 
Sbjct: 117 RKVCAVCLEDLGQEQQVMNLSCSHKYHSACLLPWLAAHPHCPYCRTPV 164

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775249|emb|CAN74781.1| hypothetical protein VITISV_025062 [Vitis vinifera]

 Score =  120 bits (300), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 75/167 (44%), Positives = 97/167 (58%), Gaps = 13/167 (7%)

Query: 41  MAGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLE 100
           MAG LPGVGV  RR +   +HRQD P    E P    R   +T ++ + E AL ARQRL+
Sbjct: 1   MAGTLPGVGVGSRR-MSHHRHRQDDPLVFREPPPLRERLQHSTTVT-MGETALMARQRLD 58

Query: 101 QKLASLHPRSRPGEVPQNKSSGNEGMKDTR----LGSKLL---WGSHLRHLKLRGSKSNT 153
           +KLA     SR  +   N S  +   + T+     GS +L   W   L      GSKSN 
Sbjct: 59  RKLAHYRASSRSSKQGANGSRESNHKERTKRNSSTGSXILGRPWKLQLN----TGSKSNG 114

Query: 154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           ++CSVCLE+F+ EQ +  L CSHKYHS+C++PWLA+HP CP CR P 
Sbjct: 115 EMCSVCLEDFEGEQQMMELSCSHKYHSNCLMPWLASHPHCPTCRNPV 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500134|gb|AFK38133.1| unknown [Lotus japonicus]

 Score =  109 bits (272), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 67/158 (42%), Positives = 86/158 (54%), Gaps = 15/158 (9%)

Query: 42  AGMLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQ 101
           +G LPGVGVP RR+                           + ++ LDE A++ARQRL++
Sbjct: 4   SGRLPGVGVPPRRRSEHHPRYHHEHHRNSNYLAD-------SSVTALDETAIQARQRLQK 56

Query: 102 KLASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGSHLRHLKLRGSKSNT--KICSVC 159
           KL       R  + P  + S  +  KD  LG KLL  S L    LRG+K     K+C+VC
Sbjct: 57  KLGHFFSSFRSDDNPNKEVSLQK--KDAGLGRKLLESSWL----LRGTKFKKERKVCAVC 110

Query: 160 LEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           LE+FQ++Q V  L CSHKYHS C+LPWL AHP CP CR
Sbjct: 111 LEDFQQKQQVMNLSCSHKYHSACLLPWLEAHPHCPCCR 148

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535980|ref|XP_003536519.1| PREDICTED: RING finger protein 43-like [Glycine max]

 Score =  107 bits (268), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 71/169 (42%), Positives = 93/169 (55%), Gaps = 13/169 (7%)

Query: 41  MAGMLPGVGVPQRR---KIISKQHRQDSPCSRCEIPL-TELREPLATCISDLDENALRAR 96
           MAG LPGVG+  R+   K    +H+    C     P  +   +P    ++ LDE AL+AR
Sbjct: 1   MAGRLPGVGLLARKRTEKNYRYEHQYLPTCRHSYYPRESSSFDPPWIPLTVLDETALKAR 60

Query: 97  QRLEQKLASLHPRSRPGEVPQNKSSGNEG---MKDTRLGSKLLWGSHLRHLKLRGSK--S 151
           QRL +KL       R  E P+ +   ++     KD  +G KLL  S L    LRG+K   
Sbjct: 61  QRLHKKLEHFFSSYRSSENPRKEGKVSQNRYEKKDGGIGRKLLECSWL----LRGNKLKK 116

Query: 152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           + K+C+VCLE+   EQ V  L CSHKYHS C+L WLA+HP CPYCR P 
Sbjct: 117 DRKVCAVCLEDLGLEQQVMNLSCSHKYHSACLLRWLASHPHCPYCRTPV 165

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638348|gb|ACU19486.1| unknown [Glycine max]

 Score =  107 bits (266), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 70/169 (41%), Positives = 92/169 (54%), Gaps = 13/169 (7%)

Query: 41  MAGMLPGVGVPQRR---KIISKQHRQDSPCSRCEIPL-TELREPLATCISDLDENALRAR 96
           MAG LPGVG+  R+   K    +H+    C     P  +   +P    ++ LDE AL+AR
Sbjct: 1   MAGRLPGVGLLARKRTEKNYRYEHQYLPTCRHSYYPRESSSFDPPWIPLTVLDETALKAR 60

Query: 97  QRLEQKLASLHPRSRPGEVPQNKSSGNEG---MKDTRLGSKLLWGSHLRHLKLRGSK--S 151
           QRL +KL       R  E P+ +   ++     KD  +G KLL  S L    LRG+K   
Sbjct: 61  QRLHKKLEHFFSSYRSSENPRKEGKVSQNRYEKKDGGIGRKLLECSWL----LRGNKLKK 116

Query: 152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           + K+C+VCLE+   EQ V  L CSHKYHS C+  WLA+HP CPYCR P 
Sbjct: 117 DRKVCAVCLEDLGLEQQVMNLSCSHKYHSACLFRWLASHPHCPYCRTPV 165

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357156341|ref|XP_003577423.1| PREDICTED: RING-H2 finger protein ATL32-like [Brachypodium distachyon]

 Score = 77.0 bits (188), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 60/173 (34%), Positives = 85/173 (49%), Gaps = 22/173 (12%)

Query: 44  MLPGVGVPQRRKIISKQHRQDSPCSRCEIPLTELREPLATCISDLDENALRARQRLEQKL 103
           MLPGV + +RR++    +R D           +     A  +S +   AL AR RLE+KL
Sbjct: 1   MLPGVELARRRRV---HYRGDGVGGAAGGDHHQQLGATAQAVSGVVGPALAARIRLEEKL 57

Query: 104 ---ASLHPRSRPGEVPQNKSSGNEGMKDTRLGSKLLWGS-HLRH--------------LK 145
              A+    SR G + ++K + +      +   ++L  S   R                +
Sbjct: 58  RGAAAPSSSSRWGRLTRDKGASSRQQNIQQEQQQVLTASTEFRSPSTAPALPITTGCSSE 117

Query: 146 LRGSKSNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           +  + S   +C+VCL+E  E  Q VTRLPCSH+YHSDCVLPWLA  P CP CR
Sbjct: 118 MNRTLSKADVCAVCLDEVWERRQRVTRLPCSHRYHSDCVLPWLAIQPDCPCCR 170

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226497808|ref|NP_001151286.1| protein binding protein [Zea mays] gi|195645540|gb|ACG42238.1| protein binding protein [Zea mays]

 Score = 76.6 bits (187), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 35/57 (61%), Positives = 42/57 (73%), Gaps = 1/57 (1%)

Query: 142 RHLKLRGSKSNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           R  +L  + S   +C+VCL+E +E  Q VTRLPCSHKYHS+CVLPWLA HP CP CR
Sbjct: 131 RRAELTRTLSKVDVCAVCLDEVRERCQRVTRLPCSHKYHSECVLPWLAIHPDCPCCR 187

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413925381|gb|AFW65313.1| putative RING zinc finger domain superfamily protein [Zea mays]

 Score = 76.6 bits (187), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 35/57 (61%), Positives = 42/57 (73%), Gaps = 1/57 (1%)

Query: 142 RHLKLRGSKSNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           R  +L  + S   +C+VCL+E +E  Q VTRLPCSHKYHS+CVLPWLA HP CP CR
Sbjct: 131 RRAELTRTLSKVDVCAVCLDEVRERCQRVTRLPCSHKYHSECVLPWLAIHPDCPCCR 187

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	203
TAIR|locus:2053583	196	AT2G15580 [Arabidopsis thalian	0.546	0.566	0.360	1.4e-17
UNIPROTKB|Q641J8	622	rnf12-a "E3 ubiquitin-protein	0.270	0.088	0.454	8.6e-14
UNIPROTKB|Q7T037	757	rnf12-b "E3 ubiquitin-protein	0.674	0.180	0.319	1.9e-13
TAIR|locus:2193874	351	AT1G55530 [Arabidopsis thalian	0.206	0.119	0.547	2.5e-13
RGD|1359698	165	Rnf181 "ring finger protein 18	0.251	0.309	0.519	3.9e-12
UNIPROTKB|Q6AXU4	165	Rnf181 "E3 ubiquitin-protein l	0.251	0.309	0.519	3.9e-12
MGI|MGI:1915095	305	Rnf115 "ring finger protein 11	0.231	0.154	0.479	4.8e-12
UNIPROTKB|Q3T0W3	153	RNF181 "E3 ubiquitin-protein l	0.251	0.333	0.5	6.4e-12
UNIPROTKB|Q07G42	639	rnf12 "E3 ubiquitin-protein li	0.270	0.086	0.454	7.4e-12
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.251	0.366	0.5	8.2e-12

TAIR|locus:2053583 AT2G15580 [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 1.4e-17, Sum P(2) = 1.4e-17
 Identities = 44/122 (36%), Positives = 67/122 (54%)

Query:    88 LDENALRARQRLEQKLASLHPRSRP-GEVPQNKSSGNEG--MKD--TRL-GSKLLWGSHL 141
             LD  A  A+QRL ++L  + PR+R  G+   NK    +G  + D  T + G K   G  +
Sbjct:    79 LDGAAKEAKQRLNKRLR-IPPRTRQNGKDKGNKLEQGKGKPLGDLPTEVVGLKKSRGRLM 137

Query:   142 RHLKLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL 201
                K R  +     C++CL+ F++ + +  LPC+HK+HS C+LPWL  +  CPYCR    
Sbjct:   138 EWFKRRVREQQD--CAICLDRFKKGETLVHLPCAHKFHSICLLPWLDTNVYCPYCRTD-- 193

Query:   202 VW 203
             +W
Sbjct:   194 IW 195

GO:0005634 "nucleus" evidence=ISM

GO:0005739 "mitochondrion" evidence=ISM

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

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

 Score = 151 (58.2 bits), Expect = 8.6e-14, Sum P(3) = 8.6e-14
 Identities = 25/55 (45%), Positives = 33/55 (60%)

Query:   148 GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
             G     K CSVC+ E+ E   + +LPCSH+YH  C+  WL+ +  CP CRR  LV
Sbjct:   560 GENDALKTCSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVLV 614

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|Q7T037 rnf12-b "E3 ubiquitin-protein ligase RNF12-B" [Xenopus laevis (taxid:8355)]

 Score = 169 (64.5 bits), Expect = 1.9e-13, Sum P(2) = 1.9e-13
 Identities = 47/147 (31%), Positives = 66/147 (44%)

Query:    63 QDSPCSRCEIPLTELREPLATCISDLDEN-ALRARQRLEQKLASLHPRSRPGEVPQNKSS 121
             Q++P +    P+ E  EP+A   SD   N A  A +R  +           G +P    +
Sbjct:   606 QNNPSAEVRAPIAEPAEPVAPVESDEGSNVATSATRREGRNSRGGVTLEESGSLPFLSLA 665

Query:   122 G----NEGMKDTRLGSKLLWGSHLRHLKLR--GSKSNTKICSVCLEEFQEEQPVTRLPCS 175
                  NE   D   G   L    + +L  R  G     K CSVC+ E+ E   + +LPCS
Sbjct:   666 QFFLLNEDDDDQPRG---LTKEQIDNLSTRNYGENDALKTCSVCITEYTEGNKLRKLPCS 722

Query:   176 HKYHSDCVLPWLAAHPQCPYCRRPALV 202
             H+YH  C+  WL+ +  CP CRR  LV
Sbjct:   723 HEYHIHCIDRWLSENSTCPICRRAVLV 749

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

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

 Score = 155 (59.6 bits), Expect = 2.5e-13, Sum P(2) = 2.5e-13
 Identities = 23/42 (54%), Positives = 30/42 (71%)

Query:   156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
             CSVCL++F+       +PC+HK+HSDC+LPWL  H  CP CR
Sbjct:   223 CSVCLDDFEIGTEAKLMPCTHKFHSDCLLPWLELHSSCPVCR 264

GO:0005737 "cytoplasm" evidence=ISM

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

RGD|1359698 Rnf181 "ring finger protein 181" [Rattus norvegicus (taxid:10116)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 27/52 (51%), Positives = 36/52 (69%)

Query:   146 LRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
             +R SK+  K C VCL EF+EE+ V  +PC H +HS+C+LPWL+    CP CR
Sbjct:    79 IRSSKAELK-CPVCLLEFEEEETVIEMPCHHLFHSNCILPWLSKTNSCPLCR 129

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

UNIPROTKB|Q6AXU4 Rnf181 "E3 ubiquitin-protein ligase RNF181" [Rattus norvegicus (taxid:10116)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 27/52 (51%), Positives = 36/52 (69%)

Query:   146 LRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
             +R SK+  K C VCL EF+EE+ V  +PC H +HS+C+LPWL+    CP CR
Sbjct:    79 IRSSKAELK-CPVCLLEFEEEETVIEMPCHHLFHSNCILPWLSKTNSCPLCR 129

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1915095 Rnf115 "ring finger protein 115" [Mus musculus (taxid:10090)]

 Score = 149 (57.5 bits), Expect = 4.8e-12, Sum P(2) = 4.8e-12
 Identities = 23/48 (47%), Positives = 33/48 (68%)

Query:   152 NTKI-CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR 198
             NT + C VC E++  E+ V +LPC+H +HS C++PWL  H  CP CR+
Sbjct:   224 NTGLECPVCKEDYTVEEKVRQLPCNHFFHSSCIVPWLELHDTCPVCRK 271

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051865 "protein autoubiquitination" evidence=ISO

UNIPROTKB|Q3T0W3 RNF181 "E3 ubiquitin-protein ligase RNF181" [Bos taurus (taxid:9913)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 26/52 (50%), Positives = 36/52 (69%)

Query:   146 LRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
             +RGS++  K C VCL EF+EE+    +PC H +HS+C+LPWL+    CP CR
Sbjct:    67 IRGSQAELK-CPVCLLEFEEEETAIEMPCHHLFHSNCILPWLSKTNSCPLCR 117

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 151 (58.2 bits), Expect = 7.4e-12, Sum P(2) = 7.4e-12
 Identities = 25/55 (45%), Positives = 33/55 (60%)

Query:   148 GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
             G     K CSVC+ E+ E   + +LPCSH+YH  C+  WL+ +  CP CRR  LV
Sbjct:   577 GENDALKTCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTCPICRRAVLV 631

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|C9J1C6 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 26/52 (50%), Positives = 35/52 (67%)

Query:   146 LRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
             +RGS++  K C VCL EF+EE+    +PC H +HS C+LPWL+    CP CR
Sbjct:    67 IRGSQAELK-CPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCR 117

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

Your Input: GSVIVG00020045001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (164 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	203
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	7e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	4e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-07
smart00184	40	smart00184, RING, Ring finger	8e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.003

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

 Score = 65.5 bits (160), Expect = 7e-15
 Identities = 19/44 (43%), Positives = 27/44 (61%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +CL+EF+  + V  LPC H +H +C+  WL +   CP CR P
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

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 = 52.8 bits (127), Expect = 4e-10
 Identities = 21/45 (46%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL-AAHPQCPYCRRP 199
           C +CLEEF+E  PV  LPC H +   C+  WL +    CP CR P
Sbjct: 2   CPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

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

 Score = 49.6 bits (118), Expect = 2e-07
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRP 199
           C++C+  F +   +  LPC H++H  CV  WL  +  +CP CR  
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTA 370

Length = 374

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

 Score = 44.8 bits (106), Expect = 4e-07
 Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR 198
            C +CL+      PV   PC H +  +C+L +L    +CP CR 
Sbjct: 4   ECPICLDLL--RDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 41.3 bits (97), Expect = 8e-06
 Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL-AAHPQCPYC 196
           C +CLEE+ ++     LPC H +   C+  WL + +  CP C
Sbjct: 1   CPICLEEYLKD--PVILPCGHTFCRSCIRKWLESGNNTCPIC 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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 44.6 bits (105), Expect = 1e-05
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 10/59 (16%)

Query: 151 SNTKICSVCLEEFQE--EQPV--------TRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           ++ + C++C++E      +P+         RLPC H  H  C+  WL     CP CRRP
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRP 343

Length = 491

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 10/52 (19%)

Query: 156 CSVCLEEFQ----------EEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           C++C   F           ++ PV    C H +H  C+  WL     CP CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 39.8 bits (93), Expect = 3e-05
 Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 3/42 (7%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL-AAHPQCPYC 196
           C +CLEE   + PVT LPC H + S C+L WL + +  CP C
Sbjct: 1   CPICLEEP--KDPVTILPCGHLFCSKCILSWLESGNVTCPLC 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|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 37.7 bits (87), Expect = 0.003
 Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 5/76 (6%)

Query: 125  GMKDTRLGSKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCV 183
                + +    LW  ++   K  G +    IC   L+      P  R   C +K+H+ C+
Sbjct: 1446 KKNGSFMDLLGLWKKNI-DEKFSGHEE-CAICYSVLDMVDRSLPSKRCATCKNKFHTRCL 1503

Query: 184  LPWLA--AHPQCPYCR 197
              W A  A   CP CR
Sbjct: 1504 YKWFASSARSNCPLCR 1519

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	203
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.5
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.41
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.25
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.2
PHA02929	238	N1R/p28-like protein; Provisional	99.15
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.11
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.05
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.02
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.98
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.98
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.97
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.91
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.8
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.79
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.75
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.74
PF14634	44	zf-RING_5: zinc-RING finger domain	98.72
PHA02926	242	zinc finger-like protein; Provisional	98.72
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.71
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.69
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.6
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.55
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.53
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.52
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.43
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.36
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.36
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.34
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.33
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.28
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.1
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.01
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.0
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.99
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.81
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.74
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.63
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.44
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.39
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.35
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.23
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG2660	331	consensus Locus-specific chromosome binding protei	97.11
COG5152	259	Uncharacterized conserved protein, contains RING a	96.99
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.98
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.98
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.84
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.59
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.49
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.46
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.46
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.34
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.17
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.91
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.9
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.83
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.7
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.65
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.38
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.28
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.27
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.25
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.13
PF04641	260	Rtf2: Rtf2 RING-finger	95.12
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.85
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.75
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.59
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.5
PHA03096	284	p28-like protein; Provisional	94.5
KOG1940	276	consensus Zn-finger protein [General function pred	94.46
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.43
KOG3002	299	consensus Zn finger protein [General function pred	93.94
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.46
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.43
PHA02862	156	5L protein; Provisional	93.3
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.24
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.4
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.77
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.22
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.12
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.08
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	89.46
KOG0825	1134	consensus PHD Zn-finger protein [General function	88.97
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.48
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.26
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	87.7
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	87.34
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.4
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	85.92
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	85.4
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.03
KOG1609	323	consensus Protein involved in mRNA turnover and st	81.6
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	81.49

>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=99.50  E-value=7.6e-15  Score=94.70  Aligned_cols=44  Identities=43%  Similarity=1.183  Sum_probs=40.4

Q ss_pred             ccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcC
Q 028791          154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR  197 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR  197 (203)
                      ++|+||++.|..++.++.++|+|.||..||.+|++.+.+||+||
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            47999999999999999999999999999999999999999997

...

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

Probab=99.41  E-value=9e-14  Score=125.13  Aligned_cols=48  Identities=40%  Similarity=1.090  Sum_probs=44.6

Q ss_pred             ccccccccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcCcCcc
Q 028791          154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRPAL  201 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CP~CR~~v~  201 (203)
                      ..|+||+|+|..+++++.|||.|.||..||++|+..+. .||+|+.++.
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            69999999999999999999999999999999997775 5999998775

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

Probab=99.25  E-value=5e-12  Score=90.39  Aligned_cols=46  Identities=33%  Similarity=0.951  Sum_probs=36.9

Q ss_pred             ccccccccccccccC----------CceEEecCCCcccHHhHHHHHhcCCCCCCcC
Q 028791          152 NTKICSVCLEEFQEE----------QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR  197 (203)
Q Consensus       152 ~~~~C~ICle~~~~~----------~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR  197 (203)
                      .++.|+||++.|..+          ..+...+|+|.||..||.+|++.+.+||+||
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            455699999999432          2445567999999999999999999999997

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

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

Probab=99.20  E-value=9.3e-12  Score=109.88  Aligned_cols=52  Identities=31%  Similarity=0.840  Sum_probs=48.0

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v~~  202 (203)
                      ....+|+||++.|...+.+++|||.|.||..|+..|+. .+..||+||.+|++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            44589999999999999999999999999999999997 67789999999986

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.15  E-value=2.8e-11  Score=104.47  Aligned_cols=51  Identities=27%  Similarity=0.742  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCc-----eEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQP-----VTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~-----~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ..+.+|+||++.+..++.     .+.++|+|.||..||.+|+..+.+||+||.++.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            457899999999876531     244569999999999999999999999998764

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

Probab=99.11  E-value=3.4e-11  Score=105.46  Aligned_cols=53  Identities=30%  Similarity=0.765  Sum_probs=45.8

Q ss_pred             cCCCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          147 RGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       147 ~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      .........|.+|||....+   ..+||||.||+.||.+|...+..||+||..+.+
T Consensus       233 ~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  233 SSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             ccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            33445678999999988887   789999999999999999999999999987643

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.05  E-value=1.5e-10  Score=96.78  Aligned_cols=48  Identities=25%  Similarity=0.732  Sum_probs=40.9

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc----------------CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA----------------HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~----------------~~~CP~CR~~v~  201 (203)
                      .+..+|+||++.+..+   ++++|||.||+.||..|+..                ...||+||.+|.
T Consensus        16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            3578999999999887   77899999999999999842                347999999874

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

Probab=99.02  E-value=1.8e-10  Score=76.18  Aligned_cols=46  Identities=33%  Similarity=0.862  Sum_probs=39.5

Q ss_pred             cccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +..|.||++....   ++.+||||. ||..|+..|+.....||+||.+|.
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            5789999997655   488999999 999999999999999999999874

...

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

Probab=99.01  E-value=2.8e-10  Score=97.11  Aligned_cols=50  Identities=22%  Similarity=0.644  Sum_probs=41.8

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH---PQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CP~CR~~v~  201 (203)
                      .....++|.||||.-+++   +++.|||.|||.||.+|+...   ..||+|+..|.
T Consensus        43 ~~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS   95 (230)
T ss_pred             CCCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence            346789999999987777   777899999999999999543   46899998764

>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=98.98  E-value=5.4e-10  Score=69.92  Aligned_cols=44  Identities=45%  Similarity=1.136  Sum_probs=36.3

Q ss_pred             cccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCc
Q 028791          155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPA  200 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v  200 (203)
                      +|+||++.+...  +...+|+|.||..|+..|+.. +..||+|+..+
T Consensus         1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998433  445559999999999999987 77899999764

>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=98.98  E-value=3.5e-10  Score=71.18  Aligned_cols=39  Identities=36%  Similarity=1.140  Sum_probs=33.5

Q ss_pred             ccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~C  196 (203)
                      |+||++.+.++  ++.++|||.||..|+..|++.+..||+|
T Consensus         1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc--CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998774  5678999999999999999888899998

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

Probab=98.97  E-value=3.5e-10  Score=72.73  Aligned_cols=38  Identities=32%  Similarity=0.926  Sum_probs=30.3

Q ss_pred             ccccccccccCCceEEecCCCcccHHhHHHHHhcC----CCCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH----PQCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~----~~CP~C  196 (203)
                      |+||++.|.++   +.|+|||+||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999   999999999999999999543    369987

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

Probab=98.91  E-value=6.4e-10  Score=100.66  Aligned_cols=52  Identities=35%  Similarity=1.027  Sum_probs=43.7

Q ss_pred             CCcccccccccccc-ccCC---------ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEF-QEEQ---------PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~-~~~~---------~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+++..|.||+|++ ..+.         +...|||||.||.+|++.|++...+||+||.+|.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            46788999999994 4331         3367999999999999999999999999999864

>smart00504 Ubox Modified RING finger domain

Probab=98.80  E-value=5.4e-09  Score=71.27  Aligned_cols=44  Identities=25%  Similarity=0.582  Sum_probs=40.7

Q ss_pred             ccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ..|+||.+.+..+   +.++|||.|+..||..|+..+..||+|+.++
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~   45 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPL   45 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence            5799999999988   7889999999999999998888999999876

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

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

Probab=98.79  E-value=3.7e-09  Score=66.67  Aligned_cols=39  Identities=44%  Similarity=1.215  Sum_probs=34.0

Q ss_pred             ccccccccccCCceEEecCCCcccHHhHHHHHh--cCCCCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA--AHPQCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~--~~~~CP~C  196 (203)
                      |+||++.+..+  ...++|+|.||..|+..|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998887  24889999999999999997  55579998

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

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

Probab=98.75  E-value=6.9e-09  Score=76.35  Aligned_cols=54  Identities=35%  Similarity=0.853  Sum_probs=41.6

Q ss_pred             CCCCccccccccccccccCC----------ceEEecCCCcccHHhHHHHHhc---CCCCCCcCcCcc
Q 028791          148 GSKSNTKICSVCLEEFQEEQ----------PVTRLPCSHKYHSDCVLPWLAA---HPQCPYCRRPAL  201 (203)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~----------~~~~LpC~H~Fh~~CI~~Wl~~---~~~CP~CR~~v~  201 (203)
                      .+..+++.|.||...|...-          .++.-.|+|.||..||..|+..   +..||+||.+..
T Consensus        16 Wd~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   16 WDVANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             EecCCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            34456889999999987321          3344459999999999999964   568999998754

>smart00184 RING Ring finger

Probab=98.74  E-value=9.8e-09  Score=61.94  Aligned_cols=38  Identities=39%  Similarity=1.175  Sum_probs=32.5

Q ss_pred             ccccccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~C  196 (203)
                      |+||++....   .+.++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD---PVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC---cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899998444   48899999999999999997 66679987

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.72  E-value=9.9e-09  Score=66.25  Aligned_cols=44  Identities=27%  Similarity=0.792  Sum_probs=37.8

Q ss_pred             cccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCc
Q 028791          155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR  198 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~  198 (203)
                      .|+||++.|........++|||+||..|+..+......||+|++
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            48999999955556788899999999999999866678999984

>PHA02926 zinc finger-like protein; Provisional

Probab=98.72  E-value=5.7e-09  Score=89.00  Aligned_cols=53  Identities=25%  Similarity=0.542  Sum_probs=39.3

Q ss_pred             CCCccccccccccccccCC------ceEEecCCCcccHHhHHHHHhcC------CCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQ------PVTRLPCSHKYHSDCVLPWLAAH------PQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~------~~~~LpC~H~Fh~~CI~~Wl~~~------~~CP~CR~~v~  201 (203)
                      ..+.+.+|+||+|....+.      .....+|+|.||..||..|...+      ..||+||..+.
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            3456789999999864321      12445699999999999999653      35999998653

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

Probab=98.71  E-value=7.4e-09  Score=85.46  Aligned_cols=50  Identities=30%  Similarity=0.731  Sum_probs=42.0

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +....|+|||+.+.+... +.+.|||.||..||...++....||+|++.|.
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence            456899999999887632 33679999999999999999999999997653

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.69  E-value=9.6e-09  Score=94.53  Aligned_cols=49  Identities=29%  Similarity=0.684  Sum_probs=43.7

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ......|+||++.|..+   +.++|+|.||..||..|+.....||+|+..+.
T Consensus        23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~   71 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ   71 (397)
T ss_pred             cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence            45678999999999888   67899999999999999988889999998764

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

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

Probab=98.60  E-value=1.7e-08  Score=96.24  Aligned_cols=50  Identities=34%  Similarity=0.946  Sum_probs=44.0

Q ss_pred             CccccccccccccccCCc--eEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQP--VTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~--~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ..+..|.||+|.+..+.+  ...+||+|.||..|+..|++..++||+||..+
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            457899999999988544  47899999999999999999999999999843

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

Probab=98.55  E-value=2.3e-08  Score=89.84  Aligned_cols=47  Identities=34%  Similarity=0.778  Sum_probs=43.7

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      +....|.||.|.|..+   +.+||+|.||..||...+..++.||.|+.++
T Consensus        21 D~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~   67 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTV   67 (442)
T ss_pred             HHHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceeccc
Confidence            4567999999999999   8899999999999999999999999998865

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

Probab=98.53  E-value=6.9e-08  Score=73.26  Aligned_cols=69  Identities=20%  Similarity=0.442  Sum_probs=50.5

Q ss_pred             cccccccccccccccCCCCcccccccccccccc-------------CC-ceEEecCCCcccHHhHHHHHhcCCCCCCcCc
Q 028791          133 SKLLWGSHLRHLKLRGSKSNTKICSVCLEEFQE-------------EQ-PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR  198 (203)
Q Consensus       133 ~k~~~~~~~~~~~~~~~~~~~~~C~ICle~~~~-------------~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~  198 (203)
                      .+++..++...+.+..-+...+.|+||..-+-.             .+ .+..-.|.|.||..||..|++.++.||+|..
T Consensus        26 ~krF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~  105 (114)
T KOG2930|consen   26 KKRFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNK  105 (114)
T ss_pred             CcceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCc
Confidence            445555555666676777788999999865421             12 2333459999999999999999999999987


Q ss_pred             Ccc
Q 028791          199 PAL  201 (203)
Q Consensus       199 ~v~  201 (203)
                      +-+
T Consensus       106 eW~  108 (114)
T KOG2930|consen  106 EWV  108 (114)
T ss_pred             cee
Confidence            643

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

Probab=98.52  E-value=4.1e-08  Score=85.38  Aligned_cols=49  Identities=31%  Similarity=0.708  Sum_probs=42.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHH-HHhcCCC-CCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLP-WLAAHPQ-CPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~-Wl~~~~~-CP~CR~~v~~  202 (203)
                      ..+..|.||++....+   ..++|||.||+.||.. |-..+.. ||+||+.+.+
T Consensus       213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            4578999999987777   8899999999999999 9877765 9999987653

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

Probab=98.43  E-value=6.1e-08  Score=84.73  Aligned_cols=50  Identities=26%  Similarity=0.787  Sum_probs=43.0

Q ss_pred             ccccccccccccccCC-------ceEEecCCCcccHHhHHHHH--hcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQ-------PVTRLPCSHKYHSDCVLPWL--AAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~-------~~~~LpC~H~Fh~~CI~~Wl--~~~~~CP~CR~~v~  201 (203)
                      ++..|+||-..+...+       ++..|.|+|.||..||..|-  ..+++||+|+..|+
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            5779999998877664       67789999999999999996  67889999998765

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

Probab=98.36  E-value=2.9e-07  Score=66.89  Aligned_cols=51  Identities=25%  Similarity=0.724  Sum_probs=39.2

Q ss_pred             CccccccccccccccC------------C-ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE------------Q-PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~------------~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ...+.|+||...|...            + .++.-.|.|.||..||..|+..++.||++|++..
T Consensus        18 i~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          18 IPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             cccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            3457899988766432            2 2333449999999999999999999999998754

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

Probab=98.36  E-value=2.3e-07  Score=60.08  Aligned_cols=38  Identities=37%  Similarity=0.904  Sum_probs=22.2

Q ss_pred             ccccccccccC-CceEEecCCCcccHHhHHHHHhcC----CCCC
Q 028791          156 CSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAH----PQCP  194 (203)
Q Consensus       156 C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~~~----~~CP  194 (203)
                      |+||.| |... +..+.|+|||+||.+|+..+++.+    ..||
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 7663 334889999999999999999743    3576

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

Probab=98.34  E-value=2.1e-07  Score=87.17  Aligned_cols=47  Identities=28%  Similarity=0.684  Sum_probs=38.7

Q ss_pred             cccccccccccccCCceEEecCCCcccHHhHHHHHhcC-----CCCCCcCcCccC
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-----PQCPYCRRPALV  202 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-----~~CP~CR~~v~~  202 (203)
                      +..|+|||+....+   ..+.|||.||..||.+++...     ..||+|+..|-+
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            78999999987777   556699999999999987443     479999987643

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

Probab=98.33  E-value=2.6e-07  Score=81.73  Aligned_cols=46  Identities=26%  Similarity=0.639  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~  199 (203)
                      +....|-||-+.|..+   ..++|||.||+.||...+..++.||+||++
T Consensus        23 Ds~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~   68 (391)
T COG5432          23 DSMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED   68 (391)
T ss_pred             hhHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence            3467899999999999   788999999999999999999999999986

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

Probab=98.31  E-value=2.2e-07  Score=77.43  Aligned_cols=45  Identities=33%  Similarity=0.809  Sum_probs=40.5

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcC
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR  197 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR  197 (203)
                      ..+...|+||++.|..+   ..+||+|.||..|+..++.....||.||
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            35678999999999999   8899999999999999888556899998

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

Probab=98.28  E-value=5.6e-07  Score=64.05  Aligned_cols=47  Identities=23%  Similarity=0.543  Sum_probs=38.4

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      +.+.|+|+.+.+.++   +.+|+||+|...||..|+.. +..||+|+.++.
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~   50 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS   50 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred             cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence            467899999999999   89999999999999999988 889999988764

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 ....

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

Probab=98.18  E-value=6.5e-07  Score=83.77  Aligned_cols=53  Identities=28%  Similarity=0.728  Sum_probs=41.8

Q ss_pred             CCccccccccccccccCC--------------ceEEecCCCcccHHhHHHHHh-cCCCCCCcCcCccC
Q 028791          150 KSNTKICSVCLEEFQEEQ--------------PVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPALV  202 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~--------------~~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v~~  202 (203)
                      .....+|+||+..+..-.              .-+.+||.|.||..|+..|+. .+-.||+||.++++
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            345679999998765321              123569999999999999998 55599999999986

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

Probab=98.12  E-value=1.6e-06  Score=78.31  Aligned_cols=48  Identities=33%  Similarity=0.727  Sum_probs=42.0

Q ss_pred             CccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +...+|.||+.+..+.   .+|||.|. .|..|.+...-..+.||+||.+|.
T Consensus       288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            4478999999976665   89999997 899999999888889999999875

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

Probab=98.10  E-value=3.1e-06  Score=56.09  Aligned_cols=42  Identities=26%  Similarity=0.792  Sum_probs=32.4

Q ss_pred             cccccccccccCCceEEecCC-----CcccHHhHHHHHhc--CCCCCCcC
Q 028791          155 ICSVCLEEFQEEQPVTRLPCS-----HKYHSDCVLPWLAA--HPQCPYCR  197 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~--~~~CP~CR  197 (203)
                      .|.||++ ...++.....||.     |.||..|+..|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 3344455678985     78999999999954  44899995

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

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

Probab=98.01  E-value=1.4e-06  Score=62.80  Aligned_cols=50  Identities=32%  Similarity=0.798  Sum_probs=36.4

Q ss_pred             ccccccccccccccCCc---------eEEe-cCCCcccHHhHHHHHhc---CCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQP---------VTRL-PCSHKYHSDCVLPWLAA---HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~---------~~~L-pC~H~Fh~~CI~~Wl~~---~~~CP~CR~~v~  201 (203)
                      .+.+|.||.-.|...-.         ..++ -|.|.||..||..|+..   ...||+||....
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            44599999988864321         1122 28999999999999943   457999998753

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

Probab=98.00  E-value=9.5e-07  Score=62.68  Aligned_cols=49  Identities=24%  Similarity=0.742  Sum_probs=22.9

Q ss_pred             cccccccccccccCCce--EEe---cCCCcccHHhHHHHHhc----C-------CCCCCcCcCcc
Q 028791          153 TKICSVCLEEFQEEQPV--TRL---PCSHKYHSDCVLPWLAA----H-------PQCPYCRRPAL  201 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~--~~L---pC~H~Fh~~CI~~Wl~~----~-------~~CP~CR~~v~  201 (203)
                      +.+|.||++.+...+.+  .+-   .|+..||..|+.+|+..    +       +.||+|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            46899999986633211  222   38999999999999842    1       25999998874

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

Probab=97.99  E-value=2.1e-06  Score=85.40  Aligned_cols=50  Identities=32%  Similarity=0.868  Sum_probs=39.3

Q ss_pred             CCccccccccccccccCCceEEec------CCCcccHHhHHHHHh--cCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLP------CSHKYHSDCVLPWLA--AHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~Lp------C~H~Fh~~CI~~Wl~--~~~~CP~CR~~v~  201 (203)
                      .++..+|+||+..+..-+  +.+|      |.|.||..|+-.|+.  .+++||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            456789999999877321  2333      999999999999995  4568999998875

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

Probab=97.92  E-value=2.3e-06  Score=58.16  Aligned_cols=45  Identities=29%  Similarity=0.659  Sum_probs=36.3

Q ss_pred             cccccccccccccCCceEEecCCCc-ccHHhHHHHHh-cCCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLA-AHPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~-~~~~CP~CR~~v  200 (203)
                      +++|.||+|.-.+.   +...|||. .|+.|-.+.++ .+..||+||++|
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            47999999964443   45569997 89999888665 788999999986

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

Probab=97.87  E-value=1.8e-06  Score=77.94  Aligned_cols=48  Identities=27%  Similarity=0.743  Sum_probs=40.4

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHH-hcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWL-AAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl-~~~~~CP~CR~~v~  201 (203)
                      ..+..|+|||+.+...   +..+ |.|.||..||..-+ ..+..||.||+.+.
T Consensus        41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            4578999999998876   5555 99999999998877 56779999998765

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

Probab=97.81  E-value=7.7e-06  Score=75.87  Aligned_cols=48  Identities=29%  Similarity=0.884  Sum_probs=37.9

Q ss_pred             CccccccccccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQ-PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      .+...|+||||.+...- .+..+.|.|.||..|+..|.  ..+||+||...
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q  221 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQ  221 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhc
Confidence            46789999999887653 23445699999999999995  55699998743

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

Probab=97.74  E-value=1.5e-05  Score=73.72  Aligned_cols=48  Identities=25%  Similarity=0.634  Sum_probs=44.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ..+++|.||+..+..+   +.+||||.||..||+.-+..+..||.||.+++
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence            5689999999999998   88899999999999998888899999999875

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

Probab=97.63  E-value=7.9e-06  Score=57.18  Aligned_cols=45  Identities=31%  Similarity=0.776  Sum_probs=23.4

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ....|.+|.+.+..+  +....|.|.||+.||..-+.  ..||+|+.+.
T Consensus         6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa   50 (65)
T PF14835_consen    6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA   50 (65)
T ss_dssp             HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred             HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence            356899999998888  33456999999999987544  3599998764

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

Probab=97.55  E-value=3.5e-05  Score=69.97  Aligned_cols=50  Identities=30%  Similarity=0.817  Sum_probs=38.2

Q ss_pred             CccccccccccccccCC-----ceEEecCCCcccHHhHHHHH--hc-----CCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQ-----PVTRLPCSHKYHSDCVLPWL--AA-----HPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~-----~~~~LpC~H~Fh~~CI~~Wl--~~-----~~~CP~CR~~v  200 (203)
                      ..+.+|.||++.+....     -.+..+|.|.||..||..|-  ..     ...||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45789999999876653     11224499999999999998  33     46899999754

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

Probab=97.44  E-value=3.1e-05  Score=76.12  Aligned_cols=50  Identities=20%  Similarity=0.473  Sum_probs=43.8

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      .....|++|+..+.+.......+|+|.||..||..|-....+||+||..+
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            34678999999998886666778999999999999999999999999764

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

Probab=97.39  E-value=6.1e-05  Score=67.07  Aligned_cols=54  Identities=26%  Similarity=0.607  Sum_probs=44.4

Q ss_pred             CCCCccccccccccccccCCceEEecCCCcccHHhHHHHHhc-----------------------CCCCCCcCcCcc
Q 028791          148 GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-----------------------HPQCPYCRRPAL  201 (203)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-----------------------~~~CP~CR~~v~  201 (203)
                      +.......|.|||--|..++..++++|.|.||..|+..++..                       ...||+||..|.
T Consensus       110 ~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  110 ENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             cCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            444567899999999999998999999999999999988621                       126999998764

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

Probab=97.35  E-value=0.00016  Score=62.33  Aligned_cols=53  Identities=23%  Similarity=0.510  Sum_probs=43.1

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC--------CCCCCcCcCccC
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH--------PQCPYCRRPALV  202 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--------~~CP~CR~~v~~  202 (203)
                      +.+....|..|-..+..++.+. |.|.|.||+.|+.+|...-        ..||.|..+|++
T Consensus        46 DsDY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   46 DSDYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             hcCCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4456778999999999887654 7799999999999997432        279999988864

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

Probab=97.23  E-value=9.6e-05  Score=72.27  Aligned_cols=48  Identities=23%  Similarity=0.582  Sum_probs=38.8

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+-..|++|-+.+...   +.+.|+|.||..|+.+-+.. ...||.|...+.
T Consensus       641 K~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg  689 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFG  689 (698)
T ss_pred             HhceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            3567999999776665   66679999999999998855 457999988764

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

Probab=97.18  E-value=0.00034  Score=61.57  Aligned_cols=50  Identities=24%  Similarity=0.381  Sum_probs=39.8

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHh--cCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA--AHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~--~~~~CP~CR~~v~  201 (203)
                      ...+.+|++|-+.-..|  ....+|+|+||+.||..-..  ...+||.|..+++
T Consensus       236 ~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            35678999999986666  34456999999999998664  3478999988876

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

Probab=97.11  E-value=0.00013  Score=65.50  Aligned_cols=50  Identities=20%  Similarity=0.518  Sum_probs=41.5

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      .......|.+|-..|....  .+.-|-|.||.+||...+..+..||.|...|
T Consensus        11 ~~n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             hcccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            3456789999999998872  3334999999999999999999999997655

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

Probab=96.99  E-value=0.00024  Score=60.11  Aligned_cols=45  Identities=18%  Similarity=0.586  Sum_probs=40.2

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcC
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP  199 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~  199 (203)
                      -.+.|.||-++|..+   ++..|||.||..|...-......|-+|-+.
T Consensus       195 IPF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         195 IPFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             Cceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            357899999999999   888899999999999988888999999654

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

Probab=96.98  E-value=0.00028  Score=65.08  Aligned_cols=46  Identities=28%  Similarity=0.842  Sum_probs=36.5

Q ss_pred             cccccccccccccCCceEEecCCCcccHHhHHHHHhc--CCCCCCcCcCcc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA--HPQCPYCRRPAL  201 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--~~~CP~CR~~v~  201 (203)
                      -.-|.||-|.   ...+.+-||||..|..|+..|...  ..+||+||..|-
T Consensus       369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            3569999985   223467799999999999999833  568999998764

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

Probab=96.98  E-value=0.00031  Score=64.83  Aligned_cols=49  Identities=24%  Similarity=0.802  Sum_probs=42.5

Q ss_pred             CCccccccccccccccCCceEE-ecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+++..|+||...+..+   .. ..|||.||..|+..|+..+..||.|+..+.
T Consensus        18 ~~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccc
Confidence            35678999999999888   44 479999999999999999999999987653

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

Probab=96.84  E-value=0.00064  Score=46.44  Aligned_cols=43  Identities=21%  Similarity=0.665  Sum_probs=29.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc--CCCCCC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA--HPQCPY  195 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--~~~CP~  195 (203)
                      .....|+|.+..|.++  +....|+|.|-...|.+|+..  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4568999999999988  445579999999999999943  347998

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

Probab=96.59  E-value=0.00093  Score=63.68  Aligned_cols=51  Identities=18%  Similarity=0.531  Sum_probs=40.4

Q ss_pred             cCCCCccccccccccccccCCceEEecCCCcccHHhHHHHHh-----cCCCCCCcCcCc
Q 028791          147 RGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-----AHPQCPYCRRPA  200 (203)
Q Consensus       147 ~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-----~~~~CP~CR~~v  200 (203)
                      .++..+..+|.+|-+.-...   +...|.|.||..||.+++.     .+-+||.|--.+
T Consensus       530 ~~enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             CccccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            34556788999999976655   6778999999999999873     345899997655

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

Probab=96.49  E-value=0.00082  Score=59.73  Aligned_cols=45  Identities=20%  Similarity=0.460  Sum_probs=40.5

Q ss_pred             cccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      .+.|-||-..|..+   ++..|+|.||..|...-+.....|++|...+
T Consensus       241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence            56799999999999   8889999999999998888889999997654

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

Probab=96.46  E-value=0.002  Score=67.33  Aligned_cols=53  Identities=26%  Similarity=0.671  Sum_probs=41.6

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC----------CCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH----------PQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~----------~~CP~CR~~v~  201 (203)
                      ..+.++.|.||+.+--..-..+.|.|+|+||..|....+++.          -.||+|..+|.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            345688999999875555567889999999999998876543          16999998764

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

Probab=96.46  E-value=0.0011  Score=61.23  Aligned_cols=48  Identities=31%  Similarity=0.765  Sum_probs=39.8

Q ss_pred             CccccccccccccccC-CceEEecCCCcccHHhHHHHHhcCC--CCCCcCc
Q 028791          151 SNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHP--QCPYCRR  198 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~~~~--~CP~CR~  198 (203)
                      +.+..|..|-+.+... +.+..|||.|+||..|+.+.+.++.  +||-||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            3467899999987654 4567799999999999999997665  7999983

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

Probab=96.34  E-value=0.002  Score=58.78  Aligned_cols=50  Identities=22%  Similarity=0.626  Sum_probs=41.8

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.++..|+||+-.-...   +..||+|.-|+.||.+-+-++..|=+|+..+.
T Consensus       418 p~sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CCcccccCcceecccchh---hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            346788999999753333   77899999999999999999999999988663

>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=96.17  E-value=0.0033  Score=50.05  Aligned_cols=39  Identities=18%  Similarity=0.503  Sum_probs=31.9

Q ss_pred             cccccccccccccCCceEEecCC------CcccHHhHHHHHhcCC
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCS------HKYHSDCVLPWLAAHP  191 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~------H~Fh~~CI~~Wl~~~~  191 (203)
                      ..+|+||++.+...+.++.++|+      |.||..|+..|-..+.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence            67999999999886667888885      6699999999954433

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.

>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=95.91  E-value=0.0035  Score=46.39  Aligned_cols=33  Identities=27%  Similarity=0.677  Sum_probs=27.7

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHH
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVL  184 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~  184 (203)
                      ++...|+||-..+.. ...++.||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            456789999999887 456778999999999974

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 [].

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

Probab=95.90  E-value=0.0025  Score=52.53  Aligned_cols=31  Identities=35%  Similarity=0.875  Sum_probs=28.1

Q ss_pred             CCccccccccccccccCCceEEecCCCcccH
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHS  180 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~  180 (203)
                      .++..+|.||||++..++.+..|||-.+||.
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            3567899999999999999999999999985

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

Probab=95.83  E-value=0.0069  Score=39.65  Aligned_cols=40  Identities=30%  Similarity=0.846  Sum_probs=26.6

Q ss_pred             ccccccccccCCceEEecCC--C---cccHHhHHHHHh--cCCCCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCS--H---KYHSDCVLPWLA--AHPQCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~--H---~Fh~~CI~~Wl~--~~~~CP~C  196 (203)
                      |-||++.-...+ ....||.  -   ..|..|+..|+.  .+..|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679998866654 3457753  3   689999999995  45579887

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

Probab=95.71  E-value=0.0056  Score=55.75  Aligned_cols=46  Identities=35%  Similarity=0.759  Sum_probs=34.1

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ......|.||++...+.   ..+||||.-|  |..-. +....||+||..|.
T Consensus       302 ~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             cCCCCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            34567899999987665   8899999866  55332 44566999998653

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

Probab=95.70  E-value=0.0066  Score=56.27  Aligned_cols=39  Identities=26%  Similarity=0.605  Sum_probs=34.2

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHh
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA  188 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~  188 (203)
                      ......|.||+++.........+||+|.||..|+..+..
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence            355789999999987777888999999999999999973

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

Probab=95.65  E-value=0.0066  Score=60.53  Aligned_cols=49  Identities=27%  Similarity=0.739  Sum_probs=38.0

Q ss_pred             CCccccccccccccccCCceEE-ecCCCcccHHhHHHHHhcC-------CCCCCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAH-------PQCPYCRR  198 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~CI~~Wl~~~-------~~CP~CR~  198 (203)
                      .....+|.||++.+.....+.. -.|.|+||..||..|....       -.||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            4567899999999887765543 3499999999999998431       16999973

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

Probab=95.38  E-value=0.009  Score=53.59  Aligned_cols=42  Identities=26%  Similarity=0.745  Sum_probs=35.4

Q ss_pred             ccccccccccccCCceEEec-CCCcccHHhHHHHH-hcCCCCCCcCc
Q 028791          154 KICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWL-AAHPQCPYCRR  198 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl-~~~~~CP~CR~  198 (203)
                      ..|+.|-..+.++   +.+| |+|.||..||..-| .....||.|..
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            7899999998888   5566 89999999999755 67789999943

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

Probab=95.28  E-value=0.012  Score=38.91  Aligned_cols=45  Identities=29%  Similarity=0.612  Sum_probs=22.8

Q ss_pred             ccccccccccCCc-eEEecCCCcccHHhHHHHHh-cCCCCCCcCcCc
Q 028791          156 CSVCLEEFQEEQP-VTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPA  200 (203)
Q Consensus       156 C~ICle~~~~~~~-~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v  200 (203)
                      |++|.+++...+. ..--+|+..+|..|...-++ .++.||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999854432 22234899999999998886 578999999864

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.27  E-value=0.016  Score=47.47  Aligned_cols=47  Identities=23%  Similarity=0.666  Sum_probs=34.4

Q ss_pred             CCccccccccccccccCCceEEecCCC-----cccHHhHHHHHhc--CCCCCCcCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSH-----KYHSDCVLPWLAA--HPQCPYCRRPA  200 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H-----~Fh~~CI~~Wl~~--~~~CP~CR~~v  200 (203)
                      ...+..|-||.++-..    ...||..     ..|.+|+..|+..  +..|++|+.+.
T Consensus         5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            3567799999987432    2357544     4699999999954  45799998764

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

Probab=95.25  E-value=0.013  Score=49.09  Aligned_cols=52  Identities=25%  Similarity=0.770  Sum_probs=33.9

Q ss_pred             CccccccccccccccC----CceEEecCCCcccHHhHHHHHhc----C-------CCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAA----H-------PQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~----~-------~~CP~CR~~v~~  202 (203)
                      ++...|.||+..--.+    +..-...|+..||.-|+..|+..    .       ..||+|-.+|.+
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            3445566666532222    11223459999999999999842    1       269999998854

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

Probab=95.13  E-value=0.019  Score=52.51  Aligned_cols=49  Identities=24%  Similarity=0.658  Sum_probs=39.3

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHH--HhcCCCCCCcCcCc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPW--LAAHPQCPYCRRPA  200 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~W--l~~~~~CP~CR~~v  200 (203)
                      .+++...|.||-+.+.-.   ..+||+|..|-.|....  |-....||+||...
T Consensus        57 tDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          57 TDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345677899999976654   78999999999998775  45677899999753

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.12  E-value=0.025  Score=49.34  Aligned_cols=50  Identities=22%  Similarity=0.499  Sum_probs=39.1

Q ss_pred             CCccccccccccccccCCce-EEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPV-TRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ....+.|||....|...... +..||||+|...+|.+.- ....||+|-.++
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f  160 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPF  160 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcc
Confidence            45688999999999554444 445799999999999983 456799998764

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

Probab=94.85  E-value=0.022  Score=51.51  Aligned_cols=48  Identities=21%  Similarity=0.526  Sum_probs=38.0

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      .....|+||+....++.  +...-|-+||+.||..++.+.+.||+=..++
T Consensus       298 ~~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            45678999999877772  2233699999999999999999999854443

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

Probab=94.75  E-value=0.0052  Score=54.81  Aligned_cols=41  Identities=24%  Similarity=0.715  Sum_probs=31.5

Q ss_pred             cccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ..-|+||++.-...   +.|+|||. -|..|-..    -+.||+||.-|
T Consensus       300 ~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDC---VFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcce---EEeecCcEEeehhhccc----cccCchHHHHH
Confidence            56799999864444   88999996 68888644    34899999754

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.59  E-value=0.018  Score=39.15  Aligned_cols=45  Identities=27%  Similarity=0.521  Sum_probs=32.9

Q ss_pred             cccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      ...|..|...-..+   ..+||+|..|..|..-+  .-+-||+|-.++..
T Consensus         7 ~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFVGTKG---TVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEcccccccc---ccccccceeeccccChh--hccCCCCCCCcccC
Confidence            44666666643444   78999999999997664  45679999888753

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

Probab=94.50  E-value=0.033  Score=35.80  Aligned_cols=41  Identities=27%  Similarity=0.759  Sum_probs=23.4

Q ss_pred             ccccccccccCCceEEecCCCcccHHhHHHHHhcCC--CCCCc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP--QCPYC  196 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~--~CP~C  196 (203)
                      |.+|-+....+..-....|+-.+|..|+..++....  .||.|
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            678888888872222223888999999999996655  79987

; PDB: 3NW0_A 2CT0_A.

>PHA03096 p28-like protein; Provisional

Probab=94.50  E-value=0.021  Score=50.80  Aligned_cols=36  Identities=28%  Similarity=0.691  Sum_probs=27.1

Q ss_pred             ccccccccccccCC----ceEEec-CCCcccHHhHHHHHhc
Q 028791          154 KICSVCLEEFQEEQ----PVTRLP-CSHKYHSDCVLPWLAA  189 (203)
Q Consensus       154 ~~C~ICle~~~~~~----~~~~Lp-C~H~Fh~~CI~~Wl~~  189 (203)
                      .+|.||++......    .-..|+ |.|.||..||..|...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            78999999765431    122455 9999999999999843

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

Probab=94.46  E-value=0.023  Score=50.37  Aligned_cols=47  Identities=26%  Similarity=0.539  Sum_probs=38.6

Q ss_pred             ccccccccccccccCC-ceEEecCCCcccHHhHHHHHhcCCCCCCcCc
Q 028791          152 NTKICSVCLEEFQEEQ-PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR  198 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~  198 (203)
                      ....|+||.+.+.... .+..++|+|..|..|+.+....+.+||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            4556999999866554 3456889999999999999877799999977

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.43  E-value=0.039  Score=48.30  Aligned_cols=49  Identities=22%  Similarity=0.445  Sum_probs=42.6

Q ss_pred             ccccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          152 NTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ..+.|+||.+.+.+.-..+.| ||||+|+..|....+.....||+|-.++
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl  269 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL  269 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence            568999999999988766665 5999999999999999999999997654

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

Probab=93.94  E-value=0.035  Score=49.78  Aligned_cols=44  Identities=27%  Similarity=0.603  Sum_probs=35.5

Q ss_pred             CccccccccccccccCCceEEecC--CCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPC--SHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC--~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+-.+|+||.+.+..+    ...|  ||.-|..|-.   +..+.||.||.++.
T Consensus        46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            3568999999999888    3556  8999999975   35678999998875

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

Probab=93.46  E-value=0.04  Score=55.18  Aligned_cols=43  Identities=26%  Similarity=0.687  Sum_probs=35.3

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcC
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP  199 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~  199 (203)
                      ....|..|--.+..|  .+..-|+|.||..|+.   .....||-|+..
T Consensus       839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence            456899999988887  4667799999999997   455689999864

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.43  E-value=0.049  Score=49.75  Aligned_cols=49  Identities=22%  Similarity=0.526  Sum_probs=36.2

Q ss_pred             CccccccccccccccCCceE-EecCCCcccHHhHHHHH-hcCCCCCCcCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVT-RLPCSHKYHSDCVLPWL-AAHPQCPYCRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~-~LpC~H~Fh~~CI~~Wl-~~~~~CP~CR~~  199 (203)
                      ++++-|+.|+|.+...++-. -.|||...|.-|....- ..++.||-||..
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~   62 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK   62 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence            44555999999988876553 35689888888866654 357789999874

>PHA02862 5L protein; Provisional

Probab=93.30  E-value=0.067  Score=43.28  Aligned_cols=48  Identities=19%  Similarity=0.477  Sum_probs=30.3

Q ss_pred             cccccccccccccCCce-EEecCCCcccHHhHHHHHhc--CCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQPV-TRLPCSHKYHSDCVLPWLAA--HPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~~--~~~CP~CR~~v  200 (203)
                      +..|-||.+.-...... .-..-....|..|+.+|++.  +..||+|+.+.
T Consensus         2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY   52 (156)
T PHA02862          2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY   52 (156)
T ss_pred             CCEEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence            45799999974332000 00000234899999999954  45799999864

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

Probab=93.24  E-value=0.035  Score=54.83  Aligned_cols=43  Identities=21%  Similarity=0.661  Sum_probs=34.4

Q ss_pred             ccccccccccccCCceEEecCCCcccHHhHHHHHhc--CCCCCCcCcCc
Q 028791          154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA--HPQCPYCRRPA  200 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--~~~CP~CR~~v  200 (203)
                      ..|.||++    .+.....+|+|.||..|+...+..  ...||+||..+
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            89999999    333477889999999999998743  33699998754

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

Probab=92.40  E-value=0.096  Score=41.79  Aligned_cols=46  Identities=28%  Similarity=0.603  Sum_probs=36.3

Q ss_pred             ccccccccccccccCCceEEe-c---CCCcccHHhHHHHHh---cCCCCCCcCcCc
Q 028791          152 NTKICSVCLEEFQEEQPVTRL-P---CSHKYHSDCVLPWLA---AHPQCPYCRRPA  200 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~L-p---C~H~Fh~~CI~~Wl~---~~~~CP~CR~~v  200 (203)
                      ...+|.||.|...+.   ..| |   ||-..|..|-...++   ..+.||.|+...
T Consensus        79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF  131 (140)
T PF05290_consen   79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF  131 (140)
T ss_pred             CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence            578999999986665   333 3   999999999988764   467899998764

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

Probab=91.77  E-value=0.15  Score=47.13  Aligned_cols=49  Identities=29%  Similarity=0.508  Sum_probs=41.0

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH---PQCPYCRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CP~CR~~  199 (203)
                      ...+.|||=-+.-...+..+.|.|||+....-+....++.   ..||+|-..
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            4578999999888888888999999999999999987543   479999543

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

Probab=91.22  E-value=0.014  Score=53.92  Aligned_cols=51  Identities=29%  Similarity=0.641  Sum_probs=43.6

Q ss_pred             CccccccccccccccC-CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .....|+||.+.+.+. +++-.+.|||.+|..|+..|+.....||.|+..|+
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            3467899999998876 55666789999999999999988889999998775

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

Probab=91.12  E-value=0.074  Score=55.40  Aligned_cols=45  Identities=27%  Similarity=0.713  Sum_probs=38.9

Q ss_pred             ccccccccccccc-cCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcC
Q 028791          152 NTKICSVCLEEFQ-EEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP  199 (203)
Q Consensus       152 ~~~~C~ICle~~~-~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~  199 (203)
                      ....|.||++.+. .+   .+..|+|.||..|+..|+..+..||+|...
T Consensus      1152 ~~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             cccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            4569999999988 44   566799999999999999999999999753

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

Probab=91.08  E-value=0.12  Score=46.79  Aligned_cols=44  Identities=20%  Similarity=0.553  Sum_probs=29.8

Q ss_pred             cccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      ...|.-|=-.+..  ..+.+||.|+||.+|...  .....||.|-..|
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            4456666543322  236789999999999754  3355899997654

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

Probab=89.46  E-value=0.18  Score=42.92  Aligned_cols=39  Identities=38%  Similarity=0.752  Sum_probs=29.1

Q ss_pred             ccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          156 CSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      |-+|-+.   +-.+..+||.|. +|..|-..    -..||+|+.+..
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence            8888874   444788999995 88888643    456999987654

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

Probab=88.97  E-value=0.16  Score=50.80  Aligned_cols=52  Identities=15%  Similarity=0.349  Sum_probs=37.7

Q ss_pred             ccccccccccccccCC-ceEEec---CCCcccHHhHHHHHh------cCCCCCCcCcCccCC
Q 028791          152 NTKICSVCLEEFQEEQ-PVTRLP---CSHKYHSDCVLPWLA------AHPQCPYCRRPALVW  203 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~-~~~~Lp---C~H~Fh~~CI~~Wl~------~~~~CP~CR~~v~~~  203 (203)
                      ....|.||..++..+. ..-.+|   |+|.||..||..|..      ....|++|...|..|
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW  156 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW  156 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence            4566777777776632 223455   999999999999973      244789999888776

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.48  E-value=0.57  Score=31.77  Aligned_cols=44  Identities=27%  Similarity=0.641  Sum_probs=33.2

Q ss_pred             ccccccccccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCC--cCcC
Q 028791          152 NTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPY--CRRP  199 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~~CP~--CR~~  199 (203)
                      ....|.+|-+.|..++.+++-| |+-.+|..|...    ...|-.  |..+
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            4568999999998777777777 999999999744    455544  5443

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

Probab=88.26  E-value=0.25  Score=49.89  Aligned_cols=36  Identities=25%  Similarity=0.687  Sum_probs=28.9

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHH
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL  187 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl  187 (203)
                      +.+..|.+|...+... .-++.||||.||+.|+..-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            4578999999876554 45678899999999998864

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

Probab=87.70  E-value=0.14  Score=50.54  Aligned_cols=48  Identities=25%  Similarity=0.603  Sum_probs=39.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc---CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA---HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~---~~~CP~CR~~v~  201 (203)
                      .-..+|+||++.+..+   ..+.|.|.|+..|+.-.+..   ...||+|+..+.
T Consensus        19 ~k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   19 QKILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             hhhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            3467999999999988   77889999999999886633   347999987654

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

Probab=87.34  E-value=0.48  Score=43.56  Aligned_cols=28  Identities=29%  Similarity=0.782  Sum_probs=21.5

Q ss_pred             CCCcccHHhHHHHHhc-------------CCCCCCcCcCcc
Q 028791          174 CSHKYHSDCVLPWLAA-------------HPQCPYCRRPAL  201 (203)
Q Consensus       174 C~H~Fh~~CI~~Wl~~-------------~~~CP~CR~~v~  201 (203)
                      |.-..|.+|+-.|+..             +..||+||+..-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            6667899999999833             237999998753

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

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.40  E-value=0.35  Score=42.66  Aligned_cols=52  Identities=19%  Similarity=0.638  Sum_probs=34.6

Q ss_pred             CCCccccccccccccccCC-ceEEecC-----CCcccHHhHHHHHhcCC--------CCCCcCcCc
Q 028791          149 SKSNTKICSVCLEEFQEEQ-PVTRLPC-----SHKYHSDCVLPWLAAHP--------QCPYCRRPA  200 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~-~~~~LpC-----~H~Fh~~CI~~Wl~~~~--------~CP~CR~~v  200 (203)
                      +.+.+.-|-||+..=++.. ..-+-||     .|..|..|+..|+..+.        .||.|+...
T Consensus        16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            3345677999997533321 1134676     46699999999993322        599998753

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

Probab=85.92  E-value=0.29  Score=45.25  Aligned_cols=37  Identities=27%  Similarity=0.650  Sum_probs=27.4

Q ss_pred             ccccccccccccccC-CceEEecCCCcccHHhHHHHHh
Q 028791          152 NTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLA  188 (203)
Q Consensus       152 ~~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~  188 (203)
                      ...+|.||+.+.... +...+..|+|.||..|..+.+.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            467899999444443 3333466999999999999885

>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=85.40  E-value=0.53  Score=41.28  Aligned_cols=47  Identities=28%  Similarity=0.649  Sum_probs=34.4

Q ss_pred             Cccccccccccc-cccCCce-EEec-CCCcccHHhHHHHHhcCC-CCC--CcC
Q 028791          151 SNTKICSVCLEE-FQEEQPV-TRLP-CSHKYHSDCVLPWLAAHP-QCP--YCR  197 (203)
Q Consensus       151 ~~~~~C~ICle~-~~~~~~~-~~Lp-C~H~Fh~~CI~~Wl~~~~-~CP--~CR  197 (203)
                      ..+..|+||..+ |-.|+.. .+-| |-|..|.+|.+..+...+ .||  -|.
T Consensus         8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~   60 (314)
T COG5220           8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG   60 (314)
T ss_pred             hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence            346689999976 4455533 3345 999999999999986655 799  464

>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=84.03  E-value=0.35  Score=32.06  Aligned_cols=44  Identities=23%  Similarity=0.590  Sum_probs=25.6

Q ss_pred             ccccccccccccCCceEEecC-CCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          154 KICSVCLEEFQEEQPVTRLPC-SHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC-~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      ..|.-|+-.  ..   ..+.| .|..|..|+.-.+.....||+|..+++.
T Consensus         3 ~nCKsCWf~--~k---~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    3 YNCKSCWFA--NK---GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ----SS-S----S---SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             ccChhhhhc--CC---CeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            356677743  22   23456 6999999999999999999999998874

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.

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

Probab=81.60  E-value=1.1  Score=38.89  Aligned_cols=48  Identities=29%  Similarity=0.679  Sum_probs=34.9

Q ss_pred             cccccccccccccCCc-eEEecCC-----CcccHHhHHHHHh--cCCCCCCcCcCc
Q 028791          153 TKICSVCLEEFQEEQP-VTRLPCS-----HKYHSDCVLPWLA--AHPQCPYCRRPA  200 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~-~~~LpC~-----H~Fh~~CI~~Wl~--~~~~CP~CR~~v  200 (203)
                      +..|-||.++....+. ....||.     ...|..|+..|+.  .+..|.+|....
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            5789999997654322 3556764     3479999999996  566899997643

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

Probab=81.49  E-value=1.1  Score=45.26  Aligned_cols=50  Identities=22%  Similarity=0.743  Sum_probs=36.2

Q ss_pred             CCccccccccccccccCCceEEecCCCc-----ccHHhHHHHHhc--CCCCCCcCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHK-----YHSDCVLPWLAA--HPQCPYCRRPA  200 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~-----Fh~~CI~~Wl~~--~~~CP~CR~~v  200 (203)
                      .++...|-||..+=..++.+. -||...     .|.+|+.+|+.-  ...|-+|..++
T Consensus         9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~   65 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY   65 (1175)
T ss_pred             CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence            345578999998755554443 567543     899999999954  44799998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	203
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		7e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		5e-04

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 28/43 (65%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR 198
           C VC E++   + V +LPC+H +H  C++PWL  H  CP CR+
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRK 60

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
           C+VCL E ++ +    LP C H +H++CV  WL +H  CP CR   +V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 31/48 (64%)
Query: 150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           +S   +C VC+ +F+  Q +  LPC+H++H+ CV  WL A+  CP CR
Sbjct: 20  QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL 201
           ++C+VCLE+F+    +   PC H +H  C++ WL     CP C  P L
Sbjct: 16  ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 26/42 (61%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
           C++CL   +E + V RLPC H +H  CV  WL  + +CP CR
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58

>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 = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 23/51 (45%)
Query: 147 RGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
            G+      C +C  E+ +    T LPC H +H  CV  WL     CP CR
Sbjct: 34  HGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	203
2ect_A	78	Ring finger protein 126; metal binding protein, st	4e-19
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-18
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	6e-18
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-18
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	5e-15
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-13
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	6e-11
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	7e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	5e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	8e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	2e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-04

>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 = 76.7 bits (189), Expect = 4e-19
 Identities = 19/44 (43%), Positives = 28/44 (63%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C VC E++   + V +LPC+H +H  C++PWL  H  CP CR+ 
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKS 61

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

 Score = 75.8 bits (187), Expect = 1e-18
 Identities = 18/53 (33%), Positives = 23/53 (43%)

Query: 147 RGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
            G+      C +C  E+ +    T LPC H +H  CV  WL     CP CR  
Sbjct: 34  HGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCM 86

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

 Score = 73.6 bits (181), Expect = 6e-18
 Identities = 18/46 (39%), Positives = 25/46 (54%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL 201
           C+VCLE+F+    +   PC H +H  C++ WL     CP C  P L
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

>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 = 73.2 bits (180), Expect = 7e-18
 Identities = 19/44 (43%), Positives = 26/44 (59%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C++CL   +E + V RLPC H +H  CV  WL  + +CP CR  
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVD 60

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

 Score = 72.0 bits (177), Expect = 3e-17
 Identities = 19/46 (41%), Positives = 29/46 (63%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL 201
           C VC+ +F+  Q +  LPC+H++H+ CV  WL A+  CP CR  + 
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71

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

 Score = 65.8 bits (161), Expect = 5e-15
 Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 156 CSVCLEEFQE-EQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           C +CLE+          LPC H  H  C    L    +CP C  P+
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 65.7 bits (161), Expect = 5e-15
 Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
           C+VCL E ++ +    LP C H +H++CV  WL +H  CP CR   +V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

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

 Score = 62.4 bits (152), Expect = 1e-13
 Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +CLE+         LPC H +   C+  W+  +P CP C+ P
Sbjct: 8   CPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49

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

 Score = 62.0 bits (151), Expect = 2e-13
 Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 4/44 (9%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +C++          LPC+H +   C+  W   H  CP CR  
Sbjct: 18  CCICMDGRA----DLILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57

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

 Score = 57.6 bits (139), Expect = 9e-12
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 148 GSKSNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
              S T  C +C++ + E     + +    C H + S C+   L     CP CR+ 
Sbjct: 10  LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

>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 = 55.2 bits (133), Expect = 6e-11
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 149 SKSNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
             S T  C +C++ + E     + +    C H + S C+   L     CP CR+  
Sbjct: 6   RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 54.5 bits (131), Expect = 2e-10
 Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 1/45 (2%)

Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C  C  E ++E  V     C+H +H+ C+  W+  + +CP C++ 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQD 73

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

 Score = 51.3 bits (123), Expect = 1e-09
 Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 156 CSVCLEEFQE----EQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           C +C++ + E     + +    C H + S C+   L     CP CR+  
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 50.5 bits (121), Expect = 3e-09
 Identities = 10/45 (22%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           +CS+C     +    T   C H +   C++       +CP C   
Sbjct: 17  LCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIV 59

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

 Score = 50.6 bits (121), Expect = 4e-09
 Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +C + FQ   PV    C H +   C L    A P+C  C +P
Sbjct: 18  CFICRQAFQN--PVV-TKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 49.8 bits (119), Expect = 6e-09
 Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C++CL+      PV+ LPC H +   CV        +C  CR+ 
Sbjct: 18  CAICLQTCVH--PVS-LPCKHVFCYLCVKGASWLGKRCALCRQE 58

>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 = 48.0 bits (114), Expect = 7e-08
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 3/45 (6%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRP 199
           C +C+E+ ++        CS      C+  WL     QCP+CR P
Sbjct: 25  CFICMEKLRD--ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

>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 = 46.7 bits (111), Expect = 2e-07
 Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           +C +C   F +    T + C H +   C++ +L     CP C   
Sbjct: 17  MCVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQ 59

>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 = 46.0 bits (108), Expect = 3e-07
 Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 1/45 (2%)

Query: 156 CSVCLEEFQEEQ-PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C         E+  V    C+H +H  C+  WL     CP   R 
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 98

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

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
            C +C E F     +    CSH Y S C+  +L+   QCP C    
Sbjct: 24  RCGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 44.8 bits (105), Expect = 1e-06
 Identities = 12/39 (30%), Positives = 15/39 (38%)

Query: 161 EEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
               EE  V    C+H +H  C+  WL     CP   R 
Sbjct: 71  SATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 109

>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 = 46.7 bits (110), Expect = 2e-06
 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 4/50 (8%)

Query: 151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQ-CPYCRRP 199
           S  ++C +C E  ++   V   PC H   + C+  W  +  Q CP+CR  
Sbjct: 330 STFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

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

 Score = 44.6 bits (105), Expect = 2e-06
 Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 145 KLRGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
            +     N   C +C E F E   VT L C+H + S C+  W+    +CP CR+ 
Sbjct: 56  HMNDVLENELQCIICSEYFIE--AVT-LNCAHSFCSYCINEWMKRKIECPICRKD 107

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

 Score = 45.2 bits (106), Expect = 5e-06
 Identities = 12/60 (20%), Positives = 19/60 (31%), Gaps = 16/60 (26%)

Query: 156 CSVCLEEFQEEQPVTR-----LPCSHKYHSDCVLPWLAA-----------HPQCPYCRRP 199
           C++C     +   V         C  K H+ C+  W                QCP+C+  
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370

>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 = 42.5 bits (99), Expect = 7e-06
 Identities = 13/64 (20%), Positives = 19/64 (29%), Gaps = 20/64 (31%)

Query: 156 CSVCLEEFQE---------------EQPVTRLPCSHKYHSDCVLPWLAA-----HPQCPY 195
           C +C+E+                          CSH +H  C+L            QCP 
Sbjct: 28  CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87

Query: 196 CRRP 199
           C+  
Sbjct: 88  CKTI 91

>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 = 42.6 bits (100), Expect = 8e-06
 Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 4/45 (8%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
           CS C    +E  PV    C H + S+CV   +     CP C  PA
Sbjct: 25  CSRCTNILRE--PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA 65

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

 Score = 41.2 bits (97), Expect = 1e-05
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 4/48 (8%)

Query: 156 CSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAHP---QCPYCRRP 199
           C +C+E F EEQ   + L C H     C+   LA+     +CP+C + 
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

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

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRP 199
            C  C        P     C H++   C+   L++  P+C  C+  
Sbjct: 17  KCEKCHLVLCS--PKQ-TECGHRFCESCMAALLSSSSPKCTACQES 59

>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 = 40.7 bits (95), Expect = 2e-05
 Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH--PQCPYCRRP 199
             KIC++C       Q  +   C  + H  CV  +  ++  P+CP+C   
Sbjct: 14  AVKICNICHSLL--IQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

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

 Score = 40.9 bits (95), Expect = 4e-05
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 4/53 (7%)

Query: 151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           S T  C +C++ + E     + +    C H + S C+   L     CP CR+ 
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 57

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

 Score = 37.5 bits (86), Expect = 6e-04
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 4/48 (8%)

Query: 156 CSVCLEEFQEEQPVTR----LPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +C++ + E     R      C H + S C+   L     CP CR+ 
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 122

>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 = 40.3 bits (94), Expect = 6e-05
 Identities = 14/45 (31%), Positives = 16/45 (35%), Gaps = 4/45 (8%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRP 199
           C  C E      P+T   C H    DC+     A    CP CR  
Sbjct: 55  CICCQELVFR--PIT-TVCQHNVCKDCLDRSFRAQVFSCPACRYD 96

>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 = 39.9 bits (93), Expect = 7e-05
 Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL-AAHPQCPYCRRPALVW 203
           C +C+E   E  PVT LPC+H     C    +  A   CP+CRR    W
Sbjct: 18  CGICMEILVE--PVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSW 63

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

 Score = 38.9 bits (90), Expect = 8e-05
 Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 2/53 (3%)

Query: 149 SKSNTKICSVCLEEFQE-EQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRP 199
           +K +   C +C+E  +  +       C ++    C        +  CP CR+P
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

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

 Score = 37.7 bits (88), Expect = 1e-04
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C  C  E +   P   LPC H   S C+    A+  QCP C+ P
Sbjct: 9   CQQCQAEAKC--PKL-LPCLHTLCSGCL---EASGMQCPICQAP 46

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

 Score = 37.6 bits (88), Expect = 2e-04
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 10/51 (19%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKY-------HSDCVLPWLAAHPQCPYCRRP 199
           C +CLE   E  P++ L C H          +   +  +     CP C   
Sbjct: 15  CPICLELLTE--PLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62

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

 Score = 37.3 bits (87), Expect = 2e-04
 Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 6/48 (12%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA---AHPQCPYCRRP 199
           IC +CL+  Q+  PVT + C H +   C+           +CP C+  
Sbjct: 22  ICPICLDILQK--PVT-IDCGHNFCLKCITQIGETSCGFFKCPLCKTS 66

>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 = 38.8 bits (90), Expect = 2e-04
 Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRP 199
           C  C E   +  PVT   C H    DC+     A    CP CR  
Sbjct: 81  CVCCQELVYQ--PVT-TECFHNVCKDCLQRSFKAQVFSCPACRHD 122

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 9/51 (17%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH------PQCPYCRRP 199
            C +CLE  +E  PV+   C+H +   C+     ++        CP CR P
Sbjct: 21  TCPICLELLKE--PVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68

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

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 6/47 (12%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA---AHPQCPYCRRP 199
           C +CLE  +E  PV+   C H +   C+L  L       QCP C+  
Sbjct: 24  CPICLELIKE--PVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 36.6 bits (85), Expect = 5e-04
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA--HPQCPYCRRP 199
           C +C +   +   V    C + Y  +C+   L       CP C + 
Sbjct: 18  CLICKDIMTD--AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	203
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.54
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.53
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.51
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.48
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.43
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.43
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.41
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.4
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.39
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.38
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.37
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.36
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.35
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.33
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.33
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.33
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.32
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.31
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.3
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.3
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.29
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.27
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.26
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.26
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.25
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.25
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.24
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.23
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.23
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.21
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.2
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.14
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.13
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.13
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.12
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.12
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.12
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.1
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.01
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.01
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.0
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.99
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.99
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.94
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.94
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.94
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.92
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.9
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.89
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.88
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.85
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.74
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.71
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.69
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.65
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.64
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.62
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.6
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.45
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.4
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.4
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.09
3nw0_A	238	Non-structural maintenance of chromosomes element	97.62
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.92
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	92.96
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.06
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	85.59
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	85.19
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	81.64
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	80.03

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

Probab=99.54  E-value=3.8e-15  Score=104.32  Aligned_cols=54  Identities=37%  Similarity=0.909  Sum_probs=48.9

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      ...+...|+||++.|..++.+..+||+|.||..||..|+..+..||+||.++..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            345678999999999999888999999999999999999999999999998864

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

Probab=99.53  E-value=3.3e-15  Score=98.32  Aligned_cols=52  Identities=38%  Similarity=0.975  Sum_probs=47.4

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      +++.+|+||++.|..++.+..++ |+|.||..||..|+..+.+||+||.++.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~v   55 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeEC
Confidence            45679999999999988888898 99999999999999999999999998864

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

Probab=99.53  E-value=1.2e-14  Score=105.89  Aligned_cols=53  Identities=32%  Similarity=0.743  Sum_probs=48.2

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      ..++..|+||++.|..++.+..+||+|.||..||..|+..+.+||+||..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            35678899999999998888899999999999999999999999999998864

>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=99.51  E-value=1.4e-14  Score=99.57  Aligned_cols=53  Identities=36%  Similarity=0.873  Sum_probs=47.5

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      ......|+||++.|..++.++.++|+|.||..||..|+..+.+||+||..|..
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            34577899999999888888899999999999999999999999999998753

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

Probab=99.51  E-value=1.2e-14  Score=101.22  Aligned_cols=52  Identities=35%  Similarity=0.979  Sum_probs=47.4

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      .....|+||++.|..++.+..++|+|.||..||..|+..+..||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            4567999999999999888889999999999999999999999999998753

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

Probab=99.48  E-value=1.9e-14  Score=101.20  Aligned_cols=51  Identities=37%  Similarity=1.024  Sum_probs=47.0

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ....+|+||++.|..++.+..++|+|.||..||..|+..+..||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   63 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT   63 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccC
Confidence            457899999999999888888999999999999999999999999999875

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

Probab=99.43  E-value=6.6e-14  Score=100.13  Aligned_cols=51  Identities=24%  Similarity=0.724  Sum_probs=41.9

Q ss_pred             Ccccccccccccccc-----------CCceEEec-CCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQE-----------EQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~-----------~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .++..|+||++.|..           ++.++.++ |+|.||..||.+|+..+.+||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            456778888888854           34455665 9999999999999999999999999875

>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=99.43  E-value=9.2e-14  Score=91.17  Aligned_cols=51  Identities=31%  Similarity=0.714  Sum_probs=44.2

Q ss_pred             CccccccccccccccC-CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE-QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+ +.++.++|+|.||..||..|+..+..||+||.++.
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            4567899999998654 34678899999999999999998899999999874

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

Probab=99.41  E-value=1.3e-13  Score=93.98  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=45.1

Q ss_pred             CccccccccccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      .+...|+||++.|..+    +.++.++|+|.||..||..|+..+..||+||.+|..
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            4578999999998864    345778999999999999999999999999998753

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

Probab=99.40  E-value=1.1e-13  Score=95.19  Aligned_cols=51  Identities=27%  Similarity=0.672  Sum_probs=45.0

Q ss_pred             CccccccccccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +++..|+||++.|..+    +.++.++|+|.||..||..|+..+..||+||.++.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   62 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   62 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccC
Confidence            4678999999998764    55678899999999999999999999999999875

>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=99.39  E-value=2.1e-13  Score=102.95  Aligned_cols=60  Identities=22%  Similarity=0.481  Sum_probs=48.0

Q ss_pred             cccccccCCCCccccccccccccccCC---------------ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCc
Q 028791          141 LRHLKLRGSKSNTKICSVCLEEFQEEQ---------------PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA  200 (203)
Q Consensus       141 ~~~~~~~~~~~~~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v  200 (203)
                      +..+.....+.++..|+||++.|..+.               .++.++|+|.||..||.+|+..+.+||+||.++
T Consensus        25 ~~~v~~w~~d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           25 WNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             EEEEEEEEESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             EEEeeEeecCCCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            344444444456789999999988651               367789999999999999999999999999975

>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=99.38  E-value=2.4e-13  Score=101.97  Aligned_cols=50  Identities=26%  Similarity=0.549  Sum_probs=41.2

Q ss_pred             ccccccccccccccCC---------------ceEEecCCCcccHHhHHHHH-----hcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQ---------------PVTRLPCSHKYHSDCVLPWL-----AAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~CI~~Wl-----~~~~~CP~CR~~v~  201 (203)
                      .+..|+||++.|..+.               .+..++|+|.||..||..|+     ..+.+||+||..+.
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            4569999999997653               33478899999999999999     44678999998764

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

Probab=99.37  E-value=2.4e-13  Score=91.33  Aligned_cols=50  Identities=24%  Similarity=0.646  Sum_probs=43.9

Q ss_pred             ccccccccccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +...|+||++.|..+    +.++.++|+|.||..||..|+..+..||+||.++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCC
Confidence            467899999998764    45578899999999999999999999999999875

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

Probab=99.36  E-value=2.2e-13  Score=94.41  Aligned_cols=48  Identities=25%  Similarity=0.534  Sum_probs=43.3

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.+..+   +.++|+|.||..||..|+..+..||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            4567899999999877   78899999999999999998899999999874

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

Probab=99.35  E-value=7.3e-13  Score=92.00  Aligned_cols=48  Identities=21%  Similarity=0.590  Sum_probs=43.0

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.+ +|+|.||..||..|+..+..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (72)
T 2djb_A           13 TPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH   61 (72)
T ss_dssp             CGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccC
Confidence            4578999999999887   565 99999999999999998999999999874

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

Probab=99.33  E-value=7.2e-13  Score=93.90  Aligned_cols=48  Identities=27%  Similarity=0.636  Sum_probs=43.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .....|+||++.|..+   +.++|+|.||..||..|+.....||+||.++.
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            4567999999999887   77999999999999999998999999999863

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

Probab=99.33  E-value=5e-13  Score=91.35  Aligned_cols=49  Identities=31%  Similarity=0.864  Sum_probs=43.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +....|+||++.+..+  .+.++|+|.||..|+..|+..+..||+||.++.
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            4567899999998754  477899999999999999999999999999875

>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=99.33  E-value=1.3e-13  Score=106.09  Aligned_cols=63  Identities=21%  Similarity=0.448  Sum_probs=7.4

Q ss_pred             cccccccccCCCCccccccccccccccCC---------------ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          139 SHLRHLKLRGSKSNTKICSVCLEEFQEEQ---------------PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       139 ~~~~~~~~~~~~~~~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ..+..+.....+..++.|+||++.|..+.               .++.++|+|.||..||.+|+..+.+||+||.++.
T Consensus        34 kkw~ava~w~wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           34 KKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             EEEEEEEEEEECCCC---------------------------------------------------------------
T ss_pred             EEEEEEEEEeecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            33344444444556789999999997631               2334689999999999999999999999999853

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

Probab=99.32  E-value=4.8e-13  Score=104.24  Aligned_cols=47  Identities=34%  Similarity=0.828  Sum_probs=42.9

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ++..|+||++.|..+   +.+||||.||..||..|+..+..||+||.++.
T Consensus        52 ~~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   98 (138)
T 4ayc_A           52 NELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIK   98 (138)
T ss_dssp             HHSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred             ccCCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCC
Confidence            456899999999887   78999999999999999999999999999874

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

Probab=99.31  E-value=1.2e-12  Score=90.47  Aligned_cols=49  Identities=22%  Similarity=0.655  Sum_probs=42.5

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHh---cCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA---AHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~---~~~~CP~CR~~v~  201 (203)
                      ..+...|+||++.|..+   +.++|+|.||..||..|+.   ....||+||.++.
T Consensus        17 ~~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             CccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            34678999999999876   7789999999999999996   4568999999875

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

Probab=99.30  E-value=1.6e-12  Score=90.96  Aligned_cols=48  Identities=21%  Similarity=0.712  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcC--CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAH--PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~--~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++ |+|.||..||..|+..+  ..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           13 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            4678999999999988   7899 99999999999999765  68999999753

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

Probab=99.30  E-value=1.7e-12  Score=88.60  Aligned_cols=48  Identities=19%  Similarity=0.613  Sum_probs=42.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHH-hcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL-AAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl-~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.+..+   +.++|||.||..||..|+ ..+..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIV   61 (66)
T ss_dssp             CCCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCC
T ss_pred             CcCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCC
Confidence            4578999999999888   568999999999999999 45678999999875

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

Probab=99.29  E-value=2.4e-12  Score=91.77  Aligned_cols=51  Identities=31%  Similarity=0.716  Sum_probs=43.7

Q ss_pred             CccccccccccccccCCc-eEEecCCCcccHHhHHHHHhcC---CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQP-VTRLPCSHKYHSDCVLPWLAAH---PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~-~~~LpC~H~Fh~~CI~~Wl~~~---~~CP~CR~~v~  201 (203)
                      .+...|+||++.|...+. .+.++|||.||..||..|+...   ..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR   67 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBC
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCccc
Confidence            457899999999988543 4788999999999999999775   78999999764

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

Probab=99.27  E-value=3.7e-12  Score=89.76  Aligned_cols=48  Identities=27%  Similarity=0.693  Sum_probs=42.8

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc------CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA------HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~------~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|+|.||..||..|+..      ...||+||.++.
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP   70 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCC
T ss_pred             ccCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCC
Confidence            4577999999999888   68999999999999999977      678999999874

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

Probab=99.26  E-value=5.3e-12  Score=85.21  Aligned_cols=44  Identities=25%  Similarity=0.723  Sum_probs=38.8

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHh---cCCCCCCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA---AHPQCPYC  196 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~---~~~~CP~C  196 (203)
                      ..+...|+||++.|..+   +.++|||.||..||..|+.   ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            35678999999999987   7789999999999999997   45689998

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

Probab=99.26  E-value=3.5e-12  Score=89.46  Aligned_cols=48  Identities=23%  Similarity=0.535  Sum_probs=43.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|||.||..||..|+.. +..||+||.++.
T Consensus         6 ~~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~   54 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             cccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCC
Confidence            4578999999999988   77899999999999999986 778999999874

>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=99.26  E-value=1.8e-12  Score=95.84  Aligned_cols=48  Identities=29%  Similarity=0.746  Sum_probs=42.7

Q ss_pred             CccccccccccccccCCceEE-ecCCCcccHHhHHHHHhcC-CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAH-PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~CI~~Wl~~~-~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +. ++|||.||..||..|+... ..||+||.++.
T Consensus        20 ~~~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ   69 (100)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCC
Confidence            4578999999999877   66 8999999999999999877 69999999874

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

Probab=99.25  E-value=7.8e-13  Score=91.03  Aligned_cols=47  Identities=28%  Similarity=0.855  Sum_probs=42.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.+..    +.++|+|.||..||..|+..+..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            457899999999876    67899999999999999999999999998775

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

Probab=99.25  E-value=2.8e-12  Score=92.13  Aligned_cols=54  Identities=28%  Similarity=0.701  Sum_probs=44.5

Q ss_pred             CCCCccccccccccccccCCceEEecCC-----CcccHHhHHHHHhcC--CCCCCcCcCccC
Q 028791          148 GSKSNTKICSVCLEEFQEEQPVTRLPCS-----HKYHSDCVLPWLAAH--PQCPYCRRPALV  202 (203)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~~--~~CP~CR~~v~~  202 (203)
                      ....+...|.||+++|..++.+ ++||.     |.||..||..|+..+  .+||+||..+.+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            3345677999999999877766 58996     999999999999765  489999998753

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

Probab=99.25  E-value=1.7e-12  Score=95.25  Aligned_cols=48  Identities=31%  Similarity=0.703  Sum_probs=42.7

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.+ +|||.||..||..|+..+..||+||..+.
T Consensus        20 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   68 (99)
T 2y43_A           20 DDLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT   68 (99)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCC
Confidence            4568999999999887   666 89999999999999998899999998774

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

Probab=99.24  E-value=1.3e-12  Score=91.43  Aligned_cols=49  Identities=24%  Similarity=0.542  Sum_probs=42.7

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhc-------CCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-------HPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-------~~~CP~CR~~v~  201 (203)
                      ..+...|+||++.|..+   +.++|||.||..||..|+..       ...||+||.++.
T Consensus         9 ~~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~   64 (79)
T 2egp_A            9 VQEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYS   64 (79)
T ss_dssp             CCCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCC
T ss_pred             cccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCC
Confidence            34678999999999887   66899999999999999976       568999999874

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

Probab=99.23  E-value=6.5e-12  Score=90.70  Aligned_cols=47  Identities=21%  Similarity=0.714  Sum_probs=41.9

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcC--CCCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAH--PQCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~--~~CP~CR~~v  200 (203)
                      .+...|+||++.|..+   +.++ |||.||..||..|+...  ..||+||.++
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            5678999999999988   8899 99999999999999643  5899999986

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

Probab=99.23  E-value=4.7e-12  Score=89.22  Aligned_cols=48  Identities=25%  Similarity=0.639  Sum_probs=42.6

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc------CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA------HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~------~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|+|.||..|+..|+..      ...||+||..+.
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQ   70 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSC
T ss_pred             cCCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccC
Confidence            4578999999999887   67899999999999999976      779999998875

>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=99.22  E-value=6.5e-12  Score=93.61  Aligned_cols=48  Identities=23%  Similarity=0.661  Sum_probs=43.1

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.+ +|||.||..||..|+..+..||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVH   61 (108)
T ss_dssp             GGGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSC
T ss_pred             CCcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccc
Confidence            4578999999999877   666 99999999999999998899999998875

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

Probab=99.21  E-value=6.2e-12  Score=95.34  Aligned_cols=51  Identities=27%  Similarity=0.672  Sum_probs=45.0

Q ss_pred             CccccccccccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+    +.++.++|||.||..||..|+..+..||+||..+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   59 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCc
Confidence            4578999999999765    45578999999999999999999999999999875

>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=99.20  E-value=5.8e-12  Score=96.06  Aligned_cols=48  Identities=27%  Similarity=0.464  Sum_probs=42.1

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|||.||..||..|+.... .||+||.++.
T Consensus        50 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   98 (124)
T 3fl2_A           50 EETFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG   98 (124)
T ss_dssp             HHHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             ccCCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCC
Confidence            3567899999999987   7889999999999999997544 8999999874

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

Probab=99.18  E-value=1e-11  Score=81.98  Aligned_cols=43  Identities=33%  Similarity=0.846  Sum_probs=37.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHH---hcCCCCCCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWL---AAHPQCPYC  196 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl---~~~~~CP~C  196 (203)
                      .+...|+||++.+..+   +.++|+|.||..||..|+   ..+..||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4577999999999887   668999999999999995   456789998

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

Probab=99.14  E-value=2.8e-11  Score=82.22  Aligned_cols=50  Identities=20%  Similarity=0.477  Sum_probs=40.7

Q ss_pred             cccccccccc-ccccCCce-EEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          152 NTKICSVCLE-EFQEEQPV-TRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle-~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      ++..|+||++ .|..+... +.++|||.||..||..|+.. ...||+||.++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccc
Confidence            3568999999 78777533 45799999999999999754 467999999874

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

Probab=99.13  E-value=1.7e-11  Score=97.79  Aligned_cols=48  Identities=25%  Similarity=0.822  Sum_probs=41.9

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.+ +|||.||..||..|+.. +..||+||.++.
T Consensus        52 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           52 HSELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHHHBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChHhhCc---CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            4567999999999876   555 99999999999999986 778999999873

>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=99.13  E-value=1.6e-11  Score=91.30  Aligned_cols=48  Identities=29%  Similarity=0.684  Sum_probs=41.6

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC---CCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP---QCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~---~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|||.||..||..|+....   .||+||.++.
T Consensus        19 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           19 QKILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (112)
T ss_dssp             HHHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             cCCCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence            3467899999999887   6689999999999999997654   8999999875

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

Probab=99.12  E-value=6.6e-12  Score=94.47  Aligned_cols=48  Identities=29%  Similarity=0.704  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .++..|+||++.|..+   +.++|||.||..||..|+.. ...||+||..+.
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            4578999999999988   78899999999999999965 668999999864

>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=99.12  E-value=2.5e-11  Score=96.37  Aligned_cols=47  Identities=26%  Similarity=0.544  Sum_probs=41.9

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CP~CR~~v~  201 (203)
                      +...|+||++.|..+   +.++|+|.||..||..|+.... .||+||.++.
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  124 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG  124 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             cCCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCC
Confidence            467899999999888   7799999999999999997654 8999999875

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=99.12  E-value=2.9e-11  Score=91.60  Aligned_cols=50  Identities=22%  Similarity=0.617  Sum_probs=43.6

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CP~CR~~v~  201 (203)
                      ...+...|+||++.|..+   +.++|||.||..||..|+.... .||+||.++.
T Consensus        14 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   64 (118)
T 3hct_A           14 PLESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL   64 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcC
Confidence            345678999999999887   7789999999999999997665 9999998874

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

Probab=99.10  E-value=2.3e-11  Score=91.57  Aligned_cols=48  Identities=25%  Similarity=0.672  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|||.||..||..|+.. ...||+||.++.
T Consensus        21 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (116)
T 1rmd_A           21 VKSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (116)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCC
Confidence            3467899999999887   77999999999999999976 679999999864

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.07  E-value=7.4e-11  Score=85.07  Aligned_cols=48  Identities=17%  Similarity=0.212  Sum_probs=44.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.+.|+||++.|..+   +.++|||+|+..||..|+..+.+||+|+.++.
T Consensus        12 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~   59 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLT   59 (85)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             chheECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCCC
Confidence            4578999999999999   88999999999999999998899999998764

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

Probab=99.06  E-value=8.8e-11  Score=88.88  Aligned_cols=51  Identities=27%  Similarity=0.672  Sum_probs=44.3

Q ss_pred             CccccccccccccccC----CceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEE----QPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ++...|+||++.|..+    ...+.++|||.||..||.+|+..+.+||+||.++.
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            5678899999998763    34477899999999999999999999999999875

>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=99.04  E-value=1.1e-10  Score=86.79  Aligned_cols=48  Identities=17%  Similarity=0.227  Sum_probs=44.4

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.+.|+||++.|.++   +.++|||+||..||..|+..+.+||+|+.++.
T Consensus        27 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~   74 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLT   74 (100)
T ss_dssp             STTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCC
T ss_pred             cHhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCCC
Confidence            4678999999999999   88999999999999999998899999998864

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

Probab=99.01  E-value=1.4e-10  Score=82.38  Aligned_cols=51  Identities=25%  Similarity=0.608  Sum_probs=42.1

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC--CCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH--PQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--~~CP~CR~~v~  201 (203)
                      ..+...+|+||.+.|..++  .-..|+|.||..||..|++.+  .+||+||.++.
T Consensus        11 y~~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             ccCCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            3456789999999998763  223699999999999999877  79999998764

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.01  E-value=2.1e-10  Score=85.07  Aligned_cols=48  Identities=15%  Similarity=0.198  Sum_probs=44.2

Q ss_pred             CccccccccccccccCCceEEecCC-CcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCS-HKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~-H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.+.|+||++.|.++   +.++|| |+||..||..|+..+.+||+|+.++.
T Consensus        20 p~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~   68 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT   68 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC
T ss_pred             cHhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCC
Confidence            4578999999999999   889999 99999999999988889999998874

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=99.00  E-value=1.5e-10  Score=79.20  Aligned_cols=48  Identities=19%  Similarity=0.430  Sum_probs=41.2

Q ss_pred             CccccccccccccccCCceEEe--cCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL--PCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L--pC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .++..|.||++.+.+.   +.+  ||||. ||..|+..|...+..||+||.++.
T Consensus         6 ~~~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            3567899999987665   555  99999 899999999998899999999875

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

Probab=98.99  E-value=6.1e-11  Score=78.88  Aligned_cols=45  Identities=31%  Similarity=0.560  Sum_probs=39.3

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.++|+|.||..||..|   ...||+||..+.
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEee
Confidence            4577899999999988   77999999999999873   668999999875

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

Probab=98.99  E-value=9.5e-11  Score=92.14  Aligned_cols=49  Identities=24%  Similarity=0.615  Sum_probs=42.8

Q ss_pred             CCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC-CCCCcCcCc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP-QCPYCRRPA  200 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CP~CR~~v  200 (203)
                      ...+...|+||++.|..+   +.++|||.||..||..|+.... .||+||.++
T Consensus        27 ~l~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCCcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            345688999999999988   7789999999999999997654 899999865

>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=98.94  E-value=2.9e-10  Score=77.52  Aligned_cols=48  Identities=21%  Similarity=0.418  Sum_probs=40.9

Q ss_pred             CccccccccccccccCCceEEe--cCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL--PCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L--pC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +....|.||++.+.+.   ..+  ||||. ||..|+..|...+..||+||.+|.
T Consensus         5 ~~~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4567899999986655   455  99998 999999999988889999999874

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

Probab=98.94  E-value=4.5e-10  Score=80.05  Aligned_cols=52  Identities=21%  Similarity=0.461  Sum_probs=39.8

Q ss_pred             CCccccccccccccccCCceE-EecCCCcccHHhHHHHHh-cCCCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVT-RLPCSHKYHSDCVLPWLA-AHPQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~-~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v~  201 (203)
                      ..++..|+||++.+...+... .++|||.||..|+..++. ....||.||.++.
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            356789999999886543322 234999999999999874 4568999999774

>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=98.94  E-value=9e-11  Score=88.75  Aligned_cols=46  Identities=33%  Similarity=0.697  Sum_probs=41.0

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +.+ +|||.||..||..|+.  ..||+||.++.
T Consensus        20 ~~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           20 EKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             HHTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hhCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            4578999999999888   677 8999999999999987  78999998763

>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=98.92  E-value=5.4e-10  Score=101.31  Aligned_cols=48  Identities=27%  Similarity=0.751  Sum_probs=42.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v~  201 (203)
                      .....|+||++.+..+   +.+||||.||..|+..|+. ....||+||.++.
T Consensus       330 ~~~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          330 STFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             TSSSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            3457999999998776   8899999999999999998 6789999999764

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.90  E-value=2.7e-10  Score=79.87  Aligned_cols=44  Identities=23%  Similarity=0.629  Sum_probs=38.8

Q ss_pred             CccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.+..+   +.+||||. ||..|+..|    ..||+||.++.
T Consensus        22 ~~~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHHTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             ccCCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            3567899999998876   78999999 999999998    78999999875

>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=98.89  E-value=6.9e-10  Score=93.60  Aligned_cols=48  Identities=17%  Similarity=0.177  Sum_probs=42.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcC-CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CP~CR~~v~  201 (203)
                      ...+.|+||++.|..|   +++||||+||..||..|+..+ .+||+|+.++.
T Consensus       206 ~~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~  254 (281)
T 2c2l_A          206 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT  254 (281)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CcccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc
Confidence            4578999999999999   889999999999999999764 45999999874

>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=98.88  E-value=8.5e-10  Score=88.16  Aligned_cols=51  Identities=22%  Similarity=0.598  Sum_probs=44.0

Q ss_pred             CCCCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC-CCCCCcCcCcc
Q 028791          148 GSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRPAL  201 (203)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CP~CR~~v~  201 (203)
                      ....+...|+||++.|..+   +.++|||.||..||..|+... ..||+||.++.
T Consensus        13 ~~~~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   64 (170)
T 3hcs_A           13 PPLESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL   64 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcc
Confidence            3446788999999999988   778999999999999999654 49999998864

>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=98.85  E-value=1.5e-09  Score=79.43  Aligned_cols=46  Identities=24%  Similarity=0.636  Sum_probs=40.0

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcC------CCCCC--cCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAH------PQCPY--CRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~------~~CP~--CR~~  199 (203)
                      ...+.|+||++.|.++   +.++ |||+||..||..|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4578999999999998   8886 99999999999999653      48999  9854

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=2.1e-09  Score=75.19  Aligned_cols=45  Identities=22%  Similarity=0.620  Sum_probs=37.6

Q ss_pred             CccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      .+...|+||++.+..+   +.+||||. ||..|+..    ...||+||.++..
T Consensus        23 ~~~~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCB---CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCCCCE---EEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            3467899999998876   77899999 99999964    4789999998753

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.71  E-value=8.1e-09  Score=84.56  Aligned_cols=49  Identities=16%  Similarity=0.150  Sum_probs=43.0

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhcC-CCCCCcCcCcc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRPAL  201 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CP~CR~~v~  201 (203)
                      ....+.|+||++.|..|   +++||||+||..||..|+..+ .+||+|+.++.
T Consensus       103 ip~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~  152 (179)
T 2f42_A          103 IPDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLT  152 (179)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CcHhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCC
Confidence            35678999999999998   889999999999999999764 46999998764

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=9.8e-09  Score=71.05  Aligned_cols=44  Identities=36%  Similarity=0.691  Sum_probs=37.5

Q ss_pred             CccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|.||++.+...   +.+||+|. ||..|+..    ...||+||.+|.
T Consensus        13 ~~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNW---VLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CCSSCCSSSSSSCCCC---EETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             CCCCCCCCcCcCCCCE---EEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            4567899999987765   88999999 99999983    478999999875

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

Probab=98.65  E-value=3.6e-09  Score=94.65  Aligned_cols=51  Identities=24%  Similarity=0.628  Sum_probs=39.7

Q ss_pred             CccccccccccccccCCceE-----EecCCCcccHHhHHHHHhcC-----------CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVT-----RLPCSHKYHSDCVLPWLAAH-----------PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~-----~LpC~H~Fh~~CI~~Wl~~~-----------~~CP~CR~~v~  201 (203)
                      +...+|+||++.+.....+.     ..+|+|.||..|+.+|+...           +.||+||.+|.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            46779999999988732221     24699999999999999542           46999999874

>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=98.64  E-value=1.3e-08  Score=73.96  Aligned_cols=49  Identities=27%  Similarity=0.602  Sum_probs=39.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc--------CCCCCC--cCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA--------HPQCPY--CRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--------~~~CP~--CR~~  199 (203)
                      ++...|+||++++..++.+...+|+|.||..|+..++..        ...||.  |+..
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            356789999999887754444579999999999999843        237999  9987

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.62  E-value=5.7e-09  Score=74.23  Aligned_cols=43  Identities=33%  Similarity=0.706  Sum_probs=37.0

Q ss_pred             ccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +...|.||++.+...   +.+||||. ||..|+..|    ..||+||.++.
T Consensus        17 ~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEINS---TFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCCE---EEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCcE---EEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            456899999987766   88999999 999999876    38999999874

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

Probab=98.60  E-value=2.7e-08  Score=67.47  Aligned_cols=50  Identities=22%  Similarity=0.570  Sum_probs=38.7

Q ss_pred             CCccccccccccccccCCceEEecCC--C---cccHHhHHHHHhc--CCCCCCcCcCccC
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCS--H---KYHSDCVLPWLAA--HPQCPYCRRPALV  202 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~--H---~Fh~~CI~~Wl~~--~~~CP~CR~~v~~  202 (203)
                      .++...|.||+++..  +.+ .+||.  +   .||..|+..|+..  +.+||+|+.++.+
T Consensus         3 ~~~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            3 DEDVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            346778999999843  334 58964  4   8999999999954  6789999998754

>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=98.45  E-value=2.8e-08  Score=88.76  Aligned_cols=44  Identities=25%  Similarity=0.685  Sum_probs=38.9

Q ss_pred             CccccccccccccccCCceEEecCCCc-ccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHK-YHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .++..|+||++.+..+   +.+||||. ||..|+..|    ..||+||.++.
T Consensus       293 ~~~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HTTCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             cCCCCCCccCCcCCce---EEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            3567999999998877   88899999 999999988    78999999874

>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=1e-07  Score=64.76  Aligned_cols=46  Identities=7%  Similarity=0.129  Sum_probs=40.9

Q ss_pred             cccccccccccccCCceEEe-cCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          153 TKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.|+||++.+.++   +.+ +|||.|...||..|+..+.+||+++.++.
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCC
Confidence            46899999999988   777 89999999999999988889999998764

>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=98.40  E-value=8.4e-08  Score=82.85  Aligned_cols=48  Identities=17%  Similarity=0.459  Sum_probs=40.8

Q ss_pred             CccccccccccccccCCceEE-ecCCCcccHHhHHHHHhcC--CCCCC--cCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAH--PQCPY--CRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~CI~~Wl~~~--~~CP~--CR~~v~  201 (203)
                      .....|+||++.|..|   +. +.|||+||..||..|+..+  ..||+  |+..+.
T Consensus       179 ~~el~CPIcl~~f~DP---Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          179 KIELTCPITCKPYEAP---LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             BCCSBCTTTSSBCSSE---EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             ceeeECcCccCcccCC---eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            4678999999999988   55 4899999999999999754  47999  998653

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=98.09  E-value=2.1e-06  Score=64.03  Aligned_cols=45  Identities=24%  Similarity=0.592  Sum_probs=36.5

Q ss_pred             cccccccccccCCceEEecCCCcccHHhHHHHHh-cCCCCCCcCcCcc
Q 028791          155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPAL  201 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CP~CR~~v~  201 (203)
                      .|.+|--.|..  ..+.+||+|.||++|+..|.+ ....||.|+.+|.
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            57788766554  357899999999999999984 5679999999874

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

Probab=97.62  E-value=3.4e-05  Score=65.42  Aligned_cols=48  Identities=23%  Similarity=0.602  Sum_probs=39.4

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcCC--CCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHP--QCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~--~CP~CR~~v~  201 (203)
                      +....|.||.+.+..+   ..-+ |+|.||..|+..|++.+.  .||.|+.+.+
T Consensus       178 ~~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          178 DAVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TTCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            3578899999998877   4444 999999999999997654  8999988643

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.92  E-value=0.015  Score=41.82  Aligned_cols=34  Identities=18%  Similarity=0.547  Sum_probs=25.7

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHH
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLP  185 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~  185 (203)
                      ++..|.||.+.+..+-...-++|+|.||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            3568999998754332233388999999999998

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.06  E-value=0.093  Score=35.69  Aligned_cols=47  Identities=21%  Similarity=0.542  Sum_probs=32.5

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcCC----CCCCcCcCc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP----QCPYCRRPA  200 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~----~CP~CR~~v  200 (203)
                      .....|.||.+.   ++.+.--.|...||..|+.+.+...+    .||.|....
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            345679999852   33222233899999999998875443    799997643

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=85.59  E-value=0.54  Score=33.79  Aligned_cols=32  Identities=28%  Similarity=0.808  Sum_probs=23.7

Q ss_pred             CccccccccccccccCCceEEec---CCCcccHHhHHHH
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP---CSHKYHSDCVLPW  186 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp---C~H~Fh~~CI~~W  186 (203)
                      ..+..|.||-- +...   ..+|   |+-.||..|+.+-
T Consensus        13 ~~D~~C~VC~~-~t~~---~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEV-WTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCC-CCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCcccc-cccc---ceeccccccccccHhhcccc
Confidence            46778999863 3344   3455   7999999999996

>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=85.19  E-value=0.71  Score=46.08  Aligned_cols=50  Identities=14%  Similarity=0.218  Sum_probs=43.8

Q ss_pred             CCCccccccccccccccCCceEEecCC-CcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          149 SKSNTKICSVCLEEFQEEQPVTRLPCS-HKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       149 ~~~~~~~C~ICle~~~~~~~~~~LpC~-H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      +..+.+.|+|-++.+.+|   +++|-| ++|-..+|..|+..+.+||+=|.++.
T Consensus       887 ~iP~~F~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~  937 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLSDSTDPFNRMPLK  937 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCcHHhCCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCC
Confidence            445688999999999999   889987 68999999999988999999887763

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=81.64  E-value=0.52  Score=31.16  Aligned_cols=45  Identities=24%  Similarity=0.653  Sum_probs=30.5

Q ss_pred             CCccccccccccccccCCceEEe-cCCCcccHHhHHHHHhc----CCCCCCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWLAA----HPQCPYCRR  198 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~----~~~CP~CR~  198 (203)
                      ...+..|.||.+.   + .++.- .|...||..|+.+-+..    .-.||.|..
T Consensus         8 ~~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            8 TDHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            3456789999863   3 22222 38889999999875432    236999965

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.03  E-value=0.65  Score=29.24  Aligned_cols=44  Identities=27%  Similarity=0.600  Sum_probs=27.5

Q ss_pred             cccccccccccCCceEEecCCCcccHHhHHHHHhcC----CCCCCcCc
Q 028791          155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH----PQCPYCRR  198 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~----~~CP~CR~  198 (203)
                      .|.||...-..++-+.--.|...||..|+.+=+...    -.||.|..
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            588888653333222222388899999997644332    25999965

---

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	203
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-09
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	7e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-07
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	8e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	9e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.003

>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 = 63.0 bits (153), Expect = 2e-14
 Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
           C+VCL E ++ +    LP C H +H++CV  WL +H  CP CR   +V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 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 = 57.6 bits (139), Expect = 3e-12
 Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C +CLE+         LPC H +   C+  W+  +P CP C+ P
Sbjct: 8   CPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49

>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 = 50.0 bits (119), Expect = 2e-09
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 4/50 (8%)

Query: 151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRP 199
           S  ++C +C E  ++   V   PC H   + C+  W  +    CP+CR  
Sbjct: 21  STFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 67

>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 = 49.0 bits (116), Expect = 7e-09
 Identities = 12/59 (20%), Positives = 18/59 (30%), Gaps = 15/59 (25%)

Query: 156 CSVCLEEFQEEQ---------------PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           C++C     +                  V    C+H +H  C+  WL     CP   R 
Sbjct: 24  CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

>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 = 44.1 bits (104), Expect = 2e-07
 Identities = 14/45 (31%), Positives = 17/45 (37%), Gaps = 6/45 (13%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
            C  C  E +       LPC H   S C+        QCP C+ P
Sbjct: 8   RCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAP 46

>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 = 44.4 bits (104), Expect = 2e-07
 Identities = 10/47 (21%), Positives = 12/47 (25%), Gaps = 3/47 (6%)

Query: 156 CSVCLEEFQEEQPVTRL--PCSHKYHSDCVLPWLAA-HPQCPYCRRP 199
           C  C         +  +   C H     CV          CP C  P
Sbjct: 6   CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTP 52

>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 = 42.8 bits (100), Expect = 6e-07
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 2/46 (4%)

Query: 156 CSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWL-AAHPQCPYCRRP 199
           C +C+E  + +        C ++    C        +  CP CR+P
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>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 = 40.2 bits (93), Expect = 7e-06
 Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 4/49 (8%)

Query: 155 ICSVCLEEFQE--EQPVTRLPCSHKYHSDCVLPWLAAHP--QCPYCRRP 199
           +C +C EE      +           H  C+  WL       C  C   
Sbjct: 8   VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 6/47 (12%)

Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH---PQCPYCRRP 199
           C +CLE  +E  PV+   C H +   C+L  L       QCP C+  
Sbjct: 24  CPICLELIKE--PVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 39.3 bits (91), Expect = 3e-05
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 8/57 (14%)

Query: 151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQ--------CPYCRRP 199
           S +  C +CL E+  EQ  T   C   + + C+  ++    +        CP    P
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>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 = 38.0 bits (88), Expect = 8e-05
 Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRP 199
            C +C     +        C H +   C+L  L      CP CR P
Sbjct: 25  SCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYP 67

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.5 bits (88), Expect = 9e-05
 Identities = 16/88 (18%), Positives = 25/88 (28%), Gaps = 20/88 (22%)

Query: 132 GSKLLWGSHLRHLKLRGSKSNTKICSVCLEEF---------------QEEQPVTRLPCSH 176
           GS       +R        +  + C +C+E+                          CSH
Sbjct: 4   GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 177 KYHSDCVLPWL-----AAHPQCPYCRRP 199
            +H  C+L            QCP C+  
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSCKTI 91

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.0 bits (77), Expect = 0.001
 Identities = 3/45 (6%), Positives = 12/45 (26%), Gaps = 2/45 (4%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
           +C++  +  +             +    +  ++      P    P
Sbjct: 2   LCAISGKVPRRPV--LSPKSRTIFEKSLLEQYVKDTGNDPITNEP 44

>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 = 34.0 bits (77), Expect = 0.003
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
            CS C    +E   +    C H + S+CV   +     CP C  P
Sbjct: 24  RCSRCTNILREPVCLG--GCEHIFCSNCVSDCI--GTGCPVCYTP 64

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	203
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.45
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.43
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.35
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.32
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.31
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.31
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.25
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.21
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.2
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.17
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.07
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.05
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.03
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.98
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.79
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.47
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	89.1
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	86.96
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	81.73
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	81.11
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	80.7

>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=99.64  E-value=3.7e-17  Score=108.34  Aligned_cols=52  Identities=38%  Similarity=0.975  Sum_probs=47.2

Q ss_pred             CccccccccccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      +++.+|+||+++|..++.+..++ |+|.||..||..|++.+.+||+||.+|++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~v   55 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeEC
Confidence            45678999999999998888775 99999999999999999999999999874

>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=99.45  E-value=1.5e-14  Score=99.00  Aligned_cols=48  Identities=31%  Similarity=0.872  Sum_probs=42.3

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ...+|+||++.|..+  ++.+||+|.||..||..|++.+.+||+||.++.
T Consensus         4 ~~d~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            456899999998754  566899999999999999999999999999874

>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=99.43  E-value=4.1e-14  Score=101.39  Aligned_cols=54  Identities=22%  Similarity=0.501  Sum_probs=44.5

Q ss_pred             CCCCccccccccccccccCC---------------ceEEecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          148 GSKSNTKICSVCLEEFQEEQ---------------PVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      ..+..+.+|+||++.+....               .+..++|+|.||..||.+|++.+.+||+||.+..
T Consensus        16 ~~d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          16 AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             EESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             eecCCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            33445677999998886543               3577899999999999999999999999999764

>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=99.35  E-value=2.3e-13  Score=95.73  Aligned_cols=47  Identities=26%  Similarity=0.759  Sum_probs=40.8

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      ....|+||++.+..+   +.+||||.||..||..|+.. ...||+||..|.
T Consensus        22 ~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~   69 (79)
T d1fbva4          22 TFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK   69 (79)
T ss_dssp             CTTBCTTTSSSBCCE---ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCC
T ss_pred             CCCCCccCCCcCCCe---EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCcc
Confidence            345799999998776   88999999999999999974 568999999875

>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=99.32  E-value=1.6e-13  Score=89.30  Aligned_cols=48  Identities=21%  Similarity=0.458  Sum_probs=40.1

Q ss_pred             ccccccccccccCCce-EEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          154 KICSVCLEEFQEEQPV-TRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       154 ~~C~ICle~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+|+||+++|..++.. ..++|+|.||..||..|+.. +..||+||.++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            3799999999876543 45689999999999999975 557999999874

>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=99.31  E-value=6e-13  Score=90.20  Aligned_cols=50  Identities=20%  Similarity=0.432  Sum_probs=39.8

Q ss_pred             ccccccccccccccC-C-ceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEE-Q-PVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~-~-~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      ++..|+||++.+..+ + .+..++|+|.||..||..|+.. +..||+||.+|.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcc
Confidence            467899999986443 2 3456789999999999999954 557999999873

>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=99.31  E-value=6.2e-13  Score=98.66  Aligned_cols=50  Identities=26%  Similarity=0.530  Sum_probs=39.9

Q ss_pred             ccccccccccccccC---------------CceEEecCCCcccHHhHHHHHhcC-----CCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEE---------------QPVTRLPCSHKYHSDCVLPWLAAH-----PQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~---------------~~~~~LpC~H~Fh~~CI~~Wl~~~-----~~CP~CR~~v~  201 (203)
                      .+..|+||++.|..+               ..+..++|+|.||..||..|+...     .+||+||..+.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            456899999988642               235678899999999999999643     47999998764

>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=99.25  E-value=9.2e-13  Score=94.39  Aligned_cols=47  Identities=26%  Similarity=0.694  Sum_probs=41.4

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      +...|+||++.+..+   +.++|||.||..||..|++. +..||+||.++.
T Consensus        22 ~~l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~   69 (86)
T d1rmda2          22 KSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (86)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCcCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCC
Confidence            457899999999888   88999999999999999964 458999998764

>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=99.21  E-value=1.9e-12  Score=85.23  Aligned_cols=44  Identities=9%  Similarity=0.210  Sum_probs=40.1

Q ss_pred             cccccccccccCCceEEec-CCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          155 ICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .|+||++.+.++   +.++ |||.||..||.+|+..+..||+||.++.
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~   46 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   46 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCC
Confidence            699999999888   6675 9999999999999999999999999874

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=1.9e-12  Score=94.73  Aligned_cols=48  Identities=29%  Similarity=0.691  Sum_probs=41.4

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcC---CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH---PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CP~CR~~v~  201 (203)
                      .....|+||++.|..+   +.++|||.||..||..|+...   ..||+||.++.
T Consensus        19 ~~~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          19 QKILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             ccCcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            3467899999999988   678999999999999999654   47999999874

>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=99.17  E-value=1.4e-12  Score=86.23  Aligned_cols=45  Identities=31%  Similarity=0.594  Sum_probs=39.0

Q ss_pred             ccccccccccccccCCceEEecCCCcccHHhHHHHHhcCCCCCCcCcCccC
Q 028791          152 NTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV  202 (203)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~~  202 (203)
                      +..+|+||++.|.++   +.+||||.||..||..|   +..||+||.++..
T Consensus         5 ~~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccC
Confidence            346999999999887   77899999999999765   6689999998864

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=3.9e-11  Score=83.81  Aligned_cols=48  Identities=17%  Similarity=0.181  Sum_probs=42.6

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhc-CCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA-HPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CP~CR~~v~  201 (203)
                      .+++.|+||++.|.++   +.++|||+||..||..|+.. +..||+|+.++.
T Consensus         5 P~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            4678999999999998   78999999999999999964 557999998764

>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=99.05  E-value=4.9e-11  Score=79.12  Aligned_cols=50  Identities=24%  Similarity=0.608  Sum_probs=39.5

Q ss_pred             CCccccccccccccccCCceEEecC-----CCcccHHhHHHHHh--cCCCCCCcCcCccC
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPC-----SHKYHSDCVLPWLA--AHPQCPYCRRPALV  202 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC-----~H~Fh~~CI~~Wl~--~~~~CP~CR~~v~~  202 (203)
                      +++...|.||++.+..+   ...||     +|.||..||..|+.  .+.+||+||+++.+
T Consensus         3 ded~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            35678899999988765   33454     59999999999994  45689999998753

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.03  E-value=8.5e-11  Score=81.60  Aligned_cols=48  Identities=21%  Similarity=0.484  Sum_probs=42.6

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcC-CCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH-PQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CP~CR~~v~  201 (203)
                      .+++.|+||++.|.++   +.++|||.||..||..|+..+ ..||.|+.++.
T Consensus         6 P~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~   54 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             CccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCC
Confidence            4678999999999998   789999999999999999764 57999998764

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=2.4e-11  Score=87.78  Aligned_cols=46  Identities=30%  Similarity=0.636  Sum_probs=38.5

Q ss_pred             CccccccccccccccCCceEE-ecCCCcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+...|+||++.|..+   +. .+|||.||..||..|+.  ..||.||.++.
T Consensus        20 ~~~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (97)
T d1jm7b_          20 EKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (97)
T ss_dssp             HHTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hhcCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh--ccccccCCcCc
Confidence            3467899999999887   54 47999999999999984  35999998764

>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=98.79  E-value=1.6e-09  Score=78.53  Aligned_cols=48  Identities=15%  Similarity=0.198  Sum_probs=43.2

Q ss_pred             CccccccccccccccCCceEEecCC-CcccHHhHHHHHhcCCCCCCcCcCcc
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCS-HKYHSDCVLPWLAAHPQCPYCRRPAL  201 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~-H~Fh~~CI~~Wl~~~~~CP~CR~~v~  201 (203)
                      .+.+.|+||++.|.++   ++++|+ |.|+..||..|+..+..||+|+.+|.
T Consensus        20 P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~   68 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT   68 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC
T ss_pred             cHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCccccccccc
Confidence            4579999999999999   889876 58999999999999999999999874

>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=98.47  E-value=2.7e-08  Score=70.54  Aligned_cols=47  Identities=26%  Similarity=0.527  Sum_probs=37.2

Q ss_pred             CccccccccccccccCCceEEecCCCcccHHhHHHHHhcC--------CCCCCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAH--------PQCPYCR  197 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--------~~CP~CR  197 (203)
                      +...+|+||++++...+....++|+|.||..|+..|++..        -.||.|.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            4567999999999776656666899999999999998421        1599864

>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=89.10  E-value=0.062  Score=32.67  Aligned_cols=44  Identities=30%  Similarity=0.695  Sum_probs=28.8

Q ss_pred             cccccccccccCCceEEecCCCcccHHhHHHHHhcCC----CCCCcCc
Q 028791          155 ICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHP----QCPYCRR  198 (203)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~----~CP~CR~  198 (203)
                      .|.||-..-...+.+.--.|...||..|+.+-+...+    .||.|+.
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            5888876543332222223899999999988664332    6999975

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.96  E-value=0.17  Score=34.57  Aligned_cols=33  Identities=30%  Similarity=0.831  Sum_probs=26.1

Q ss_pred             CCccccccccccccccCCceEEec---CCCcccHHhHHHH
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLP---CSHKYHSDCVLPW  186 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~Lp---C~H~Fh~~CI~~W  186 (203)
                      ...+..|.|| +.|...   ..+|   |+-.||..|+..-
T Consensus        12 v~~D~mC~vC-~v~t~~---~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccc---ceecceeecchhhHHHHHHh
Confidence            3567789999 777766   3456   7899999999986

>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=81.73  E-value=0.33  Score=30.50  Aligned_cols=49  Identities=20%  Similarity=0.470  Sum_probs=33.7

Q ss_pred             CccccccccccccccCCceEEe-cCCCcccHHhHHHHH-----hcCCCCCCcCcC
Q 028791          151 SNTKICSVCLEEFQEEQPVTRL-PCSHKYHSDCVLPWL-----AAHPQCPYCRRP  199 (203)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl-----~~~~~CP~CR~~  199 (203)
                      .....|.||.+.....+.++.- .|+..||..|+..-.     .....||.|+..
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            4567899999877666554433 399999999986421     124579998653

>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=81.11  E-value=0.1  Score=32.92  Aligned_cols=48  Identities=29%  Similarity=0.656  Sum_probs=30.9

Q ss_pred             CCccccccccccccccCCceEEecCCCcccHHhHHHHHhc----CCCCCCcCcCc
Q 028791          150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAA----HPQCPYCRRPA  200 (203)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~----~~~CP~CR~~v  200 (203)
                      +.....|.||.+   .++-+.--.|.-.||..|+...+..    .-.||.|+...
T Consensus         6 d~~~~~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           6 DHHMEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCcCCCcCCCC---CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            344567999985   2322222238889999999765532    33799997653

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.70  E-value=1.7  Score=28.22  Aligned_cols=47  Identities=17%  Similarity=0.422  Sum_probs=30.5

Q ss_pred             cccccccccccccCCceEEec-CCCcccHHhHHH--H-Hh--cCCCCCCcCcC
Q 028791          153 TKICSVCLEEFQEEQPVTRLP-CSHKYHSDCVLP--W-LA--AHPQCPYCRRP  199 (203)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~CI~~--W-l~--~~~~CP~CR~~  199 (203)
                      ...+.||...+.....++.-. |.-.||..|+.-  . ..  .+..||.|+..
T Consensus        11 ~pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          11 VPVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             CCeEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            345669988665544444333 899999999852  2 11  23689999764