Citrus Sinensis ID: 042704

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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
MATTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHcccccccHHHHHHHccccccccccccEEEHHccccccccHHHHHHHHHHHccccccccHHHHHHHHHHccccccccccccccHHHHHHHHHHHcccccccHHcccccHHHHcccccccccccccccccccccccEEccccccccEEEEccccccccHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEcccccccccccHHHHHHccccHHHHHHHHHHcccHccccccEEEEEHHHHccHHHHHHHHHHHHHHccccHHHcHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccccccccHHHHHHccccEEEEEcHHHcccccccccccHHHccccHHHcccccccccccHcHHHHHHHccccccEEEEcc
Coil and Loop (DISEMBL)
mattavfdeyqcdiyqpedddliqsthDHEAIFSLhlfsatpnimnKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAAneyhnmgsgIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVlklapaiegcsQQYCVICLEVMKegskaarmpcshiyhqdclvnwlknsslcplcrfqls
Flexible Loop (DISEMBL)
MATTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
Low Complexity Region (SEG)
MATTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYdineeaaaideaVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
Disordered region (IsUnstruct)
****AVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRF***
Disordered Region (DISOPRED)
**TTAVFDEYQCDIYQP**************IF***********************LG**AYWSANLSRCLS***************************HNMGSGIIPLVVII************************************GCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL*
Disordered Region (DISEMBL)
MATTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
Disordered Region (DISPRO)
**TTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATTAVFDEYQCDIYQPEDDDLIQSTHDHEAIFSLHLFSATPNIMNKNLIVLQQDLLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS
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	201	2.2.26 [Sep-21-2011]
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.333	0.204	0.364	2e-10
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.223	0.133	0.466	2e-09
Q9SPL2	334	E3 ubiquitin-protein liga	no	no	0.258	0.155	0.442	2e-08
Q9VE61	147	E3 ubiquitin-protein liga	yes	no	0.358	0.489	0.364	5e-08
Q07G42	639	E3 ubiquitin-protein liga	no	no	0.442	0.139	0.276	7e-08
Q9SLC3	236	E3 ubiquitin-protein liga	no	no	0.348	0.296	0.384	8e-08
Q86TM6	617	E3 ubiquitin-protein liga	yes	no	0.358	0.116	0.337	8e-08
Q641J8	622	E3 ubiquitin-protein liga	N/A	no	0.442	0.143	0.276	8e-08
Q9DBY1	612	E3 ubiquitin-protein liga	yes	no	0.358	0.117	0.337	8e-08
Q0V9R0	954	E3 ubiquitin-protein liga	no	no	0.223	0.047	0.422	9e-08

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

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 7/74 (9%)

Query: 127 AAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW 186
           +AID   T  +   +LK            C +C++  ++GS   +MPC H++HQDCL+ W
Sbjct: 194 SAIDALPTVKVTKDMLK-------SEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPW 246

Query: 187 LKNSSLCPLCRFQL 200
           L+  + CP+CRF+L
Sbjct: 247 LELHNSCPVCRFEL 260

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

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

 Score = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 35/45 (77%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +C++  +EG++A +MPC H+YH+DCL+ WL+  + CP+CR +L
Sbjct: 224 CAVCMDDFEEGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCRHEL 268

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|Q9SPL2|CIP8_ARATH E3 ubiquitin-protein ligase CIP8 OS=Arabidopsis thaliana GN=CIP8 PE=1 SV=1

 Score = 58.9 bits (141), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 30/52 (57%)

Query: 149 EGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           EG     C +C + M  G    ++PC H YH DC+V WL   + CP+CRFQL
Sbjct: 250 EGEMVMVCAVCKDGMVMGETGKKLPCGHCYHGDCIVPWLGTRNSCPVCRFQL 301

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. Probably forms a minimal ubiquitin ligase complex in cooperation with the E2 enzyme UBC8. Its interaction with COP1 suggests that it may participate in proteasome-mediated degradation of HY5 in vivo.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9VE61|RN181_DROME E3 ubiquitin-protein ligase RNF181 homolog OS=Drosophila melanogaster GN=CG7694 PE=2 SV=1

 Score = 57.8 bits (138), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 2/74 (2%)

Query: 129 IDEAVTRSI-NTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL 187
           + EA  R+I    V ++  + EG   + C +C E  +EG K   +PC H +H++C++ WL
Sbjct: 43  VPEASKRAILELPVHEIVKSDEGGDLE-CSVCKEPAEEGQKYRILPCKHEFHEECILLWL 101

Query: 188 KNSSLCPLCRFQLS 201
           K ++ CPLCR++L 
Sbjct: 102 KKTNSCPLCRYELE 115

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.

Drosophila melanogaster (taxid: 7227)

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 = 57.4 bits (137), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 51/94 (54%), Gaps = 5/94 (5%)

Query: 104 SGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVM 163
           SG +P + + +   ++ D +++   + +    +++T+      A++ CS     +C+   
Sbjct: 538 SGSLPFLSLAQFFLLNEDDDDQPRGLTKEQIDNLSTRNFGENDALKTCS-----VCITEY 592

Query: 164 KEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
            EG+K  ++PCSH YH  C+  WL  +S CP+CR
Sbjct: 593 TEGNKLRKLPCSHEYHVHCIDRWLSENSTCPICR 626

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|Q9SLC3|ATL41_ARATH E3 ubiquitin-protein ligase ATL41 OS=Arabidopsis thaliana GN=ATL41 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 8/78 (10%)

Query: 131 EAVTRSINTQVLKLAP-----AIEG--CSQQYCVICLEVMKEGSKAARMP-CSHIYHQDC 182
           E   R +N  V+   P     A +G   S   C +CL V+KE  KA  +P C HI+H DC
Sbjct: 76  EMPKRGLNPTVIASLPTFTVGATDGVAASATECAVCLSVLKEQDKARELPNCKHIFHVDC 135

Query: 183 LVNWLKNSSLCPLCRFQL 200
           +  WL   S CP+CR ++
Sbjct: 136 VDTWLTTCSTCPVCRTEV 153

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28, UBC29, UBC30, UBC35 and UBC36 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q86TM6|SYVN1_HUMAN E3 ubiquitin-protein ligase synoviolin OS=Homo sapiens GN=SYVN1 PE=1 SV=2

 Score = 57.0 bits (136), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 127 AAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW 186
           A +     R++NT      P         C+IC E M  G+K  R+PC+HI+H  CL +W
Sbjct: 262 AIMSRRAIRNMNTLYPDATPEELQAMDNVCIICREEMVTGAK--RLPCNHIFHTSCLRSW 319

Query: 187 LKNSSLCPLCRFQL 200
            +    CP CR  +
Sbjct: 320 FQRQQTCPTCRMDV 333

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Protects neurons from apoptosis induced by polyglutamine-expanded huntingtin (HTT) or unfolded GPR37 by promoting their degradation. Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

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 = 57.0 bits (136), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 51/94 (54%), Gaps = 5/94 (5%)

Query: 104 SGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVM 163
           SG +P + + +   ++ D +++   + +    +++T+      A++ CS     +C+   
Sbjct: 521 SGSLPFLSLAQFFLLNEDDDDQPRGLTKEQIDNLSTRNFGENDALKTCS-----VCITEY 575

Query: 164 KEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
            EG+K  ++PCSH YH  C+  WL  +S CP+CR
Sbjct: 576 TEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICR 609

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|Q9DBY1|SYVN1_MOUSE E3 ubiquitin-protein ligase synoviolin OS=Mus musculus GN=Syvn1 PE=1 SV=3

 Score = 57.0 bits (136), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 127 AAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW 186
           A +     R++NT      P         C+IC E M  G+K  R+PC+HI+H  CL +W
Sbjct: 262 AIMSRRAIRNMNTLYPDATPEELQAVDNVCIICREEMVTGAK--RLPCNHIFHTSCLRSW 319

Query: 187 LKNSSLCPLCRFQL 200
            +    CP CR  +
Sbjct: 320 FQRQQTCPTCRMDV 333

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis. Required for embryogenesis.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q0V9R0|RN111_XENTR E3 ubiquitin-protein ligase arkadia OS=Xenopus tropicalis GN=rnf111 PE=2 SV=1

 Score = 57.0 bits (136), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C ICL +++EG    R+PC H++HQ C+  WL  +  CP+CR  +
Sbjct: 902 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 946

Acts in the nodal-related pathway of mesoderm patterning during embryonic development. Enhances signaling of the subset of TGF-beta factors responsible for the formation of dorso-anterior tissues of Spemann's organizer. May act as an E3 ubiquitin-protein ligase, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Xenopus tropicalis (taxid: 8364)

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	201
255540963	215	zinc finger protein, putative [Ricinus c	0.905	0.846	0.342	1e-18
147784488	245	hypothetical protein VITISV_000265 [Viti	0.761	0.624	0.322	6e-15
147765323	578	hypothetical protein VITISV_019381 [Viti	0.646	0.224	0.326	4e-13
224063076	138	predicted protein [Populus trichocarpa]	0.547	0.797	0.349	1e-12
255588335	234	zinc finger protein, putative [Ricinus c	0.646	0.555	0.310	1e-12
224083444	246	predicted protein [Populus trichocarpa]	0.597	0.487	0.356	1e-11
255540965	219	protein binding protein, putative [Ricin	0.263	0.242	0.490	1e-11
224170860	188	predicted protein [Populus trichocarpa]	0.597	0.638	0.342	5e-11
224053891	213	predicted protein [Populus trichocarpa]	0.253	0.239	0.549	7e-11
224055813	227	predicted protein [Populus trichocarpa]	0.636	0.563	0.328	8e-11

>gi|255540963|ref|XP_002511546.1| zinc finger protein, putative [Ricinus communis] gi|223550661|gb|EEF52148.1| zinc finger protein, putative [Ricinus communis]

 Score = 98.6 bits (244), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 74/216 (34%), Positives = 110/216 (50%), Gaps = 34/216 (15%)

Query: 10  YQCDIYQP-EDDDLIQSTHDHEAIFSLHLF-------SATPNIMNKNLIV----LQQD-L 56
           YQC+ +   E+D+ I  +   EAIF + ++       S      N + I     +Q+D L
Sbjct: 7   YQCEAWLIHEEDEQINHSLPCEAIFLIKMYCQIIPCDSTVEQGTNTSTIFKEFHVQRDYL 66

Query: 57  LGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAA 116
           L     WS  LS  L+ +N+  +A+P ++ KI   A +      +M   +IP+VV ++  
Sbjct: 67  LHNTTSWST-LSSMLADMNIPMYAYPMLMVKIKECAQNC----RDMERKVIPMVVKLRII 121

Query: 117 NVSYDINEEAAAIDEAVTRSINTQVLKLAPA------------IEGCSQQYCVICLEVMK 164
           +   DI   A   DEA + S ++Q L    A            I+  S Q CVICLE ++
Sbjct: 122 HAVSDI---ATVSDEAFSESFSSQRLTFVGASKSAIDALETVIIQNFSNQ-CVICLEDIQ 177

Query: 165 EGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
            G +A  +PC HIYH  C+ NWLKNS+ CPLCRFQ+
Sbjct: 178 IGIEATCLPCKHIYHGGCISNWLKNSNCCPLCRFQI 213

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147784488|emb|CAN74950.1| hypothetical protein VITISV_000265 [Vitis vinifera]

 Score = 86.3 bits (212), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 58/180 (32%), Positives = 85/180 (47%), Gaps = 27/180 (15%)

Query: 45  MNKNLIVLQQD-LLGGCAYWSANLSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMG 103
           M + L V+++D LL   +    ++S  L  +      H S + +I S A   ANE  N+G
Sbjct: 64  MRRRLFVVRRDQLLRSQSLAFEHVSLLLFLMGXPSILHASFVQEIRSGAVLLANETTNIG 123

Query: 104 SGIIPLVVIIKAANVSYDI----------NEEAAAIDEAVTRSINTQVLKLAPAIEGC-- 151
             IIP+VV I    +  +           NE  A   E +  S+N       PA      
Sbjct: 124 RRIIPMVVDIDLWYMGEEEEEEEEDEDESNEIMA---EVMRSSLNDVTXLSVPATRASIE 180

Query: 152 -----------SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
                      S   C+ICLE     S+ +RMPCSH+YH+DC++ WL+ S +CPLCRF++
Sbjct: 181 ALEKIKFEDVNSTDKCIICLEEFATESEVSRMPCSHVYHKDCIIQWLERSHMCPLCRFKM 240

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147765323|emb|CAN76049.1| hypothetical protein VITISV_019381 [Vitis vinifera]

 Score = 80.1 bits (196), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 74/150 (49%), Gaps = 20/150 (13%)

Query: 67  LSRCLSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEA 126
           LS  L ++ V  + H SII  I +YA S  N   +M + ++ L +  +   V+  +  E 
Sbjct: 428 LSXALLSMGVDPYLHDSIIVNIVAYARSIQNLVSHMAAXVV-LPIRARIRLVTMHVRNEX 486

Query: 127 AAIDEAVTRS----------------INTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAA 170
             ID A   S                I+ + LK    +EG S     ICLE +  GS+  
Sbjct: 487 VLIDLATRXSMIENEGRGNGMIPATDISIKALKTETILEGESX---TICLEELSGGSEVT 543

Query: 171 RMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
            MPCSH++H  C++ WLK S +CP+CRF++
Sbjct: 544 VMPCSHVFHGSCIIRWLKQSHVCPICRFEM 573

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224063076|ref|XP_002300984.1| predicted protein [Populus trichocarpa] gi|222842710|gb|EEE80257.1| predicted protein [Populus trichocarpa]

 Score = 78.6 bits (192), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/126 (34%), Positives = 64/126 (50%), Gaps = 16/126 (12%)

Query: 88  ITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPA 147
           I+S+A        N  S  +  +V+       YD  EE   ID A++ S+  +  +  PA
Sbjct: 15  ISSFALDMVTNPCNASSSEVLTMVLAIHVTTPYDEREE---IDRALSESLMQEASRFKPA 71

Query: 148 ------------IEG-CSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCP 194
                       +EG CS + C++CLE    GS+   +PC HI+H DC+V WL+ S LCP
Sbjct: 72  SKSCIDGLKRMSLEGSCSMKECMVCLEEFLMGSEVVCLPCGHIFHGDCIVRWLETSHLCP 131

Query: 195 LCRFQL 200
           LCRF +
Sbjct: 132 LCRFAM 137

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255588335|ref|XP_002534571.1| zinc finger protein, putative [Ricinus communis] gi|223525002|gb|EEF27812.1| zinc finger protein, putative [Ricinus communis]

 Score = 78.6 bits (192), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 73/148 (49%), Gaps = 18/148 (12%)

Query: 69  RCLSALNVAFHAHPSIIYKITSYAHSAANEYHNM---GSGIIPLVVIIKAANVSYDINEE 125
           + L+  ++  +    I+ ++   A   A +  NM   G  ++  + +IK     Y   EE
Sbjct: 87  KILNCWHIPEYVQKQIVEQVCYKAMKMALKRINMPGFGVQVVASIDMIKYEECDYSQYEE 146

Query: 126 AAAIDEAVTRSINTQVLKLAPAIEGC-------------SQQYCVICLEVMKEGSKAARM 172
           A  +  A   S+     K  PA +               S + C IC++ ++ G +A RM
Sbjct: 147 A--LRNAEIESMEVDAYKPKPATKSSIEALERFVFDDVESSKDCTICMDEIEVGMQAIRM 204

Query: 173 PCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           PCSH YHQDC++NWL+NS  CPLCR+Q+
Sbjct: 205 PCSHYYHQDCIINWLQNSHFCPLCRYQM 232

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083444|ref|XP_002307029.1| predicted protein [Populus trichocarpa] gi|222856478|gb|EEE94025.1| predicted protein [Populus trichocarpa]

 Score = 75.5 bits (184), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/143 (35%), Positives = 71/143 (49%), Gaps = 23/143 (16%)

Query: 71  LSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGI---IPLVV----------IIKAAN 117
           L+ + V       I+ K+ S A S         SGI   + L+V          I +A  
Sbjct: 92  LTVMGVPGRKQSKILRKMASLARSKGT-----FSGIFMEVELLVGTYQEITEADIARAER 146

Query: 118 VSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHI 177
            S DI  EA  I  A   SI+   L+        S + C +C+E ++ GS+A RMPCSH+
Sbjct: 147 ESMDI--EAGQIP-ATKSSID--ALERVVFDGSSSTRDCTVCMEEIEAGSEATRMPCSHV 201

Query: 178 YHQDCLVNWLKNSSLCPLCRFQL 200
           YH DC+V WL+ S LCPLCR+ +
Sbjct: 202 YHSDCIVQWLQTSHLCPLCRYHM 224

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540965|ref|XP_002511547.1| protein binding protein, putative [Ricinus communis] gi|223550662|gb|EEF52149.1| protein binding protein, putative [Ricinus communis]

 Score = 75.5 bits (184), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 41/53 (77%)

Query: 149 EGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           +G ++Q C+ICLE +  GS+  R+PC H+YH+ C++NWL+ S  CPLCRF+++
Sbjct: 167 DGSTEQQCIICLEELLIGSEVTRLPCLHVYHKQCIINWLQKSRFCPLCRFEIA 219

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224170860|ref|XP_002339432.1| predicted protein [Populus trichocarpa] gi|222875105|gb|EEF12236.1| predicted protein [Populus trichocarpa]

 Score = 73.2 bits (178), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 49/143 (34%), Positives = 70/143 (48%), Gaps = 23/143 (16%)

Query: 71  LSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGI---IPLVV----------IIKAAN 117
           L+ + V       I+ K+ S A S         SG+   + L+V          I +A  
Sbjct: 34  LTVMGVPGRKQSKILRKMASLARSKGT-----FSGVFMEVELLVGTYQEITEADIARAER 88

Query: 118 VSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHI 177
            S DI  EA  I  A   SI+   L+        S + C +C+E ++ GS+A RMPCSH+
Sbjct: 89  GSMDI--EAGQIP-ATKSSID--ALERVVFDGSSSTRDCTVCMEGIEAGSEATRMPCSHV 143

Query: 178 YHQDCLVNWLKNSSLCPLCRFQL 200
           YH DC+V WL+ S  CPLCR+ +
Sbjct: 144 YHSDCIVQWLRTSYSCPLCRYHM 166

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053891|ref|XP_002298031.1| predicted protein [Populus trichocarpa] gi|222845289|gb|EEE82836.1| predicted protein [Populus trichocarpa]

 Score = 72.8 bits (177), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 28/51 (54%), Positives = 36/51 (70%)

Query: 150 GCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           G S   C +CLE +  GS+A RMPC HIYH  C+V WL NS+ CP+CR+Q+
Sbjct: 159 GSSNLECPVCLETISTGSEAKRMPCFHIYHGKCIVEWLMNSNTCPVCRYQM 209

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055813|ref|XP_002298666.1| predicted protein [Populus trichocarpa] gi|222845924|gb|EEE83471.1| predicted protein [Populus trichocarpa]

 Score = 72.8 bits (177), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 74/149 (49%), Gaps = 21/149 (14%)

Query: 71  LSALNVAFHAHPSIIYKITSYAHSAANEYHNMGSGIIPLVVIIKAANVSYDINEEA---- 126
           L+ + +    H  II  I S            GS +  +VV ++A     D+ +E     
Sbjct: 65  LAYMGIPKTKHKEIIAAIVSEKRRLITRGGRDGSAVY-VVVDVEAIVDREDVYDERIACE 123

Query: 127 ---AAIDEAVTR--------SINTQVLKLAPAIEG--CSQQY--CVICLEVMKEGSKAAR 171
               A++EAV R           T+ L++    EG   S+ Y  CV+C E +K G KAA+
Sbjct: 124 ENLKAMEEAVQRLKHRNHYGGACTEGLEMKAVKEGNITSKSYGECVVCKEELKFG-KAAQ 182

Query: 172 MPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           MPCSH+YH+DC+  W K   +CPLCR+++
Sbjct: 183 MPCSHVYHRDCISRWFKTRDICPLCRYRI 211

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	201
TAIR|locus:1005716857	376	AT5G08139 [Arabidopsis thalian	0.223	0.119	0.466	8.5e-12
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.223	0.323	0.422	9.3e-12
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.223	0.294	0.422	9.3e-12
UNIPROTKB|F1SVB7	153	RNF181 "Uncharacterized protei	0.223	0.294	0.422	1.2e-11
TAIR|locus:2093252	224	AT3G15740 [Arabidopsis thalian	0.228	0.205	0.5	2.8e-11
ZFIN|ZDB-GENE-040426-1024	156	rnf181 "ring finger protein 18	0.323	0.416	0.323	3.9e-11
TAIR|locus:2101447	306	AT3G60080 [Arabidopsis thalian	0.223	0.147	0.555	4.7e-11
RGD|1359698	165	Rnf181 "ring finger protein 18	0.223	0.272	0.4	6.3e-11
UNIPROTKB|Q6AXU4	165	Rnf181 "E3 ubiquitin-protein l	0.223	0.272	0.4	6.3e-11
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.223	0.137	0.466	9.7e-11

TAIR|locus:1005716857 AT5G08139 [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 8.5e-12, Sum P(2) = 8.5e-12
 Identities = 21/45 (46%), Positives = 33/45 (73%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +C + M  G+KA ++PC+H YH +C+V WLK  + CP+CR++L
Sbjct:   309 CAVCKDEMNIGNKAVQLPCNHKYHSECIVPWLKVRNTCPVCRYEL 353

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

 Score = 133 (51.9 bits), Expect = 9.3e-12, Sum P(2) = 9.3e-12
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +CL   +E   A  MPC H++H  C++ WL  ++ CPLCR++L
Sbjct:    76 CPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYEL 120

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9P0P0 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 133 (51.9 bits), Expect = 9.3e-12, Sum P(2) = 9.3e-12
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +CL   +E   A  MPC H++H  C++ WL  ++ CPLCR++L
Sbjct:    76 CPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYEL 120

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|F1SVB7 RNF181 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 128 (50.1 bits), Expect = 1.2e-11, Sum P(2) = 1.2e-11
 Identities = 19/45 (42%), Positives = 28/45 (62%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +CL   +E   A  MPC H++H  C++ WL  ++ CPLCR +L
Sbjct:    76 CPVCLLEFEEEETAIEMPCHHLFHSGCILPWLSKTNSCPLCRHEL 120

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2093252 AT3G15740 [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 24/48 (50%), Positives = 37/48 (77%)

Query:   152 SQQYCVICLEVMKEGS--KAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
             ++ YCVIC++ ++ GS  +A RMPCSH++H+ C   WL+NS +CP+CR
Sbjct:   172 NEGYCVICMDNIRVGSDVEAGRMPCSHVFHRTCGEEWLRNSGICPVCR 219

GO:0005634 "nucleus" evidence=ISM

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

GO:0009555 "pollen development" evidence=IMP

ZFIN|ZDB-GENE-040426-1024 rnf181 "ring finger protein 181" [Danio rerio (taxid:7955)]

 Score = 127 (49.8 bits), Expect = 3.9e-11, Sum P(2) = 3.9e-11
 Identities = 22/68 (32%), Positives = 36/68 (52%)

Query:   133 VTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL 192
             V +S+   ++    A +G     C +CL   +E      MPC H++H  C++ WL  ++ 
Sbjct:    59 VVQSLPVVIISPEQADKGVK---CPVCLLEFEEQESVREMPCKHLFHTGCILPWLNKTNS 115

Query:   193 CPLCRFQL 200
             CPLCR +L
Sbjct:   116 CPLCRLEL 123

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2101447 AT3G60080 [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 4.7e-11, P = 4.7e-11
 Identities = 25/45 (55%), Positives = 31/45 (68%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +C E    G  A R+PCSHIYH DC+V WL + + CPLCRF+L
Sbjct:   169 CAVCKEDFIIGESARRLPCSHIYHSDCIVPWLSDHNSCPLCRFEL 213

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 126 (49.4 bits), Expect = 6.3e-11, Sum P(2) = 6.3e-11
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +CL   +E      MPC H++H +C++ WL  ++ CPLCR +L
Sbjct:    88 CPVCLLEFEEEETVIEMPCHHLFHSNCILPWLSKTNSCPLCRHEL 132

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 = 126 (49.4 bits), Expect = 6.3e-11, Sum P(2) = 6.3e-11
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +CL   +E      MPC H++H +C++ WL  ++ CPLCR +L
Sbjct:    88 CPVCLLEFEEEETVIEMPCHHLFHSNCILPWLSKTNSCPLCRHEL 132

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 155 (59.6 bits), Expect = 9.7e-11, P = 9.7e-11
 Identities = 21/45 (46%), Positives = 34/45 (75%)

Query:   156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
             C +C++  ++GS   +MPC H++HQDCL+ WL+  + CP+CRF+L
Sbjct:   216 CAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPVCRFEL 260

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

GO:0010200 "response to chitin" evidence=RCA

---

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: eugene3.00020764 hypothetical protein (138 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	201
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-14
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-08
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	9e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-07
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-06
smart00184	40	smart00184, RING, Ring finger	3e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	8e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.001
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.001
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.002
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	0.002
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.002
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.003

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

 Score = 64.0 bits (156), Expect = 2e-14
 Identities = 19/42 (45%), Positives = 30/42 (71%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C ICL+  + G +   +PC H++H++CL  WL++S+ CPLCR
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 3/43 (6%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCR 197
           C ICLE  +E      +PC H++ + C+  WLK+    CPLCR
Sbjct: 2   CPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 51.9 bits (124), Expect = 5e-08
 Identities = 22/74 (29%), Positives = 30/74 (40%), Gaps = 10/74 (13%)

Query: 134 TRSINTQVLKLAPAIEGCSQQYCVICLEVMKE----------GSKAARMPCSHIYHQDCL 183
           T+ +N             S + C IC++ M                 R+PC HI H  CL
Sbjct: 268 TKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCL 327

Query: 184 VNWLKNSSLCPLCR 197
            NWL+    CP+CR
Sbjct: 328 KNWLERQQTCPICR 341

Length = 491

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

 Score = 50.8 bits (121), Expect = 9e-08
 Identities = 19/93 (20%), Positives = 35/93 (37%), Gaps = 7/93 (7%)

Query: 106 IIPLVVIIKAANVSYDINEEAAAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKE 165
           I+ + +       S            ++      + ++   A +G     C IC+    +
Sbjct: 282 ILEIQINFDVGFYSSSEAIPTTTTKGSLKPLSIERAVE---ADKGVE---CAICMSNFIK 335

Query: 166 GSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCR 197
             +   +PC H +H  C+  WL   S  CP+CR
Sbjct: 336 NDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 45.2 bits (107), Expect = 3e-07
 Identities = 15/42 (35%), Positives = 28/42 (66%), Gaps = 2/42 (4%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C ICL+++++       PC H++ ++C++ +LK  S CP+CR
Sbjct: 5   CPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 15/52 (28%), Positives = 19/52 (36%), Gaps = 10/52 (19%)

Query: 156 CVICLEVM----------KEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C IC               +        C H +H  C+  WLK  + CPLCR
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|214546 smart00184, RING, Ring finger

 Score = 42.5 bits (100), Expect = 3e-06
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLC 196
           C ICLE   +      +PC H + + C+  WL++ +  CP+C
Sbjct: 1   CPICLEEYLK--DPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 38.2 bits (89), Expect = 8e-05
 Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 3/42 (7%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLC 196
           C ICLE  K+      +PC H++   C+++WL++ ++ CPLC
Sbjct: 1   CPICLEEPKDPVTI--LPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 3/27 (11%)

Query: 174 CSHIYHQDCLVNWLKNSS---LCPLCR 197
           C H +H  C++ WL   +   LCP+CR
Sbjct: 52  CKHNFHMHCILKWLATETSKGLCPMCR 78

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

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

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 174 CSHIYHQDCLVNWLKNSSLCPLCR 197
           C+H +H  C+  WL    +CPL R
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 25/139 (17%), Positives = 47/139 (33%), Gaps = 25/139 (17%)

Query: 81  HPSIIYKITSYAHSAANEYHNMGSGIIP------LVVIIKAANVSYDINEEAAAIDEAVT 134
           HP ++  + ++    + EY      II       L        ++Y    +   +  A+ 
Sbjct: 88  HPKLLKYVLNWI---SEEYCAKVLSIINEYNQKILKNKPSNDKINYIYMRKEEDMFYAII 144

Query: 135 RSINTQVLKLAPAIEGCSQQY-----------CVICLEVMKEGSKAARM-----PCSHIY 178
                   K    I     +Y           C IC+E + +             C+H++
Sbjct: 145 NKKGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVF 204

Query: 179 HQDCLVNWLKNSSLCPLCR 197
             +C+  W K  + CP+CR
Sbjct: 205 CIECIDIWKKEKNTCPVCR 223

Length = 238

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 38.0 bits (88), Expect = 0.002
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 5/44 (11%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLV-NWLKNSSL-CPLCR 197
           C +CLE        +  PC H++   CL+ +W K     CPLCR
Sbjct: 218 CFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCR 258

Length = 271

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

 Score = 34.6 bits (80), Expect = 0.002
 Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 3/43 (6%)

Query: 155 YCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSS--LCP 194
            C I  EVM +      M PC H+Y +  L    KN     CP
Sbjct: 12  VCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCP 54

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

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

 Score = 37.7 bits (87), Expect = 0.003
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 6/48 (12%)

Query: 156  CVICLEVMKEGSK---AARMP-CSHIYHQDCLVNWLK--NSSLCPLCR 197
            C IC  V+    +   + R   C + +H  CL  W      S CPLCR
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	201
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.59
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.52
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.35
PHA02929	238	N1R/p28-like protein; Provisional	99.29
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.27
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.19
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.1
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.04
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.02
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.0
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.98
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.94
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.93
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.91
PF14634	44	zf-RING_5: zinc-RING finger domain	98.85
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.85
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.84
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.83
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.82
PHA02926	242	zinc finger-like protein; Provisional	98.75
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.72
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.52
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.48
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.45
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.43
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.41
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.4
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.39
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.39
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.38
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.35
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.33
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.19
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.06
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.98
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.78
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.75
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.66
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.55
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.49
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.49
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.17
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.14
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.0
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.97
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.75
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.75
KOG2660	331	consensus Locus-specific chromosome binding protei	96.73
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.69
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.61
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.49
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.45
COG5152	259	Uncharacterized conserved protein, contains RING a	96.3
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.04
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.97
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.94
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.57
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.57
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	95.55
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.54
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.51
KOG1940	276	consensus Zn-finger protein [General function pred	95.51
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.23
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.22
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.15
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.66
PHA03096	284	p28-like protein; Provisional	94.4
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.28
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.78
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.66
COG5222	427	Uncharacterized conserved protein, contains RING Z	93.54
PF04641	260	Rtf2: Rtf2 RING-finger	93.5
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.48
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.77
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.72
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.03
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.65
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.64
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	91.13
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.85
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	90.31
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	90.18
KOG3899	381	consensus Uncharacterized conserved protein [Funct	89.28
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	89.13
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.87
KOG3053	293	consensus Uncharacterized conserved protein [Funct	87.34
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	87.15
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	87.07
KOG1609	323	consensus Protein involved in mRNA turnover and st	86.61
KOG3002	299	consensus Zn finger protein [General function pred	85.08
COG5175	480	MOT2 Transcriptional repressor [Transcription]	83.66
KOG2807	378	consensus RNA polymerase II transcription initiati	82.89
KOG0269	839	consensus WD40 repeat-containing protein [Function	81.92

>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=99.59  E-value=4.6e-16  Score=97.70  Aligned_cols=44  Identities=43%  Similarity=1.241  Sum_probs=40.5

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR  197 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR  197 (201)
                      +.|+||++.+..++.++.++|+|.||.+||.+|++++.+||+||
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            47999999999889999999999999999999999999999998

...

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

Probab=99.52  E-value=6.6e-15  Score=128.67  Aligned_cols=47  Identities=38%  Similarity=1.044  Sum_probs=43.6

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l  200 (201)
                      ..|+||+|+|..|+.++.|||+|.||..||++||.++. .||+|++.+
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence            48999999999999999999999999999999998775 599999875

>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=99.35  E-value=6.9e-13  Score=92.18  Aligned_cols=45  Identities=40%  Similarity=1.043  Sum_probs=36.4

Q ss_pred             ccccccccccccC----------CCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704          153 QQYCVICLEVMKE----------GSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR  197 (201)
Q Consensus       153 ~~~C~ICle~~~~----------~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR  197 (201)
                      ++.|+||++.+..          +..+...+|+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            4569999999932          22345567999999999999999999999998

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

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.29  E-value=3.2e-12  Score=107.25  Aligned_cols=49  Identities=27%  Similarity=0.771  Sum_probs=40.7

Q ss_pred             CccccccccccccCCCc-----eEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSK-----AARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~-----~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      .+..|+||++.+..+..     .+.++|+|.||..||.+|++++.+||+||.++
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            46799999999764321     23457999999999999999999999999875

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

Probab=99.27  E-value=2.4e-12  Score=109.72  Aligned_cols=50  Identities=30%  Similarity=0.825  Sum_probs=46.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l~  201 (201)
                      .+-+|+||++.|-.++..+.|||.|.||..|+.+|+. -++.||+||.++|
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            4579999999999999999999999999999999997 5668999999986

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

Probab=99.19  E-value=9.3e-12  Score=108.72  Aligned_cols=49  Identities=39%  Similarity=1.009  Sum_probs=42.7

Q ss_pred             Ccccccccccc-ccCC---------CceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEV-MKEG---------SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~-~~~~---------~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ++..|+||+++ +..+         ..+.+|||||.+|.+|++.|++++.+||+||.++
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            67899999999 5444         2367899999999999999999999999999874

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

Probab=99.10  E-value=7.5e-11  Score=75.82  Aligned_cols=45  Identities=31%  Similarity=0.854  Sum_probs=39.8

Q ss_pred             ccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +..|.||++..   ..+..+||||. |+..|+.+|+++...||+||+++
T Consensus         2 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    2 DEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             cCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence            46899999998   56889999999 99999999999999999999986

...

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

Probab=99.04  E-value=1.7e-10  Score=70.43  Aligned_cols=39  Identities=31%  Similarity=1.021  Sum_probs=32.8

Q ss_pred             cccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlC  196 (201)
                      |+||++.+.  +.++.++|||.|+.+||.+|++.+..||+|
T Consensus         1 C~iC~~~~~--~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELR--DPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-S--SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCccc--CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999995  234789999999999999999998899998

>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=99.02  E-value=2.8e-10  Score=69.91  Aligned_cols=44  Identities=39%  Similarity=1.069  Sum_probs=36.5

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      .|+||++.+.  .....++|+|.||..|+..|++. +..||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999982  34445569999999999999987 77899999864

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.00  E-value=3.3e-10  Score=91.86  Aligned_cols=47  Identities=26%  Similarity=0.737  Sum_probs=39.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc----------------CCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----------------SSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----------------~~~CPlCR~~l~  201 (201)
                      +...|+||++.+   ..++.++|||.||..||.+|+..                ...||+||.++.
T Consensus        17 ~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         17 GDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            457899999998   56678999999999999999852                247999998763

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

Probab=98.98  E-value=4.2e-10  Score=69.98  Aligned_cols=38  Identities=34%  Similarity=0.949  Sum_probs=30.2

Q ss_pred             cccccccccCCCceEEccCCCcccHHHHHHHHhcC----CCCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----SLCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----~~CPlC  196 (201)
                      |+||++.|   .+++.|+|||.|+..||.+|++..    ..||.|
T Consensus         1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999   789999999999999999999743    469987

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

Probab=98.94  E-value=5.3e-10  Score=79.27  Aligned_cols=48  Identities=29%  Similarity=0.743  Sum_probs=36.1

Q ss_pred             ccccccccccccCCCc----------eEEccCCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSK----------AARMPCSHIYHQDCLVNWLKN---SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~----------~~~LpC~H~FH~~CI~~WL~~---~~~CPlCR~~l  200 (201)
                      ++.|.||...|...-.          ++.-.|+|.||..||.+||..   +..||+||+++
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            5778888888863211          222349999999999999985   45899999875

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

Probab=98.93  E-value=3.4e-10  Score=105.58  Aligned_cols=48  Identities=42%  Similarity=1.126  Sum_probs=43.5

Q ss_pred             CccccccccccccCCCc--eEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSK--AARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~--~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      .+..|+||+|++..+..  +.+|||+|.||..|+..|+++..+||+||..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~  339 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV  339 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence            46899999999976654  8899999999999999999999999999974

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

Probab=98.91  E-value=6e-10  Score=94.67  Aligned_cols=46  Identities=35%  Similarity=0.951  Sum_probs=42.1

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|.+|||.-   +.+..+||||.||-+||..|...+..||+||.++
T Consensus       238 a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~  283 (293)
T KOG0317|consen  238 ATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKF  283 (293)
T ss_pred             CCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence            347899999998   6788999999999999999999999999999876

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.85  E-value=2.4e-09  Score=67.05  Aligned_cols=44  Identities=34%  Similarity=0.775  Sum_probs=38.9

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCc
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRF  198 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~  198 (201)
                      .|.||++.|.....+..++|||.|+..|+.++......||+||+
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            48999999965667888999999999999999866779999985

>smart00504 Ubox Modified RING finger domain

Probab=98.85  E-value=3.3e-09  Score=70.78  Aligned_cols=44  Identities=27%  Similarity=0.531  Sum_probs=39.9

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||.+.+   ..++.+||||+|++.||.+|++.+.+||+|+.++
T Consensus         2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~   45 (63)
T smart00504        2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPL   45 (63)
T ss_pred             cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence            4699999999   4578899999999999999999888999999876

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=98.84  E-value=2.8e-09  Score=65.44  Aligned_cols=39  Identities=46%  Similarity=1.153  Sum_probs=33.3

Q ss_pred             cccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlC  196 (201)
                      |+||++.+.  .....++|+|.|+..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~--~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFE--DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCS--SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCcccc--CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999994  2334899999999999999998  55689998

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 ....

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

Probab=98.83  E-value=2.1e-09  Score=88.94  Aligned_cols=46  Identities=30%  Similarity=0.821  Sum_probs=40.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN---SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~---~~~CPlCR~~l  200 (201)
                      ...+|.|||+.-   .++++..|||.||-.||.+||..   +..||+|+..+
T Consensus        46 ~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V   94 (230)
T KOG0823|consen   46 GFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV   94 (230)
T ss_pred             Cceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence            568999999998   67788899999999999999973   34799999876

>smart00184 RING Ring finger

Probab=98.82  E-value=3.9e-09  Score=62.54  Aligned_cols=38  Identities=39%  Similarity=1.183  Sum_probs=33.9

Q ss_pred             cccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlC  196 (201)
                      |+||++..   ..+..++|+|.||..|+..|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999995   6788899999999999999998 66789987

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)

>PHA02926 zinc finger-like protein; Provisional

Probab=98.75  E-value=5.9e-09  Score=85.95  Aligned_cols=49  Identities=29%  Similarity=0.766  Sum_probs=36.5

Q ss_pred             CccccccccccccCC-----CceEEc-cCCCcccHHHHHHHHhcC------CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEG-----SKAARM-PCSHIYHQDCLVNWLKNS------SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~-----~~~~~L-pC~H~FH~~CI~~WL~~~------~~CPlCR~~l  200 (201)
                      .+..|+||+|..-..     .....| +|+|.||..||.+|.+.+      .+||+||..+
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            458999999986321     112234 699999999999999742      3699999864

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

Probab=98.73  E-value=6.1e-09  Score=83.00  Aligned_cols=48  Identities=31%  Similarity=0.780  Sum_probs=40.4

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+|||+.+... .+.-..|||+||+.||+.-++....||+||+.|
T Consensus       130 ~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI  177 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKI  177 (187)
T ss_pred             cccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence            457899999999632 234467999999999999999999999999765

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.72  E-value=8.2e-09  Score=92.46  Aligned_cols=53  Identities=28%  Similarity=0.624  Sum_probs=44.0

Q ss_pred             CCcccCC-CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          145 APAIEGC-SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       145 ~p~~~~~-~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      .|.++.. ....|+||++.|   ..++.+||+|.||..||..|+.....||+||..+
T Consensus        17 ~~~l~~Le~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~   70 (397)
T TIGR00599        17 IPSLYPLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAED   70 (397)
T ss_pred             cccccccccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence            3444444 457999999999   5666899999999999999999888999999865

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

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

Probab=98.52  E-value=8.5e-08  Score=66.81  Aligned_cols=47  Identities=30%  Similarity=0.702  Sum_probs=34.7

Q ss_pred             cccccccccccCCCce--EEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKA--ARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~--~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+-|......|++.  .-=-|.|.||..||.+||..+..||++|+++
T Consensus        32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w   80 (88)
T COG5194          32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW   80 (88)
T ss_pred             CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence            4555565544444432  2234999999999999999999999999874

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

Probab=98.48  E-value=1.2e-07  Score=59.16  Aligned_cols=38  Identities=37%  Similarity=0.870  Sum_probs=22.7

Q ss_pred             cccccccccC-CCceEEccCCCcccHHHHHHHHhcC----CCCC
Q 042704          156 CVICLEVMKE-GSKAARMPCSHIYHQDCLVNWLKNS----SLCP  194 (201)
Q Consensus       156 C~ICle~~~~-~~~~~~LpC~H~FH~~CI~~WL~~~----~~CP  194 (201)
                      |+||.| |.. ...+..|||||+|+.+||.++++++    ..||
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 643 3357889999999999999999843    2576

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

Probab=98.45  E-value=1e-07  Score=80.25  Aligned_cols=46  Identities=35%  Similarity=0.888  Sum_probs=40.3

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHH-HHhcCCC-CCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVN-WLKNSSL-CPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~-WL~~~~~-CPlCR~~l  200 (201)
                      .+..|+||++..   ..+..+||||+||..||.. |-+++.- ||+||+..
T Consensus       214 ~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         214 ADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             cccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence            467899999998   6788999999999999999 9776665 99999864

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

Probab=98.43  E-value=2.1e-07  Score=59.70  Aligned_cols=42  Identities=29%  Similarity=0.872  Sum_probs=33.4

Q ss_pred             ccccccccccCCCceEEccCC-----CcccHHHHHHHHhc--CCCCCCCC
Q 042704          155 YCVICLEVMKEGSKAARMPCS-----HIYHQDCLVNWLKN--SSLCPLCR  197 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~-----H~FH~~CI~~WL~~--~~~CPlCR  197 (201)
                      .|.||++ ...+..+..+||.     |.+|.+|+.+|+..  +.+||+|+
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            4899999 3344567789984     88999999999964  45899995

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=98.41  E-value=7.4e-08  Score=66.55  Aligned_cols=48  Identities=29%  Similarity=0.879  Sum_probs=34.3

Q ss_pred             ccccccccccccCCCceEEcc----------CCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMP----------CSHIYHQDCLVNWLKN---SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~Lp----------C~H~FH~~CI~~WL~~---~~~CPlCR~~l  200 (201)
                      +..|-||.-.|..--.-.++|          |.|.||..||.+|+..   +..||+||+++
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            347777777774322222333          8999999999999973   34799999875

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

Probab=98.40  E-value=1.2e-07  Score=91.16  Aligned_cols=48  Identities=33%  Similarity=0.929  Sum_probs=38.5

Q ss_pred             CccccccccccccCCCceEEcc------CCCcccHHHHHHHHh--cCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP------CSHIYHQDCLVNWLK--NSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp------C~H~FH~~CI~~WL~--~~~~CPlCR~~l~  201 (201)
                      +-.+|+||...+..  .-+.||      |+|.||..|+.+|++  .+++||+||.+++
T Consensus      1468 G~eECaICYsvL~~--vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDM--VDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHH--HhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            45799999999851  223455      899999999999997  4568999999875

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

Probab=98.39  E-value=2.7e-07  Score=63.88  Aligned_cols=45  Identities=27%  Similarity=0.560  Sum_probs=37.0

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      ...|+|+.+.+   ..++.+|+||.|.+.||.+|+.. +.+||+|+.++
T Consensus         4 ~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l   49 (73)
T PF04564_consen    4 EFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPL   49 (73)
T ss_dssp             GGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred             ccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence            57899999999   78899999999999999999998 88999998876

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

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

Probab=98.39  E-value=1.2e-07  Score=82.47  Aligned_cols=45  Identities=29%  Similarity=0.698  Sum_probs=41.4

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      -..|-||.|.|   ..+...||+|.||.-||...|..+..||.|+.++
T Consensus        23 lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~   67 (442)
T KOG0287|consen   23 LLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTV   67 (442)
T ss_pred             HHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceeccc
Confidence            46899999999   6788999999999999999999999999999865

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

Probab=98.38  E-value=1.6e-07  Score=80.21  Aligned_cols=55  Identities=27%  Similarity=0.600  Sum_probs=45.9

Q ss_pred             hcCCcccCC-CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          143 KLAPAIEGC-SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       143 ~~~p~~~~~-~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|.+.+. +...|-||-+.|   ..+...+|||.||.-||...|..+..||+||.+.
T Consensus        14 T~IPSL~~LDs~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          14 TKIPSLKGLDSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             ccCcchhcchhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            344555544 457899999999   6777899999999999999999999999999863

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

Probab=98.35  E-value=2.7e-07  Score=80.69  Aligned_cols=46  Identities=30%  Similarity=0.743  Sum_probs=41.4

Q ss_pred             CccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ++.+|.||+.+.   .....|||+|. .|..|.+..--+++.||+||+++
T Consensus       289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence            468999999999   68889999999 99999988777888999999875

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

Probab=98.33  E-value=2.8e-07  Score=83.87  Aligned_cols=45  Identities=36%  Similarity=0.835  Sum_probs=37.9

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-----CCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-----SLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-----~~CPlCR~~l  200 (201)
                      +..|+|||+..   ..+.++-|||+||..||.+++...     ..||+||..+
T Consensus       186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I  235 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI  235 (513)
T ss_pred             CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence            68999999998   566677799999999999998643     4899999765

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

Probab=98.27  E-value=3.4e-07  Score=82.96  Aligned_cols=50  Identities=38%  Similarity=1.021  Sum_probs=38.9

Q ss_pred             CccccccccccccC---CCce-----------EEccCCCcccHHHHHHHHh-cCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKE---GSKA-----------ARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~---~~~~-----------~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l~  201 (201)
                      ...+|+||+.....   +...           ...||.|+||..|+.+|.. .+-.||+||.++|
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            35689999997642   2211           1359999999999999998 5558999999986

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

Probab=98.19  E-value=4e-07  Score=77.00  Aligned_cols=49  Identities=22%  Similarity=0.792  Sum_probs=40.6

Q ss_pred             CccccccccccccCCC-------ceEEccCCCcccHHHHHHHH--hcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS-------KAARMPCSHIYHQDCLVNWL--KNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~-------~~~~LpC~H~FH~~CI~~WL--~~~~~CPlCR~~l  200 (201)
                      ++.-|+||=..+....       ...+|.|+|+||..||+-|-  .++.+||.|+..+
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence            6789999998876544       56789999999999999995  4777999998654

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

Probab=98.06  E-value=8.1e-07  Score=61.15  Aligned_cols=48  Identities=27%  Similarity=0.668  Sum_probs=22.3

Q ss_pred             cccccccccccc-CCCceEE--c--cCCCcccHHHHHHHHhc---C--------CCCCCCCccC
Q 042704          153 QQYCVICLEVMK-EGSKAAR--M--PCSHIYHQDCLVNWLKN---S--------SLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~-~~~~~~~--L--pC~H~FH~~CI~~WL~~---~--------~~CPlCR~~l  200 (201)
                      +..|.||.+.+. .+..+..  -  .|+..||..|+.+||..   .        ..||.|+.+|
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            368999999876 3332222  1  38999999999999861   1        1599999876

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

Probab=97.98  E-value=4.9e-06  Score=60.79  Aligned_cols=29  Identities=34%  Similarity=0.875  Sum_probs=26.2

Q ss_pred             EccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          171 RMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       171 ~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      --.|.|.||..||.+||+++..||+|.++
T Consensus        78 WG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   78 WGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             eeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            34599999999999999999999999775

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

Probab=97.78  E-value=7.5e-06  Score=73.64  Aligned_cols=46  Identities=35%  Similarity=0.925  Sum_probs=35.5

Q ss_pred             CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      .-..|+||||-+.... -++...|.|.||..|+.+|..  .+||+||.-
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~  220 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYC  220 (493)
T ss_pred             cCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhh
Confidence            3458999999885322 134456999999999999964  689999963

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

Probab=97.75  E-value=6.7e-06  Score=53.41  Aligned_cols=45  Identities=27%  Similarity=0.614  Sum_probs=35.3

Q ss_pred             ccccccccccccCCCceEEccCCCc-ccHHHHHHHHh-cCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      +++|.||.|.-.   ..+.-.|||. .+..|-.+.++ .+..||+||.++
T Consensus         7 ~dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            489999999873   3344569998 88899776665 778999999875

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

Probab=97.66  E-value=1.4e-05  Score=68.63  Aligned_cols=49  Identities=31%  Similarity=0.730  Sum_probs=41.7

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh-----------------------cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-----------------------NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-----------------------~~~~CPlCR~~l  200 (201)
                      ...+|.|||--|..+...++.+|-|.||..|+.++|.                       ....||+||..|
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i  185 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI  185 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence            3479999999999999899999999999999988764                       123699999765

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

Probab=97.63  E-value=7e-06  Score=71.89  Aligned_cols=47  Identities=34%  Similarity=0.738  Sum_probs=37.8

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      .+..|+|||+.++  .......|.|.||.+||.+-+. .++.||.||+.+
T Consensus        42 ~~v~c~icl~llk--~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l   89 (381)
T KOG0311|consen   42 IQVICPICLSLLK--KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL   89 (381)
T ss_pred             hhhccHHHHHHHH--hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence            4578999999995  2333345999999999998886 567999999864

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

Probab=97.55  E-value=1.4e-05  Score=53.74  Aligned_cols=41  Identities=27%  Similarity=0.805  Sum_probs=22.0

Q ss_pred             cccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          154 QYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      ..|++|.+.+   ..++. -.|.|+|+..||.+-+.  .-||+|+.+
T Consensus         8 LrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~P   49 (65)
T PF14835_consen    8 LRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTP   49 (65)
T ss_dssp             TS-SSS-S-----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B
T ss_pred             cCCcHHHHHh---cCCceeccCccHHHHHHhHHhcC--CCCCCcCCh
Confidence            5799999999   45544 56999999999988554  459999865

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

Probab=97.49  E-value=5.3e-05  Score=68.19  Aligned_cols=47  Identities=32%  Similarity=0.730  Sum_probs=42.4

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ++..|.||..-+   ..++.+||||.|+..||.+-+.....||+||.+++
T Consensus        83 sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   83 SEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             chhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCcccccccc
Confidence            568999999999   67888899999999999998888889999998763

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

Probab=97.49  E-value=2.3e-05  Score=74.65  Aligned_cols=49  Identities=18%  Similarity=0.551  Sum_probs=43.5

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|++|+..+.++......+|+|.||..||..|-+.-.+||+||.++
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            4578999999998776677788999999999999999999999999875

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

Probab=97.44  E-value=7.6e-05  Score=66.00  Aligned_cols=51  Identities=31%  Similarity=0.848  Sum_probs=37.9

Q ss_pred             CCCccccccccccccCCC----ceEEcc-CCCcccHHHHHHHH--hc-----CCCCCCCCccC
Q 042704          150 GCSQQYCVICLEVMKEGS----KAARMP-CSHIYHQDCLVNWL--KN-----SSLCPLCRFQL  200 (201)
Q Consensus       150 ~~~~~~C~ICle~~~~~~----~~~~Lp-C~H~FH~~CI~~WL--~~-----~~~CPlCR~~l  200 (201)
                      ...+..|.||++......    ....|| |.|.||..||.+|-  .+     ...||.||...
T Consensus       158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            346789999999875322    022345 99999999999997  34     46899999753

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

Probab=97.17  E-value=0.00014  Score=64.89  Aligned_cols=44  Identities=32%  Similarity=0.887  Sum_probs=37.2

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlCR~~l  200 (201)
                      .-|-||-|.=   ..+..=||||..|..|+..|..  ...+||.||.++
T Consensus       370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            4699999876   4677789999999999999984  357999999876

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

Probab=97.14  E-value=0.00015  Score=64.57  Aligned_cols=47  Identities=38%  Similarity=0.870  Sum_probs=37.7

Q ss_pred             CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCC--CCCCCCc
Q 042704          152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSS--LCPLCRF  198 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~--~CPlCR~  198 (201)
                      .+..|-.|=|-+.... ...-|||.|+||..|+...|.++.  +||.||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            3468999999886543 345599999999999999997554  8999984

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

Probab=97.00  E-value=0.00043  Score=45.68  Aligned_cols=41  Identities=20%  Similarity=0.621  Sum_probs=27.7

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhc--CCCCCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN--SSLCPL  195 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~--~~~CPl  195 (201)
                      ...|+|.+..|+  +.++...|+|.|-++.|.+|+++  ...||+
T Consensus        11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            478999999995  44455689999999999999943  447998

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

Probab=96.97  E-value=0.00026  Score=67.47  Aligned_cols=45  Identities=22%  Similarity=0.622  Sum_probs=37.5

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      -..|++|-.-++   .++...|+|+||..||.+-+. ++..||.|...+
T Consensus       643 ~LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF  688 (698)
T KOG0978|consen  643 LLKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAF  688 (698)
T ss_pred             ceeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence            358999998874   555667999999999999986 778999998765

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

Probab=96.91  E-value=0.00071  Score=60.57  Aligned_cols=45  Identities=27%  Similarity=0.617  Sum_probs=36.8

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHh--------cCCCCCCCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--------NSSLCPLCR  197 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--------~~~~CPlCR  197 (201)
                      -.+|.||+++.........|||+|+||+.|+..++.        +.-.||-+.
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            378999999997667888899999999999999975        223687654

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

Probab=96.75  E-value=0.001  Score=67.40  Aligned_cols=49  Identities=31%  Similarity=0.795  Sum_probs=40.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC----------CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----------SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----------~~CPlCR~~l  200 (201)
                      .++.|.||+.+-...-...+|.|+|.||..|..+-|.+.          -.||+|..++
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            567899999987666677889999999999998776532          2799999875

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

Probab=96.75  E-value=0.00059  Score=61.56  Aligned_cols=46  Identities=33%  Similarity=0.857  Sum_probs=39.5

Q ss_pred             CccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      .+..|++|...+.   .+.. ..|+|.||..|+..|+..+..||.||..+
T Consensus        20 ~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~   66 (391)
T KOG0297|consen   20 ENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL   66 (391)
T ss_pred             ccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCccccccc
Confidence            3478999999994   4455 58999999999999999999999998764

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

Probab=96.73  E-value=0.00038  Score=60.65  Aligned_cols=45  Identities=24%  Similarity=0.693  Sum_probs=37.6

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      -..|.+|-..|-  +..+...|-|.||++||.+.|....+||.|...
T Consensus        15 ~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~   59 (331)
T KOG2660|consen   15 HITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIV   59 (331)
T ss_pred             ceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence            368999999994  334445599999999999999999999999754

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

Probab=96.69  E-value=0.0012  Score=41.85  Aligned_cols=40  Identities=35%  Similarity=0.927  Sum_probs=27.4

Q ss_pred             cccccccccCCCceEEccCC-----CcccHHHHHHHHh--cCCCCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCS-----HIYHQDCLVNWLK--NSSLCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~-----H~FH~~CI~~WL~--~~~~CPlC  196 (201)
                      |-||++.-..+. ....||+     -..|.+|+.+|+.  ++..|++|
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            679999876544 5678863     3689999999997  55679987

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

Probab=96.61  E-value=0.00059  Score=54.03  Aligned_cols=29  Identities=48%  Similarity=1.019  Sum_probs=26.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccH
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQ  180 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~  180 (201)
                      +..+|.||||++..|+.+.+|||-.+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccceEEEeec
Confidence            45799999999999999999999999996

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

Probab=96.49  E-value=0.0017  Score=41.29  Aligned_cols=43  Identities=28%  Similarity=0.624  Sum_probs=22.4

Q ss_pred             cccccccccCCCceEEcc--CCCcccHHHHHHHHh-cCCCCCCCCcc
Q 042704          156 CVICLEVMKEGSKAARMP--CSHIYHQDCLVNWLK-NSSLCPLCRFQ  199 (201)
Q Consensus       156 C~ICle~~~~~~~~~~Lp--C~H~FH~~CI~~WL~-~~~~CPlCR~~  199 (201)
                      |++|.+++.. .....+|  |++.++..|..+-++ .+..||-||.+
T Consensus         1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            7899999832 3334456  789999999999886 57899999986

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

Probab=96.45  E-value=0.0033  Score=53.68  Aligned_cols=47  Identities=30%  Similarity=0.507  Sum_probs=36.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlCR~~l  200 (201)
                      ++.+|++|-+.-.  ..-...+|+|+||..||..-+.  ...+||.|-.+.
T Consensus       238 ~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  238 SDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             CCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            6789999999874  2334567999999999988765  346999997654

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

Probab=96.30  E-value=0.0015  Score=53.43  Aligned_cols=43  Identities=19%  Similarity=0.467  Sum_probs=38.1

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      ..|.||-++|   ..++...|||.||..|..+-.+....|-+|-+.
T Consensus       197 F~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         197 FLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             eeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            5899999999   677788999999999999988888899999653

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

Probab=96.04  E-value=0.0023  Score=46.48  Aligned_cols=32  Identities=25%  Similarity=0.665  Sum_probs=27.3

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHH
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLV  184 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~  184 (201)
                      .+..|++|-..+.. ......||||+||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            45789999999966 567789999999999975

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 [].

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

Probab=95.97  E-value=0.0071  Score=53.36  Aligned_cols=46  Identities=35%  Similarity=0.701  Sum_probs=39.1

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHH--HhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW--LKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~W--L~~~~~CPlCR~~l  200 (201)
                      +..-|.||.+.+   ....++||+|..|.-|..+.  |...+.||+||.+.
T Consensus        60 en~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          60 ENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            556899999998   68889999999999998654  66888999999763

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

Probab=95.94  E-value=0.01  Score=52.45  Aligned_cols=50  Identities=26%  Similarity=0.558  Sum_probs=41.8

Q ss_pred             ccCCCccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          148 IEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       148 ~~~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +++..+.-|+||.-.-   ...+..||+|.-|+.||.+-+-+.+.|=.|+..+
T Consensus       417 lp~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv  466 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV  466 (489)
T ss_pred             CCCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence            4455678999998765   5667789999999999999999999999998654

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

Probab=95.57  E-value=0.009  Score=45.98  Aligned_cols=36  Identities=17%  Similarity=0.530  Sum_probs=29.4

Q ss_pred             ccccccccccccCCCceEEccCC------CcccHHHHHHHHh
Q 042704          153 QQYCVICLEVMKEGSKAARMPCS------HIYHQDCLVNWLK  188 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~------H~FH~~CI~~WL~  188 (201)
                      ..+|.||++.+..++-++.++|+      |.||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            36899999999874556677774      8899999999943

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.

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

Probab=95.57  E-value=0.0044  Score=53.44  Aligned_cols=44  Identities=20%  Similarity=0.529  Sum_probs=39.3

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      ...|-||-..|   ..+++..|+|.||..|..+=+++...|++|.+.
T Consensus       241 Pf~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~  284 (313)
T KOG1813|consen  241 PFKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQ  284 (313)
T ss_pred             Ccccccccccc---ccchhhcCCceeehhhhccccccCCcceecccc
Confidence            35799999999   677889999999999999999999999999765

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

Probab=95.55  E-value=0.01  Score=49.46  Aligned_cols=47  Identities=26%  Similarity=0.711  Sum_probs=38.7

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHh--------cCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--------NSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--------~~~~CPlCR~~l  200 (201)
                      ...|..|-.-+..|+ .++|-|-|.||-+|+..|-.        ....||-|..++
T Consensus        50 ~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            357999999998875 45788999999999999975        234799998875

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

Probab=95.54  E-value=0.0022  Score=55.18  Aligned_cols=41  Identities=24%  Similarity=0.735  Sum_probs=32.7

Q ss_pred             ccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..-|+||++..   ....-|+|||. -|.+|-.+.    +.||+||+.+
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence            46799999988   67889999998 677776543    4899999753

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.51  E-value=0.013  Score=46.33  Aligned_cols=47  Identities=23%  Similarity=0.680  Sum_probs=31.5

Q ss_pred             CccccccccccccCCCceEEccCCC---cccHHHHHHHHh--cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSH---IYHQDCLVNWLK--NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H---~FH~~CI~~WL~--~~~~CPlCR~~l  200 (201)
                      .+..|-||.++..  ....-=.|+.   .-|.+|+.+|+.  +...|++|+++.
T Consensus         7 ~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          7 MDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            4578999998853  1111000333   469999999997  445899998753

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

Probab=95.51  E-value=0.0087  Score=51.48  Aligned_cols=48  Identities=27%  Similarity=0.597  Sum_probs=39.6

Q ss_pred             CCccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCc
Q 042704          151 CSQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRF  198 (201)
Q Consensus       151 ~~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~  198 (201)
                      .....|+||.+.+..+. .+..++|||..|..|+......+.+||+|.+
T Consensus       156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            34567999999887654 4566899999999999998877799999976

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

Probab=95.23  E-value=0.0089  Score=55.41  Aligned_cols=46  Identities=22%  Similarity=0.669  Sum_probs=37.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh-----cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-----NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-----~~~~CPlCR~~l  200 (201)
                      +...|-+|.+.-   .......|.|.||+.||..+..     .+.+||.|-..|
T Consensus       535 ~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  535 GEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             CceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            667899999987   4566788999999999998875     345899997655

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

Probab=95.22  E-value=0.0096  Score=52.63  Aligned_cols=43  Identities=33%  Similarity=0.816  Sum_probs=30.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|.||+++..   ...-+||||.-+  |..--. ....||+||+.+
T Consensus       304 ~p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI  346 (355)
T KOG1571|consen  304 QPDLCVVCLDEPK---SAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRI  346 (355)
T ss_pred             CCCceEEecCCcc---ceeeecCCcEEE--chHHHh-hCCCCchhHHHH
Confidence            3468999999994   577899999955  543332 234599999753

>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=95.15  E-value=0.0097  Score=36.94  Aligned_cols=41  Identities=29%  Similarity=0.869  Sum_probs=23.2

Q ss_pred             cccccccccCCCceEEccCCCcccHHHHHHHHhcCC--CCCCC
Q 042704          156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS--LCPLC  196 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~--~CPlC  196 (201)
                      |.+|-+....|..-....|+=.+|..|+..+++...  .||.|
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            678888886554322234888999999999998655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.66  E-value=0.0019  Score=57.56  Aligned_cols=49  Identities=35%  Similarity=0.698  Sum_probs=41.4

Q ss_pred             ccccccccccccCC-CceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          153 QQYCVICLEVMKEG-SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       153 ~~~C~ICle~~~~~-~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ...|+||.+.++.. +....+-|+|.+|..|+.+||.....||.||.+++
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            46899999999754 44556779999999999999998889999998774

>PHA03096 p28-like protein; Provisional

Probab=94.40  E-value=0.023  Score=49.20  Aligned_cols=45  Identities=27%  Similarity=0.476  Sum_probs=31.8

Q ss_pred             cccccccccccCC----CceEEcc-CCCcccHHHHHHHHhcC---CCCCCCCc
Q 042704          154 QYCVICLEVMKEG----SKAARMP-CSHIYHQDCLVNWLKNS---SLCPLCRF  198 (201)
Q Consensus       154 ~~C~ICle~~~~~----~~~~~Lp-C~H~FH~~CI~~WL~~~---~~CPlCR~  198 (201)
                      ..|.||++.....    ..-..|+ |.|.|+..||..|-...   .+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999977542    2233465 99999999999997532   35665553

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

Probab=94.28  E-value=0.029  Score=54.51  Aligned_cols=46  Identities=30%  Similarity=0.849  Sum_probs=33.8

Q ss_pred             CccccccccccccCCCce-EEccCCCcccHHHHHHHHhcC-------CCCCCCC
Q 042704          152 SQQYCVICLEVMKEGSKA-ARMPCSHIYHQDCLVNWLKNS-------SLCPLCR  197 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~-~~LpC~H~FH~~CI~~WL~~~-------~~CPlCR  197 (201)
                      ...+|.||.+.+.....+ ..-.|-|+||..||.+|-...       -.||-|+
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq  243 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ  243 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence            457999999998643221 123489999999999997521       1699998

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

Probab=93.78  E-value=0.056  Score=43.64  Aligned_cols=47  Identities=32%  Similarity=0.820  Sum_probs=32.7

Q ss_pred             cccccccccccCCCceEE----ccCCCcccHHHHHHHHh-----cCC------CCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAAR----MPCSHIYHQDCLVNWLK-----NSS------LCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~----LpC~H~FH~~CI~~WL~-----~~~------~CPlCR~~l  200 (201)
                      ..|-||.-.-..|..+-.    ..|+.-||.-|+..||+     +++      .||.|..++
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi  227 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI  227 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence            457777665544443222    44999999999999997     222      699998775

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.66  E-value=0.032  Score=36.41  Aligned_cols=42  Identities=31%  Similarity=0.746  Sum_probs=30.1

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|..|...-   .....+||+|..+..|..-  .+-+-||+|-.++
T Consensus         8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~   49 (55)
T PF14447_consen    8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPF   49 (55)
T ss_pred             eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcc
Confidence            3455555443   4567899999999999765  3567899997665

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

Probab=93.54  E-value=0.04  Score=47.88  Aligned_cols=41  Identities=24%  Similarity=0.718  Sum_probs=34.6

Q ss_pred             cccccccccccCCCceEEcc-CCCcccHHHHHHHHh-cCCCCCCCC
Q 042704          154 QYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLK-NSSLCPLCR  197 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~-~~~~CPlCR  197 (201)
                      ..|+.|...+   ..+.+.| |+|.|+.+||..-|- .-..||.|.
T Consensus       275 LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~  317 (427)
T COG5222         275 LKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS  317 (427)
T ss_pred             ccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcc
Confidence            7899999999   5667777 799999999997765 556899994

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.50  E-value=0.076  Score=45.27  Aligned_cols=48  Identities=17%  Similarity=0.397  Sum_probs=37.3

Q ss_pred             CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+|...+|.... .+...||||+|...+|...- ....||+|-.++
T Consensus       112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f  160 (260)
T PF04641_consen  112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPF  160 (260)
T ss_pred             ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcc
Confidence            4578999999995433 34456899999999999873 356899997764

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

Probab=93.48  E-value=0.071  Score=51.96  Aligned_cols=41  Identities=29%  Similarity=0.689  Sum_probs=31.7

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      ..|..|--.+.  -..+..-|+|.||.+|+.   .....||-|+.+
T Consensus       841 skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            58999998883  233445699999999998   455689999864

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

Probab=92.77  E-value=0.09  Score=46.95  Aligned_cols=27  Identities=26%  Similarity=0.958  Sum_probs=21.7

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCCCCCccC
Q 042704          174 CSHIYHQDCLVNWLK-------------NSSLCPLCRFQL  200 (201)
Q Consensus       174 C~H~FH~~CI~~WL~-------------~~~~CPlCR~~l  200 (201)
                      |...+|.+|+-+|+.             ++..||.||+++
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            567789999999985             334899999875

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

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.72  E-value=0.12  Score=43.77  Aligned_cols=48  Identities=15%  Similarity=0.413  Sum_probs=40.2

Q ss_pred             ccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..-|+||.+.+.+...... -||||+|..+|+.+.+..-..||+|-.++
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl  269 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL  269 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence            4579999999986554444 47999999999999999999999997665

>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=92.03  E-value=0.057  Score=34.19  Aligned_cols=31  Identities=32%  Similarity=0.710  Sum_probs=23.3

Q ss_pred             EccC-CCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          171 RMPC-SHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       171 ~LpC-~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ...| .|..+..|+...|.++..||+|..++|
T Consensus        15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen   15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            3457 599999999999999999999999886

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.

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

Probab=91.65  E-value=0.17  Score=45.51  Aligned_cols=48  Identities=27%  Similarity=0.512  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC---CCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS---LCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~---~CPlCR~~  199 (201)
                      +-..|||=-+.-.++..+.+|.|||+..++-+.+.-++..   .||.|-.+
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            5578999888888888999999999999999999876543   79999543

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

Probab=91.64  E-value=0.071  Score=51.42  Aligned_cols=42  Identities=31%  Similarity=0.774  Sum_probs=35.2

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcC--CCCCCCCcc
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS--SLCPLCRFQ  199 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~--~~CPlCR~~  199 (201)
                      ..|.||++ .   +.+...+|+|.|+.+|+..-+...  ..||+||..
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~  498 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNV  498 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHH
Confidence            78999999 4   677888999999999999887633  369999864

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

Probab=91.13  E-value=0.1  Score=43.23  Aligned_cols=37  Identities=30%  Similarity=0.707  Sum_probs=29.2

Q ss_pred             cccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCcc
Q 042704          156 CVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       156 C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      |-.|-+.-   ..+..+||.|. +|..|=..    -..||+|+..
T Consensus       161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~  198 (207)
T KOG1100|consen  161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSP  198 (207)
T ss_pred             ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcCh
Confidence            88888876   67889999988 88888543    3469999864

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

Probab=90.85  E-value=0.11  Score=45.44  Aligned_cols=41  Identities=24%  Similarity=0.736  Sum_probs=29.2

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      .|.-|=--+.  ..-+.+||+|+||.+|...  ..-+.||.|-..
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~  132 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDR  132 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccH
Confidence            5666654443  4567899999999999754  334689999654

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

Probab=90.31  E-value=0.14  Score=50.15  Aligned_cols=35  Identities=29%  Similarity=0.640  Sum_probs=28.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHH
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL  187 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL  187 (201)
                      ..+.|.+|...+... .-.+.||||.||.+||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            468999999988643 55678999999999998664

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

Probab=90.18  E-value=0.21  Score=43.95  Aligned_cols=45  Identities=16%  Similarity=0.588  Sum_probs=35.5

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~  199 (201)
                      ....|++|+..-.+   +..+. -|-+||..||...+..++.||+=-.+
T Consensus       299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            45689999998843   33443 58999999999999999999985443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.28  E-value=0.22  Score=43.15  Aligned_cols=27  Identities=30%  Similarity=0.835  Sum_probs=21.9

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCCCCCccC
Q 042704          174 CSHIYHQDCLVNWLK-------------NSSLCPLCRFQL  200 (201)
Q Consensus       174 C~H~FH~~CI~~WL~-------------~~~~CPlCR~~l  200 (201)
                      |...+|.+|+-+|+.             ++.+||+||+.+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f  364 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF  364 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence            567789999999975             445899999875

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=89.13  E-value=0.4  Score=31.20  Aligned_cols=33  Identities=30%  Similarity=0.719  Sum_probs=27.8

Q ss_pred             ccccccccccccCCCceEEcc-CCCcccHHHHHH
Q 042704          153 QQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVN  185 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~  185 (201)
                      ...|++|-+.|+.++.+++-| |+--+|++|..+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            467999999998777777766 999999999754

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

Probab=88.87  E-value=0.13  Score=52.35  Aligned_cols=43  Identities=33%  Similarity=0.786  Sum_probs=36.6

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR  197 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR  197 (201)
                      -..|.||++.+..  .-...-|+|.++..|+..|+..+..||+|.
T Consensus      1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~k 1195 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICK 1195 (1394)
T ss_pred             ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchh
Confidence            3589999999952  334566999999999999999999999996

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.34  E-value=0.31  Score=41.51  Aligned_cols=48  Identities=29%  Similarity=0.768  Sum_probs=34.2

Q ss_pred             CccccccccccccCCCce-EEccC-----CCcccHHHHHHHHhc--------CCCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSKA-ARMPC-----SHIYHQDCLVNWLKN--------SSLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~-~~LpC-----~H~FH~~CI~~WL~~--------~~~CPlCR~~  199 (201)
                      .+..|=||+.--++.... -+-||     .|-.|..|+..|+..        .-+||.|+.+
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE   80 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE   80 (293)
T ss_pred             cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence            567899999876533222 24576     477999999999852        2279999865

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

Probab=87.15  E-value=0.38  Score=46.70  Aligned_cols=41  Identities=29%  Similarity=0.834  Sum_probs=30.3

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPL  195 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPl  195 (201)
                      ..|+||.--.. |.......|+|+.|.+|...|+...-.||.
T Consensus      1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            35666654442 334455679999999999999998889984

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

Probab=87.07  E-value=0.53  Score=36.30  Aligned_cols=47  Identities=28%  Similarity=0.559  Sum_probs=34.8

Q ss_pred             CccccccccccccCCCceEEcc---CCCcccHHHHHHHHh---cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP---CSHIYHQDCLVNWLK---NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp---C~H~FH~~CI~~WL~---~~~~CPlCR~~l  200 (201)
                      .-.+|.||.|...+..  ..-|   ||-..+..|-...++   .+..||+|+..+
T Consensus        79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF  131 (140)
T PF05290_consen   79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF  131 (140)
T ss_pred             CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence            3479999999985332  2234   898899999877766   455899998765

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

Probab=86.61  E-value=0.29  Score=42.06  Aligned_cols=47  Identities=30%  Similarity=0.687  Sum_probs=35.1

Q ss_pred             ccccccccccccCCCc-eEEccCC-----CcccHHHHHHHHh--cCCCCCCCCcc
Q 042704          153 QQYCVICLEVMKEGSK-AARMPCS-----HIYHQDCLVNWLK--NSSLCPLCRFQ  199 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~-~~~LpC~-----H~FH~~CI~~WL~--~~~~CPlCR~~  199 (201)
                      ...|-||.++...... ....||.     ...|+.|+.+|+.  ++..|.+|...
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~  132 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF  132 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence            3689999997743211 5677863     4579999999997  66689999764

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

Probab=85.08  E-value=0.73  Score=40.26  Aligned_cols=42  Identities=24%  Similarity=0.691  Sum_probs=32.1

Q ss_pred             CccccccccccccCCCceEEccC--CCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPC--SHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC--~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +-.+|+||.+.+..    -.+.|  ||.-|..|-.+   .++.||.||.++
T Consensus        47 ~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~   90 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSP----PIFQCDNGHLACSSCRTK---VSNKCPTCRLPI   90 (299)
T ss_pred             hhccCchhhccCcc----cceecCCCcEehhhhhhh---hcccCCcccccc
Confidence            45799999999942    24456  89999998753   456899999876

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=83.66  E-value=0.72  Score=40.95  Aligned_cols=47  Identities=32%  Similarity=0.639  Sum_probs=31.7

Q ss_pred             ccccccccccccCCCceE-EccCCCcccHHHHHHHHh-cCCCCCCCCcc
Q 042704          153 QQYCVICLEVMKEGSKAA-RMPCSHIYHQDCLVNWLK-NSSLCPLCRFQ  199 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~-~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~  199 (201)
                      ++.|+.|+|.+...+.-. --|||-..|.-|....-+ -+..||-||..
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~   62 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK   62 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence            355999999986544332 245787777777655433 35689999864

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=82.89  E-value=2  Score=37.99  Aligned_cols=72  Identities=14%  Similarity=0.385  Sum_probs=50.5

Q ss_pred             HHhHHHHHhhhhhhhhhcCCcccCCCccccccccccccCCCceEEccCCCcccHHHHHHHH-hcCCCCCCCCcc
Q 042704          127 AAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL-KNSSLCPLCRFQ  199 (201)
Q Consensus       127 ~~~~~~~~~~l~~~~~~~~p~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL-~~~~~CPlCR~~  199 (201)
                      ..+.++....+|...+...|..+......|-.|.++...+...+.-.|.+.||.+|= ..+ ..-+.||-|...
T Consensus       304 ~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCD-v~iHesLh~CpgCeh~  376 (378)
T KOG2807|consen  304 PHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCD-VFIHESLHNCPGCEHK  376 (378)
T ss_pred             hHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccch-HHHHhhhhcCCCcCCC
Confidence            345555555666666667776665556779999888877666666679999999993 333 344579999654

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

Probab=81.92  E-value=1.3  Score=42.96  Aligned_cols=42  Identities=26%  Similarity=0.528  Sum_probs=31.6

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPL  195 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPl  195 (201)
                      ...|++|--.+. |..+-.--|+|.-|.+|+.+|+..+..||.
T Consensus       779 ~~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  779 SAKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             hcCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence            347888877763 222333349999999999999999888876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	201
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		7e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		8e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-05
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		8e-05
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		6e-04

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 29/46 (63%)
Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C ICL +++EG    R+PC H++HQ C+  WL  +  CP+CR  + 
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE 62

>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 = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C +C E    G    ++PC+H++H  C+V WL+    CP+CR  L+
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLC 196
           + C +CLE  K   +    PC H +H+ CL+ WL+   +CPLC
Sbjct: 16  ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +CL  +++G +A  +P C H +H +C+  WL + S CPLCR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 43.5 bits (101), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C IC     +G  A  +PC H +H+ C+  WL+ S  CP+CR
Sbjct: 43  CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           Q  CV+C+   +       +PC+H +H  C+  WLK +  CP+CR
Sbjct: 23  QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	201
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-18
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-17
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-16
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	8e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-15
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	9e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-12
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	8e-12
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	9e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	8e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	9e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-08
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	5e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	9e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	4e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	9e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	9e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	9e-04

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

 Score = 76.2 bits (188), Expect = 1e-18
 Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 130 DEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN 189
            +    ++   ++       G     C IC     +G  A  +PC H +H+ C+  WL+ 
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMC-CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76

Query: 190 SSLCPLCRFQL 200
           S  CP+CR   
Sbjct: 77  SGTCPVCRCMF 87

>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 = 72.1 bits (177), Expect = 3e-17
 Identities = 17/45 (37%), Positives = 26/45 (57%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +C E    G    ++PC+H++H  C+V WL+    CP+CR  L
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 69.4 bits (170), Expect = 3e-16
 Identities = 17/45 (37%), Positives = 25/45 (55%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +CLE  K   +    PC H +H+ CL+ WL+   +CPLC   +
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62

>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 = 67.8 bits (166), Expect = 8e-16
 Identities = 20/53 (37%), Positives = 33/53 (62%)

Query: 149 EGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           E  +++ C ICL +++EG    R+PC H++HQ C+  WL  +  CP+CR  + 
Sbjct: 10  EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE 62

>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 = 65.4 bits (160), Expect = 6e-15
 Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 156 CVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C ICLE +      A  +PC H+ H+ C    LK    CPLC    S
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 62.7 bits (153), Expect = 9e-14
 Identities = 15/46 (32%), Positives = 24/46 (52%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           CV+C+   +       +PC+H +H  C+  WLK +  CP+CR    
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71

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

 Score = 58.6 bits (142), Expect = 3e-12
 Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C ICLE     S A  +PC H +   C+  W++ +  CPLC+
Sbjct: 8   CPICLEDPSNYSMA--LPCLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 58.8 bits (142), Expect = 3e-12
 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)

Query: 156 CVICLEVMKEGSKAARM----PCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC++   E  +  R+     C H++   CL + LKN++ CP CR +++
Sbjct: 18  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67

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

 Score = 58.6 bits (142), Expect = 3e-12
 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC++    G     +PC+H + Q C+  W      CP+CR Q++
Sbjct: 18  CCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59

>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 = 57.5 bits (139), Expect = 8e-12
 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)

Query: 156 CVICLEVMKEGSKAARM----PCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC++   E  +  R+     C H++   CL + LKN++ CP CR +++
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 62

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

 Score = 56.8 bits (138), Expect = 9e-12
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +CL  +++G +A  +P C H +H +C+  WL + S CPLCR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)

Query: 156 CVICLEVMKEGSKAARM----PCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC++   E  +  R+     C H++   CL + LKN++ CP CR +++
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 55

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

 Score = 52.5 bits (126), Expect = 6e-10
 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 3/55 (5%)

Query: 147 AIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
                +   C ICL+          +PC H++   C+         C LCR ++ 
Sbjct: 9   TAPSLTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

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

 Score = 50.3 bits (120), Expect = 5e-09
 Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 1/43 (2%)

Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCR 197
           C+ C    K+         C+H +H  C+  W+K ++ CPLC+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 50.2 bits (120), Expect = 6e-09
 Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 3/42 (7%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C IC +  +         C H + + C +   + +  C +C 
Sbjct: 18  CFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 49.5 bits (118), Expect = 8e-09
 Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 4/44 (9%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS--SLCPLCR 197
           C IC  ++ +G       C    H  C+  + +++    CP C 
Sbjct: 18  CNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 49.4 bits (118), Expect = 9e-09
 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 2/46 (4%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC   + +        C H + + C+V     S+ CP C   + 
Sbjct: 18  CSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

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

 Score = 50.8 bits (121), Expect = 2e-08
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C+IC E   E   A  + C+H +   C+  W+K    CP+CR
Sbjct: 67  CIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICR 105

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

 Score = 49.8 bits (118), Expect = 2e-08
 Identities = 17/86 (19%), Positives = 31/86 (36%), Gaps = 20/86 (23%)

Query: 132 AVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARM---------------PCSH 176
             +      + K    ++   ++ C+IC+E +   S  + M                CSH
Sbjct: 4   GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 177 IYHQDCLVNWLKNSS-----LCPLCR 197
            +H  CL+    N +      CP C+
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSCK 89

>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 = 49.1 bits (117), Expect = 3e-08
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 4/58 (6%)

Query: 145 APAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
             AI   S+  C IC+E++ E      +PC+H   + C  + ++ +SL CP CR ++S
Sbjct: 7   KDAIPSLSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61

>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 = 50.9 bits (121), Expect = 5e-08
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQLS 201
           + Q C IC E  K+       PC H+    CL +W ++    CP CR ++ 
Sbjct: 331 TFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378

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

 Score = 47.9 bits (113), Expect = 1e-07
 Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 4/50 (8%)

Query: 156 CVICLEVMKEGSKAAR----MPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC++   E  +  R      C H++   CL + LKN++ CP CR +++
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59

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

 Score = 44.0 bits (103), Expect = 3e-06
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 156 CVICLEVMKEGSKAAR----MPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C IC++   E  +  R      C H++   CL + LKN++ CP CR
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120

>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 = 47.1 bits (112), Expect = 2e-07
 Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           CV+C     + +    + C H + + C+V +L+ S  CP+C  Q+ 
Sbjct: 18  CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVH 61

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 46.8 bits (110), Expect = 2e-07
 Identities = 12/47 (25%), Positives = 17/47 (36%)

Query: 151 CSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
              +          E    A   C+H +H  C+  WLK   +CPL  
Sbjct: 61  LCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 46.4 bits (109), Expect = 3e-07
 Identities = 12/47 (25%), Positives = 17/47 (36%)

Query: 151 CSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
              +          E    A   C+H +H  C+  WLK   +CPL  
Sbjct: 50  LCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 46.0 bits (109), Expect = 3e-07
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWL-KNSSLCPLCRFQLS 201
           C IC+E +++        CS +    C+  WL +  + CP CR  L 
Sbjct: 25  CFICMEKLRDARLC--PHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ 69

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

 Score = 47.2 bits (111), Expect = 9e-07
 Identities = 15/65 (23%), Positives = 21/65 (32%), Gaps = 16/65 (24%)

Query: 153 QQYCVICLEVMKEGSKAARM-----PCSHIYHQDCLVNWLKNSS-----------LCPLC 196
           +  C IC     +G +   +      C    H  CL  W K               CP C
Sbjct: 308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFC 367

Query: 197 RFQLS 201
           + +LS
Sbjct: 368 KAKLS 372

>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 = 44.6 bits (105), Expect = 2e-06
 Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
           C+ C E++          C H   +DCL    +     CP CR+ L 
Sbjct: 55  CICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

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

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 6/48 (12%)

Query: 156 CVICLEVMKEGSKAARM--PCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C IC E        A +   CSH Y   C+  +L   + CP C   ++
Sbjct: 25  CGICFEYFNI----AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68

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

 Score = 42.1 bits (99), Expect = 4e-06
 Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
           C  C  V+       +  C H + + C+   L +SS  C  C+  + 
Sbjct: 18  CEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIV 61

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

 Score = 41.2 bits (96), Expect = 1e-05
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 152 SQQYCVICLEVMKEGSKAA-RMPCSHIYHQDCLVNWLKN-SSLCPLCR 197
               C +C+E ++          C +   + C      + + LCP CR
Sbjct: 10  DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 41.7 bits (98), Expect = 2e-05
 Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 4/47 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
           C ICL  ++E   A + PC H + + C++  ++++   CP+    L 
Sbjct: 21  CPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

>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 = 41.9 bits (98), Expect = 2e-05
 Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
           CV C E++ +        C H   +DCL    K     CP CR  L 
Sbjct: 81  CVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG 124

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

 Score = 42.8 bits (100), Expect = 2e-05
 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS--SLCPLCR 197
           + C IC  ++ +G       C    H  C+  + +++    CP C 
Sbjct: 181 KICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCN 224

>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 = 39.3 bits (92), Expect = 5e-05
 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 6/45 (13%)

Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSS--LCPLCR 197
           C+IC ++M +   A  +P C + Y  +C+   L  S    CP C 
Sbjct: 18  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

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

 Score = 38.9 bits (91), Expect = 9e-05
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 156 CVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSS---LCPLCR 197
           C IC+E   E     ++  C H   + CL   L +S     CP C 
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 6/45 (13%)

Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSL--CPLCR 197
           C+IC ++M +   A  +P C + Y  +C+   L  S    CP C 
Sbjct: 16  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 6/45 (13%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS---SLCPLCR 197
           C ICL+++++      + C H +   C+    + S     CPLC+
Sbjct: 23  CPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

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

 Score = 38.4 bits (89), Expect = 4e-04
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 7/49 (14%)

Query: 156 CVICLEVMKEGSKAARM--PCSHIYHQDCLVNWLKNS-SLCPLCRFQLS 201
           C ICL+++K           C H +  DC++  L++    CP CR +L 
Sbjct: 57  CPICLDMLKN----TMTTKECLHRFCADCIITALRSGNKECPTCRKKLV 101

>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 = 17/45 (37%), Positives = 24/45 (53%), Gaps = 6/45 (13%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS---SLCPLCR 197
           C ICLE++KE        C HI+ + C++  L      S CPLC+
Sbjct: 24  CPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

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

 Score = 36.8 bits (85), Expect = 9e-04
 Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           C  C  +++E        C HI+  +C+ + +     CP+C 
Sbjct: 25  CSRCTNILRE--PVCLGGCEHIFCSNCVSDCIGTG--CPVCY 62

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

 Score = 35.4 bits (82), Expect = 9e-04
 Identities = 11/46 (23%), Positives = 15/46 (32%), Gaps = 6/46 (13%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C  C    K       +PC H     CL     +   CP+C+    
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLE---ASGMQCPICQAPWP 48

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	201
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.59
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.58
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.57
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.55
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.53
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.51
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.51
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.49
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.45
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.43
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.42
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.4
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.4
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.4
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.35
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
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.33
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.32
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.32
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.32
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.32
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.31
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.29
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.29
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.25
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.25
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.23
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.23
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.22
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.22
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.21
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.21
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.19
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.16
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.16
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.15
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.15
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.13
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.13
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.12
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.1
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.07
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.07
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.04
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.0
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.97
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.97
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.94
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.94
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.91
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.86
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.85
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.82
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.79
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.78
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.73
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.69
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.65
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.64
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.56
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.51
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.38
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.17
3nw0_A	238	Non-structural maintenance of chromosomes element	97.88
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.54
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.26
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	92.21
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	91.32
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	88.86
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.78
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	83.9
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	82.91

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

Probab=99.59  E-value=6.2e-16  Score=99.78  Aligned_cols=50  Identities=36%  Similarity=0.955  Sum_probs=45.8

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ++..|+||++.+..++.+..+| |+|.||..||.+|++++.+||+||++++
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            3578999999998888889998 9999999999999999999999999874

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

Probab=99.58  E-value=6.9e-16  Score=110.16  Aligned_cols=50  Identities=34%  Similarity=0.922  Sum_probs=46.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.|..+..++.+||+|.||..||.+|++.+.+||+||.+++
T Consensus        39 ~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            45789999999988888999999999999999999999999999999874

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

Probab=99.57  E-value=1.3e-15  Score=104.59  Aligned_cols=50  Identities=32%  Similarity=0.865  Sum_probs=46.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.|..+..++.+||+|.||..||.+|++.+.+||+||+++.
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~   71 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG   71 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCC
Confidence            45789999999988888899999999999999999999999999999873

>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=99.55  E-value=2.8e-15  Score=101.14  Aligned_cols=49  Identities=39%  Similarity=1.120  Sum_probs=45.4

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.|..+..++.+||+|.||..||.+|++.+.+||+||.++
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI   61 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBS
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccc
Confidence            4578999999998888899999999999999999999999999999876

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

Probab=99.53  E-value=4.3e-15  Score=101.53  Aligned_cols=49  Identities=35%  Similarity=0.996  Sum_probs=45.3

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+..+..++.+||+|.||..||.+|++.+.+||+||+++
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~   62 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV   62 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccc
Confidence            4578999999998888888899999999999999999989999999886

>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=99.51  E-value=9.5e-15  Score=94.03  Aligned_cols=50  Identities=36%  Similarity=0.724  Sum_probs=43.8

Q ss_pred             CccccccccccccCC-CceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEG-SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~-~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      +...|+||++.+..+ ..++.+||+|.||..||.+|++.+.+||+||.+++
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            457899999999643 35778999999999999999998899999999875

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

Probab=99.51  E-value=6.8e-15  Score=101.51  Aligned_cols=49  Identities=37%  Similarity=0.962  Sum_probs=45.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.|..+..+..+||+|.||..||.+|++.+.+||+||.++
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   62 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL   62 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCC
T ss_pred             CCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCcc
Confidence            4579999999998877888899999999999999999999999999876

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

Probab=99.49  E-value=9e-15  Score=102.26  Aligned_cols=50  Identities=26%  Similarity=0.670  Sum_probs=40.4

Q ss_pred             Ccccccccccccc-----------CCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMK-----------EGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~-----------~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      .+..|+||++.|.           .++.++.+| |+|.||..||.+||+.+.+||+||+++.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            4466777777774           344466666 9999999999999999999999999863

>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=99.45  E-value=6.3e-14  Score=103.08  Aligned_cols=49  Identities=29%  Similarity=0.666  Sum_probs=42.2

Q ss_pred             CccccccccccccCCC---------------ceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS---------------KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~---------------~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..+.|+||++.|....               .++.++|+|.||..||.+||..+.+||+||+++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            4678999999987431               356789999999999999999999999999875

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

Probab=99.43  E-value=7.6e-14  Score=93.50  Aligned_cols=50  Identities=30%  Similarity=0.700  Sum_probs=43.1

Q ss_pred             CccccccccccccCC----CceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEG----SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~----~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.+...    ..+..++|+|.||..||.+|++.+.+||+||.++.
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           14 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            457899999999642    33478999999999999999999999999999873

>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=99.42  E-value=1e-13  Score=102.15  Aligned_cols=49  Identities=31%  Similarity=0.685  Sum_probs=40.3

Q ss_pred             CccccccccccccCCC---------------ceEEccCCCcccHHHHHHHH-----hcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS---------------KAARMPCSHIYHQDCLVNWL-----KNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~---------------~~~~LpC~H~FH~~CI~~WL-----~~~~~CPlCR~~l  200 (201)
                      .+..|+||++.|..+.               .++.+||+|.||..||.+|+     ..+.+||+||..+
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~   92 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCcc
Confidence            3468999999996543               34478999999999999999     4567999999865

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

Probab=99.42  E-value=6.9e-14  Score=94.44  Aligned_cols=49  Identities=33%  Similarity=0.783  Sum_probs=42.7

Q ss_pred             CccccccccccccC----CCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKE----GSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~----~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +...|+||++.+..    +..++.++|+|.||..||.+|++.+.+||+||.++
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   61 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCcc
Confidence            45789999999964    24458899999999999999999999999999876

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

Probab=99.40  E-value=9.9e-14  Score=91.59  Aligned_cols=48  Identities=31%  Similarity=0.713  Sum_probs=41.9

Q ss_pred             ccccccccccccCC----CceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEG----SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~----~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|+||++.+...    ..+..++|||.||..||.+|++.+.+||+||.++
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   54 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   54 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccC
Confidence            46899999999642    3457899999999999999999999999999876

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

Probab=99.40  E-value=1.5e-13  Score=93.27  Aligned_cols=46  Identities=26%  Similarity=0.652  Sum_probs=42.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+||+|.||..||.+|+..+..||+||..+
T Consensus        14 ~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (71)
T 2d8t_A           14 TVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEI   59 (71)
T ss_dssp             SCCBCSSSSSBC---SSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBC
T ss_pred             CCCCCccCCccc---CCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchh
Confidence            457899999999   5678899999999999999999999999999886

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

Probab=99.40  E-value=1.4e-13  Score=92.36  Aligned_cols=47  Identities=30%  Similarity=0.872  Sum_probs=41.5

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      .+..|+||++.+.  +.++.+||+|.||..||.+|++.+.+||+||.++
T Consensus         4 ~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   50 (68)
T 1chc_A            4 VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhh
Confidence            3578999999995  3357899999999999999999999999999876

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

Probab=99.35  E-value=3.4e-13  Score=103.08  Aligned_cols=44  Identities=32%  Similarity=0.893  Sum_probs=41.0

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+||||.||..||..|+..+.+||+||.++
T Consensus        54 ~~C~iC~~~~---~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   97 (138)
T 4ayc_A           54 LQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI   97 (138)
T ss_dssp             SBCTTTCSBC---SSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBC
T ss_pred             CCCcccCccc---CCceECCCCCCccHHHHHHHHHcCCcCCCCCCcC
Confidence            5799999999   5678899999999999999999999999999886

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

Probab=99.35  E-value=5.4e-13  Score=90.72  Aligned_cols=46  Identities=26%  Similarity=0.668  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCceEEc-cCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+.   .++.+ +|+|.||..||.+|++.+..||+||..+
T Consensus        14 ~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (72)
T 2djb_A           14 PYILCSICKGYLI---DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV   60 (72)
T ss_dssp             GGGSCTTTSSCCS---SCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCC
T ss_pred             CCCCCCCCChHHH---CcCEECCCCCHHHHHHHHHHHHcCCcCCCcCccc
Confidence            4578999999994   45565 9999999999999999999999999876

>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=7.9e-13  Score=91.82  Aligned_cols=46  Identities=17%  Similarity=0.561  Sum_probs=41.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+||+|.||..||.+|++....||+||.++
T Consensus        14 ~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (81)
T 2csy_A           14 IPFRCFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYICDQPT   59 (81)
T ss_dssp             CCSBCSSSCSBC---CSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBC
T ss_pred             CCCCCcCCCchh---cCeeEccCCCHhHHHHHHHHHHCCCcCCCcCccc
Confidence            456899999999   5677899999999999999999999999999876

>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=1.5e-13  Score=102.69  Aligned_cols=50  Identities=28%  Similarity=0.646  Sum_probs=1.5

Q ss_pred             CCccccccccccccCC-------------C--ceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          151 CSQQYCVICLEVMKEG-------------S--KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       151 ~~~~~C~ICle~~~~~-------------~--~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...+.|+||++.|...             +  .+..++|+|.||..||.+||+.+.+||+||+++
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             CCC--------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            3567999999999642             1  233368999999999999999999999999874

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

Probab=99.32  E-value=9.9e-13  Score=92.18  Aligned_cols=49  Identities=29%  Similarity=0.598  Sum_probs=42.3

Q ss_pred             CccccccccccccCCCc-eEEccCCCcccHHHHHHHHhcC---CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSK-AARMPCSHIYHQDCLVNWLKNS---SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~-~~~LpC~H~FH~~CI~~WL~~~---~~CPlCR~~l  200 (201)
                      ....|+||++.|..+.. ++.+||+|.||..||.+|++.+   ..||+||..+
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   66 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT   66 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCB
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcc
Confidence            45789999999965443 8889999999999999999875   7999999865

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

Probab=99.32  E-value=5.3e-13  Score=93.33  Aligned_cols=49  Identities=39%  Similarity=0.852  Sum_probs=41.3

Q ss_pred             CccccccccccccCCCceEEccCC-----CcccHHHHHHHHhcC--CCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCS-----HIYHQDCLVNWLKNS--SLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~-----H~FH~~CI~~WL~~~--~~CPlCR~~l~  201 (201)
                      .+..|.||++++..+..+ .+||+     |.||..||.+||..+  .+||+||++++
T Consensus        14 ~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            457899999999776554 69996     999999999999865  48999998763

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

Probab=99.32  E-value=2.3e-13  Score=91.81  Aligned_cols=45  Identities=31%  Similarity=0.954  Sum_probs=40.7

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+..    +.+||+|.||..||.+|+.++.+||+||.++
T Consensus        14 ~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (70)
T 2ecn_A           14 DEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQM   58 (70)
T ss_dssp             CCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCT
T ss_pred             CCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcc
Confidence            45789999999953    7899999999999999999999999999876

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

Probab=99.32  E-value=1.2e-12  Score=88.74  Aligned_cols=46  Identities=26%  Similarity=0.728  Sum_probs=40.5

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh---cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK---NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~---~~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+||+|.||..||.+|++   .+..||+||.++
T Consensus        19 ~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   67 (73)
T 2ysl_A           19 EEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV   67 (73)
T ss_dssp             CCCBCTTTCSBC---SSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCC
T ss_pred             cCCEeccCCccc---CCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcC
Confidence            457899999999   5678889999999999999997   456899999886

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

Probab=99.31  E-value=1e-12  Score=87.77  Aligned_cols=46  Identities=22%  Similarity=0.574  Sum_probs=39.8

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      ....|+||++.+.   .+..++|||.||..||.+|+. .+..||+||.++
T Consensus        14 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A           14 DKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CCEECTTTCCEES---SCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             cCCCCCCCChHhc---CeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            4578999999994   555689999999999999994 567999999886

>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=99.29  E-value=1.5e-12  Score=94.24  Aligned_cols=45  Identities=33%  Similarity=0.775  Sum_probs=40.3

Q ss_pred             ccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcC-CCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNS-SLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~-~~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++. ++|||.||..||.+|+..+ ..||+||.++
T Consensus        22 ~~~C~IC~~~~---~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   68 (100)
T 3lrq_A           22 VFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL   68 (100)
T ss_dssp             HTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCccCCccc---cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcC
Confidence            36899999999   46777 9999999999999999977 6999999876

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

Probab=99.29  E-value=2e-12  Score=89.01  Aligned_cols=46  Identities=24%  Similarity=0.514  Sum_probs=41.3

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      +...|+||++.+   ..++.+||||.||..||.+|+.. +.+||+||.++
T Consensus         7 ~~~~C~IC~~~~---~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~   53 (78)
T 1t1h_A            7 EYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             ccCCCCCccccc---cCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCC
Confidence            457899999999   56788999999999999999986 77999999876

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

Probab=99.29  E-value=1.4e-12  Score=89.18  Aligned_cols=46  Identities=30%  Similarity=0.783  Sum_probs=40.4

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcC--CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNS--SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~--~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+| |+|.||..||.+|+..+  ..||+||.++
T Consensus        14 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   62 (74)
T 2yur_A           14 DELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   62 (74)
T ss_dssp             GGGSCSSSCCCC---TTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSS
T ss_pred             CCCCCcCCChHH---hCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcC
Confidence            457899999999   5677899 99999999999999865  6899999874

>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=3.8e-12  Score=91.58  Aligned_cols=45  Identities=31%  Similarity=0.690  Sum_probs=40.1

Q ss_pred             ccccccccccccCCCceEEc-cCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+ ||||.||..||.+|+..+..||+||..+
T Consensus        22 ~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   67 (99)
T 2y43_A           22 LLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV   67 (99)
T ss_dssp             HTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCcccCChhh---CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcC
Confidence            46899999999   456666 8999999999999999989999999876

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

Probab=99.25  E-value=4.6e-12  Score=87.84  Aligned_cols=46  Identities=26%  Similarity=0.738  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc------CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN------SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~------~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..+..+||+|.||..||..|+..      ...||+||.++
T Consensus        18 ~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecw_A           18 EEVTCPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY   69 (85)
T ss_dssp             TTTSCTTTCSCC---SSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCC
T ss_pred             cCCCCcCCChhh---CcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcC
Confidence            457899999999   45668999999999999999987      67899999876

>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=99.23  E-value=5.6e-12  Score=92.18  Aligned_cols=45  Identities=31%  Similarity=0.845  Sum_probs=40.3

Q ss_pred             ccccccccccccCCCceEEc-cCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+ ||||.||..||..|+..+..||+||..+
T Consensus        15 ~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (108)
T 2ckl_A           15 HLMCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV   60 (108)
T ss_dssp             GTBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBS
T ss_pred             cCCCccCChHH---hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccc
Confidence            47899999999   456666 9999999999999999999999999876

>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=99.23  E-value=5.1e-12  Score=94.56  Aligned_cols=45  Identities=29%  Similarity=0.717  Sum_probs=40.0

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+||||.||..||..|+..+. .||+||.++
T Consensus        52 ~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   97 (124)
T 3fl2_A           52 TFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL   97 (124)
T ss_dssp             HTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCCcCChHH---cCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccC
Confidence            46899999999   5778899999999999999998544 899999876

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

Probab=99.22  E-value=1.4e-12  Score=89.69  Aligned_cols=46  Identities=28%  Similarity=0.712  Sum_probs=40.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc-------CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-------SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-------~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+||||.||..||.+|+..       ...||+||.++
T Consensus        11 ~~~~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~   63 (79)
T 2egp_A           11 EEVTCPICLELL---TEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY   63 (79)
T ss_dssp             CCCEETTTTEEC---SSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCC
T ss_pred             cCCCCcCCCccc---CCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcC
Confidence            457899999999   45667999999999999999986       56899999876

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

Probab=99.22  E-value=7.9e-12  Score=82.55  Aligned_cols=42  Identities=29%  Similarity=0.778  Sum_probs=37.1

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHh---cCCCCCCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK---NSSLCPLC  196 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~---~~~~CPlC  196 (201)
                      ....|+||++.+   ..++.+||||.||..||.+|++   ....||+|
T Consensus        19 ~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBC---SSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchh---CCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            457899999999   5677889999999999999998   45689998

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

Probab=99.21  E-value=4.9e-12  Score=87.68  Aligned_cols=46  Identities=35%  Similarity=0.829  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc------CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN------SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~------~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..+..+||+|.||..||..|+..      ...||+||..+
T Consensus        18 ~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecv_A           18 EEVTCPICLELL---TQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY   69 (85)
T ss_dssp             CCCCCTTTCSCC---SSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS
T ss_pred             CCCCCCCCCccc---CCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc
Confidence            457899999999   45677899999999999999986      77999999876

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

Probab=99.21  E-value=4.4e-12  Score=94.85  Aligned_cols=49  Identities=33%  Similarity=0.783  Sum_probs=42.6

Q ss_pred             CccccccccccccC----CCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKE----GSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~----~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +...|+||++.|..    +..++.++|||.||..||.+|++.+.+||+||+.+
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   58 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcC
Confidence            45789999999964    23458899999999999999999999999999876

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

Probab=99.19  E-value=1.1e-11  Score=87.90  Aligned_cols=46  Identities=30%  Similarity=0.783  Sum_probs=40.2

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcC--CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNS--SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~--~~CPlCR~~l  200 (201)
                      ....|+||++.|   ..++.+| |||.||..||..|+..+  ..||+||.++
T Consensus        12 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           12 DELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             TTTEETTTTEEC---SSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             cCCCCCCCChhh---cCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            457899999999   5678899 99999999999999743  5899999875

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

Probab=99.18  E-value=9.8e-12  Score=85.60  Aligned_cols=47  Identities=21%  Similarity=0.607  Sum_probs=39.8

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcC--CCCCCCCccCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS--SLCPLCRFQLS  201 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~--~~CPlCR~~l~  201 (201)
                      ...|+||.+.+..+.  +...|+|.||..||.+||+.+  .+||+||.+++
T Consensus        15 i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           15 VKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            478999999997553  334799999999999999977  79999998763

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

Probab=99.16  E-value=2.2e-11  Score=80.99  Aligned_cols=48  Identities=23%  Similarity=0.424  Sum_probs=38.6

Q ss_pred             ccccccccc-cccCCCc-eEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          153 QQYCVICLE-VMKEGSK-AARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle-~~~~~~~-~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      +..|+||++ .+..... ...++|||.||..||.+|+.+ +..||+||.++
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   53 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcc
Confidence            468999999 7764432 246899999999999999764 46899999876

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

Probab=99.16  E-value=1.2e-11  Score=80.00  Aligned_cols=42  Identities=29%  Similarity=0.911  Sum_probs=36.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHH---hcCCCCCCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL---KNSSLCPLC  196 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL---~~~~~CPlC  196 (201)
                      ....|+||++.+.   .++.+||+|.||..||.+|+   .++..||+|
T Consensus        14 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLK---EPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCS---SCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccC---ccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4578999999994   55679999999999999995   456789998

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

Probab=99.15  E-value=1.8e-11  Score=91.47  Aligned_cols=50  Identities=32%  Similarity=0.774  Sum_probs=43.0

Q ss_pred             CccccccccccccC----CCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKE----GSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~----~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      +...|+||++.+..    +..++.++|||.||..||.+|++.+.+||+||..+.
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            46789999999964    233478899999999999999999999999999863

>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=99.15  E-value=1.7e-11  Score=89.66  Aligned_cols=44  Identities=32%  Similarity=0.864  Sum_probs=38.6

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCC---CCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS---LCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~---~CPlCR~~l  200 (201)
                      ..|+||++.+   ..+..+||||.||..||.+|+..+.   .||+||..+
T Consensus        22 ~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (112)
T 1jm7_A           22 LECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (112)
T ss_dssp             TSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CCCcccChhh---cCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcC
Confidence            5899999999   4556789999999999999998654   899999876

>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=2.9e-11  Score=94.67  Aligned_cols=45  Identities=33%  Similarity=0.862  Sum_probs=39.2

Q ss_pred             ccccccccccccCCCceEEc-cCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      ...|+||++.|.   .++.+ ||||.||..||.+|+.. +..||+||.++
T Consensus        54 ~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  100 (165)
T 2ckl_B           54 ELMCPICLDMLK---NTMTTKECLHRFCADCIITALRSGNKECPTCRKKL  100 (165)
T ss_dssp             HHBCTTTSSBCS---SEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCcccChHhh---CcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcC
Confidence            458999999994   45555 99999999999999986 77899999876

>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=99.13  E-value=3.6e-11  Score=93.33  Aligned_cols=45  Identities=33%  Similarity=0.699  Sum_probs=40.2

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+||+|.||..||..|+.... .||+||..+
T Consensus        78 ~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  123 (150)
T 1z6u_A           78 SFMCVCCQELV---YQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDL  123 (150)
T ss_dssp             HTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCEeecCChhh---cCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccC
Confidence            46899999999   5677899999999999999998655 899999876

>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=2.7e-11  Score=89.99  Aligned_cols=46  Identities=28%  Similarity=0.725  Sum_probs=40.7

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.++|||.||..||.+|+..+. .||+||.++
T Consensus        17 ~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (118)
T 3hct_A           17 SKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (118)
T ss_dssp             GGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCcCChhh---cCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCc
Confidence            457899999999   5677899999999999999998665 999999876

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

Probab=99.11  E-value=5.4e-11  Score=83.72  Aligned_cols=47  Identities=19%  Similarity=0.292  Sum_probs=43.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.+   ..++.+||||.|++.||.+|+..+.+||+||.++.
T Consensus        13 ~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~   59 (85)
T 2kr4_A           13 DEFRDPLMDTLM---TDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLT   59 (85)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             hheECcccCchh---cCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCC
Confidence            467999999999   68889999999999999999998899999998763

>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=99.11  E-value=4e-11  Score=88.56  Aligned_cols=45  Identities=29%  Similarity=0.808  Sum_probs=40.4

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+||||.||..||.+|+.. +.+||+||.++
T Consensus        23 ~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   68 (116)
T 1rmd_A           23 SISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (116)
T ss_dssp             HTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCCcHh---cCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCC
Confidence            46899999999   56778999999999999999986 67999999876

>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=99.10  E-value=1.3e-11  Score=91.02  Aligned_cols=46  Identities=30%  Similarity=0.819  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      .+..|+||++.+   ..++.+||||.||..||.+|+.. +..||+||..+
T Consensus        14 ~~~~C~iC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (115)
T 3l11_A           14 SECQCGICMEIL---VEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV   60 (115)
T ss_dssp             HHHBCTTTCSBC---SSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBC
T ss_pred             CCCCCccCCccc---CceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCccc
Confidence            357899999999   56788999999999999999976 66899999875

>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=99.07  E-value=6.3e-11  Score=79.03  Aligned_cols=46  Identities=24%  Similarity=0.511  Sum_probs=39.8

Q ss_pred             CccccccccccccCCCceEEc--cCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARM--PCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~L--pC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ++..|.||++..   ..+..+  ||||. |+..|+.+|++.+..||+||+++
T Consensus         7 ~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            7 AIEPCVICQGRP---KNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             GGSCCTTTSSSC---SCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CcCCCCcCCCCC---CCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            457899999998   445555  99999 89999999999889999999976

>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=99.07  E-value=7.6e-11  Score=85.57  Aligned_cols=47  Identities=21%  Similarity=0.305  Sum_probs=43.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.+   ..++.+||||.|++.||.+|+..+.+||+||.++.
T Consensus        28 ~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~   74 (100)
T 2kre_A           28 DEFRDPLMDTLM---TDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLT   74 (100)
T ss_dssp             TTTBCTTTCSBC---SSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCC
T ss_pred             HhhCCcCccCcc---cCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCC
Confidence            467999999999   68889999999999999999998899999998863

>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=99.04  E-value=1.4e-10  Score=83.84  Aligned_cols=47  Identities=17%  Similarity=0.200  Sum_probs=42.9

Q ss_pred             CccccccccccccCCCceEEccCC-CcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCS-HIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~-H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ....|+||++.+   ..++.+||| |.|++.||.+||..+.+||+||.++.
T Consensus        21 ~~~~CpI~~~~m---~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~   68 (98)
T 1wgm_A           21 DEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT   68 (98)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC
T ss_pred             HhcCCcCccccc---cCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCC
Confidence            467999999999   688899999 99999999999998889999998763

>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=99.00  E-value=2.5e-10  Score=100.89  Aligned_cols=44  Identities=34%  Similarity=0.884  Sum_probs=40.6

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+||||.||..|+..|+. .+.+||+||.++
T Consensus       333 ~~C~ICle~~---~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i  377 (389)
T 2y1n_A          333 QLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI  377 (389)
T ss_dssp             SBCTTTSSSB---CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCccCcCC---CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCcc
Confidence            6899999999   5788899999999999999998 788999999876

>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=98.97  E-value=9.4e-11  Score=90.06  Aligned_cols=46  Identities=24%  Similarity=0.584  Sum_probs=40.2

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.++|||.||..||.+|+.... .||+||.++
T Consensus        30 ~~~~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           30 AKYLCSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCcCCCCCChhh---cCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            457899999999   5678899999999999999998665 899999864

>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=98.97  E-value=2.8e-10  Score=75.64  Aligned_cols=45  Identities=18%  Similarity=0.475  Sum_probs=39.1

Q ss_pred             ccccccccccccCCCceEEc--cCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARM--PCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L--pC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|.||++..   ..+..+  ||||. |+..|+.+|.+.+..||+||+++
T Consensus         7 ~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            7 LKPCSLCEKRP---RDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GSBCTTTSSSB---SCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             CCCCcccCCcC---CCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            46899999988   344455  99998 99999999998888999999986

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

Probab=98.97  E-value=7.9e-11  Score=76.36  Aligned_cols=43  Identities=26%  Similarity=0.551  Sum_probs=37.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +...|+||++.|.   .++.|||+|.||..||.+|   ...||+||+++
T Consensus         5 ~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~   47 (56)
T 1bor_A            5 QFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPW   47 (56)
T ss_dssp             CCSSCSSSCSSCB---CCSCSTTSCCSBTTTCSSS---SSSCSSCCSSS
T ss_pred             cCCCceEeCCccC---CeEEcCCCCcccHHHHccC---CCCCCcCCcEe
Confidence            4578999999994   5678999999999999883   56899999876

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

Probab=98.94  E-value=2.5e-10  Score=78.07  Aligned_cols=40  Identities=25%  Similarity=0.714  Sum_probs=36.6

Q ss_pred             cccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+||||. ||..|+.+|    ..||+||.++
T Consensus        25 ~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i   65 (74)
T 4ic3_A           25 KLCKICMDRN---IAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVI   65 (74)
T ss_dssp             TBCTTTSSSB---CCEEEETTCCBCCCHHHHTTC----SBCTTTCCBC
T ss_pred             CCCCCCCCCC---CCEEEcCCCChhHHHHhhhcC----ccCCCcCcCc
Confidence            6899999999   67888999999 999999998    7899999876

>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=4.6e-10  Score=77.87  Aligned_cols=48  Identities=21%  Similarity=0.479  Sum_probs=37.7

Q ss_pred             CccccccccccccCCCceEEc--cCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARM--PCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~L--pC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      ++..|+||++.+...+ +..+  +|||.||..|+.+++. ....||+||+++
T Consensus        10 ~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~   60 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   60 (78)
T ss_dssp             CCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBC
T ss_pred             cCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCcc
Confidence            4578999999885432 3344  4999999999999985 456899999876

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

Probab=98.91  E-value=1.7e-10  Score=85.52  Aligned_cols=43  Identities=21%  Similarity=0.680  Sum_probs=38.3

Q ss_pred             ccccccccccccCCCceEEc-cCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ...|+||++.|   ..++.+ ||||.||..||..|+.  ..||+||..+
T Consensus        22 ~~~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (117)
T 1jm7_B           22 LLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA   65 (117)
T ss_dssp             TTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             CCCCCCCChHh---hCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcC
Confidence            36899999999   566777 9999999999999997  7899999875

>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=98.86  E-value=1.2e-09  Score=91.02  Aligned_cols=47  Identities=19%  Similarity=0.298  Sum_probs=41.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-CCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-SLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-~~CPlCR~~l~  201 (201)
                      ....|+||++.+   ..++.+||||.|++.||.+|+..+ .+||+||.+++
T Consensus       207 ~~~~c~i~~~~~---~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~  254 (281)
T 2c2l_A          207 DYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT  254 (281)
T ss_dssp             STTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             cccCCcCcCCHh---cCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc
Confidence            568999999999   688899999999999999999854 45999998863

>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=98.85  E-value=1.2e-09  Score=85.83  Aligned_cols=46  Identities=28%  Similarity=0.721  Sum_probs=40.4

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-~~CPlCR~~l  200 (201)
                      +...|+||++.+   ..++.++|||.||..||.+|+..+ .+||+||..+
T Consensus        17 ~~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (170)
T 3hcs_A           17 SKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (170)
T ss_dssp             GGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCChhh---cCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCc
Confidence            457999999999   567789999999999999999754 4999999876

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.82  E-value=1.7e-09  Score=77.27  Aligned_cols=45  Identities=31%  Similarity=0.665  Sum_probs=38.8

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcC------CCCCC--CCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNS------SLCPL--CRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~------~~CPl--CR~~  199 (201)
                      ....|+||++.|   ..++.+| |||.|++.||.+|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~---~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEM---KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBC---SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchh---cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            457899999999   6788896 99999999999999753      48999  9854

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

Probab=98.79  E-value=3.5e-09  Score=69.81  Aligned_cols=48  Identities=25%  Similarity=0.616  Sum_probs=37.4

Q ss_pred             CCccccccccccccCCCceEEccCC--C---cccHHHHHHHHh--cCCCCCCCCccCC
Q 042704          151 CSQQYCVICLEVMKEGSKAARMPCS--H---IYHQDCLVNWLK--NSSLCPLCRFQLS  201 (201)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~--H---~FH~~CI~~WL~--~~~~CPlCR~~l~  201 (201)
                      .+...|.||+++..  . ...+||.  +   .||..|+.+|+.  ++.+||+||+++.
T Consensus         4 ~~~~~CrIC~~~~~--~-~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELG--N-ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS--C-CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCC--C-ceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            35678999999842  2 3468964  4   899999999996  4678999998763

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

Probab=98.78  E-value=1.1e-08  Score=81.62  Aligned_cols=47  Identities=19%  Similarity=0.288  Sum_probs=41.5

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-CCCCCCCccCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-SLCPLCRFQLS  201 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-~~CPlCR~~l~  201 (201)
                      ....|+||++.+   ..++.+||||.|++.||.+|+..+ .+||+||.+++
T Consensus       105 ~~f~CPI~~elm---~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~  152 (179)
T 2f42_A          105 DYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLT  152 (179)
T ss_dssp             GGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             HhhcccCccccC---CCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCC
Confidence            568999999999   678899999999999999999864 47999998763

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

Probab=98.73  E-value=4e-09  Score=72.12  Aligned_cols=40  Identities=25%  Similarity=0.727  Sum_probs=34.8

Q ss_pred             cccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+||+|. ||..|+.+    ...||+||.++
T Consensus        26 ~~C~IC~~~~---~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i   66 (75)
T 2ecg_A           26 KLCKICMDRN---IAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVI   66 (75)
T ss_dssp             HSCSSSCSSC---CCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBC
T ss_pred             CCCCcCCCCC---CCEEEecCCCHHHHHHHhhC----CCCCccCCcee
Confidence            5799999998   56778999999 99999964    37899999876

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

Probab=98.69  E-value=2.4e-09  Score=92.94  Aligned_cols=49  Identities=29%  Similarity=0.713  Sum_probs=38.1

Q ss_pred             CccccccccccccC-CCceE----EccCCCcccHHHHHHHHhcC-----------CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKE-GSKAA----RMPCSHIYHQDCLVNWLKNS-----------SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~-~~~~~----~LpC~H~FH~~CI~~WL~~~-----------~~CPlCR~~l  200 (201)
                      ...+|+||++.+.. |..+.    ..+|+|.||..||.+||+..           .+||.||+++
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            45689999999986 33221    14699999999999999742           4699999876

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

Probab=98.65  E-value=1.3e-08  Score=68.59  Aligned_cols=42  Identities=26%  Similarity=0.685  Sum_probs=36.7

Q ss_pred             CccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +...|.||++..   ..++.+||+|. |+..|+..    ...||+||.++
T Consensus        14 ~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i   56 (68)
T 2ea5_A           14 NSKDCVVCQNGT---VNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFV   56 (68)
T ss_dssp             CSSCCSSSSSSC---CCCEETTTTBCCSCTTHHHH----CSSCTTTCCCC
T ss_pred             CCCCCCCcCcCC---CCEEEECCCChhhhHHHHhc----CCCCCCCCcch
Confidence            457899999998   57888999999 99999984    47899999876

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

Probab=98.64  E-value=7.8e-09  Score=71.64  Aligned_cols=40  Identities=28%  Similarity=0.774  Sum_probs=35.7

Q ss_pred             cccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|.||++.+   ..++.+||||. |+..|+..|    ..||+||.++
T Consensus        19 ~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i   59 (79)
T 2yho_A           19 MLCMVCCEEE---INSTFCPCGHTVCCESCAAQL----QSCPVCRSRV   59 (79)
T ss_dssp             TBCTTTSSSB---CCEEEETTCBCCBCHHHHTTC----SBCTTTCCBC
T ss_pred             CEeEEeCccc---CcEEEECCCCHHHHHHHHHhc----CcCCCCCchh
Confidence            5899999998   67888999999 999999877    3899999876

>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=98.56  E-value=2.8e-08  Score=70.64  Aligned_cols=48  Identities=23%  Similarity=0.490  Sum_probs=37.5

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc--------CCCCCC--CCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN--------SSLCPL--CRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~--------~~~CPl--CR~~  199 (201)
                      ....|+||++++.........+|+|.||..|+.+++..        ...||.  ||..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35689999999965433344579999999999999862        237999  9987

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.51  E-value=5.4e-08  Score=64.21  Aligned_cols=44  Identities=18%  Similarity=0.310  Sum_probs=39.9

Q ss_pred             cccccccccccCCCceEEc-cCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARM-PCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~L-pC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+ +|||.|.+.||.+|+..+.+||+.+.+|
T Consensus         4 ~~CpIs~~~m---~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L   48 (61)
T 2bay_A            4 MLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   48 (61)
T ss_dssp             CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             EEecCCCCCC---CCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCC
Confidence            6799999999   567777 8999999999999999888999999876

>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=98.47  E-value=3.3e-08  Score=86.25  Aligned_cols=42  Identities=26%  Similarity=0.776  Sum_probs=37.5

Q ss_pred             CccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ....|+||++.+   ..++.+||||. ||..|+.+|    ..||+||.++
T Consensus       294 ~~~~C~IC~~~~---~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i  336 (345)
T 3t6p_A          294 EERTCKVCMDKE---VSVVFIPCGHLVVCQECAPSL----RKCPICRGII  336 (345)
T ss_dssp             TTCBCTTTSSSB---CCEEEETTCCEEECTTTGGGC----SBCTTTCCBC
T ss_pred             CCCCCCccCCcC---CceEEcCCCChhHhHHHHhcC----CcCCCCCCCc
Confidence            346899999999   67888999999 999999988    6899999876

>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=98.38  E-value=1.1e-07  Score=79.89  Aligned_cols=46  Identities=22%  Similarity=0.495  Sum_probs=38.6

Q ss_pred             CccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcC--CCCCC--CCccC
Q 042704          152 SQQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNS--SLCPL--CRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~--~~CPl--CR~~l  200 (201)
                      ....|+||++.|   ..++. +.|||.|++.||.+|+..+  ..||+  ||..+
T Consensus       180 ~el~CPIcl~~f---~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l  230 (267)
T 3htk_C          180 IELTCPITCKPY---EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV  230 (267)
T ss_dssp             CCSBCTTTSSBC---SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEE
T ss_pred             eeeECcCccCcc---cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcC
Confidence            456899999999   45555 5899999999999999754  47999  99865

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

Probab=98.17  E-value=1.3e-06  Score=62.86  Aligned_cols=44  Identities=27%  Similarity=0.677  Sum_probs=37.0

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      .|.+|---+.  ...+.+||+|+|+.+|+..|.+ +.++||.||.++
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V   47 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPV   47 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCee
Confidence            4777877665  5778899999999999999985 567999999876

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

Probab=97.88  E-value=4.9e-06  Score=68.94  Aligned_cols=47  Identities=21%  Similarity=0.612  Sum_probs=38.1

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC--CCCCCCccCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS--LCPLCRFQLS  201 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~--~CPlCR~~l~  201 (201)
                      -..|.||.+....|.  +.-.|+|.||..|+.+|++.+.  .||.|+.++|
T Consensus       180 i~~C~iC~~iv~~g~--~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSCE--ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCCc--ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            468999999997552  2333999999999999998654  8999998764

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

Probab=94.26  E-value=0.03  Score=39.31  Aligned_cols=34  Identities=18%  Similarity=0.427  Sum_probs=25.5

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHH
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW  186 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~W  186 (201)
                      +..|.||.+.+.......-++|+|.|+..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            4689999987532222333999999999999983

>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=92.21  E-value=0.095  Score=36.25  Aligned_cols=31  Identities=26%  Similarity=0.738  Sum_probs=23.2

Q ss_pred             CccccccccccccCCCceEEcc---CCCcccHHHHHHH
Q 042704          152 SQQYCVICLEVMKEGSKAARMP---CSHIYHQDCLVNW  186 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp---C~H~FH~~CI~~W  186 (201)
                      .+..|.||-..- .++   .+|   |+-+||..|+.+.
T Consensus        14 ~D~~C~VC~~~t-~~~---l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEVWT-AES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCCCC-SSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCcccccc-ccc---eeccccccccccHhhcccc
Confidence            568999986432 222   455   7899999999997

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

Probab=91.32  E-value=0.11  Score=34.22  Aligned_cols=45  Identities=16%  Similarity=0.291  Sum_probs=32.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC----CCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----SLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----~~CPlCR~~  199 (201)
                      ....|.||.+.   ++.+.--.|...||..|+.+.|..-    =.||.|+..
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            34679999753   3433334589999999999887643    279999753

>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=88.86  E-value=0.37  Score=46.93  Aligned_cols=46  Identities=17%  Similarity=0.230  Sum_probs=41.5

Q ss_pred             CccccccccccccCCCceEEccCC-CcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCS-HIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~-H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      +...|+|-++.+   ..++.+|-| +.|-+.+|.+||..+.+||+=|.++
T Consensus       890 ~~F~cPIs~~lM---~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L  936 (968)
T 3m62_A          890 DEFLDPLMYTIM---KDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPL  936 (968)
T ss_dssp             GGGBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             HHhCCcchhhHH---hCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCC
Confidence            467899999999   788999997 5899999999999999999988876

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

Probab=87.78  E-value=0.29  Score=31.39  Aligned_cols=47  Identities=28%  Similarity=0.572  Sum_probs=31.8

Q ss_pred             CCCccccccccccccCCCceEEccCCCcccHHHHHHHHhc----CCCCCCCCcc
Q 042704          150 GCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----SSLCPLCRFQ  199 (201)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----~~~CPlCR~~  199 (201)
                      ...+..|.+|...   +..+..-.|...||..|+..-+..    .-.||.|+..
T Consensus         8 ~~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            3356789999873   333333348889999999875532    2379999753

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=83.90  E-value=0.23  Score=31.91  Aligned_cols=46  Identities=28%  Similarity=0.628  Sum_probs=30.8

Q ss_pred             CCccccccccccccCCCceEEccCCCcccHHHHHHHHhc----CCCCCCCCcc
Q 042704          151 CSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----SSLCPLCRFQ  199 (201)
Q Consensus       151 ~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----~~~CPlCR~~  199 (201)
                      ..+..|.||.+.   |..+..-.|...||..|+.+-|..    .-.||.|+..
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            356789999863   333333347888999999865442    2269999764

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

Probab=82.91  E-value=0.57  Score=28.63  Aligned_cols=44  Identities=23%  Similarity=0.471  Sum_probs=28.5

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHhc----CCCCCCCCc
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----SSLCPLCRF  198 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----~~~CPlCR~  198 (201)
                      .|.||...-..+..+.--.|...||..|+.+=+..    .-.||.|+.
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            48888865433333333458889999999754432    226999975

---

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	201
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-05
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	0.004

>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 = 60.3 bits (146), Expect = 2e-13
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 156 CVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQL 200
           C +CL  +++G +A  +P C H +H +C+  WL + S CPLCR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 55.0 bits (132), Expect = 3e-11
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C ICLE     S A  +PC H +   C+  W++ +  CPLC+  + 
Sbjct: 8   CPICLEDPSNYSMA--LPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 52.3 bits (125), Expect = 3e-10
 Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 150 GCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS 201
           G + Q C IC E  K+       PC H+    CL +W +     CP CR ++ 
Sbjct: 20  GSTFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 69

>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 = 49.7 bits (118), Expect = 3e-09
 Identities = 13/50 (26%), Positives = 18/50 (36%)

Query: 148 IEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197
           I     +          E    A   C+H +H  C+  WLK   +CPL  
Sbjct: 31  IMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>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 = 46.0 bits (109), Expect = 5e-08
 Identities = 11/46 (23%), Positives = 14/46 (30%), Gaps = 6/46 (13%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C  C    K       +PC H     CL         CP+C+    
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>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 = 45.5 bits (107), Expect = 7e-08
 Identities = 11/52 (21%), Positives = 14/52 (26%), Gaps = 3/52 (5%)

Query: 153 QQYCVICLEVMKEGSKAARM--PCSHIYHQDCLVNWLK-NSSLCPLCRFQLS 201
            Q C  C            M   C H   + C+       +  CP C   L 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>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 = 41.2 bits (96), Expect = 2e-06
 Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 156 CVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSL-CPLCRFQLS 201
           C +C+E ++          C +   + C      + +  CP CR    
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 42.4 bits (99), Expect = 3e-06
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 6/49 (12%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWL---KNSSLCPLCRFQLS 201
           C ICLE++KE        C HI+ + C++  L   K  S CPLC+  ++
Sbjct: 24  CPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69

>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 = 41.6 bits (96), Expect = 7e-06
 Identities = 15/77 (19%), Positives = 27/77 (35%), Gaps = 20/77 (25%)

Query: 141 VLKLAPAIEGCSQQYCVICLEVM---------------KEGSKAARMPCSHIYHQDCLVN 185
           + K    ++   ++ C+IC+E +                         CSH +H  CL+ 
Sbjct: 13  IRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLA 72

Query: 186 WLKNSSL-----CPLCR 197
              N +      CP C+
Sbjct: 73  MYCNGNKDGSLQCPSCK 89

>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 = 39.5 bits (92), Expect = 2e-05
 Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS 201
           C IC  ++ +        C H++ + C++  LK   S CP CR+   
Sbjct: 26  CQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>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 = 38.3 bits (88), Expect = 3e-05
 Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 156 CVICLEVMKEGSKAARMP--CSHIYHQDCLVNWLK--NSSLCPLCRFQLS 201
           C IC E +      A          H+ CL  WL    ++ C +C    +
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.5 bits (81), Expect = 3e-04
 Identities = 9/47 (19%), Positives = 18/47 (38%), Gaps = 2/47 (4%)

Query: 155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
            C I  +V +            I+ +  L  ++K++   P+    LS
Sbjct: 2   LCAISGKVPRRPVL--SPKSRTIFEKSLLEQYVKDTGNDPITNEPLS 46

>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 = 34.4 bits (78), Expect = 0.002
 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201
           C  C  +++E        C HI+  +C+ + +     CP+C     
Sbjct: 25  CSRCTNILREPVCL--GGCEHIFCSNCVSDCIGTG--CPVCYTPAW 66

>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 = 33.1 bits (75), Expect = 0.004
 Identities = 9/50 (18%), Positives = 14/50 (28%), Gaps = 8/50 (16%)

Query: 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSL--------CPLCR 197
           C +CL             C  I+   CL  +++            CP   
Sbjct: 8   CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	201
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.68
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.56
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.49
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.45
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.41
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.38
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.31
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.26
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.24
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.23
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.18
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.1
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.06
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.99
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.83
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.55
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.37
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	90.52
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	83.81
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	83.49

>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=99.68  E-value=6.4e-18  Score=108.80  Aligned_cols=49  Identities=37%  Similarity=0.981  Sum_probs=45.0

Q ss_pred             CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ++.+|+||+++|..++.++++| |+|.||..||.+|++.+.+||+||++|
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            3467999999999988898886 999999999999999999999999986

>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=99.56  E-value=7.2e-16  Score=103.03  Aligned_cols=47  Identities=30%  Similarity=0.872  Sum_probs=42.0

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..+.|+||++.+.  +.++.+||+|.||..||.+|++.+.+||+||+++
T Consensus         4 ~~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           4 VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            4578999999995  3567799999999999999999999999999976

>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=99.49  E-value=9.5e-15  Score=102.21  Aligned_cols=49  Identities=29%  Similarity=0.666  Sum_probs=41.3

Q ss_pred             CccccccccccccCCC---------------ceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS---------------KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~---------------~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..+.|+||++.+....               .+..++|+|.||..||.+||+.+.+||+||+++
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            4567999988775422               356789999999999999999999999999875

>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=99.45  E-value=9.2e-15  Score=92.63  Aligned_cols=47  Identities=21%  Similarity=0.468  Sum_probs=39.3

Q ss_pred             ccccccccccCCCc-eEEccCCCcccHHHHHHHHhc-CCCCCCCCccCC
Q 042704          155 YCVICLEVMKEGSK-AARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQLS  201 (201)
Q Consensus       155 ~C~ICle~~~~~~~-~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l~  201 (201)
                      +|+||+++|..++. +..++|||.||..||.+|++. +..||+||+++.
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            79999999976544 445689999999999999985 457999999873

>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=99.44  E-value=4e-14  Score=97.13  Aligned_cols=44  Identities=34%  Similarity=0.884  Sum_probs=39.5

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      ..|+||++.+   ..++.+||||.||..||.+||. ++.+||+||..+
T Consensus        24 ~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i   68 (79)
T d1fbva4          24 QLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI   68 (79)
T ss_dssp             TBCTTTSSSB---CCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCC
T ss_pred             CCCccCCCcC---CCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCc
Confidence            5699999999   5788999999999999999997 556899999986

>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=99.41  E-value=7.8e-14  Score=92.15  Aligned_cols=49  Identities=22%  Similarity=0.424  Sum_probs=39.4

Q ss_pred             CccccccccccccCCC--ceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGS--KAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~--~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      ++..|+||++.+..+.  ....++|+|.||..||.+|++. +..||+||+++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i   53 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCc
Confidence            3578999999864332  3456789999999999999964 56899999986

>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=99.38  E-value=1.2e-13  Score=100.54  Aligned_cols=49  Identities=29%  Similarity=0.652  Sum_probs=39.1

Q ss_pred             CccccccccccccCC---------------CceEEccCCCcccHHHHHHHHhcC-----CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEG---------------SKAARMPCSHIYHQDCLVNWLKNS-----SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~---------------~~~~~LpC~H~FH~~CI~~WL~~~-----~~CPlCR~~l  200 (201)
                      .+..|+||++.+...               ..+..++|+|.||..||..||+.+     .+||+||..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            357899999988532               235678899999999999999743     4799999764

>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=99.31  E-value=3.1e-13  Score=86.67  Aligned_cols=43  Identities=21%  Similarity=0.388  Sum_probs=39.2

Q ss_pred             ccccccccccCCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          155 YCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      .|+||++.+   ..++.++ |||.||++||.+||+++.+||+||+++
T Consensus         2 ~C~Ic~~~~---~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l   45 (56)
T d2baya1           2 LCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   45 (56)
T ss_dssp             CCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             CCccCCchH---HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcC
Confidence            599999999   5677775 999999999999999999999999986

>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=99.26  E-value=1.6e-12  Score=90.46  Aligned_cols=45  Identities=29%  Similarity=0.808  Sum_probs=40.0

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL  200 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l  200 (201)
                      ...|+||++.+   ..++.+||||.|+..||.+|++ ++..||+||.++
T Consensus        23 ~l~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~   68 (86)
T d1rmda2          23 SISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (86)
T ss_dssp             HTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CcCCccCCcch---hcceecCCCChhhHHHHHHHHhhCCCcCcccCCCC
Confidence            36899999999   6788999999999999999997 456899999876

>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=99.24  E-value=1.6e-12  Score=93.05  Aligned_cols=44  Identities=34%  Similarity=0.880  Sum_probs=38.5

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcC---CCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS---SLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~---~~CPlCR~~l  200 (201)
                      ..|+||++.|   ..++.+||||.||..||..|++..   ..||+||.++
T Consensus        22 l~CpIC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          22 LECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (103)
T ss_dssp             TSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             cCCCccCchh---CCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcC
Confidence            5799999999   466789999999999999999754   3799999876

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=3.6e-13  Score=86.45  Aligned_cols=43  Identities=23%  Similarity=0.529  Sum_probs=37.1

Q ss_pred             ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704          153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS  201 (201)
Q Consensus       153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~  201 (201)
                      ...|+||++.+   ..++.+||||.||..||.+|   +..||+||++++
T Consensus         6 ~l~C~IC~~~~---~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T d1bora_           6 FLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CSSCSSSCSSC---BCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             CCCCcccCccc---CCCEEecCCCHHhHHHHHcC---CCcCcCCCCccc
Confidence            46899999999   45678999999999999865   568999999874

>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=99.18  E-value=5.9e-12  Score=81.49  Aligned_cols=48  Identities=25%  Similarity=0.606  Sum_probs=37.5

Q ss_pred             CCCccccccccccccCCCceEEccC-----CCcccHHHHHHHHh--cCCCCCCCCccC
Q 042704          150 GCSQQYCVICLEVMKEGSKAARMPC-----SHIYHQDCLVNWLK--NSSLCPLCRFQL  200 (201)
Q Consensus       150 ~~~~~~C~ICle~~~~~~~~~~LpC-----~H~FH~~CI~~WL~--~~~~CPlCR~~l  200 (201)
                      +.+...|.||++.+..   ....||     +|.||..||.+|+.  ++.+||+||+++
T Consensus         3 ded~~~C~IC~~~~~~---~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           3 DEDVPVCWICNEELGN---ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TCSCCEETTTTEECSC---CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCccCCccCCC---ceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            3456789999999853   234454     59999999999995  566899999876

>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=99.10  E-value=2.7e-11  Score=82.59  Aligned_cols=46  Identities=20%  Similarity=0.304  Sum_probs=40.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l  200 (201)
                      ++..|+||++.+   ..++.+||||.|+..||.+|+.+ +.+||+||.++
T Consensus         6 ~~l~CpIc~~l~---~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l   52 (80)
T d2c2la2           6 DYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPL   52 (80)
T ss_dssp             STTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             ccccCcCcCchh---hhhcccCCcCeecHHHHHHHHhcCCccCCCccccc
Confidence            467899999999   67789999999999999999974 56899999876

>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=99.06  E-value=5.7e-11  Score=80.53  Aligned_cols=46  Identities=24%  Similarity=0.518  Sum_probs=40.9

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-CCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-SLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-~~CPlCR~~l  200 (201)
                      ++..|+||++.+   ..++.++|||.|++.||.+|+..+ ..||.||.++
T Consensus         7 ~~l~CpIc~~~m---~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l   53 (78)
T d1t1ha_           7 EYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             ccCCCcCcCchh---hCceEccCCCcchHHHHHHHHHHCCCCCCcccccC
Confidence            468999999999   677899999999999999999764 5799999876

>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=98.99  E-value=2.8e-11  Score=85.45  Aligned_cols=42  Identities=21%  Similarity=0.682  Sum_probs=35.4

Q ss_pred             cccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704          154 QYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ..|+||++.|.   .++. .+|||.||..||.+|+.  ..||.||.++
T Consensus        23 l~C~IC~~~~~---~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (97)
T d1jm7b_          23 LRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA   65 (97)
T ss_dssp             TSCSSSCSCCS---SCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             CCCccCCchhh---cCceeCCCCCchhHHHHHHHHh--ccccccCCcC
Confidence            58999999994   4555 47999999999999985  4599999865

>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=98.83  E-value=1.3e-09  Score=77.08  Aligned_cols=46  Identities=17%  Similarity=0.193  Sum_probs=41.8

Q ss_pred             CccccccccccccCCCceEEccCC-CcccHHHHHHHHhcCCCCCCCCccC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCS-HIYHQDCLVNWLKNSSLCPLCRFQL  200 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~-H~FH~~CI~~WL~~~~~CPlCR~~l  200 (201)
                      ++..|+||++.+   ..++++||+ |.|++.||.+||.++.+||+||.++
T Consensus        21 ~~f~CPI~~~lm---~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l   67 (98)
T d1wgma_          21 DEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPL   67 (98)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBC
T ss_pred             HHhCCcCchhHH---HHHHhcccccchhhHHHHHHHHHhcCCcccccccc
Confidence            468999999999   788899976 5799999999999999999999886

>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=98.55  E-value=1.4e-08  Score=70.59  Aligned_cols=46  Identities=20%  Similarity=0.415  Sum_probs=36.6

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc-----C---CCCCCCC
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-----S---SLCPLCR  197 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-----~---~~CPlCR  197 (201)
                      +...|+||++++..++.+..++|+|.||..|+..|++.     .   -.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            45789999999976555666789999999999999962     1   2599864

>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=91.37  E-value=0.04  Score=32.54  Aligned_cols=44  Identities=23%  Similarity=0.462  Sum_probs=29.4

Q ss_pred             ccccccccccCCCceEEccCCCcccHHHHHHHHhcC----CCCCCCCc
Q 042704          155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----SLCPLCRF  198 (201)
Q Consensus       155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----~~CPlCR~  198 (201)
                      .|.||...-..+..+.--.|...||..|+..-+...    -.||.||.
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            488887654333323233488999999998876532    26999985

>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=90.52  E-value=0.063  Score=35.28  Aligned_cols=31  Identities=32%  Similarity=0.888  Sum_probs=25.1

Q ss_pred             CccccccccccccCCCceEEcc---CCCcccHHHHHHH
Q 042704          152 SQQYCVICLEVMKEGSKAARMP---CSHIYHQDCLVNW  186 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~Lp---C~H~FH~~CI~~W  186 (201)
                      ++..|.|| +.+...+   ++|   |+.+||..|+.+.
T Consensus        14 ~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          14 NDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             cCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            67899999 8885443   557   6899999999997

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.81  E-value=0.17  Score=31.83  Aligned_cols=42  Identities=26%  Similarity=0.691  Sum_probs=28.2

Q ss_pred             cccccccccccCCCceEEccCCCcccHHHHHHHHhcCC----CCCCCCc
Q 042704          154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS----LCPLCRF  198 (201)
Q Consensus       154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~----~CPlCR~  198 (201)
                      ..|.+|.+   .|+.+.-=.|...||..|+.+.+....    .||.|+.
T Consensus         8 ~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~   53 (70)
T d1fp0a1           8 TICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   53 (70)
T ss_dssp             SCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             CCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcC
Confidence            45666653   344333344899999999998775332    6999975

>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=83.49  E-value=0.1  Score=31.99  Aligned_cols=45  Identities=29%  Similarity=0.651  Sum_probs=30.1

Q ss_pred             CccccccccccccCCCceEEccCCCcccHHHHHHHHhc----CCCCCCCCcc
Q 042704          152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----SSLCPLCRFQ  199 (201)
Q Consensus       152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----~~~CPlCR~~  199 (201)
                      ....|.+|.+.   +.-+.-=.|.-.||..|+..-+..    .-.||.|+..
T Consensus         8 ~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           8 HMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            44679999753   332223347889999999765542    3379999764