Citrus Sinensis ID: 028139

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210---
Protein Sequence
MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVDY
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccEEcccccccccccccccccccccEEEccccccccHHHHHHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccEcccccccccccccHHccccccccEEccccccccHHHHHHHHHHcccccccccEEEEcccccc
Coil and Loop (DISEMBL)
mggccccsskgvernstpayyyqypraseerlplsshhgagsalsrgllvdtnletsvpdayrpppaptpfdanvrhpqtppvvqeicsnksdpsvqttpvpvqdtlggnsqetsskcddlkepesktvanveLESTKELEVELSKSVHHVVAVIEeedvcptcleeydaenpriiTKCEHHFHLACIFEwmersdtcpvcnqemifdlpvdy
Flexible Loop (DISEMBL)
mggccccsskgvernstpAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTtpvpvqdtlggnsqetsskcddlkepesktvanvelestkeLEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVDY
Low Complexity Region (SEG)
MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVpdayrpppaptpfdaNVRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVDY
Disordered region (IsUnstruct)
***CCCCSSKGV****TPAYYYQY**********************************************************************************************************************ELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL****
Disordered Region (DISOPRED)
*GGCC**SSKGV**NSTPAYY*************************************************************************************************************************************IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL****
Disordered Region (DISEMBL)
MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTL********************TVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVDY
Disordered Region (DISPRO)
***CCCCSSKGVERNSTPAYYYQYPRAS*************************LETSVPDAYRPPPAPTPFDANVRHPQ*********************************************************************HHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVDY
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	213	2.2.26 [Sep-21-2011]
Q8LE94	231	E3 ubiquitin-protein liga	no	no	0.690	0.636	0.368	4e-22
Q4TU14	371	E3 ubiquitin-protein liga	no	no	0.253	0.145	0.407	6e-09
Q9ZT42	375	E3 ubiquitin-protein liga	no	no	0.333	0.189	0.356	4e-08
Q5RF74	428	E3 ubiquitin-protein liga	yes	no	0.854	0.425	0.229	1e-06
Q29RU0	431	E3 ubiquitin-protein liga	yes	no	0.854	0.422	0.229	2e-06
Q9D304	428	E3 ubiquitin-protein liga	yes	no	0.854	0.425	0.229	2e-06
Q7TMV1	668	E3 ubiquitin-protein liga	no	no	0.239	0.076	0.377	3e-06
Q5RBT7	664	E3 ubiquitin-protein liga	no	no	0.239	0.076	0.377	5e-06
Q8WU17	664	E3 ubiquitin-protein liga	yes	no	0.239	0.076	0.377	5e-06
Q9SG96	181	RING-H2 finger protein AT	no	no	0.234	0.276	0.372	6e-06

>sp|Q8LE94|RING3_ARATH E3 ubiquitin-protein ligase At3g02290 OS=Arabidopsis thaliana GN=At3g02290 PE=2 SV=1

 Score =  104 bits (259), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 59/160 (36%), Positives = 91/160 (56%), Gaps = 13/160 (8%)

Query: 58  VPDAYRPPPAPTPFDANVRHPQTPPVVQEICSN---------KSDPSVQTTPVPVQDTLG 108
           + +A+R  P P P+DA+ R+ ++    +E  S+         +SD    +    V     
Sbjct: 73  LSEAFRSTPRPLPYDADPRYFRSLVSRREKGSSHSHEEVEPLRSDSDADSESFGVGGCKW 132

Query: 109 GNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEY 168
            N++ T S  D  +E  SK+   +    +K +  +      ++  + E+EDVCPTCLEEY
Sbjct: 133 ANNKSTLSDKDSKEEYSSKSSLRILRSRSKSIMAD----SENMYILSEDEDVCPTCLEEY 188

Query: 169 DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
            +ENP+I+TKC HHFHL+CI+EWMERS+ CPVC + M F+
Sbjct: 189 TSENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKVMEFN 228

Mediates E2-dependent protein ubiquitination.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q4TU14|RHF1A_ARATH E3 ubiquitin-protein ligase RHF1A OS=Arabidopsis thaliana GN=RHF1A PE=1 SV=1

 Score = 61.2 bits (147), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 32/54 (59%)

Query: 158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 211
           +D C  CLE +  ++P  +T C+H +HL CI EW +RS  CP+C Q  +   P 
Sbjct: 43  DDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICWQLFVLRDPA 96

E3 ubiquitin-protein ligase involved in the positive regulation of the gametogenesis progression. Mediates the proteasomal degradation of KRP6, a cyclin-dependent kinase inhibitor which accumulates during meiosis and blocks the progression of subsequent mitoses during gametophyte development. Functions in association with RHF2A. Possesses E3 ubiquitin ligase activity in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9ZT42|RHF2A_ARATH E3 ubiquitin-protein ligase RHF2A OS=Arabidopsis thaliana GN=RHF2A PE=2 SV=1

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 141 EVELSKSVHHVVAVIEE--EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTC 198
           E  L+ +   V   I++  +D C  CLE +   +P  +T C+H +HL CI EW +RS  C
Sbjct: 11  EGHLTSAAAFVEGGIQDACDDACSICLESFCESDPSTLTSCKHEYHLQCILEWCQRSSQC 70

Query: 199 PVCNQEMIFDLPV 211
           P+C Q +    P 
Sbjct: 71  PMCWQSISLKDPT 83

Probable E3 ubiquitin-protein ligase involved in the positive regulation of the gametogenesis progression. Required for the degradation of KRP6, a cyclin-dependent kinase inhibitor which accumulates during meiosis and blocks the progression of subsequent mitoses during gametophytes development. Functions in association with RHF1A.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RF74|RN128_PONAB E3 ubiquitin-protein ligase RNF128 OS=Pongo abelii GN=RNF128 PE=2 SV=1

 Score = 53.1 bits (126), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 54/235 (22%), Positives = 89/235 (37%), Gaps = 53/235 (22%)

Query: 2   GGCCCCSSK---GVERNSTPAYYYQYPRASEERLPLSSHHGAGS--ALSRGLLVDTNLET 56
           GG C  + K     ER ++ A  + +P    E +P+S H GAG   A+  G L  T +  
Sbjct: 123 GGGCTFADKIHLAYERGASGAVIFNFPGTRNEVIPMS-HPGAGDIVAIMIGNLKGTKILQ 181

Query: 57  SVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQ---------TTPVPVQDTL 107
           S+                 R  Q   V++     K  P V          +  +    T+
Sbjct: 182 SIQ----------------RGIQVTMVIE--VGKKHGPWVNHYSIFFVSVSFFIITAATV 223

Query: 108 G----------GNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEE 157
           G           N++  S K   LK    K +  ++L + K+ + E+            +
Sbjct: 224 GYFIFYSARRLRNARAQSRKQRQLKADAKKAIGRLQLRTLKQGDREIGP----------D 273

Query: 158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
            D C  C+E Y   +   I  C H FH  C+  W+    TCP+C  +++  L ++
Sbjct: 274 GDSCAVCIELYKPNDLVRILTCNHIFHKTCVDPWLLEHRTCPMCKCDILKALGIE 328

E3 ubiquitin-protein ligase that catalyzes polyubiquitin chains. Functions as an inhibitor of cytokine gene transcription. Inhibits IL2 and IL4 transcription and this activity is likely to be mediated by E3 ligase activity. Plays an important role in the induction of the anergic phenotype. Functions in the patterning of the dorsal ectoderm; sensitizes ectoderm to respond to neural-inducing signals.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q29RU0|RN128_BOVIN E3 ubiquitin-protein ligase RNF128 OS=Bos taurus GN=RNF128 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 54/235 (22%), Positives = 89/235 (37%), Gaps = 53/235 (22%)

Query: 2   GGCCCCSSK---GVERNSTPAYYYQYPRASEERLPLSSHHGAGS--ALSRGLLVDTNLET 56
           GG C  + K     ER ++ A  + +P    E +P+S H GAG   A+  G L  T +  
Sbjct: 126 GGGCTFADKIHLAYERGASGAVIFNFPGTRNEVIPMS-HPGAGDIVAIMIGNLKGTKILQ 184

Query: 57  SVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQ---------TTPVPVQDTL 107
           S+                 R  Q   V++     K  P V          +  +    T+
Sbjct: 185 SIQ----------------RGIQVTMVIE--VGKKHGPWVNHYSIFFVSVSFFIITAATV 226

Query: 108 G----------GNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEE 157
           G           N++  S K   LK    K +  ++L + K+ + E+            +
Sbjct: 227 GYFIFYSARRLRNARAQSRKQRQLKADAKKAIGRLQLRTQKQGDKEIGP----------D 276

Query: 158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
            D C  C+E Y   +   I  C H FH  C+  W+    TCP+C  +++  L ++
Sbjct: 277 GDSCAVCIELYKPNDLVRILTCNHVFHKTCVDPWLLEHRTCPMCKCDILKALGIE 331

E3 ubiquitin-protein ligase that catalyzes polyubiquitin chains. Functions as an inhibitor of cytokine gene transcription. Inhibits IL2 and IL4 transcription and this activity is likely to be mediated by E3 ligase activity. Plays an important role in the induction of the anergic phenotype. Functions in the patterning of the dorsal ectoderm; sensitizes ectoderm to respond to neural-inducing signals.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9D304|RN128_MOUSE E3 ubiquitin-protein ligase RNF128 OS=Mus musculus GN=Rnf128 PE=1 SV=1

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 54/235 (22%), Positives = 89/235 (37%), Gaps = 53/235 (22%)

Query: 2   GGCCCCSSK---GVERNSTPAYYYQYPRASEERLPLSSHHGAGS--ALSRGLLVDTNLET 56
           GG C  + K     ER ++ A  + +P    E +P+S H GAG   A+  G L  T +  
Sbjct: 123 GGGCTFADKIHLASERGASGAVIFNFPGTRNEVIPMS-HPGAGDIVAIMIGNLKGTKILQ 181

Query: 57  SVPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQ---------TTPVPVQDTL 107
           S+                 R  Q   V++     K  P V          +  +    T+
Sbjct: 182 SIQ----------------RGIQVTMVIE--VGKKHGPWVNHYSIFFVSVSFFIITAATV 223

Query: 108 G----------GNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEE 157
           G           N++  S K   LK    K +  ++L + K+ + E+            +
Sbjct: 224 GYFIFYSARRLRNARAQSRKQRQLKADAKKAIGKLQLRTLKQGDKEIGP----------D 273

Query: 158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
            D C  C+E Y   +   I  C H FH  C+  W+    TCP+C  +++  L ++
Sbjct: 274 GDSCAVCIELYKPNDLVRILTCNHIFHKTCVDPWLLEHRTCPMCKCDILKALGIE 328

E3 ubiquitin-protein ligase that catalyzes polyubiquitin chains. Functions as an inhibitor of cytokine gene transcription. Inhibits IL2 and IL4 transcription and this activity is likely to be mediated by E3 ligase activity. Plays an important role in the induction of the anergic phenotype. Functions in the patterning of the dorsal ectoderm; sensitizes ectoderm to respond to neural-inducing signals.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7TMV1|RN139_MOUSE E3 ubiquitin-protein ligase RNF139 OS=Mus musculus GN=Rnf139 PE=1 SV=1

 Score = 52.0 bits (123), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 2/53 (3%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
           E +DVC  C  E+       IT C H+FH  C+ +W+   DTCP+C+Q++  +
Sbjct: 542 EIDDVCAICYHEFTTSAR--ITPCNHYFHALCLRKWLYIQDTCPMCHQKVYIE 592

E3-ubiquitin ligase; acts as a negative regulator of the cell proliferation through mechanisms involving G2/M arrest and cell death. Required for MHC class I ubiquitination in cells expressing the cytomegalovirus protein US2 before dislocation from the endoplasmic reticulum (ER). Affects SREBP processing by hindering the SREBP/SCAP complex translocation from the ER to the Golgi, thereby reducing SREBF2 target gene expression. Required for INSIG1 ubiquitination. May be required for EIF3 complex ubiquitination. May function as a signaling receptor.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RBT7|RN139_PONAB E3 ubiquitin-protein ligase RNF139 OS=Pongo abelii GN=RNF139 PE=2 SV=1

 Score = 51.2 bits (121), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
           E  DVC  C  E+       IT C H+FH  C+ +W+   DTCP+C+Q++  +
Sbjct: 542 EINDVCAICYHEFTTSAR--ITPCNHYFHALCLRKWLYIQDTCPMCHQKVYIE 592

E3-ubiquitin ligase; acts as a negative regulator of the cell proliferation through mechanisms involving G2/M arrest and cell death. Required for MHC class I ubiquitination in cells expressing the cytomegalovirus protein US2 before dislocation from the endoplasmic reticulum (ER). Affects SREBP processing by hindering the SREBP/SCAP complex translocation from the ER to the Golgi, thereby reducing SREBF2 target gene expression. Required for INSIG1 ubiquitination. May be required for EIF3 complex ubiquitination. May function as a signaling receptor.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8WU17|RN139_HUMAN E3 ubiquitin-protein ligase RNF139 OS=Homo sapiens GN=RNF139 PE=1 SV=1

 Score = 51.2 bits (121), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
           E  DVC  C  E+       IT C H+FH  C+ +W+   DTCP+C+Q++  +
Sbjct: 542 EINDVCAICYHEFTTSAR--ITPCNHYFHALCLRKWLYIQDTCPMCHQKVYIE 592

E3-ubiquitin ligase; acts as a negative regulator of the cell proliferation through mechanisms involving G2/M arrest and cell death. Required for MHC class I ubiquitination in cells expressing the cytomegalovirus protein US2 before dislocation from the endoplasmic reticulum (ER). Affects SREBP processing by hindering the SREBP/SCAP complex translocation from the ER to the Golgi, thereby reducing SREBF2 target gene expression. Required for INSIG1 ubiquitination. May be required for EIF3 complex ubiquitination. May function as a signaling receptor.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SG96|ATL72_ARATH RING-H2 finger protein ATL72 OS=Arabidopsis thaliana GN=ATL72 PE=2 SV=1

 Score = 50.8 bits (120), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 161 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 210
           C  CL ++ D E  R++ KC H FH+ CI  W+    +CP C Q ++ + P
Sbjct: 114 CLICLGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLLLEQP 164

Arabidopsis thaliana (taxid: 3702)

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	213
225426204	213	PREDICTED: E3 ubiquitin-protein ligase A	0.971	0.971	0.684	8e-76
255537531	212	protein binding protein, putative [Ricin	0.990	0.995	0.685	1e-73
224053875	212	predicted protein [Populus trichocarpa]	0.990	0.995	0.619	7e-66
297742211	227	unnamed protein product [Vitis vinifera]	0.863	0.810	0.670	2e-64
449452294	211	PREDICTED: E3 ubiquitin-protein ligase A	0.985	0.995	0.591	1e-63
359806791	213	uncharacterized protein LOC100816369 [Gl	0.985	0.985	0.572	3e-59
224074986	255	predicted protein [Populus trichocarpa]	0.990	0.827	0.559	2e-57
356513367	213	PREDICTED: uncharacterized protein LOC10	0.910	0.910	0.571	3e-57
255648202	212	unknown [Glycine max]	0.906	0.910	0.566	3e-55
297801436	212	zinc finger family protein [Arabidopsis	0.971	0.976	0.534	2e-52

>gi|225426204|ref|XP_002280000.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290-like [Vitis vinifera]

 Score =  288 bits (738), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 143/209 (68%), Positives = 165/209 (78%), Gaps = 2/209 (0%)

Query: 1   MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPD 60
           MGGCCCCSSKG E N TPAYYY  PRASEE  PLSSHHGA S LS GLLVDTNL TS PD
Sbjct: 1   MGGCCCCSSKGTELNGTPAYYY-CPRASEEHEPLSSHHGAASTLSTGLLVDTNLGTSPPD 59

Query: 61  AYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTT-PVPVQDTLGGNSQETSSKCD 119
            YRPPPAP P+D ++ HPQTPPV +E C NK+D  VQTT    + + + GN  ET +KC+
Sbjct: 60  TYRPPPAPIPYDVDLGHPQTPPVAEESCVNKNDTVVQTTNSGSLGEAVEGNMLETLAKCE 119

Query: 120 DLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKC 179
           DLK+ + K +A  EL S+KE EVELSKS   +V+  +EEDVCPTCLEEYDAENP+I+TKC
Sbjct: 120 DLKQSDCKMLAQSELTSSKETEVELSKSGDPIVSSTDEEDVCPTCLEEYDAENPKIVTKC 179

Query: 180 EHHFHLACIFEWMERSDTCPVCNQEMIFD 208
           EHHFHLACI EWMERSDTCPVC++EMIF+
Sbjct: 180 EHHFHLACILEWMERSDTCPVCDKEMIFN 208

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537531|ref|XP_002509832.1| protein binding protein, putative [Ricinus communis] gi|223549731|gb|EEF51219.1| protein binding protein, putative [Ricinus communis]

 Score =  281 bits (719), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/213 (68%), Positives = 169/213 (79%), Gaps = 2/213 (0%)

Query: 1   MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPD 60
           MGGCCCCSSKG E NS PAYYY YPRASEE +PLSS HG+ + LS GLLVDTNL+TSVPD
Sbjct: 1   MGGCCCCSSKGAEINSAPAYYY-YPRASEEHVPLSSRHGSVATLSTGLLVDTNLDTSVPD 59

Query: 61  AYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTT-PVPVQDTLGGNSQETSSKCD 119
           AYRPPP P PF+  +  PQTP   QE  S+K D +VQTT    VQ+T   N++ETS KC+
Sbjct: 60  AYRPPPPPIPFEMAIGCPQTPQGAQETSSDKDDGTVQTTNSGSVQETTYTNTRETSIKCE 119

Query: 120 DLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKC 179
           D+KEP+ K   N+EL+S KELEVE SKSV  +V+  EEEDVCPTCLEEYDAENP+I TKC
Sbjct: 120 DVKEPDCKAQTNLELDSAKELEVEFSKSVELLVSATEEEDVCPTCLEEYDAENPKITTKC 179

Query: 180 EHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           EHHFHL+CI EWMERSDTCPVC++EMI D P+D
Sbjct: 180 EHHFHLSCILEWMERSDTCPVCDKEMIIDPPLD 212

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053875|ref|XP_002298023.1| predicted protein [Populus trichocarpa] gi|222845281|gb|EEE82828.1| predicted protein [Populus trichocarpa]

 Score =  255 bits (652), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 132/213 (61%), Positives = 165/213 (77%), Gaps = 2/213 (0%)

Query: 1   MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPD 60
           MGGCCCCSSKG  ++++   YY YPRA  E +PLSSHH AGSALS GLLVDTNL+TSVPD
Sbjct: 1   MGGCCCCSSKGAAQSNSAPPYYYYPRAPAEHVPLSSHHAAGSALSTGLLVDTNLDTSVPD 60

Query: 61  AYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTT-PVPVQDTLGGNSQETSSKCD 119
           AYRPPPAP PFD  V H QT    +E C +K+D ++QTT     Q+  G N++ETS++C+
Sbjct: 61  AYRPPPAPMPFDVAVGHLQTLHRSRETCGDKNDGALQTTNSASGQENTGLNTRETSAECE 120

Query: 120 DLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKC 179
           D+KE + K   N EL++ KELE+ELSKSV  +V+  EEED CP CLEEYD ENP++ITKC
Sbjct: 121 DVKELDCKAQINSELDAAKELEIELSKSVEPLVSATEEED-CPICLEEYDLENPKLITKC 179

Query: 180 EHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           EHHFHL+CI EWMERS++CPVC++E+I D P+D
Sbjct: 180 EHHFHLSCILEWMERSESCPVCDKEVIIDPPID 212

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742211|emb|CBI34360.3| unnamed protein product [Vitis vinifera]

 Score =  251 bits (640), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 124/185 (67%), Positives = 146/185 (78%), Gaps = 1/185 (0%)

Query: 25  PRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRHPQTPPVV 84
           PRASEE  PLSSHHGA S LS GLLVDTNL TS PD YRPPPAP P+D ++ HPQTPPV 
Sbjct: 38  PRASEEHEPLSSHHGAASTLSTGLLVDTNLGTSPPDTYRPPPAPIPYDVDLGHPQTPPVA 97

Query: 85  QEICSNKSDPSVQTT-PVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVE 143
           +E C NK+D  VQTT    + + + GN  ET +KC+DLK+ + K +A  EL S+KE EVE
Sbjct: 98  EESCVNKNDTVVQTTNSGSLGEAVEGNMLETLAKCEDLKQSDCKMLAQSELTSSKETEVE 157

Query: 144 LSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 203
           LSKS   +V+  +EEDVCPTCLEEYDAENP+I+TKCEHHFHLACI EWMERSDTCPVC++
Sbjct: 158 LSKSGDPIVSSTDEEDVCPTCLEEYDAENPKIVTKCEHHFHLACILEWMERSDTCPVCDK 217

Query: 204 EMIFD 208
           EMIF+
Sbjct: 218 EMIFN 222

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452294|ref|XP_004143894.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290-like [Cucumis sativus]

 Score =  248 bits (632), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 126/213 (59%), Positives = 151/213 (70%), Gaps = 3/213 (1%)

Query: 1   MGGCCCCSSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPD 60
           MGGCCCCSSKG E N  P YYY YPRASEE +PLS         S GLLVDTNL+TS+PD
Sbjct: 1   MGGCCCCSSKGTESNIAPGYYY-YPRASEEHVPLSPLR-TPREFSTGLLVDTNLDTSIPD 58

Query: 61  AYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTTPV-PVQDTLGGNSQETSSKCD 119
            YR PP P P+D  +  P TPPVVQEI   K++ + QTT    +Q+T   N++ETS+KC+
Sbjct: 59  TYRSPPLPMPYDVVLTSPLTPPVVQEISCYKNEAAAQTTNSNTIQETACINTRETSAKCE 118

Query: 120 DLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKC 179
            + E + K   + E+++ KE E ELSK V   V  IEEEDVCP CLEEYD ENP++ TKC
Sbjct: 119 GVDESDCKKHTDFEVDALKESENELSKGVESAVLPIEEEDVCPICLEEYDGENPKLTTKC 178

Query: 180 EHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           EHHFHLACI EWMERSD CPVC+QEM+F  P+D
Sbjct: 179 EHHFHLACILEWMERSDICPVCDQEMVFSSPID 211

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806791|ref|NP_001241561.1| uncharacterized protein LOC100816369 [Glycine max] gi|255641755|gb|ACU21148.1| unknown [Glycine max]

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 123/215 (57%), Positives = 161/215 (74%), Gaps = 5/215 (2%)

Query: 1   MGGCCCC--SSKGVERNSTPAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSV 58
           MGGCCCC  S+K    ++ PAYYY YPRASEE +PLSSH GA SA S  LLVDTNL+TS 
Sbjct: 1   MGGCCCCCCSAKETVLSAPPAYYY-YPRASEEHVPLSSHQGAASAFSGRLLVDTNLDTSS 59

Query: 59  PDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTTPV-PVQDTLGGNSQETSSK 117
           PD YRPPPAP PF+  +   QTPP  QEI S+K++ S+ +T    +Q+ + G++  TS+K
Sbjct: 60  PDTYRPPPAPIPFNVTLGTTQTPPAAQEIRSDKNNTSLHSTNSNAIQEPVAGDNHGTSAK 119

Query: 118 CDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIIT 177
            ++LKE + K   ++EL+S K  E+EL+KS    + V+EEED CP CLEEYDAENP++ T
Sbjct: 120 LEELKESDCKVQTDLELDSAKGSEIELAKS-GKPIDVVEEEDTCPICLEEYDAENPKLAT 178

Query: 178 KCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           KC+HHFHLACI EWMERS+TCPVC+Q+++FD P++
Sbjct: 179 KCDHHFHLACILEWMERSETCPVCDQDLVFDPPIE 213

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074986|ref|XP_002304508.1| predicted protein [Populus trichocarpa] gi|222841940|gb|EEE79487.1| predicted protein [Populus trichocarpa]

 Score =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 122/218 (55%), Positives = 156/218 (71%), Gaps = 7/218 (3%)

Query: 1   MGGCCCCSSKGV--ERNSTPAYYYQYPRASEERLPLSSHHGAGSAL-SRGLLVDTNLETS 57
           MGGCCC S+ G   + N+ P ++Y YPR SEE + LSSH   GS L S GLLVDTNL+TS
Sbjct: 39  MGGCCCGSANGAADQFNNAPPFFY-YPRTSEEHVSLSSHQAPGSVLQSTGLLVDTNLDTS 97

Query: 58  VPDAYRPPPAPTPFDANVRHPQTPPVVQEICSNKSDPSVQTT-PVPVQDTLGGNSQETSS 116
           VPDAYRPPPAP PFDA V  PQTP  ++E+  +K+  ++QTT     Q+    N++E  +
Sbjct: 98  VPDAYRPPPAPIPFDAAVGRPQTPGRLREVRGDKNHGALQTTTSASGQENTALNTREPLA 157

Query: 117 KCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDV--CPTCLEEYDAENPR 174
           KC+D K+ + K   N E  S KELE+ELSK V  +V+  EEE+   CP CLEEYD ENP+
Sbjct: 158 KCEDAKDLDCKVQINSEPGSAKELEIELSKLVEPLVSATEEEEEEDCPICLEEYDLENPK 217

Query: 175 IITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           + TKCEHH+HL+CI EWMERS++CPVC++EMIFD P+D
Sbjct: 218 LTTKCEHHYHLSCILEWMERSESCPVCDKEMIFDPPID 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513367|ref|XP_003525385.1| PREDICTED: uncharacterized protein LOC100790079 [Glycine max]

 Score =  227 bits (578), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 112/196 (57%), Positives = 145/196 (73%), Gaps = 2/196 (1%)

Query: 18  PAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRH 77
           PAYYYQYPRASEE +PLSSH GA SA S  LLVDTNL+TS PD YRPPPAP PF+  +  
Sbjct: 19  PAYYYQYPRASEEHVPLSSHPGAASAFSGRLLVDTNLDTSSPDTYRPPPAPIPFNVTLGT 78

Query: 78  PQTPPVVQEICSNKSDPSV-QTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELES 136
            QTPP  QEI S+K++ S+  T    +Q+ +  +   TS+K ++ KE E K   ++EL+S
Sbjct: 79  TQTPPAAQEIRSDKNNTSLPSTNSNAIQEPVARDIHGTSAKLEEPKESECKVQTDLELDS 138

Query: 137 TKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD 196
            K  E+EL+KS    + ++EEED CP CLEEYDAENP++ T C+HHFHLACI EWMERS+
Sbjct: 139 AKGSEIELAKS-GKPIDLVEEEDACPICLEEYDAENPKLATNCDHHFHLACILEWMERSE 197

Query: 197 TCPVCNQEMIFDLPVD 212
           TCPVC+Q+++FD P++
Sbjct: 198 TCPVCDQDLVFDPPIE 213

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255648202|gb|ACU24554.1| unknown [Glycine max]

 Score =  220 bits (561), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 111/196 (56%), Positives = 144/196 (73%), Gaps = 3/196 (1%)

Query: 18  PAYYYQYPRASEERLPLSSHHGAGSALSRGLLVDTNLETSVPDAYRPPPAPTPFDANVRH 77
           PAYYY YPRASEE +PLSSH GA SA S  LLVDTNL+TS PD YRPPPAP PF+  +  
Sbjct: 19  PAYYY-YPRASEEHVPLSSHPGAASAFSGRLLVDTNLDTSSPDTYRPPPAPIPFNVTLGT 77

Query: 78  PQTPPVVQEICSNKSDPSV-QTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELES 136
            QTPP  QEI S+K++ S+  T    +Q+ +  +   TS+K ++ KE E K   ++EL+S
Sbjct: 78  TQTPPAAQEIRSDKNNTSLPSTNSNAIQEPVARDIHGTSAKLEEPKESECKVQTDLELDS 137

Query: 137 TKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD 196
            K  E+EL+KS    + ++EEED CP CLEEYDAENP++ T C+HHFHLACI EWMERS+
Sbjct: 138 AKGSEIELAKS-GKPIDLVEEEDACPICLEEYDAENPKLATNCDHHFHLACILEWMERSE 196

Query: 197 TCPVCNQEMIFDLPVD 212
           TCPVC+Q+++FD P++
Sbjct: 197 TCPVCDQDLVFDPPIE 212

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297801436|ref|XP_002868602.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297314438|gb|EFH44861.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  211 bits (537), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 116/217 (53%), Positives = 152/217 (70%), Gaps = 10/217 (4%)

Query: 1   MGGCCCCSS-KGVERNSTPAYYYQYPRASEERLPLSS-HHGAGSALSRGLLV-DTNLETS 57
           MGGCCCCSS +  + ++ PAYYY YPRA+EER+PLSS H+   SA+S G++V DTNLETS
Sbjct: 1   MGGCCCCSSSRRADVDNGPAYYY-YPRATEERVPLSSAHNRTSSAISTGVVVVDTNLETS 59

Query: 58  VPDAYRPPPAPTPFDANVRHPQTPPVVQE-ICSNKSDPSVQTTPV-PVQDTLGGNSQETS 115
            PDAY PPP P PFD  +  PQTP   +E  C +  + SV +      Q+T+ G +    
Sbjct: 60  SPDAYIPPPLPIPFDVAIGVPQTPASAEEATCVDIREVSVDSANTESAQETVDGITIGVP 119

Query: 116 SKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRI 175
           + C   KE + K    ++LEST+E++ +LSK+V      IEEE+ CP CLEEYD ENP++
Sbjct: 120 TTCSH-KETDCKIQTEIDLESTEEIDPKLSKAVF---IPIEEEEDCPICLEEYDIENPKL 175

Query: 176 ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           + KC+HHFHLACI EWMERS+TCPVCN+EM+FD P+D
Sbjct: 176 VAKCDHHFHLACILEWMERSETCPVCNKEMVFDSPLD 212

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	213
TAIR|locus:2177881	212	AT5G41350 [Arabidopsis thalian	0.971	0.976	0.483	6e-48
TAIR|locus:505006415	190	RHB1A "RING-H2 finger B1A" [Ar	0.488	0.547	0.471	9.3e-38
TAIR|locus:2076542	231	AT3G02290 [Arabidopsis thalian	0.563	0.519	0.411	7.8e-23
TAIR|locus:2143251	232	AT5G15790 [Arabidopsis thalian	0.511	0.469	0.435	4.9e-21
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.272	0.417	0.362	8e-11
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.272	0.379	0.362	8e-11
TAIR|locus:2129525	371	RHF1A "RING-H2 group F1A" [Ara	0.248	0.142	0.415	7.8e-10
TAIR|locus:2165735	163	AT5G42200 [Arabidopsis thalian	0.347	0.453	0.342	1.2e-08
MGI|MGI:1913760	165	Rnf181 "ring finger protein 18	0.272	0.351	0.362	1.6e-08
UNIPROTKB|F1SVB7	153	RNF181 "Uncharacterized protei	0.272	0.379	0.362	2e-08

TAIR|locus:2177881 AT5G41350 [Arabidopsis thaliana (taxid:3702)]

 Score = 501 (181.4 bits), Expect = 6.0e-48, P = 6.0e-48
 Identities = 105/217 (48%), Positives = 142/217 (65%)

Query:     1 MGGCCCCSS-KGVERNSTPAYYYQYPRASEERLPLSS-HHGAGSALSRGLLV-DTNLETS 57
             MGGCCCCSS +  + ++ PAYYY YPRA+EER+PLSS H+   SA+S G++V DTNLETS
Sbjct:     1 MGGCCCCSSSRRADVDNGPAYYY-YPRATEERVPLSSAHNRTSSAISTGVVVVDTNLETS 59

Query:    58 VXXXXXXXXXXXXXXXNVRHPQTPPVVQEI-CSNKSDPSVQTTPVP-VQDTLGGNSQETS 115
                              +  PQTP   +E  C +  + SV +      Q+T+ G +    
Sbjct:    60 SPDAYIPPPLPTPFDVPIGIPQTPASGEEATCVDIREVSVDSANTESAQETVDGITLGVP 119

Query:   116 SKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRI 175
             + C   KE +SK    ++LEST+E++ +LSK+V   + + EEED CP CLEEYD ENP++
Sbjct:   120 TTCSH-KETDSKIQTEIDLESTEEIDPKLSKAVF--IPIEEEED-CPICLEEYDIENPKL 175

Query:   176 ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
             + KC+HHFHLACI EWMERS+TCPVCN+EM+FD  +D
Sbjct:   176 VAKCDHHFHLACILEWMERSETCPVCNKEMVFDSTLD 212

GO:0005634 "nucleus" evidence=ISM

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0006914 "autophagy" evidence=RCA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:505006415 RHB1A "RING-H2 finger B1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 289 (106.8 bits), Expect = 9.3e-38, Sum P(2) = 9.3e-38
 Identities = 50/106 (47%), Positives = 74/106 (69%)

Query:   103 VQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCP 162
             ++  + G+S ET + C+DL E + KT+A+  + S ++ +   SK     + V EEED CP
Sbjct:    83 IKGRMSGSSFETLATCEDLGESDCKTLASSVILSPRKSD--FSKHQGLKILVDEEEDCCP 140

Query:   163 TCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
              C E+YD ENPR+ TKCEH FHL+C+ EW+ERSD CP+C++E++FD
Sbjct:   141 ICFEDYDVENPRLTTKCEHEFHLSCLLEWIERSDRCPICDKEVVFD 186

GO:0005634 "nucleus" evidence=ISM

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

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2076542 AT3G02290 [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 51/124 (41%), Positives = 77/124 (62%)

Query:    85 QEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVEL 144
             +E+   +SD    +    V      N++ T S  D  +E  SK+   +    +K +  + 
Sbjct:   109 EEVEPLRSDSDADSESFGVGGCKWANNKSTLSDKDSKEEYSSKSSLRILRSRSKSIMAD- 167

Query:   145 SKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
             S++++    + E+EDVCPTCLEEY +ENP+I+TKC HHFHL+CI+EWMERS+ CPVC + 
Sbjct:   168 SENMY---ILSEDEDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKV 224

Query:   205 MIFD 208
             M F+
Sbjct:   225 MEFN 228

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2143251 AT5G15790 [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 51/117 (43%), Positives = 71/117 (60%)

Query:    91 KSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSVHH 150
             +SD  V +    V+ +   N    S   +D KE  S++   + L+S       +S S   
Sbjct:   120 RSDADVDSESFSVEGSKWANKLIISG--EDSKEEFSRSSRRI-LQSRT-----MSTSNEG 171

Query:   151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
             +    ++EDVCPTCLEEY +ENP+I+TKC HHFHL+CI+EWMERS+ CPVC + M F
Sbjct:   172 LYITSDDEDVCPTCLEEYISENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKVMEF 228

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

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

 Score = 128 (50.1 bits), Expect = 8.0e-11, Sum P(2) = 8.0e-11
 Identities = 21/58 (36%), Positives = 33/58 (56%)

Query:   151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
             V+   + E  CP CL E++ E   I   C H FH +CI  W+ ++++CP+C  E+  D
Sbjct:    66 VIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYELPTD 123

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 128 (50.1 bits), Expect = 8.0e-11, Sum P(2) = 8.0e-11
 Identities = 21/58 (36%), Positives = 33/58 (56%)

Query:   151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
             V+   + E  CP CL E++ E   I   C H FH +CI  W+ ++++CP+C  E+  D
Sbjct:    66 VIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYELPTD 123

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2129525 RHF1A "RING-H2 group F1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 7.8e-10, P = 7.8e-10
 Identities = 22/53 (41%), Positives = 32/53 (60%)

Query:   158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 210
             +D C  CLE +  ++P  +T C+H +HL CI EW +RS  CP+C Q  +   P
Sbjct:    43 DDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICWQLFVLRDP 95

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009561 "megagametogenesis" evidence=IGI

GO:0010498 "proteasomal protein catabolic process" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051726 "regulation of cell cycle" evidence=IGI

GO:0055046 "microgametogenesis" evidence=IGI

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

TAIR|locus:2165735 AT5G42200 [Arabidopsis thaliana (taxid:3702)]

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 26/76 (34%), Positives = 39/76 (51%)

Query:   136 STKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDA-ENPRIITKCEHHFHLACIFEWMER 194
             S  ELE ++ K     +AVI     C  CLE+ ++ ++ R++  C H FH  C   W+  
Sbjct:    80 SVLELE-KIPKLTGRELAVIARSTECAVCLEDIESGQSTRLVPGCNHGFHQLCADTWLSN 138

Query:   195 SDTCPVCNQEMIFDLP 210
                CPVC  E+  +LP
Sbjct:   139 HTVCPVCRAELAPNLP 154

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

MGI|MGI:1913760 Rnf181 "ring finger protein 181" [Mus musculus (taxid:10090)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 21/58 (36%), Positives = 34/58 (58%)

Query:   151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
             V++  + +  CP CL E++AE   I   C H FH  CI  W+ ++++CP+C  E+  D
Sbjct:    78 VISSAKADLKCPVCLLEFEAEETVIEMPCHHLFHSNCILPWLSKTNSCPLCRHELPTD 135

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 128 (50.1 bits), Expect = 2.0e-08, P = 2.0e-08
 Identities = 21/58 (36%), Positives = 32/58 (55%)

Query:   151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 208
             V+   + E  CP CL E++ E   I   C H FH  CI  W+ ++++CP+C  E+  D
Sbjct:    66 VIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSGCILPWLSKTNSCPLCRHELPTD 123

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_LG_I0360 hypothetical protein (212 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	213
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-10
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	4e-08
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	9e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	1e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	3e-06
smart00184	40	smart00184, RING, Ring finger	2e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	5e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-04

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

 Score = 54.4 bits (131), Expect = 3e-10
 Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 10/56 (17%)

Query: 157 EEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDTCPVCN 202
           E+DVC  C   +D           + P +  +C H FHL CI  W++  +TCP+C 
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 50.1 bits (120), Expect = 5e-09
 Identities = 17/46 (36%), Positives = 27/46 (58%)

Query: 159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           D CP CL+E++     ++  C H FH  C+ +W+  S+TCP+C   
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 47.8 bits (114), Expect = 4e-08
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 3/45 (6%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQE 204
           CP CLEE+    P ++  C H F  +CI +W++    TCP+C   
Sbjct: 2   CPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

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

 Score = 49.2 bits (117), Expect = 5e-07
 Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 10/61 (16%)

Query: 158 EDVCPTCLEEY----DAENPRIITK------CEHHFHLACIFEWMERSDTCPVCNQEMIF 207
           +  C  C++E         PR +        C H  HL C+  W+ER  TCP+C + +IF
Sbjct: 287 DRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF 346

Query: 208 D 208
           D
Sbjct: 347 D 347

Length = 491

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

 Score = 44.0 bits (104), Expect = 9e-07
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 203
           EE  CP CL+     +P ++T C H F   CI  ++++   CP+C  
Sbjct: 1   EELECPICLDLL--RDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>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 = 44.8 bits (106), Expect = 1e-06
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 159 DVCPTCLEEYDAEN--PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
             CP C       +  P +   C H FH  CI+ W++    CP+  Q  + 
Sbjct: 32  GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82

Length = 88

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

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 13/66 (19%)

Query: 155 IEEEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDT---CPVC 201
              +DVC  C   +D           + P +  KC+H+FH+ CI +W+    +   CP+C
Sbjct: 18  TPSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMC 77

Query: 202 NQEMIF 207
            Q  +F
Sbjct: 78  RQTFVF 83

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|214546 smart00184, RING, Ring finger

 Score = 39.8 bits (93), Expect = 2e-05
 Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 3/42 (7%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVC 201
           CP CLEEY  ++P I   C H F  +CI +W+E  + TCP+C
Sbjct: 1   CPICLEEYL-KDPVI-LPCGHTFCRSCIRKWLESGNNTCPIC 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|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 43.5 bits (102), Expect = 5e-05
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 5/68 (7%)

Query: 144  LSKSVHHVVAVIEEEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMERS--DTCP 199
              K++    +  EE  +C + L+  D   P  R  T C++ FH  C+++W   S    CP
Sbjct: 1458 WKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCAT-CKNKFHTRCLYKWFASSARSNCP 1516

Query: 200  VCNQEMIF 207
            +C  E+ F
Sbjct: 1517 LCRSEITF 1524

Length = 1525

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

 Score = 42.7 bits (100), Expect = 7e-05
 Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWM-ERSDTCPVCNQEM 205
           C  C+  +   +   +  C+H FH+ C+ +W+   S+ CPVC   +
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 40.9 bits (96), Expect = 2e-04
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 7/58 (12%)

Query: 155 IEEEDVCPTCLEE-YDAENPR----IITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
            ++E  C  C+E+ YD E       I++ C H F + CI  W +  +TCPVC    I 
Sbjct: 173 KDKE--CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228

Length = 238

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

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVC 201
           CP CLEE   ++P  I  C H F   CI  W+E  + TCP+C
Sbjct: 1   CPICLEEP--KDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	213
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.67
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.53
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.5
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.39
PHA02929	238	N1R/p28-like protein; Provisional	99.34
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.33
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.29
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.27
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.22
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.21
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.2
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.19
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.15
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
PF14634	44	zf-RING_5: zinc-RING finger domain	99.13
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.08
PHA02926	242	zinc finger-like protein; Provisional	99.07
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.05
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.04
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.03
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.97
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.96
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.88
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.86
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.8
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.6
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.58
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.55
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.53
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.5
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.45
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.34
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.3
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.2
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.14
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.14
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.13
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.84
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.84
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.69
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.64
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.54
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.46
COG5152	259	Uncharacterized conserved protein, contains RING a	97.45
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.4
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.27
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.24
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.24
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.15
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.1
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.06
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.98
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.97
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.81
KOG2660	331	consensus Locus-specific chromosome binding protei	96.81
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.77
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.75
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.71
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.71
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.67
PHA02862	156	5L protein; Provisional	96.67
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.64
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	96.56
PF04641	260	Rtf2: Rtf2 RING-finger	96.33
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.29
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.25
PHA03096	284	p28-like protein; Provisional	96.22
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.02
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.0
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.0
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.97
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.85
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.82
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.79
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	94.77
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	94.74
KOG1940	276	consensus Zn-finger protein [General function pred	94.66
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.4
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.27
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	94.11
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.08
KOG3002	299	consensus Zn finger protein [General function pred	93.82
COG5222	427	Uncharacterized conserved protein, contains RING Z	93.05
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.59
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.58
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.91
KOG3053	293	consensus Uncharacterized conserved protein [Funct	91.7
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	91.19
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	91.17
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.45
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.59
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	88.82
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.78
TIGR03602	56	streptolysinS bacteriocin protoxin, streptolysin S	88.78
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	88.53
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.39
KOG1829	580	consensus Uncharacterized conserved protein, conta	87.43
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.37
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	86.3
COG5109	396	Uncharacterized conserved protein, contains RING Z	85.96
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	85.57
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	85.55
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	85.41
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	84.91
KOG0825	1134	consensus PHD Zn-finger protein [General function	84.48
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	84.19
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	83.14
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	81.17
KOG3899	381	consensus Uncharacterized conserved protein [Funct	81.12

>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=99.67  E-value=2e-17  Score=103.79  Aligned_cols=44  Identities=45%  Similarity=1.152  Sum_probs=40.1

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccc
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN  202 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr  202 (213)
                      +.|+||+++|..++.++.++|||.||.+||.+|++++.+||+||
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            46999999998888899999999999999999999999999997

...

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

Probab=99.53  E-value=6.9e-15  Score=128.47  Aligned_cols=52  Identities=38%  Similarity=0.957  Sum_probs=46.9

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCC-cccccccccCCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDT-CPVCNQEMIFDLP  210 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~-CPvCr~~l~~~~~  210 (213)
                      +.|+||||+|..++.+++|||+|.||..||++||....+ ||+||+.+.....
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            489999999999999999999999999999999988755 9999998866553

>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=99.50  E-value=2e-14  Score=99.76  Aligned_cols=47  Identities=36%  Similarity=0.965  Sum_probs=37.8

Q ss_pred             CCCCccccccccccC----------CCCeEEcCcCCeechhHHHHHHhcCCCccccc
Q 028139          156 EEEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDTCPVCN  202 (213)
Q Consensus       156 ee~~~C~ICle~~~~----------~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr  202 (213)
                      ..++.|+||++.|..          +..+...+|||.||..||.+||+.+.+||+||
T Consensus        17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            345569999999932          23456678999999999999999999999997

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

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

Probab=99.39  E-value=2e-13  Score=118.69  Aligned_cols=54  Identities=33%  Similarity=0.934  Sum_probs=46.2

Q ss_pred             CCCCcccccccc-ccCC---------CCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEE-YDAE---------NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~-~~~~---------~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ..+..|.||||+ |..+         ..+..++|||.||.+|++.||+|+.+||+||.++.+|.
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~  348 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQ  348 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccccc
Confidence            455689999999 5444         23468999999999999999999999999999988876

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.34  E-value=7.4e-13  Score=110.97  Aligned_cols=50  Identities=32%  Similarity=0.845  Sum_probs=41.7

Q ss_pred             CCCccccccccccCCC-----CeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          157 EEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       157 e~~~C~ICle~~~~~~-----~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      .+..|+|||+.+....     -.++++|+|.||..||.+|++++.+||+||+.+.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            3467999999975432     1356789999999999999999999999999774

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

Probab=99.33  E-value=8.3e-13  Score=93.17  Aligned_cols=53  Identities=36%  Similarity=0.931  Sum_probs=43.8

Q ss_pred             CCCccccccccccCC----------CCeEEcCcCCeechhHHHHHHhc---CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~----------~~~~~l~CgH~Fh~~CI~~Wl~~---~~~CPvCr~~l~~~~  209 (213)
                      +++.|.||...|+..          -+++.-.|+|.||..||.+||+.   +..||+||++..+++
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~   85 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE   85 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence            467799999999752          25566779999999999999975   478999999988764

>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=99.29  E-value=3.2e-12  Score=82.18  Aligned_cols=46  Identities=28%  Similarity=0.782  Sum_probs=39.5

Q ss_pred             CCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCccccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +..|.||++....   .++++|||. ||..|+.+|++.+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4569999998654   789999999 999999999999999999999874

...

>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=99.27  E-value=3.4e-12  Score=77.88  Aligned_cols=39  Identities=44%  Similarity=1.142  Sum_probs=34.0

Q ss_pred             cccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccc
Q 028139          161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvC  201 (213)
                      |+||++.+..  +++.++|||.||..||.+|++.+.+||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998865  55899999999999999999999999998

>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=99.22  E-value=1.1e-11  Score=76.56  Aligned_cols=44  Identities=39%  Similarity=1.092  Sum_probs=37.7

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEM  205 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l  205 (213)
                      .|+||++.+  .+...+++|||.||..|+..|++. +..||+||+.+
T Consensus         1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998  345667779999999999999998 78899999864

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

Probab=99.21  E-value=6.3e-12  Score=106.94  Aligned_cols=49  Identities=27%  Similarity=0.811  Sum_probs=44.8

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCccccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI  206 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~  206 (213)
                      .-.|+|||+.|...+...+|||.|.||..||.+||. -+..||+||.+++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            357999999998888899999999999999999998 6889999999875

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

Probab=99.20  E-value=2.6e-11  Score=96.13  Aligned_cols=54  Identities=28%  Similarity=0.664  Sum_probs=45.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      +....|+|||+.|.... .+.++|||+||..||+..++...+||+|++.|..++-
T Consensus       129 ~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             ccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            44468999999986533 3569999999999999999999999999998866543

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.19  E-value=1.3e-11  Score=99.81  Aligned_cols=50  Identities=28%  Similarity=0.715  Sum_probs=40.9

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc----------------CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----------------SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~----------------~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++.+..   .++++|||.||..||.+|+..                ...||+||..+...+
T Consensus        17 ~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         17 GDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            45679999998754   567899999999999999853                247999999886544

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

Probab=99.15  E-value=1.6e-11  Score=104.02  Aligned_cols=54  Identities=30%  Similarity=0.696  Sum_probs=45.9

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCCC
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~  211 (213)
                      .+....|.||||.-..   +..++|||+||..||.+|...+..||+||..+..++.+
T Consensus       236 ~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI  289 (293)
T ss_pred             CCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence            3556789999997543   67999999999999999999999999999988766543

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

Probab=99.14  E-value=2.1e-11  Score=100.45  Aligned_cols=52  Identities=31%  Similarity=0.763  Sum_probs=42.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc---CCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~---~~~CPvCr~~l~~~~~  210 (213)
                      .....|.||||.-..   .+++.|||+||..||++||..   ++.|||||..|..+..
T Consensus        45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            445679999996433   668889999999999999976   4679999998876653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.13  E-value=3.5e-11  Score=75.31  Aligned_cols=44  Identities=32%  Similarity=0.785  Sum_probs=39.7

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      .|+||++.|..+....++.|||.||..||..++.....||+||+
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            39999999966677899999999999999999977788999986

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

Probab=99.08  E-value=1.1e-10  Score=72.42  Aligned_cols=38  Identities=29%  Similarity=0.838  Sum_probs=29.9

Q ss_pred             cccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccc
Q 028139          161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvC  201 (213)
                      |+||++.|..   .+.++|||.|+..||..|.+..    -.||+|
T Consensus         1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999976   7889999999999999999764    369987

>PHA02926 zinc finger-like protein; Provisional

Probab=99.07  E-value=8.2e-11  Score=96.52  Aligned_cols=53  Identities=26%  Similarity=0.644  Sum_probs=40.3

Q ss_pred             CCCccccccccccCC------CCeEEcCcCCeechhHHHHHHhcC------CCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAE------NPRIITKCEHHFHLACIFEWMERS------DTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~------~~~~~l~CgH~Fh~~CI~~Wl~~~------~~CPvCr~~l~~~~  209 (213)
                      ++.+|+||||.....      .-.++.+|+|.||..||..|.+.+      .+||+||..+.+=-
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~  233 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT  233 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence            456799999986321      124567899999999999999753      46999999875533

>smart00504 Ubox Modified RING finger domain

Probab=99.05  E-value=2.3e-10  Score=76.51  Aligned_cols=48  Identities=23%  Similarity=0.402  Sum_probs=41.9

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ..|+||++.+..   .++++|||.|+..||.+|++.+.+||+|++.+..++
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            469999998865   467899999999999999999999999999886554

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=99.04  E-value=2.3e-10  Score=70.20  Aligned_cols=39  Identities=44%  Similarity=1.182  Sum_probs=33.9

Q ss_pred             cccccccccCCCCeEEcCcCCeechhHHHHHHh--cCCCcccc
Q 028139          161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME--RSDTCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~--~~~~CPvC  201 (213)
                      |+||++.+..  +..+++|||.||..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999998865  345999999999999999998  55779998

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 ....

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

Probab=99.03  E-value=1.2e-10  Score=80.39  Aligned_cols=54  Identities=30%  Similarity=0.691  Sum_probs=42.6

Q ss_pred             CCccccccccccC-------------CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCCC
Q 028139          158 EDVCPTCLEEYDA-------------ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       158 ~~~C~ICle~~~~-------------~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~  211 (213)
                      -++|+||...|..             +-++..-.|.|.||..||.+||..++.||++|++..+.+..
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~~   86 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADGG   86 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEeccc
Confidence            3678888776633             12345566999999999999999999999999998776643

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

Probab=98.97  E-value=1.8e-10  Score=107.77  Aligned_cols=49  Identities=35%  Similarity=0.867  Sum_probs=42.8

Q ss_pred             CCCccccccccccCCCC--eEEcCcCCeechhHHHHHHhcCCCcccccccc
Q 028139          157 EEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~--~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      ..+.|+||+|+...+..  ...++|||.||..|++.||+++++||+||..+
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            36789999999876543  67899999999999999999999999999944

>smart00184 RING Ring finger

Probab=98.96  E-value=5.1e-10  Score=66.58  Aligned_cols=38  Identities=42%  Similarity=1.189  Sum_probs=33.0

Q ss_pred             cccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCcccc
Q 028139          161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvC  201 (213)
                      |+||++..   ...+.++|||.||..||..|++ .+..||+|
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            78999973   3477889999999999999998 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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.88  E-value=1.2e-09  Score=97.72  Aligned_cols=51  Identities=25%  Similarity=0.636  Sum_probs=43.8

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .+....|+||++.|..   .++++|||.||..||..|+.....||+|+..+...
T Consensus        23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            3566789999998854   45789999999999999999988999999987543

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

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

Probab=98.86  E-value=2.1e-09  Score=66.79  Aligned_cols=34  Identities=35%  Similarity=0.875  Sum_probs=23.4

Q ss_pred             cccccccc-cCCCCeEEcCcCCeechhHHHHHHhcC
Q 028139          161 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERS  195 (213)
Q Consensus       161 C~ICle~~-~~~~~~~~l~CgH~Fh~~CI~~Wl~~~  195 (213)
                      |+||+| | ..+++.++|+|||.|+.+||.+|++.+
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 7 557788899999999999999999864

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

Probab=98.80  E-value=7.3e-10  Score=75.93  Aligned_cols=52  Identities=31%  Similarity=0.827  Sum_probs=41.0

Q ss_pred             CCccccccccccCC----------CCeEEcCcCCeechhHHHHHHhc---CCCcccccccccCCC
Q 028139          158 EDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL  209 (213)
Q Consensus       158 ~~~C~ICle~~~~~----------~~~~~l~CgH~Fh~~CI~~Wl~~---~~~CPvCr~~l~~~~  209 (213)
                      .++|.||.-.|+..          -+++.-.|.|.||..||.+|+..   +..||+||+.+.+++
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e   84 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE   84 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence            34799999999662          24444569999999999999965   467999999987653

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

Probab=98.60  E-value=3.5e-08  Score=63.15  Aligned_cols=42  Identities=29%  Similarity=0.867  Sum_probs=33.0

Q ss_pred             ccccccccccCCCCeEEcCcC-----CeechhHHHHHHhcC--CCccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCN  202 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~Cg-----H~Fh~~CI~~Wl~~~--~~CPvCr  202 (213)
                      .|.||++..+.+ ...+.||.     |.||..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~~~~~~-~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEG-DPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCC-CeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999944444 45578884     999999999999654  5899995

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

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

Probab=98.58  E-value=2.2e-08  Score=84.11  Aligned_cols=51  Identities=29%  Similarity=0.675  Sum_probs=42.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHH-HHhcCC-CcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE-WMERSD-TCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~-Wl~~~~-~CPvCr~~l~~~~  209 (213)
                      +.+..|+||++....   ...++|||+||..||.. |-+++- .||+||+....++
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            456689999997543   77999999999999999 987764 5999999876554

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

Probab=98.55  E-value=3.7e-08  Score=89.45  Aligned_cols=49  Identities=31%  Similarity=0.737  Sum_probs=40.4

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC-----CCcccccccccCCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQEMIFDL  209 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~-----~~CPvCr~~l~~~~  209 (213)
                      +..|||||+....   ..++.|||.||..||...+..+     ..||+|+..+..++
T Consensus       186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            5679999998755   5577799999999999988654     67999999876654

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

Probab=98.53  E-value=1.6e-08  Score=69.61  Aligned_cols=51  Identities=27%  Similarity=0.690  Sum_probs=25.3

Q ss_pred             CCcccccccccc-CCC-C-eEE--cCcCCeechhHHHHHHhc-----------CCCcccccccccCC
Q 028139          158 EDVCPTCLEEYD-AEN-P-RII--TKCEHHFHLACIFEWMER-----------SDTCPVCNQEMIFD  208 (213)
Q Consensus       158 ~~~C~ICle~~~-~~~-~-~~~--l~CgH~Fh~~CI~~Wl~~-----------~~~CPvCr~~l~~~  208 (213)
                      +..|.||++.+. .+. + ++.  ..|++.||..||.+||..           .++||.|+++|.++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            346999999875 322 2 223  369999999999999964           14699999998654

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

Probab=98.50  E-value=8.7e-08  Score=66.35  Aligned_cols=51  Identities=24%  Similarity=0.359  Sum_probs=39.6

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDLP  210 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~~  210 (213)
                      ++..|+|+.+-+..   .+++++||.|...+|.+|++. ..+||+|++.+..++.
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l   54 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL   54 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred             cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence            35679999998866   678899999999999999998 8999999998876543

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 ....

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

Probab=98.45  E-value=6.5e-08  Score=70.15  Aligned_cols=67  Identities=28%  Similarity=0.535  Sum_probs=48.3

Q ss_pred             HHhhhccccccc-cCCCCccccccccccC-------------CC-CeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          143 ELSKSVHHVVAV-IEEEDVCPTCLEEYDA-------------EN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       143 ~~~~~~~~~~~~-~ee~~~C~ICle~~~~-------------~~-~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      +++|+....... +...+.|+||..-+..             ++ .+.---|.|.||..||.+||+.++.||+|.++..+
T Consensus        30 ~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   30 ELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             EEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            466665444433 3567889999755411             12 23335599999999999999999999999998876


Q ss_pred             CC
Q 028139          208 DL  209 (213)
Q Consensus       208 ~~  209 (213)
                      ..
T Consensus       110 qr  111 (114)
T KOG2930|consen  110 QR  111 (114)
T ss_pred             ee
Confidence            54

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

Probab=98.44  E-value=7.1e-08  Score=87.11  Aligned_cols=50  Identities=30%  Similarity=0.804  Sum_probs=39.7

Q ss_pred             CCCccccccccccC---CC-----------CeEEcCcCCeechhHHHHHHh-cCCCccccccccc
Q 028139          157 EEDVCPTCLEEYDA---EN-----------PRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI  206 (213)
Q Consensus       157 e~~~C~ICle~~~~---~~-----------~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~  206 (213)
                      ....|+|||..++.   +.           .-.++||.|+||..|+..||. .+--||+||.+++
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            34469999998744   11           134579999999999999999 5668999999875

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

Probab=98.34  E-value=9e-08  Score=80.63  Aligned_cols=53  Identities=28%  Similarity=0.700  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCCC-------CeEEcCcCCeechhHHHHHH--hcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAEN-------PRIITKCEHHFHLACIFEWM--ERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~-------~~~~l~CgH~Fh~~CI~~Wl--~~~~~CPvCr~~l~~~  208 (213)
                      .++.+|+||-..+....       +...|.|+|.||..||+-|-  -.+.+||.||..+..+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            45567999988875543       56678999999999999998  4578999999877443

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

Probab=98.30  E-value=1.6e-07  Score=81.40  Aligned_cols=48  Identities=27%  Similarity=0.695  Sum_probs=42.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +.-..|.||.|-|.+   ..+++|+|.||.-||+..|..+..||.|+.++.
T Consensus        21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~   68 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT   68 (442)
T ss_pred             HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence            445679999999977   678899999999999999999999999998764

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

Probab=98.25  E-value=4.6e-07  Score=79.89  Aligned_cols=55  Identities=33%  Similarity=0.780  Sum_probs=41.4

Q ss_pred             CCCCccccccccccCCC-----CeEEcCcCCeechhHHHHHH--hc-----CCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWM--ER-----SDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~-----~~~~l~CgH~Fh~~CI~~Wl--~~-----~~~CPvCr~~l~~~~~  210 (213)
                      ..+.+|.||||....-.     -.++.+|.|.||..||..|.  .+     ++.||.||....+--+
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p  225 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP  225 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence            34567999999874432     23447799999999999999  44     5789999987655443

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

Probab=98.23  E-value=4e-07  Score=76.76  Aligned_cols=45  Identities=38%  Similarity=0.849  Sum_probs=39.6

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      +++..|+||++.|...   .+++|||.||..||..|+...-.||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            5677899999999764   78999999999999999986678999993

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

Probab=98.20  E-value=6.2e-07  Score=76.44  Aligned_cols=48  Identities=25%  Similarity=0.499  Sum_probs=42.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +.-..|-||-+.|.+   ...++|||.||.-||+..|..+..||+||.+..
T Consensus        23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            344679999998877   678999999999999999999999999998653

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

Probab=98.14  E-value=7.4e-07  Score=85.89  Aligned_cols=56  Identities=25%  Similarity=0.807  Sum_probs=42.1

Q ss_pred             ccccCCCCccccccccccC-CC---CeEEcCcCCeechhHHHHHHhcC--CCcccccccccC
Q 028139          152 VAVIEEEDVCPTCLEEYDA-EN---PRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIF  207 (213)
Q Consensus       152 ~~~~ee~~~C~ICle~~~~-~~---~~~~l~CgH~Fh~~CI~~Wl~~~--~~CPvCr~~l~~  207 (213)
                      ...-+....|+||+..... +.   ...+..|.|-||..|+++|++.+  ++||+||.++.+
T Consensus      1463 ~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1463 DEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             hhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            3333455679999987752 21   23456699999999999999875  689999988865

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

Probab=98.14  E-value=7.7e-07  Score=79.74  Aligned_cols=49  Identities=35%  Similarity=0.889  Sum_probs=38.8

Q ss_pred             CCCCccccccccccCCC-CeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~-~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      .|..+||||||.++... .++.+.|.|.||..|+.+|-  ..+|||||....
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            45568999999997654 34556799999999999995  455999997544

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

Probab=98.13  E-value=4.8e-07  Score=60.43  Aligned_cols=50  Identities=30%  Similarity=0.659  Sum_probs=26.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||.+.+.  +++.+..|+|.||..||..-+..  .||+|+.+.+.+|
T Consensus         5 e~lLrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    5 EELLRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             HHTTS-SSS-S--S--S-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             HHhcCCcHHHHHhc--CCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            34567999999864  45677889999999999885553  4999999987766

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

Probab=97.99  E-value=7.8e-07  Score=77.60  Aligned_cols=54  Identities=22%  Similarity=0.707  Sum_probs=41.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~~~  211 (213)
                      .-+..|+|||+-+..  ......|+|.||..||..-|+. .+.||.||+.+..+-.|
T Consensus        41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL   95 (381)
T KOG0311|consen   41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL   95 (381)
T ss_pred             hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence            345679999998754  2334559999999999999976 57899999988655433

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

Probab=97.88  E-value=8.9e-06  Score=71.25  Aligned_cols=47  Identities=26%  Similarity=0.668  Sum_probs=40.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCC-eechhHHHHHHhcCCCcccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH-~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      +....|.|||.+-..   ..+|||-| ..|..|-+...-..+.||+||+.+
T Consensus       288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence            445689999998654   77999999 799999999877788999999976

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

Probab=97.84  E-value=2.9e-06  Score=80.51  Aligned_cols=51  Identities=27%  Similarity=0.535  Sum_probs=42.5

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      ....|+|||..|..+......+|+|.||..||..|-+.-.+||+||.++..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            345699999999665544556799999999999999999999999997743

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

Probab=97.84  E-value=4.7e-06  Score=79.06  Aligned_cols=49  Identities=31%  Similarity=0.621  Sum_probs=42.5

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCcccccccccCCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~~~~~  210 (213)
                      ..|+.|-..|..   .++++|||.||..||..-++ |..+||.|...+-.+|-
T Consensus       644 LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  644 LKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             eeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            489999998876   77899999999999999995 46889999998877663

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

Probab=97.69  E-value=2.2e-05  Score=78.64  Aligned_cols=51  Identities=31%  Similarity=0.775  Sum_probs=44.6

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----------CCcccccccc
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----------DTCPVCNQEM  205 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----------~~CPvCr~~l  205 (213)
                      .+.+|+|.||+.+--...+.+.|.|+|+||..|.+.-|++.          -.||+|+.++
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            36678999999988777889999999999999999988775          4799999876

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

Probab=97.64  E-value=3.8e-05  Score=50.58  Aligned_cols=43  Identities=33%  Similarity=0.758  Sum_probs=29.6

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc--CCCccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPV  200 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~--~~~CPv  200 (213)
                      .....|||.+..|.  ++++...|||.|-.+.|.+||++  ...||+
T Consensus         9 ~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            34468999999885  57777899999999999999944  457998

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

Probab=97.54  E-value=3.7e-05  Score=69.40  Aligned_cols=53  Identities=32%  Similarity=0.760  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ++...|+||...+..  ++..+.|||.||..||.+|+..+..||.|+..+.....
T Consensus        19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE   71 (391)
T ss_pred             cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence            455679999998754  33336899999999999999999999999998876553

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

Probab=97.50  E-value=1.9e-05  Score=50.94  Aligned_cols=44  Identities=25%  Similarity=0.656  Sum_probs=33.6

Q ss_pred             CccccccccccCCCCeEEcCcCC-eechhHHHHHHh-cCCCcccccccc
Q 028139          159 DVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWME-RSDTCPVCNQEM  205 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH-~Fh~~CI~~Wl~-~~~~CPvCr~~l  205 (213)
                      ++|.||+|.-..   .++-.||| ..|..|-.+.++ .+..||+||.++
T Consensus         8 dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            679999996432   34556999 578899766555 688999999876

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

Probab=97.46  E-value=3.2e-05  Score=66.40  Aligned_cols=51  Identities=25%  Similarity=0.744  Sum_probs=42.8

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhc-----------------------CCCcccccccccCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----------------------SDTCPVCNQEMIFDL  209 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-----------------------~~~CPvCr~~l~~~~  209 (213)
                      ..|.|||-.|..+...+.+.|-|.||..|+.+.|..                       ...|||||..|..+.
T Consensus       116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            459999999988888899999999999999887731                       257999999887654

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

Probab=97.45  E-value=5.1e-05  Score=61.60  Aligned_cols=45  Identities=27%  Similarity=0.761  Sum_probs=40.3

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      ...|.||-++|..   ++++.|||.||..|...-++....|-+|.+.+
T Consensus       196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            3589999999976   67899999999999999999999999998764

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

Probab=97.40  E-value=5.7e-05  Score=67.14  Aligned_cols=49  Identities=29%  Similarity=0.752  Sum_probs=40.1

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhc--CCCcccccccccCCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMIFDLP  210 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~--~~~CPvCr~~l~~~~~  210 (213)
                      ..|-||-|.   +..+.+-+|||..|..|+..|-..  .++||.||.+|.--++
T Consensus       370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            359999884   444788999999999999999844  5799999999865543

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

Probab=97.27  E-value=0.00021  Score=45.18  Aligned_cols=40  Identities=28%  Similarity=0.904  Sum_probs=28.1

Q ss_pred             cccccccccCCCCeEEcCcC-----CeechhHHHHHHhc--CCCcccc
Q 028139          161 CPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMER--SDTCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~Cg-----H~Fh~~CI~~Wl~~--~~~CPvC  201 (213)
                      |-||++....+. ..+.||.     -..|..|+.+|+..  +.+|++|
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            779999876655 5577874     47899999999974  5679987

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

Probab=97.24  E-value=0.0013  Score=63.55  Aligned_cols=49  Identities=33%  Similarity=0.717  Sum_probs=37.5

Q ss_pred             cCCCCccccccccccCCCCeE-EcCcCCeechhHHHHHHhcC-------CCcccccc
Q 028139          155 IEEEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERS-------DTCPVCNQ  203 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~-~l~CgH~Fh~~CI~~Wl~~~-------~~CPvCr~  203 (213)
                      .....+|.||++.+....++. ...|=|+||+.||.+|-+..       -.||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            345568999999996655443 35589999999999999653       25999973

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

Probab=97.24  E-value=0.0002  Score=64.56  Aligned_cols=48  Identities=27%  Similarity=0.722  Sum_probs=41.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      ..+..|.||+..+..   ++.++|||.||..||.+-|..+.-||.||.++.
T Consensus        82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence            345679999887654   667899999999999999998999999999875

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.15  E-value=0.00023  Score=61.88  Aligned_cols=36  Identities=19%  Similarity=0.516  Sum_probs=27.9

Q ss_pred             eEEcCcCCeechhHHHHHH-hcCCCcccccccccCCC
Q 028139          174 RIITKCEHHFHLACIFEWM-ERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       174 ~~~l~CgH~Fh~~CI~~Wl-~~~~~CPvCr~~l~~~~  209 (213)
                      +.+..|||.||..||...+ .....||+|++.+..+.
T Consensus        21 l~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570        21 LMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             cccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            3344899999999999955 55678999998775443

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

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

Probab=97.10  E-value=0.00017  Score=61.87  Aligned_cols=44  Identities=27%  Similarity=0.631  Sum_probs=39.9

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccc
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      +.|-||...|..   .+++.|+|.||..|-..-+++...|.+|.+.+
T Consensus       242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccc
Confidence            469999999976   67899999999999999999999999998865

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

Probab=97.06  E-value=0.00015  Score=64.39  Aligned_cols=48  Identities=33%  Similarity=0.684  Sum_probs=39.7

Q ss_pred             CCCCccccccccccCC-CCeEEcCcCCeechhHHHHHHhcC--CCcccccc
Q 028139          156 EEEDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERS--DTCPVCNQ  203 (213)
Q Consensus       156 ee~~~C~ICle~~~~~-~~~~~l~CgH~Fh~~CI~~Wl~~~--~~CPvCr~  203 (213)
                      +-+..|..|=|.|... +.+..+||.|+||..|+.+.|+++  .+||-||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            4456899999998553 346679999999999999999776  68999995

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

Probab=96.98  E-value=0.00028  Score=62.57  Aligned_cols=27  Identities=41%  Similarity=1.178  Sum_probs=23.8

Q ss_pred             EcCcCCeechhHHHHHHhcC---CCccccc
Q 028139          176 ITKCEHHFHLACIFEWMERS---DTCPVCN  202 (213)
Q Consensus       176 ~l~CgH~Fh~~CI~~Wl~~~---~~CPvCr  202 (213)
                      +-.|||.||..|+.+|++.-   ..||+|+
T Consensus        23 i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen   23 IGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            55699999999999999873   5899998

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

Probab=96.97  E-value=0.00028  Score=54.13  Aligned_cols=35  Identities=17%  Similarity=0.429  Sum_probs=29.8

Q ss_pred             CCccccccccccCCCCeEEcCcC------CeechhHHHHHH
Q 028139          158 EDVCPTCLEEYDAENPRIITKCE------HHFHLACIFEWM  192 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~Cg------H~Fh~~CI~~Wl  192 (213)
                      ...|.||++.+.....++.+.||      |.||..|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            45699999999775667778886      999999999994

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.

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.81  E-value=0.0011  Score=55.62  Aligned_cols=55  Identities=13%  Similarity=0.279  Sum_probs=46.6

Q ss_pred             CCCccccccccccCCCCeE-EcCcCCeechhHHHHHHhcCCCcccccccccCCCCC
Q 028139          157 EEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~-~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~  211 (213)
                      ...+||||.+.+.+..+.. +-+|||+|+.+|+.+.+..-..||||.+++.-++.|
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII  275 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence            4568999999998766554 456999999999999999999999999998877643

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

Probab=96.81  E-value=0.00033  Score=60.99  Aligned_cols=51  Identities=27%  Similarity=0.546  Sum_probs=41.0

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ...+|.+|---|...  ..++-|-|.||.+||.+.|+.++.||.|+..+-...
T Consensus        14 ~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             cceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            456799998877442  346679999999999999999999999988764443

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

Probab=96.77  E-value=0.0014  Score=55.72  Aligned_cols=49  Identities=33%  Similarity=0.653  Sum_probs=39.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc--CCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~--~~~CPvCr~~l~  206 (213)
                      ....+|++|-+.-  ..|-++.+|||+||.-||..-+.-  +-+||.|.....
T Consensus       237 t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4556899999864  456778889999999999997754  478999987664

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.75  E-value=0.00091  Score=43.38  Aligned_cols=47  Identities=28%  Similarity=0.547  Sum_probs=36.9

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ..|..|...   +....+++|||..+..|..-  ++.+-||+|.+++.++++
T Consensus         8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             eeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCCC
Confidence            446666553   44567899999999999876  488889999999988765

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.71  E-value=0.0013  Score=51.85  Aligned_cols=51  Identities=29%  Similarity=0.702  Sum_probs=37.3

Q ss_pred             ccCCCCccccccccccCCCCeEEcCcC--C---eechhHHHHHHhcC--CCcccccccccCC
Q 028139          154 VIEEEDVCPTCLEEYDAENPRIITKCE--H---HFHLACIFEWMERS--DTCPVCNQEMIFD  208 (213)
Q Consensus       154 ~~ee~~~C~ICle~~~~~~~~~~l~Cg--H---~Fh~~CI~~Wl~~~--~~CPvCr~~l~~~  208 (213)
                      .+..+..|-||.++....    .-||.  .   ..|.+|+.+|+..+  .+|++|+++..+.
T Consensus         4 ~s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          4 VSLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             cCCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            345667899999985432    24654  3   66999999999664  6799999987543

>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=96.71  E-value=0.0015  Score=47.62  Aligned_cols=33  Identities=24%  Similarity=0.555  Sum_probs=27.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHH
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIF  189 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~  189 (213)
                      .+...|+||-..+.. ....+.||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            345569999999866 557789999999999975

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 [].

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

Probab=96.67  E-value=0.0013  Score=57.97  Aligned_cols=49  Identities=22%  Similarity=0.621  Sum_probs=41.8

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +.|++.|+||.-.   ....+..||+|.-|..||.+-|-+.+.|=.|+..+.
T Consensus       419 ~sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  419 DSEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CcccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            3567789999874   344678999999999999999999999999998765

>PHA02862 5L protein; Provisional

Probab=96.67  E-value=0.001  Score=51.48  Aligned_cols=48  Identities=21%  Similarity=0.593  Sum_probs=35.9

Q ss_pred             CCccccccccccCCCCeEEcCc-----CCeechhHHHHHHhc--CCCcccccccccCCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKC-----EHHFHLACIFEWMER--SDTCPVCNQEMIFDL  209 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~C-----gH~Fh~~CI~~Wl~~--~~~CPvCr~~l~~~~  209 (213)
                      .+.|-||+++.+.+    .-||     --..|..|+.+|++.  +..|++|+.+..++.
T Consensus         2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~   56 (156)
T PHA02862          2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK   56 (156)
T ss_pred             CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence            35799999986432    2455     357899999999965  467999999875543

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

Probab=96.64  E-value=0.0017  Score=41.06  Aligned_cols=45  Identities=27%  Similarity=0.645  Sum_probs=23.0

Q ss_pred             cccccccccCCC-CeEEcCcCCeechhHHHHHHh-cCCCcccccccc
Q 028139          161 CPTCLEEYDAEN-PRIITKCEHHFHLACIFEWME-RSDTCPVCNQEM  205 (213)
Q Consensus       161 C~ICle~~~~~~-~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l  205 (213)
                      |++|.++++... ...-=+||+.+|..|...-++ ..+.||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            799999984432 333344799999999999886 478999999864

>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=96.56  E-value=0.0011  Score=41.54  Aligned_cols=43  Identities=30%  Similarity=0.798  Sum_probs=26.6

Q ss_pred             cccccccccCCCCeEEcCc-CCeechhHHHHHHhcCCCcccccccccCC
Q 028139          161 CPTCLEEYDAENPRIITKC-EHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~C-gH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      |--|+-....     +..| .|..|..|+...|.++..||+|+.+++++
T Consensus         5 CKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    5 CKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             --SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            6666654433     5678 59999999999999999999999998764

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.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.33  E-value=0.0038  Score=53.40  Aligned_cols=53  Identities=23%  Similarity=0.506  Sum_probs=41.7

Q ss_pred             CCCCccccccccccCCCCe-EEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~-~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .....|||...+|...... .+-+|||+|...+|.+- .....||+|.+++...+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            5567999999999554444 44589999999999996 34668999999887554

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

Probab=96.29  E-value=0.00085  Score=57.57  Aligned_cols=42  Identities=21%  Similarity=0.623  Sum_probs=32.1

Q ss_pred             CCCccccccccccCCCCeEEcCcCC-eechhHHHHHHhcCCCcccccccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH-~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      ....|.|||+.-.   ..+.|.||| .-|.+|-..    -+.|||||+.|
T Consensus       299 ~~~LC~ICmDaP~---DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  299 TRRLCAICMDAPR---DCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHHhcCCc---ceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            3568999999643   367899999 568888654    34899999876

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

Probab=96.25  E-value=0.0027  Score=56.83  Aligned_cols=37  Identities=24%  Similarity=0.723  Sum_probs=29.4

Q ss_pred             cCCCCeEEcCcCCeechhHHHHHHhc--CCCcccccccc
Q 028139          169 DAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEM  205 (213)
Q Consensus       169 ~~~~~~~~l~CgH~Fh~~CI~~Wl~~--~~~CPvCr~~l  205 (213)
                      ..++..+.+.|||.|...||.+||-.  ...||.|..+.
T Consensus        17 ~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen   17 AGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            34556678999999999999999953  35699998654

>PHA03096 p28-like protein; Provisional

Probab=96.22  E-value=0.0023  Score=55.35  Aligned_cols=45  Identities=33%  Similarity=0.696  Sum_probs=31.8

Q ss_pred             CccccccccccCCC-----CeEEcCcCCeechhHHHHHHhcC---CCcccccc
Q 028139          159 DVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWMERS---DTCPVCNQ  203 (213)
Q Consensus       159 ~~C~ICle~~~~~~-----~~~~l~CgH~Fh~~CI~~Wl~~~---~~CPvCr~  203 (213)
                      ..|.||||......     --++..|.|.||..||..|...+   .+||.||.
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            66999999864321     12345699999999999999553   44555544

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

Probab=96.02  E-value=0.0033  Score=56.37  Aligned_cols=46  Identities=22%  Similarity=0.383  Sum_probs=37.9

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhc--------CCCcccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQ  203 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~--------~~~CPvCr~  203 (213)
                      ...|.||+++.......+.++|+|+||..|+...+..        .-.||-++-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3469999999987788899999999999999999854        246877653

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

Probab=96.00  E-value=0.0048  Score=54.44  Aligned_cols=45  Identities=29%  Similarity=0.689  Sum_probs=33.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      ...+.|.||+++...   .+.++|||.-|  |+.--.. -.+||+||+.+.
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccc---eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence            344679999998755   77899999966  7665433 345999998763

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

Probab=96.00  E-value=0.0045  Score=49.63  Aligned_cols=54  Identities=22%  Similarity=0.575  Sum_probs=38.2

Q ss_pred             cCCCCccccccccccCCC----CeEEcCcCCeechhHHHHHHhc------C-----CCcccccccccCC
Q 028139          155 IEEEDVCPTCLEEYDAEN----PRIITKCEHHFHLACIFEWMER------S-----DTCPVCNQEMIFD  208 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~----~~~~l~CgH~Fh~~CI~~Wl~~------~-----~~CPvCr~~l~~~  208 (213)
                      +++...|.||+-.--.+.    ..--..||.-||.-|+..||+.      +     +.||+|-+++..+
T Consensus       162 dd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  162 DDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             chhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            455567999986432222    1223569999999999999964      1     6799999887654

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.97  E-value=0.0042  Score=54.48  Aligned_cols=54  Identities=24%  Similarity=0.534  Sum_probs=38.2

Q ss_pred             ccccCCCCccccccccccCCCC-eEEcCcCCeechhHHHHHHh-cCCCcccccccc
Q 028139          152 VAVIEEEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWME-RSDTCPVCNQEM  205 (213)
Q Consensus       152 ~~~~ee~~~C~ICle~~~~~~~-~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l  205 (213)
                      ..+.+++|.||.|+|+++..+. ..--+||-..|..|+..--+ -++.||.||...
T Consensus         8 ~~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175           8 HNSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             cccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            3455677889999999976543 34466898888888655332 257899999854

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

Probab=95.85  E-value=0.0035  Score=57.87  Aligned_cols=51  Identities=35%  Similarity=0.721  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-----CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-----~~~CPvCr~~l~~~~  209 (213)
                      .++.+|.+|-+.-+.   .+...|.|.||.-||.++++.     +-+||+|-..+..+.
T Consensus       534 k~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  534 KGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             cCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            455689999986433   678899999999999888843     468999988886653

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

Probab=95.58  E-value=0.01  Score=52.22  Aligned_cols=50  Identities=24%  Similarity=0.458  Sum_probs=39.8

Q ss_pred             cccCCCCccccccccccCCCCeEEcCcCCeechhHHHH--HHhcCCCcccccccc
Q 028139          153 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE--WMERSDTCPVCNQEM  205 (213)
Q Consensus       153 ~~~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~--Wl~~~~~CPvCr~~l  205 (213)
                      ..+|++..|-||-+....   ..++||+|..|.-|-..  .|-..+.||+||.+.
T Consensus        56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345777889999998765   66899999999999765  345578899999863

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

Probab=94.82  E-value=0.02  Score=55.67  Aligned_cols=42  Identities=31%  Similarity=0.755  Sum_probs=34.2

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE  204 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~  204 (213)
                      ..+|.+|--..+  -|.+...|||.||..|+.   .....||-|+-+
T Consensus       840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            357999977654  478889999999999988   456789999864

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

Probab=94.79  E-value=0.015  Score=35.89  Aligned_cols=41  Identities=22%  Similarity=0.600  Sum_probs=22.2

Q ss_pred             cccccccccCCCCeEEcCcCCeechhHHHHHHhcCC--Ccccc
Q 028139          161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVC  201 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~--~CPvC  201 (213)
                      |.+|-+....+..-....|+=.+|..|+..+++...  .||.|
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            567777665543222235888999999999997765  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.77  E-value=0.026  Score=50.51  Aligned_cols=47  Identities=26%  Similarity=0.506  Sum_probs=40.5

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC---CCccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQE  204 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~---~~CPvCr~~  204 (213)
                      ..+|||=-+.-..+|++..|.|||+...+=|.+..+..   -+||+|-.+
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            35899999999999999999999999999999977554   479999554

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

Probab=94.74  E-value=0.012  Score=46.52  Aligned_cols=30  Identities=23%  Similarity=0.545  Sum_probs=26.8

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeech
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHL  185 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~  185 (213)
                      ++.-+|.||||++..++....|||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            455579999999999999999999999996

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

Probab=94.66  E-value=0.017  Score=49.70  Aligned_cols=45  Identities=31%  Similarity=0.588  Sum_probs=37.3

Q ss_pred             CccccccccccC-CCCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          159 DVCPTCLEEYDA-ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       159 ~~C~ICle~~~~-~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      ..||||.+.+.. ...+..++|||.-|..|..+.....=+||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            349999998744 345677999999999999998877789999987

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

Probab=94.40  E-value=0.0023  Score=56.98  Aligned_cols=49  Identities=18%  Similarity=0.466  Sum_probs=41.1

Q ss_pred             CccccccccccCC-CCeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          159 DVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       159 ~~C~ICle~~~~~-~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      ..|+||.+.|... .....+.|||.+|..||.+||.....||-|+.++..
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            3699999988554 345567799999999999999999999999988754

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

Probab=94.27  E-value=0.01  Score=57.14  Aligned_cols=47  Identities=26%  Similarity=0.674  Sum_probs=38.5

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcC--CCcccccccccCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIFDL  209 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~  209 (213)
                      ..|.||++    .+..+++.|||.||..|+.+-++..  ..||+||..+..+.
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            67999999    3457889999999999999988664  35999998775544

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

Probab=94.11  E-value=0.045  Score=45.59  Aligned_cols=51  Identities=25%  Similarity=0.551  Sum_probs=40.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc--------CCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~--------~~~CPvCr~~l~~  207 (213)
                      +-...|..|-.....++. +.|.|-|.||.+|+.+|-..        .-.||.|.++|..
T Consensus        48 DY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            334568889888877664 47789999999999999854        2469999998854

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

Probab=94.08  E-value=0.037  Score=48.44  Aligned_cols=51  Identities=29%  Similarity=0.699  Sum_probs=40.8

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      +...|+||+..-.  |+.++.-=|-+||..||-..+...+.|||=..++..++
T Consensus       299 ~~~~CpvClk~r~--Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~  349 (357)
T KOG0826|consen  299 DREVCPVCLKKRQ--NPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDH  349 (357)
T ss_pred             ccccChhHHhccC--CCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHH
Confidence            3457999999754  44555556999999999999999999999877776554

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

Probab=93.82  E-value=0.037  Score=48.35  Aligned_cols=43  Identities=26%  Similarity=0.583  Sum_probs=34.3

Q ss_pred             CCCccccccccccCCCCeEEcCc--CCeechhHHHHHHhcCCCccccccccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~C--gH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +-..||||.+.+..    -+.+|  ||+.|..|-.   +.++.||.||.+|.
T Consensus        47 ~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            44569999998865    25678  8999999976   46888999999875

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

Probab=93.05  E-value=0.056  Score=46.85  Aligned_cols=49  Identities=29%  Similarity=0.550  Sum_probs=35.5

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccc-cccccCCC
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVC-NQEMIFDL  209 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvC-r~~l~~~~  209 (213)
                      ..|+.|---.  .++....-|+|.||.+||...|.. -..||.| |+.++.+.
T Consensus       275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~  325 (427)
T COG5222         275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDG  325 (427)
T ss_pred             ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhc
Confidence            5799987654  344555568999999999988754 5689999 55555443

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

Probab=92.59  E-value=0.028  Score=56.88  Aligned_cols=44  Identities=30%  Similarity=0.638  Sum_probs=37.3

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      ...|.||++....  -..+..|||.||..|+..|+..+..||+|+.
T Consensus      1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            3489999998753  2346779999999999999999999999974

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

Probab=92.58  E-value=0.13  Score=40.64  Aligned_cols=33  Identities=21%  Similarity=0.609  Sum_probs=22.3

Q ss_pred             CCccccccccccCCCCeEEcCcC-------------CeechhHHHHHHh
Q 028139          158 EDVCPTCLEEYDAENPRIITKCE-------------HHFHLACIFEWME  193 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~Cg-------------H~Fh~~CI~~Wl~  193 (213)
                      +..|+||||--   ...++|-|.             -.-|.-|+++.-+
T Consensus         2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            45799999953   335666663             2457889988654

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

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

Probab=91.91  E-value=0.087  Score=50.82  Aligned_cols=29  Identities=31%  Similarity=0.853  Sum_probs=25.3

Q ss_pred             CCeEEcCcCCeechhHHHHHHhcCCCccc
Q 028139          172 NPRIITKCEHHFHLACIFEWMERSDTCPV  200 (213)
Q Consensus       172 ~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPv  200 (213)
                      -..++..|+|..|.+|.++|++....||-
T Consensus      1041 ss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1041 SSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cchhhccccccccHHHHHHHHhcCCcCCC
Confidence            34566789999999999999999999984

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.70  E-value=0.074  Score=45.10  Aligned_cols=51  Identities=24%  Similarity=0.672  Sum_probs=35.6

Q ss_pred             cCCCCccccccccccCCC-CeEEcCc-----CCeechhHHHHHHhcC--------CCcccccccc
Q 028139          155 IEEEDVCPTCLEEYDAEN-PRIITKC-----EHHFHLACIFEWMERS--------DTCPVCNQEM  205 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~-~~~~l~C-----gH~Fh~~CI~~Wl~~~--------~~CPvCr~~l  205 (213)
                      .+.+..|=||+..=++.. ...+-||     .|-.|..|+..|+..+        -+||.|+.+.
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            356678999998632211 1134566     4889999999999543        3699999875

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

Probab=91.19  E-value=0.096  Score=51.30  Aligned_cols=40  Identities=28%  Similarity=0.594  Sum_probs=32.3

Q ss_pred             cccCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh
Q 028139          153 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME  193 (213)
Q Consensus       153 ~~~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~  193 (213)
                      ...+-.+.|.||.-.+.. .+-.+.+|||.||..||.+-+.
T Consensus       812 ~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  812 RVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             EEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence            344667789999988754 4678899999999999998773

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

Probab=91.17  E-value=0.12  Score=50.18  Aligned_cols=53  Identities=32%  Similarity=0.755  Sum_probs=40.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcC-----CeechhHHHHHHhcC--CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~Cg-----H~Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~  209 (213)
                      ++...|-||..+-..++++ .-||.     -..|.+|+.+||+-+  .+|-+|+.++.+++
T Consensus        10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            4456799999987666665 34553     468999999999765  57999999988775

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

Probab=90.45  E-value=0.15  Score=44.07  Aligned_cols=49  Identities=29%  Similarity=0.710  Sum_probs=36.9

Q ss_pred             CCccccccccccCCCC-eEEcCcC-----CeechhHHHHHHh--cCCCccccccccc
Q 028139          158 EDVCPTCLEEYDAENP-RIITKCE-----HHFHLACIFEWME--RSDTCPVCNQEMI  206 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~-~~~l~Cg-----H~Fh~~CI~~Wl~--~~~~CPvCr~~l~  206 (213)
                      +..|-||.++....+. ....+|.     +..|..|+..|+.  .+..|.+|.....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            4679999997754332 4567773     6789999999997  5678999987553

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

Probab=89.59  E-value=0.13  Score=44.82  Aligned_cols=42  Identities=24%  Similarity=0.645  Sum_probs=28.6

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM  205 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l  205 (213)
                      .|--|=-.+..  =-++.+|.|+||++|-..  ..-+.||.|...+
T Consensus        92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            56666444322  135789999999999654  3356899996644

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

Probab=88.82  E-value=0.55  Score=29.81  Aligned_cols=42  Identities=24%  Similarity=0.589  Sum_probs=20.3

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhc---C--CCccccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---S--DTCPVCNQE  204 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~---~--~~CPvCr~~  204 (213)
                      .|+|....+.  .+++...|.|.-|.+ +..||+.   .  =.||+|+++
T Consensus         4 ~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    4 RCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             B-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            5888888764  477888899984432 3445533   2  259999874

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

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

Probab=88.78  E-value=0.14  Score=48.56  Aligned_cols=42  Identities=21%  Similarity=0.519  Sum_probs=32.1

Q ss_pred             CccccccccccCC-CCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          159 DVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       159 ~~C~ICle~~~~~-~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      ..|.||+..|.++ -..+.+.|||..|..|+..-..++  || |+.
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~s--cp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNAS--CP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhcc--CC-CCc
Confidence            4699999988553 345678899999999999865554  88 543

>TIGR03602 streptolysinS bacteriocin protoxin, streptolysin S family

Probab=88.78  E-value=0.13  Score=32.44  Aligned_cols=8  Identities=75%  Similarity=2.469  Sum_probs=5.7

Q ss_pred             CCccccCC
Q 028139            2 GGCCCCSS    9 (213)
Q Consensus         2 ~~~~~~~~    9 (213)
                      ||||||+-
T Consensus        24 ggcccccc   31 (56)
T TIGR03602        24 GGCCCCCC   31 (56)
T ss_pred             CCeEEEec
Confidence            78887753

Members of this family are bacteriocin precursors. These small, ribosomally produced polypeptide precursors are extensively processed post-translationally. This family belongs to a class of heterocycle-containing bacteriocins, including streptolysin S from Streptococcus pyogenes, and related bacteriocins from Streptococcus iniae and Clostridium botulinum. Streptolysin S is hemolytic. Bacteriocin genes in general are small and highly diverse, with odd sequence composition, and are easily missed by many gene-finding programs.

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

Probab=88.53  E-value=0.85  Score=40.84  Aligned_cols=52  Identities=21%  Similarity=0.634  Sum_probs=34.7

Q ss_pred             CCCCccccccccccCCCCeEEc----------------C-----cCCeechhHHHHHHhc-------------CCCcccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT----------------K-----CEHHFHLACIFEWMER-------------SDTCPVC  201 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l----------------~-----CgH~Fh~~CI~~Wl~~-------------~~~CPvC  201 (213)
                      ++.+.|--|+..-  .+.++.-                +     |.=.+|.+|+-+|+-.             +-.||.|
T Consensus       269 ~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC  346 (358)
T PF10272_consen  269 QELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC  346 (358)
T ss_pred             cccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence            6777899999753  1222221                2     2345689999999943             3579999


Q ss_pred             cccccCCC
Q 028139          202 NQEMIFDL  209 (213)
Q Consensus       202 r~~l~~~~  209 (213)
                      |+.+..-|
T Consensus       347 Ra~FCilD  354 (358)
T PF10272_consen  347 RAKFCILD  354 (358)
T ss_pred             cccceeee
Confidence            99876543

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

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

Probab=88.39  E-value=0.15  Score=46.04  Aligned_cols=38  Identities=29%  Similarity=0.645  Sum_probs=29.0

Q ss_pred             CCcccccc-ccccCCCCeEEcCcCCeechhHHHHHHhcC
Q 028139          158 EDVCPTCL-EEYDAENPRIITKCEHHFHLACIFEWMERS  195 (213)
Q Consensus       158 ~~~C~ICl-e~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~  195 (213)
                      ...|.||+ +....+.-..+..|+|.||..|+.+-++.+
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            45799999 444443444478899999999999988754

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

Probab=87.43  E-value=0.19  Score=47.54  Aligned_cols=43  Identities=28%  Similarity=0.748  Sum_probs=29.9

Q ss_pred             CCCcccccccc-----ccCCCCeEEcCcCCeechhHHHHHHhcCCCccccc
Q 028139          157 EEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN  202 (213)
Q Consensus       157 e~~~C~ICle~-----~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr  202 (213)
                      ....|.||...     |..++......|++.||.+|+..   .+.-||.|-
T Consensus       510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~  557 (580)
T KOG1829|consen  510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE  557 (580)
T ss_pred             CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence            45578888432     33455667788999999999554   344499993

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.37  E-value=1  Score=29.17  Aligned_cols=47  Identities=19%  Similarity=0.575  Sum_probs=34.0

Q ss_pred             CCCcccccccccc-CCCCeEEcCcCCeechhHHHHHHhcCCCccc--ccccccC
Q 028139          157 EEDVCPTCLEEYD-AENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQEMIF  207 (213)
Q Consensus       157 e~~~C~ICle~~~-~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPv--Cr~~l~~  207 (213)
                      +...|++|-+.|. .++-++...||--||..|..+    ...|-+  |...+.+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~~~~   53 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTGFEW   53 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCCccc
Confidence            3456999999996 445566677999999999654    566765  6655443

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

Probab=86.30  E-value=0.35  Score=45.65  Aligned_cols=49  Identities=35%  Similarity=0.775  Sum_probs=40.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~  211 (213)
                      +..+.|.||+++.    ....++|.   |.-|+.+|+-.+..||+|.+.+..++..
T Consensus       477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~  525 (543)
T KOG0802|consen  477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFL  525 (543)
T ss_pred             cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccccc
Confidence            4557799999987    24566777   9999999999999999999998887754

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=85.96  E-value=0.55  Score=41.13  Aligned_cols=45  Identities=27%  Similarity=0.547  Sum_probs=37.9

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhc---CCCcccccc
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQ  203 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~---~~~CPvCr~  203 (213)
                      ..||+=-|.-..+|++.++.|||+.-++=++..-++   +-+||+|--
T Consensus       337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~  384 (396)
T COG5109         337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE  384 (396)
T ss_pred             eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence            489999998899999999999999999888885544   247999954

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

Probab=85.57  E-value=0.47  Score=39.28  Aligned_cols=40  Identities=25%  Similarity=0.575  Sum_probs=29.4

Q ss_pred             cccccccccCCCCeEEcCcCC-eechhHHHHHHhcCCCcccccccccC
Q 028139          161 CPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       161 C~ICle~~~~~~~~~~l~CgH-~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      |-+|-+.   +..+.++||.| .+|..|=..    -..||+|+.....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            8888874   44588999988 678888433    4569999876543

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

Probab=85.55  E-value=0.61  Score=40.27  Aligned_cols=35  Identities=23%  Similarity=0.544  Sum_probs=28.5

Q ss_pred             CCCeEEcCcCCeechhHHHHHHhcC-CCcccccccc
Q 028139          171 ENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEM  205 (213)
Q Consensus       171 ~~~~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l  205 (213)
                      ...+..+.|||.|+..|+.+-+... ..||.||...
T Consensus        19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            3345678899999999999988664 5799999984

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.41  E-value=0.45  Score=46.25  Aligned_cols=44  Identities=20%  Similarity=0.574  Sum_probs=34.2

Q ss_pred             CccccccccccC-C---CCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          159 DVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       159 ~~C~ICle~~~~-~---~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      ..|.-|++.... +   +..+++.|||.||+.|+.--+.+++ |-.|..
T Consensus       785 ~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~  832 (846)
T KOG2066|consen  785 ERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESG  832 (846)
T ss_pred             hhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhc
Confidence            369999998743 2   4678899999999999998887766 666643

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

Probab=84.91  E-value=0.2  Score=48.06  Aligned_cols=44  Identities=30%  Similarity=0.764  Sum_probs=35.7

Q ss_pred             CccccccccccCCCCeEEcCcCCeechhHHHHHHhcC---CCcccccccc
Q 028139          159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQEM  205 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~---~~CPvCr~~l  205 (213)
                      ..|+||++.|..   .+.++|.|.|+..|+..-|...   ..||+|+..+
T Consensus        22 lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~   68 (684)
T KOG4362|consen   22 LECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI   68 (684)
T ss_pred             ccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence            459999999866   3789999999999998877554   4699998543

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

Probab=84.48  E-value=0.5  Score=46.03  Aligned_cols=49  Identities=16%  Similarity=0.281  Sum_probs=34.2

Q ss_pred             CCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhc------CCCcccccccc
Q 028139          157 EEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEM  205 (213)
Q Consensus       157 e~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~------~~~CPvCr~~l  205 (213)
                      +.+.|.||.-++..    -....+-.|+|.||..||..|+.+      .-.|+.|..-|
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            44578888888755    122234459999999999999954      34578886543

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=84.19  E-value=0.75  Score=37.85  Aligned_cols=42  Identities=24%  Similarity=0.723  Sum_probs=31.6

Q ss_pred             CCCcccccccc-----ccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          157 EEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       157 e~~~C~ICle~-----~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      .+..|-||-+.     |+.++......|+-.||..|..     +..||-|..
T Consensus       151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R  197 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR  197 (202)
T ss_pred             CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence            45678888753     4555667778899999999976     267999943

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

Probab=83.14  E-value=0.91  Score=34.90  Aligned_cols=51  Identities=22%  Similarity=0.408  Sum_probs=36.7

Q ss_pred             CCCccccccccccCCCCeEEcC---cCCeechhHHHHHHhc---CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITK---CEHHFHLACIFEWMER---SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~---CgH~Fh~~CI~~Wl~~---~~~CPvCr~~l~~~~  209 (213)
                      .--.|-||.|.-..+.  .+-|   ||-..|..|.....+.   ..+||+|+..+....
T Consensus        79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            3457999999765432  2222   8999999988775554   478999999886654

>smart00249 PHD PHD zinc finger

Probab=81.17  E-value=0.89  Score=27.13  Aligned_cols=31  Identities=19%  Similarity=0.487  Sum_probs=22.9

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHH
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFE  190 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~  190 (213)
                      .|.+|......+.-+..-.|...||..|+..
T Consensus         1 ~C~~C~~~~~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcCCCCCEEECCCCCchhhhhhCCC
Confidence            3788888764555455567999999999754

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.12  E-value=0.72  Score=40.02  Aligned_cols=31  Identities=19%  Similarity=0.563  Sum_probs=23.7

Q ss_pred             cCCeechhHHHHHHh-------------cCCCcccccccccCCC
Q 028139          179 CEHHFHLACIFEWME-------------RSDTCPVCNQEMIFDL  209 (213)
Q Consensus       179 CgH~Fh~~CI~~Wl~-------------~~~~CPvCr~~l~~~~  209 (213)
                      |.-.+|.+|+.+|+.             .+-+||.||+.+...+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            456778999998883             3568999999886554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	213
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		9e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		5e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		2e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		2e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		2e-04
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		4e-04
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		5e-04

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 206
           ++C  CLE++   +   I  C+H FH  C+ +W+E    CP+CN  ++
Sbjct: 16  ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

>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 = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 145 SKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           S +  HV + +E    CP C E+Y          C H FH +CI  W+E+ D+CPVC + 
Sbjct: 6   SGTEEHVGSGLE----CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKS 61
Query: 205 M 205
           +
Sbjct: 62  L 62

>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 = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 26/50 (52%)
Query: 153 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 202
             + +E  CP C  EY   +      C H+FH  C+  W+++S TCPVC 
Sbjct: 35  GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 131 NVELESTKE----LEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLA 186
           N ELE TKE    ++ +  + + H+  V+E E  C  C  EY  E   +   C H F   
Sbjct: 33  NKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIEA--VTLNCAHSFCSY 89
Query: 187 CIFEWMERSDTCPVCNQEM 205
           CI EWM+R   CP+C +++
Sbjct: 90  CINEWMKRKIECPICRKDI 108

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 131 NVELESTKE----LEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLA 186
           N ELE TKE    ++ +  + + H+  V+E E  C  C  EY  E   +   C H F   
Sbjct: 22  NKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIEA--VTLNCAHSFCSY 78
Query: 187 CIFEWMERSDTCPVCNQEM 205
           CI EWM+R   CP+C +++
Sbjct: 79  CINEWMKRKIECPICRKDI 97

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 131 NVELESTKE----LEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLA 186
           N ELE TKE    ++ +  + + H+  V+E E  C  C  EY  E   +   C H F   
Sbjct: 22  NKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIEA--VTLNCAHSFCSY 78
Query: 187 CIFEWMERSDTCPVCNQEM 205
           CI EWM+R   CP+C +++
Sbjct: 79  CINEWMKRKIECPICRKDI 97

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           E+ +C  C+ ++++     +  C H FH  C+ +W++ + TCP+C  +
Sbjct: 22  EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 161 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 206
           C  CL E  D E  R + +C H FH  C+  W+    TCP+C   ++
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	213
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-12
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-11
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	8e-11
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	8e-11
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-10
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-10
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	5e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	5e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-09
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-09
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	5e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	7e-09
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	9e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	7e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	7e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	6e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	7e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	4e-04

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

 Score = 63.8 bits (155), Expect = 6e-14
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 156 EEEDVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
           +  D C  C  E   E+   +  +C H FH  C+  W+++++ CP+C Q+ + 
Sbjct: 24  QVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76

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

 Score = 59.3 bits (144), Expect = 2e-12
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
              + CP CLE+    N  +   C H F   CI  W+ ++ TCP+C   
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49

>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 = 55.0 bits (133), Expect = 6e-11
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 1/46 (2%)

Query: 158 EDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 202
              CP CLE+   +     +  C H  H  C  E ++    CP+C+
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 55.1 bits (133), Expect = 8e-11
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 4/57 (7%)

Query: 145 SKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC 201
           S      V  + +E+ C  C++        +I  C H F   CI +W +R   CP+C
Sbjct: 2   SSGSSGRVKQLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPIC 54

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

 Score = 55.2 bits (133), Expect = 8e-11
 Identities = 16/51 (31%), Positives = 28/51 (54%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 206
              ++C  CLE++   +   I  C+H FH  C+ +W+E    CP+CN  ++
Sbjct: 13  NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

 Score = 55.0 bits (133), Expect = 1e-10
 Identities = 18/53 (33%), Positives = 26/53 (49%)

Query: 153 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 205
             + +E  CP C  EY   +      C H+FH  C+  W+++S TCPVC    
Sbjct: 35  GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 53.7 bits (130), Expect = 2e-10
 Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 155 IEEEDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVC 201
           +++   C  CL E  D E  R + +C H FH  C+  W+    TCP+C
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

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

 Score = 53.2 bits (128), Expect = 3e-10
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 161 CPTCLEEY----DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           CP C++ Y          + T+C H F   C+ + ++ ++TCP C ++
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 53

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

 Score = 53.4 bits (128), Expect = 4e-10
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 161 CPTCLEEYD----AENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           CP C++ Y          + T+C H F   C+ + ++ ++TCP C ++
Sbjct: 18  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

>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 = 52.8 bits (127), Expect = 5e-10
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 156 EEEDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 212
           + E+ C  CL    + E+ R +  C H FH  C+ +W+  +  CP+C  ++   LP +
Sbjct: 12  DTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68

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

 Score = 52.8 bits (127), Expect = 5e-10
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 2/53 (3%)

Query: 152 VAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           ++ +    +C  C       +   IT+C H F  +CI      S+ CP CN  
Sbjct: 9   LSELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIV 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 = 52.1 bits (125), Expect = 1e-09
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 161 CPTCLEEYD----AENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           CP C++ Y          + T+C H F   C+ + ++ ++TCP C ++
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

>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 = 52.0 bits (125), Expect = 1e-09
 Identities = 18/51 (35%), Positives = 26/51 (50%)

Query: 155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 205
           +     CP C E+Y          C H FH +CI  W+E+ D+CPVC + +
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 50.8 bits (122), Expect = 3e-09
 Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 2/47 (4%)

Query: 156 EEEDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVC 201
            E+ +C  C+ ++   +  R++  C H FH  C+ +W++ + TCP+C
Sbjct: 21  SEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPIC 66

>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 = 51.0 bits (122), Expect = 5e-09
 Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 3/62 (4%)

Query: 145 SKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQ 203
           S      V  I E   C  C+E+    + R+   C      +CI  W+      CP C  
Sbjct: 9   SHMDEQSVESIAEVFRCFICMEK--LRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRA 66

Query: 204 EM 205
            +
Sbjct: 67  PL 68

>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 = 51.0 bits (122), Expect = 7e-09
 Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 2/68 (2%)

Query: 144 LSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 203
           + ++    +  +    +C  C   +   +   I +C H F   CI  ++E S  CP+C+ 
Sbjct: 1   MHRTTRIKITELNPHLMCVLCGGYF--IDATTIIECLHSFCKTCIVRYLETSKYCPICDV 58

Query: 204 EMIFDLPV 211
           ++    P+
Sbjct: 59  QVHKTRPL 66

>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 = 51.0 bits (121), Expect = 9e-09
 Identities = 13/47 (27%), Positives = 17/47 (36%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
                     E       C H FH  CI  W++    CP+ N+E  F
Sbjct: 66  QANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 112

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

 Score = 49.1 bits (117), Expect = 2e-08
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 156 EEEDV---CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           EEE++   C  C + +  +NP ++TKC H+F  +C  E    +  C +C+Q 
Sbjct: 10  EEEEIPFRCFICRQAF--QNP-VVTKCRHYFCESCALEHFRATPRCYICDQP 58

>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 = 49.4 bits (117), Expect = 2e-08
 Identities = 13/47 (27%), Positives = 17/47 (36%)

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 207
                     E       C H FH  CI  W++    CP+ N+E  F
Sbjct: 55  QANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 101

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

 Score = 48.9 bits (116), Expect = 7e-08
 Identities = 30/105 (28%), Positives = 48/105 (45%), Gaps = 12/105 (11%)

Query: 110 NSQETSSKCDDLKEPESKTVA-----NVELESTKE----LEVELSKSVHHVVAVIEEEDV 160
             QE  +  ++L   +    A     N ELE TKE    ++ +  + + H+  V+E E  
Sbjct: 7   GFQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQ 66

Query: 161 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 205
           C  C E +      +   C H F   CI EWM+R   CP+C +++
Sbjct: 67  CIICSEYF--IEA-VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

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

 Score = 47.1 bits (112), Expect = 1e-07
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 2/53 (3%)

Query: 152 VAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           +  I++   C  C E +      II +C H++   CI +++     CP C   
Sbjct: 16  MKTIDDLLRCGICFEYF--NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

>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 = 49.0 bits (116), Expect = 3e-07
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEM 205
               +C  C E  + ++ +I   C H    +C+  W E     CP C  E+
Sbjct: 330 STFQLCKICAE--NDKDVKI-EPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377

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

 Score = 44.4 bits (105), Expect = 7e-07
 Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 209
                C  CL+     +P +   C+H F   C+         C +C QE+  D 
Sbjct: 13  LTVPECAICLQTC--VHP-VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDF 63

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

 Score = 43.6 bits (102), Expect = 5e-06
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 153 AVIEEEDVCPTCLEEY----DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 203
           A+      CP C++ Y          + T+C H F   C+ + ++ ++TCP C +
Sbjct: 2   AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 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 = 41.8 bits (98), Expect = 6e-06
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 4/57 (7%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQEMIFDLP 210
           +   +C  C         +    C    HL C+ ++ + +    CP CN     ++P
Sbjct: 13  DAVKICNICHSL--LIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP 67

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

 Score = 42.5 bits (99), Expect = 1e-05
 Identities = 19/86 (22%), Positives = 28/86 (32%), Gaps = 22/86 (25%)

Query: 136 STKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDA---------------ENPRIITKCE 180
           S+ E E  + K    +      E+ C  C+E+                       +TKC 
Sbjct: 5   SSGEPEQVIRKYTEELKV--APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCS 62

Query: 181 HHFHLACIFEWMERSD-----TCPVC 201
           H FHL C+       +      CP C
Sbjct: 63  HAFHLLCLLAMYCNGNKDGSLQCPSC 88

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

 Score = 42.9 bits (100), Expect = 3e-05
 Identities = 22/150 (14%), Positives = 37/150 (24%), Gaps = 33/150 (22%)

Query: 75  VRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVEL 134
           +  P        +        V      ++  L        S+ +  K           L
Sbjct: 236 IADPFACIASMSLKIIGPTEEVA----RLRHVLSDGLSNWDSEMNIHKN----------L 281

Query: 135 ESTKELEVELSKSVHHVVAVIEEEDV---CPTCLEEY--DAENPRII---TKCEHHFHLA 186
               +L             + EE++    C  C        E P +     KC    H  
Sbjct: 282 LRMFDLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAV 341

Query: 187 CIFEWMERSD-----------TCPVCNQEM 205
           C+ EW +               CP C  ++
Sbjct: 342 CLEEWFKTLMDGKTFLEVSFGQCPFCKAKL 371

>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 = 40.7 bits (95), Expect = 4e-05
 Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 4/53 (7%)

Query: 152 VAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
           +  +E+   C  C        P  +  CEH F   C+ + +     CPVC   
Sbjct: 16  LDRLEKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGTG--CPVCYTP 64

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

 Score = 39.5 bits (92), Expect = 6e-05
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 8/63 (12%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERSDT--CPVCNQEMIFD 208
             +D+C  C  E D E+P +IT C      H  H AC+ +W++ SDT  C +C  E I +
Sbjct: 13  SSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME 71

Query: 209 LPV 211
             +
Sbjct: 72  TKL 74

>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 = 39.0 bits (91), Expect = 7e-05
 Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 4/52 (7%)

Query: 155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQE 204
           I +E +C  C +     +  +I  C + +   CI   +  SD  TCP C+Q 
Sbjct: 12  IPDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61

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

 Score = 38.2 bits (89), Expect = 9e-05
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 4/54 (7%)

Query: 152 VAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQE 204
           V  +E++  C  C       +P   T+C H F  +C+   +  S   C  C + 
Sbjct: 9   VKTVEDKYKCEKCHLVL--CSP-KQTECGHRFCESCMAALLSSSSPKCTACQES 59

>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 = 38.8 bits (90), Expect = 2e-04
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 4/86 (4%)

Query: 121 LKEPESKTVANVELESTKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCE 180
           ++E +S      E+ ++ +            ++ +EE   C  C E      P I T C+
Sbjct: 15  IREDKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELV--FRP-ITTVCQ 71

Query: 181 HHFHLACIFEWME-RSDTCPVCNQEM 205
           H+    C+      +  +CP C  ++
Sbjct: 72  HNVCKDCLDRSFRAQVFSCPACRYDL 97

>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 = 15/52 (28%), Positives = 24/52 (46%), Gaps = 4/52 (7%)

Query: 155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQE 204
           I +E +C  C +     +  +I  C + +   CI   +  SD  TCP C+Q 
Sbjct: 10  IPDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

>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 = 37.8 bits (88), Expect = 4e-04
 Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 151 VVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQE 204
           V+  +++   CP CLE      P + TKC+H F   C+ + + +      CP+C  +
Sbjct: 14  VINAMQKILECPICLELIK--EP-VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	213
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.67
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.67
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.64
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.64
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.63
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.62
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.61
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.6
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.58
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.57
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.56
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.56
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.53
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.53
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.51
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.51
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.5
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.5
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.49
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.48
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.48
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.47
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.46
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.46
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.46
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.42
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.41
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.39
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.39
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.37
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.37
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.37
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.37
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.36
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.36
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.36
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.33
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.33
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.3
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.28
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.28
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.27
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.25
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.25
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.24
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.23
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.22
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.21
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.21
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.2
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.2
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.2
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.13
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.12
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.08
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.08
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.04
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.98
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.94
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.92
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.9
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.87
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.87
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.82
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.81
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.8
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.75
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.63
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.21
3nw0_A	238	Non-structural maintenance of chromosomes element	98.11
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.36
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.45
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.32
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	93.03
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	90.91
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	90.48
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.84
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.64
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	89.56
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	89.44
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	89.04
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	88.62
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	88.46
1we9_A	64	PHD finger family protein; structural genomics, PH	87.9
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	87.76
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	87.18
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.59
2yt5_A	66	Metal-response element-binding transcription facto	84.24
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.07
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	82.5
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	82.27
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	81.76
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	81.63
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	80.66

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

Probab=99.67  E-value=4.4e-17  Score=105.38  Aligned_cols=51  Identities=27%  Similarity=0.774  Sum_probs=45.8

Q ss_pred             CCCCccccccccccCCCCeEEcC-cCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITK-CEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~-CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +++..|+||++.|..++....++ |||.||..||.+|++++.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45667999999998877777776 9999999999999999999999999875

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=99.67  E-value=9.6e-17  Score=108.61  Aligned_cols=55  Identities=27%  Similarity=0.741  Sum_probs=49.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ++...|+||++.|..+..++.++|||.||..||.+|++.+.+||+||+.+....+
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLP   66 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcCC
Confidence            4556799999999887788899999999999999999999999999999876654

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

Probab=99.64  E-value=2.1e-16  Score=108.35  Aligned_cols=54  Identities=30%  Similarity=0.838  Sum_probs=47.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      +++..|+||++.|.....+..++|||.||..||.+|++.+.+||+||+.+..-.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            456679999999988888888899999999999999999999999999886543

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

Probab=99.64  E-value=7.7e-17  Score=110.97  Aligned_cols=53  Identities=25%  Similarity=0.785  Sum_probs=47.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      ++...|+|||+.|..++.++.++|||.||..||.+|++.+.+||+||+.+...
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            45678999999998888888899999999999999999999999999988654

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

Probab=99.63  E-value=2.1e-16  Score=109.47  Aligned_cols=55  Identities=33%  Similarity=0.769  Sum_probs=48.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ++...|+||++.|.....++.++|||.||..||.+|++.+.+||+||+.+...+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            4556799999999887788889999999999999999999999999999876653

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

Probab=99.62  E-value=2.4e-16  Score=112.74  Aligned_cols=52  Identities=35%  Similarity=0.765  Sum_probs=47.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      +++..|+|||+.|..+..++.++|||.||..||.+|++.+.+||+||+.+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            4567899999999888888889999999999999999999999999998754

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

Probab=99.61  E-value=2.9e-16  Score=110.05  Aligned_cols=53  Identities=28%  Similarity=0.772  Sum_probs=42.2

Q ss_pred             CCCCccccccccccC-----------CC-CeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDA-----------EN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~-----------~~-~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .+++.|+||++.|..           ++ .+.+++|||.||..||.+||+++.+||+||+.+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            345668888888843           33 334456999999999999999999999999988654

>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=99.60  E-value=7.5e-16  Score=99.45  Aligned_cols=51  Identities=25%  Similarity=0.610  Sum_probs=44.1

Q ss_pred             CCCCccccccccccC-CCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDA-ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~-~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      .++..|+||++.|.. +..+++++|||.||..||.+|++.+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            345679999999954 456788999999999999999999999999999764

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

Probab=99.58  E-value=2.3e-15  Score=102.75  Aligned_cols=55  Identities=27%  Similarity=0.514  Sum_probs=47.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD  212 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~~  212 (213)
                      ++...|+||++.|..  ++.+++|||.||..||.+|++.+.+||+||+.+..++++.
T Consensus        13 ~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   67 (72)
T 2djb_A           13 TPYILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLS   67 (72)
T ss_dssp             CGGGSCTTTSSCCSS--CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCC
T ss_pred             CCCCCCCCCChHHHC--cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccccc
Confidence            456679999999865  4555699999999999999999999999999998887765

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

Probab=99.57  E-value=1.5e-15  Score=102.95  Aligned_cols=55  Identities=24%  Similarity=0.638  Sum_probs=47.4

Q ss_pred             CCCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      +++..|+||++.|..    +...+.++|||.||..||.+|++.+.+||+||+.+..++.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            456779999999854    3556889999999999999999999999999999876654

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

Probab=99.56  E-value=2.5e-15  Score=101.12  Aligned_cols=52  Identities=25%  Similarity=0.706  Sum_probs=44.6

Q ss_pred             CCCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      .+...|+||++.|..    +..+++++|||.||..||.+|++.+.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            456779999999854    3445789999999999999999999999999998753

>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=99.56  E-value=2.6e-15  Score=110.53  Aligned_cols=53  Identities=28%  Similarity=0.606  Sum_probs=45.1

Q ss_pred             CCCCccccccccccCC---------------CCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAE---------------NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~---------------~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .+++.|+||++.|...               ..++.++|+|.||..||.+||+++.+||+||+.+.++
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~~  102 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ  102 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcceee
Confidence            4567899999999753               2467789999999999999999999999999987553

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

Probab=99.53  E-value=3.5e-15  Score=98.95  Aligned_cols=53  Identities=25%  Similarity=0.674  Sum_probs=45.5

Q ss_pred             CCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++.|..    +..++.++|||.||..||.+|++.+.+||+||+.+..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            34679999999854    345578999999999999999999999999999987665

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

Probab=99.53  E-value=6.8e-15  Score=102.93  Aligned_cols=53  Identities=40%  Similarity=0.906  Sum_probs=45.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcC-----CeechhHHHHHHhcCC--CcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERSD--TCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~Cg-----H~Fh~~CI~~Wl~~~~--~CPvCr~~l~~~~  209 (213)
                      .+++.|.|||++|..++.+ +++|+     |.||..||.+||+.++  +||+||+.+.++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            5567799999999877766 68996     9999999999998764  8999999997765

>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=99.51  E-value=1.2e-14  Score=107.54  Aligned_cols=52  Identities=31%  Similarity=0.652  Sum_probs=41.7

Q ss_pred             CCCccccccccccCCC---------------CeEEcCcCCeechhHHHHHH-----hcCCCcccccccccCC
Q 028139          157 EEDVCPTCLEEYDAEN---------------PRIITKCEHHFHLACIFEWM-----ERSDTCPVCNQEMIFD  208 (213)
Q Consensus       157 e~~~C~ICle~~~~~~---------------~~~~l~CgH~Fh~~CI~~Wl-----~~~~~CPvCr~~l~~~  208 (213)
                      .++.|+|||+.|....               .+.+++|||.||..||.+||     +.+.+||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3457999999995532               34478999999999999999     4577999999987543

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

Probab=99.51  E-value=8.3e-15  Score=99.71  Aligned_cols=50  Identities=24%  Similarity=0.458  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .+...|+||++.|..   .+.++|||.||..||.+|++.+.+||+||+.+..+
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            456779999999855   56789999999999999999999999999988543

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

Probab=99.50  E-value=5.6e-15  Score=100.08  Aligned_cols=50  Identities=30%  Similarity=0.775  Sum_probs=44.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .+...|+||++.+..    +.++|||.||..||.+|++++.+||+||+.+...+
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            456779999999865    68899999999999999999999999999887554

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

Probab=99.50  E-value=1.3e-14  Score=97.61  Aligned_cols=49  Identities=31%  Similarity=0.798  Sum_probs=42.8

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +++..|+||++.+..  +.+.++|||.||..||.+|++.+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            455679999999853  4688999999999999999999999999999874

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

Probab=99.49  E-value=3.8e-14  Score=99.82  Aligned_cols=54  Identities=24%  Similarity=0.566  Sum_probs=46.0

Q ss_pred             CCCCccccccccccCCCC-eEEcCcCCeechhHHHHHHhcC---CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWMERS---DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~-~~~l~CgH~Fh~~CI~~Wl~~~---~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|...+. .++++|||.||..||.+|++.+   .+||+||+.+..++
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            556789999999976553 7788999999999999999886   78999999886654

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

Probab=99.48  E-value=3.9e-14  Score=97.23  Aligned_cols=51  Identities=24%  Similarity=0.518  Sum_probs=42.5

Q ss_pred             CCCCccccccccccCCCCeEEcC-cCCeechhHHHHHHhcC--CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITK-CEHHFHLACIFEWMERS--DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~-CgH~Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~  209 (213)
                      +++..|+||++.|..   .+.++ |||.||..||..|++.+  .+||+||+.+...+
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           13 PDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             CGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            456689999999865   45688 99999999999999876  68999999865544

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

Probab=99.48  E-value=4.5e-14  Score=96.15  Aligned_cols=51  Identities=31%  Similarity=0.704  Sum_probs=43.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh---cCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME---RSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~---~~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .+.++|||.||..||.+|++   ....||+||+.+..++
T Consensus        18 ~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           18 QEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             ccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            456789999999864   66789999999999999997   4568999999987654

>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=99.47  E-value=4.1e-15  Score=111.16  Aligned_cols=53  Identities=28%  Similarity=0.606  Sum_probs=1.6

Q ss_pred             CCCCccccccccccCC---------------CCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAE---------------NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~---------------~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .+++.|+||++.|...               ..+..++|+|.||..||.+||+++.+||+||+++.+.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             CCC-----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            4567899999999642               1334468999999999999999999999999987654

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

Probab=99.46  E-value=4.1e-14  Score=94.83  Aligned_cols=52  Identities=23%  Similarity=0.522  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~~~~~  210 (213)
                      ++...|+||++.+..   .+.++|||.||..||.+|++ ...+||+||+.+..++.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCEECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             CcCCCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            456789999999865   34589999999999999994 56789999999877653

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

Probab=99.46  E-value=1.9e-14  Score=110.31  Aligned_cols=49  Identities=35%  Similarity=0.782  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      +++..|+||++.|..   +++++|||.||..||..|++++.+||+||+.+..
T Consensus        51 ~~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           51 ENELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            455679999999865   6788999999999999999999999999998753

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

Probab=99.46  E-value=5.7e-14  Score=97.87  Aligned_cols=48  Identities=27%  Similarity=0.613  Sum_probs=42.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      ++...|+||++.|..   .++++|||.||..||.+|++...+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            445689999999855   567999999999999999999999999999875

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

Probab=99.42  E-value=2e-13  Score=94.27  Aligned_cols=51  Identities=22%  Similarity=0.477  Sum_probs=44.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      .++..|+||++.|..   .++++|||.||..||.+|++. +.+||+||+.+..++
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             cccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            456789999999865   567899999999999999987 789999999886654

>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=99.41  E-value=6e-14  Score=101.83  Aligned_cols=52  Identities=23%  Similarity=0.625  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC-CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l~~~~  209 (213)
                      +++..|+||++.|..  ++.+++|||.||..||.+|++.+ .+||+||+.+..++
T Consensus        20 ~~~~~C~IC~~~~~~--p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD--ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHHTBCTTTCSBCSS--EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCccCCccccC--ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            455679999999864  34339999999999999999988 69999999986554

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

Probab=99.39  E-value=3.2e-13  Score=94.10  Aligned_cols=51  Identities=37%  Similarity=0.724  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc------CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~------~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .++++|||.||..||..|++.      ...||+||+.+..++
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           17 KEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CTTTSCTTTCSCCSS---CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             ccCCCCcCCChhhCc---ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            455679999999865   457899999999999999988      678999999987654

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

Probab=99.39  E-value=3.9e-13  Score=89.11  Aligned_cols=43  Identities=37%  Similarity=0.851  Sum_probs=36.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh---cCCCcccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME---RSDTCPVC  201 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~---~~~~CPvC  201 (213)
                      +++..|+||++.|..   .++++|||.||..||.+|++   ...+||+|
T Consensus        18 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSS---CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCC---eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            556789999999864   55679999999999999998   45689998

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

Probab=99.37  E-value=4.1e-13  Score=93.55  Aligned_cols=51  Identities=31%  Similarity=0.668  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc------CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~------~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .+.++|||.||..||..|++.      ...||+||+.+..++
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCCSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             cCCCCCCCCCcccCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            456779999999865   456799999999999999987      789999999887654

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

Probab=99.37  E-value=4e-13  Score=92.38  Aligned_cols=53  Identities=21%  Similarity=0.610  Sum_probs=45.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC--CCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~~  210 (213)
                      +..+.|+||++.|..+  .....|+|.||..||.+||+.+  .+||+||+.+.++.+
T Consensus        13 ~~i~~C~IC~~~i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~   67 (74)
T 2ct0_A           13 DAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP   67 (74)
T ss_dssp             SSSCBCSSSCCBCSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCC
T ss_pred             CCCCcCcchhhHcccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCC
Confidence            4556799999999754  3455899999999999999887  899999999887764

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

Probab=99.37  E-value=5.9e-13  Score=94.72  Aligned_cols=48  Identities=25%  Similarity=0.602  Sum_probs=41.0

Q ss_pred             CCCCccccccccccCCCCeEEcC-cCCeechhHHHHHHhcC--CCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITK-CEHHFHLACIFEWMERS--DTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~-CgH~Fh~~CI~~Wl~~~--~~CPvCr~~l~  206 (213)
                      +++..|+||++.|..   .++++ |||.||..||.+|+..+  ..||+||+.+.
T Consensus        11 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            566789999999864   55788 99999999999999764  58999999874

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

Probab=99.37  E-value=9.3e-14  Score=95.94  Aligned_cols=51  Identities=33%  Similarity=0.690  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-------CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-------SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-------~~~CPvCr~~l~~~~  209 (213)
                      +++..|+||++.|..   .+.++|||.||..||.+|++.       ...||+||+.+..++
T Consensus        10 ~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           10 QEEVTCPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCEETTTTEECSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             ccCCCCcCCCcccCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            566789999999865   456899999999999999987       678999999886543

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

Probab=99.36  E-value=2.6e-13  Score=102.10  Aligned_cols=54  Identities=24%  Similarity=0.669  Sum_probs=45.9

Q ss_pred             CCCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .++..|+||++.|..    +...+.++|||.||..||.+|++.+.+||+||+.+..++
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            355679999999954    344588999999999999999999999999999886554

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

Probab=99.36  E-value=6.1e-13  Score=88.74  Aligned_cols=53  Identities=21%  Similarity=0.585  Sum_probs=41.9

Q ss_pred             CCCccccccc-cccCCC-CeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          157 EEDVCPTCLE-EYDAEN-PRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle-~~~~~~-~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++ .|.... ..++++|||.||..||.+|+.+ +..||+||+.+..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3467999999 675432 3357899999999999999765 467999999987654

>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=99.36  E-value=4.1e-13  Score=98.52  Aligned_cols=51  Identities=25%  Similarity=0.612  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      +++..|+||++.|..  ++.+++|||.||..||..|++.+.+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhC--cCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            456779999999864  444459999999999999999999999999988765

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

Probab=99.36  E-value=2.8e-13  Score=97.80  Aligned_cols=50  Identities=24%  Similarity=0.625  Sum_probs=42.2

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      +...|+||++.|..  ++.+++|||.||..||..|++.+.+||+||+.+..+
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSS--EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCC--cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            45679999999865  344449999999999999999999999999988653

>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=99.33  E-value=6.9e-13  Score=99.62  Aligned_cols=49  Identities=27%  Similarity=0.465  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC-CcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~-~CPvCr~~l~~  207 (213)
                      ++...|+||++.|..   .+.++|||.||..||..|++... .||+||+.+..
T Consensus        50 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            455689999999875   66789999999999999998654 99999999865

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

Probab=99.33  E-value=7.1e-13  Score=86.08  Aligned_cols=43  Identities=44%  Similarity=0.983  Sum_probs=36.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHH---hcCCCcccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM---ERSDTCPVC  201 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl---~~~~~CPvC  201 (213)
                      ++...|+||++.|..   .++++|||.||..||.+|+   +.+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            456789999999865   3568999999999999995   456889998

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

Probab=99.30  E-value=1.1e-12  Score=98.70  Aligned_cols=55  Identities=24%  Similarity=0.630  Sum_probs=46.9

Q ss_pred             cCCCCccccccccccC----CCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          155 IEEEDVCPTCLEEYDA----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~----~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .++...|+||++.|..    +...+.++|||.||..||.+|++.+.+||+||+.+..++
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            3566789999999854    344578999999999999999999999999999987664

>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=99.28  E-value=1.1e-12  Score=96.28  Aligned_cols=50  Identities=28%  Similarity=0.718  Sum_probs=41.8

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC---CcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~---~CPvCr~~l~~~~  209 (213)
                      +...|+||++.|..   .+.++|||.||..||..|++.+.   +||+||+.+..++
T Consensus        20 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           20 KILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HHTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCCcccChhhcC---eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            34579999998854   45689999999999999998764   8999999887654

>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=99.28  E-value=1.9e-12  Score=96.56  Aligned_cols=51  Identities=31%  Similarity=0.657  Sum_probs=43.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC-CcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~-~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .+.++|||.||..||.+|++.+. +||+||+.+..++
T Consensus        16 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           16 ESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCcCChhhcC---eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            556789999999865   56789999999999999998875 9999999886543

>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=99.27  E-value=2.4e-12  Score=100.13  Aligned_cols=50  Identities=22%  Similarity=0.517  Sum_probs=43.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC-CcccccccccCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIFD  208 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~-~CPvCr~~l~~~  208 (213)
                      ++...|+||++.|..   .++++|||.||..||..|++... .||+||+.+..+
T Consensus        76 ~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            345689999999865   56799999999999999998765 899999998766

>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=99.25  E-value=2.4e-12  Score=95.51  Aligned_cols=50  Identities=22%  Similarity=0.485  Sum_probs=42.8

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++.|..   .+.++|||.||..||.+|++. ..+||+||+.+...+
T Consensus        22 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            34679999999865   567899999999999999987 779999999986544

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

Probab=99.25  E-value=5.3e-12  Score=89.01  Aligned_cols=51  Identities=14%  Similarity=0.029  Sum_probs=45.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .++..|+||++.|..   .++++|||.|+..||.+|+....+||+||+.+..++
T Consensus        12 p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTD---PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESM   62 (85)
T ss_dssp             CTTTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             chheECcccCchhcC---CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHh
Confidence            456789999999876   678889999999999999999999999999886554

>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=99.24  E-value=8.3e-13  Score=97.86  Aligned_cols=48  Identities=25%  Similarity=0.553  Sum_probs=41.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~  206 (213)
                      +++..|+||++.|..   .+.++|||.||..||..|++. +.+||+||+.+.
T Consensus        13 ~~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            445679999999864   567799999999999999976 678999999875

>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=99.23  E-value=4.1e-12  Score=99.90  Aligned_cols=49  Identities=27%  Similarity=0.735  Sum_probs=41.4

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIF  207 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~  207 (213)
                      +...|+||++.|..  ++.+++|||.||..||..|++. +.+||+||+.+..
T Consensus        53 ~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            34579999999865  4555699999999999999987 7889999998853

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

Probab=99.22  E-value=5.2e-12  Score=97.26  Aligned_cols=51  Identities=20%  Similarity=0.560  Sum_probs=43.2

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC-CcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~-~CPvCr~~l~~~~  209 (213)
                      +++..|+||++.|..   .+.++|||.||..||.+|++... +||+||+++.+++
T Consensus        29 ~~~~~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   80 (141)
T 3knv_A           29 EAKYLCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE   80 (141)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCT
T ss_pred             CcCcCCCCCChhhcC---cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccc
Confidence            566789999999865   46789999999999999998765 8999999875543

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

Probab=99.21  E-value=9.4e-12  Score=86.43  Aligned_cols=54  Identities=20%  Similarity=0.499  Sum_probs=41.5

Q ss_pred             CCCCccccccccccCCCCeEE-cCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~-l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      +++..|+|||+.+...+..+. ++|||.||..||..|++. ...||+||+.+....
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            566789999999865433321 359999999999999843 578999999876544

>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=99.21  E-value=1.3e-11  Score=89.36  Aligned_cols=52  Identities=12%  Similarity=0.048  Sum_probs=45.8

Q ss_pred             CCCCccccccccccCCCCeEEcCcC-CeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCE-HHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~Cg-H~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      .++..|+||++.|..   +++++|| |.|+..||.+|+....+||+||+.+..++.
T Consensus        20 p~~~~CpI~~~~m~d---PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L   72 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             cHhcCCcCccccccC---CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhc
Confidence            456789999999876   6789999 999999999999999999999999876543

>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=99.20  E-value=9.6e-12  Score=83.04  Aligned_cols=48  Identities=25%  Similarity=0.506  Sum_probs=40.1

Q ss_pred             CCCCccccccccccCCCCeEEc--CcCCe-echhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT--KCEHH-FHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l--~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +++..|+||++.+..   .+.+  +|||. ||..|+..|++.+..||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            345679999998654   4444  99999 899999999999999999999874

>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=99.20  E-value=1.4e-11  Score=89.57  Aligned_cols=51  Identities=14%  Similarity=0.040  Sum_probs=45.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      .++..|+||++.|..   +++++|||.|+..||.+|+....+||+||+++..++
T Consensus        27 p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           27 PDEFRDPLMDTLMTD---PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             STTTBCTTTCSBCSS---EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             cHhhCCcCccCcccC---CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            456789999999876   677889999999999999998999999999987654

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

Probab=99.20  E-value=2.6e-12  Score=83.51  Aligned_cols=48  Identities=19%  Similarity=0.407  Sum_probs=40.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .++++|||.||..||..|   ...||+||+.+...+
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCC---eEEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            456689999999875   467899999999999885   678999999987654

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

Probab=99.13  E-value=3.1e-11  Score=80.25  Aligned_cols=48  Identities=19%  Similarity=0.433  Sum_probs=39.7

Q ss_pred             CCCCccccccccccCCCCeEEc--CcCCe-echhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT--KCEHH-FHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l--~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +....|.||++....   ..++  +|||. ||..|+..|.+.+..||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            345679999997643   3344  99998 999999999999999999999873

>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=99.12  E-value=9.9e-12  Score=92.43  Aligned_cols=49  Identities=24%  Similarity=0.533  Sum_probs=40.6

Q ss_pred             CCCCccccccccccCCCCeEEc-CcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l-~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .+.+ +|||.||..||..|++  ..||+||+.+...+
T Consensus        20 ~~~~~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (117)
T 1jm7_B           20 EKLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (117)
T ss_dssp             HHTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hhCCCCCCCChHhhC---ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccc
Confidence            345779999999854   4455 9999999999999998  78999999886543

>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=99.08  E-value=5.3e-11  Score=105.27  Aligned_cols=49  Identities=27%  Similarity=0.611  Sum_probs=42.5

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCcccccccccCCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDL  209 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~~~~  209 (213)
                      ...|+||++.+..   ++.++|||.||..||..|++ .+.+||+||+.+....
T Consensus       332 ~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            4579999998854   67899999999999999998 7889999999876543

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

Probab=99.08  E-value=2e-11  Score=83.75  Aligned_cols=44  Identities=30%  Similarity=0.692  Sum_probs=37.7

Q ss_pred             CCCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCcccccccccC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      ++..|+||++.+..   .+.++|||. ||..||..|    ..||+||+.+..
T Consensus        23 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            44679999998755   678899999 999999999    889999998753

>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=99.05  E-value=6.7e-11  Score=84.78  Aligned_cols=49  Identities=22%  Similarity=0.485  Sum_probs=40.0

Q ss_pred             CCCCccccccccccCCCCeEEc-CcCCeechhHHHHHHhcC------CCccc--cccc-ccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERS------DTCPV--CNQE-MIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l-~CgH~Fh~~CI~~Wl~~~------~~CPv--Cr~~-l~~  207 (213)
                      .++..|+||++.|..   ++++ .|||.|+..||.+|+..+      .+||+  |++. +..
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            566789999999865   5566 599999999999999764      48999  9876 543

>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=99.04  E-value=8.4e-11  Score=92.73  Aligned_cols=51  Identities=31%  Similarity=0.657  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC-CcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~-~CPvCr~~l~~~~  209 (213)
                      ++...|+||++.|..   .+.++|||.||..||.+|++.+. +||+||+.+..++
T Consensus        16 ~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           16 ESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCChhhcC---cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            566789999999865   56789999999999999998754 9999999886543

>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=98.98  E-value=2.6e-10  Score=95.68  Aligned_cols=51  Identities=16%  Similarity=0.092  Sum_probs=43.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC-CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l~~~~  209 (213)
                      .+...|+||++.|..   +++++|||.||..||..|+..+ .+||+||+++..++
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CcccCCcCcCCHhcC---CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            356789999999876   6788999999999999999875 45999999886543

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

Probab=98.94  E-value=6e-10  Score=73.39  Aligned_cols=49  Identities=29%  Similarity=0.659  Sum_probs=39.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcC--C---eechhHHHHHHhc--CCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCE--H---HFHLACIFEWMER--SDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~Cg--H---~Fh~~CI~~Wl~~--~~~CPvCr~~l~~  207 (213)
                      +++..|.||+++.  ++++ ++||.  |   .||..||.+|+..  +.+||+|+..+.+
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            5667899999984  3334 68865  4   9999999999965  5789999998865

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

Probab=98.92  E-value=2e-10  Score=99.51  Aligned_cols=51  Identities=25%  Similarity=0.563  Sum_probs=39.5

Q ss_pred             CCCCccccccccccC-CCCe----EEcCcCCeechhHHHHHHhcC-----------CCccccccccc
Q 028139          156 EEEDVCPTCLEEYDA-ENPR----IITKCEHHFHLACIFEWMERS-----------DTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~-~~~~----~~l~CgH~Fh~~CI~~Wl~~~-----------~~CPvCr~~l~  206 (213)
                      ++...|+||++.+.. +.-.    ...+|||.||..||.+||+..           ++||+||++|.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            455579999999865 2211    125799999999999999763           57999999874

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

Probab=98.90  E-value=3e-10  Score=77.83  Aligned_cols=44  Identities=27%  Similarity=0.680  Sum_probs=36.1

Q ss_pred             CCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCcccccccccCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      +..|+||++.+..   .+.++|||. ||..|+..    ...||+||+.+...
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            3569999998754   667899999 99999964    47899999987543

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

Probab=98.87  E-value=1.5e-09  Score=73.12  Aligned_cols=45  Identities=22%  Similarity=0.504  Sum_probs=37.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      ++...|.|||+.+..   .++++|||. ||..|+..    ...||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            456679999997654   778999999 99999984    5789999998743

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

Probab=98.87  E-value=1.2e-09  Score=87.23  Aligned_cols=51  Identities=18%  Similarity=0.096  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC-CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l~~~~  209 (213)
                      .+...||||++.|..   +++++|||.|+..||..|+..+ .+||+|+.++...+
T Consensus       104 p~~f~CPI~~elm~D---PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~  155 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQ  155 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cHhhcccCccccCCC---CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhh
Confidence            466789999999876   6788999999999999999874 46999999886654

>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=98.82  E-value=1.8e-09  Score=71.34  Aligned_cols=49  Identities=12%  Similarity=0.292  Sum_probs=42.7

Q ss_pred             CccccccccccCCCCeEEc-CcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          159 DVCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       159 ~~C~ICle~~~~~~~~~~l-~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ..|+|+++.+..  + +++ ++||.|...||.+||+.+++||+.+++|..++.
T Consensus         4 ~~CpIs~~~m~d--P-V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            4 MLCAISGKVPRR--P-VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             CCCTTTCSCCSS--E-EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             EEecCCCCCCCC--C-EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            579999999864  4 555 899999999999999998999999999977664

>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=98.81  E-value=6.8e-10  Score=77.07  Aligned_cols=43  Identities=28%  Similarity=0.614  Sum_probs=36.3

Q ss_pred             CCCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCccccccccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      ++..|+||++.+..   .+.++|||. ||..|+..|    ..||+||+.+.
T Consensus        17 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            34569999998754   778999999 999999987    38999999764

>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=98.80  E-value=2.3e-09  Score=76.49  Aligned_cols=48  Identities=29%  Similarity=0.675  Sum_probs=38.8

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC--------CCccc--cccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--------DTCPV--CNQE  204 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~--------~~CPv--Cr~~  204 (213)
                      +...|+||++++.......+++|||.||..||..|++.+        -.||.  |+..
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            456799999998765544456899999999999999642        37999  9987

>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=98.75  E-value=3.4e-09  Score=88.86  Aligned_cols=52  Identities=31%  Similarity=0.601  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC--CCccc--ccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPV--CNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~--~~CPv--Cr~~l~~~~  209 (213)
                      ..+..||||++.|..  +++.+.|||.|+..||..|++.+  .+||+  |++.+...+
T Consensus       179 ~~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          179 KIELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             BCCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             ceeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            455689999999854  56557999999999999999864  47999  999875543

>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=98.63  E-value=6.9e-09  Score=90.77  Aligned_cols=44  Identities=23%  Similarity=0.629  Sum_probs=38.0

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCe-echhHHHHHHhcCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~-Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      +++..|+||++.+..   .+.++|||. ||..||..|    ..||+||+.+.
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             cCCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            345689999998865   678899999 999999998    78999999874

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

Probab=98.21  E-value=1e-06  Score=63.09  Aligned_cols=45  Identities=20%  Similarity=0.521  Sum_probs=36.9

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCccccccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMI  206 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~  206 (213)
                      .|.+|--.+..  -.++.||.|.||.+|+..|.++ .++||+|+.++.
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            48888777644  3578999999999999999865 589999998763

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

Probab=98.11  E-value=2.8e-06  Score=70.51  Aligned_cols=52  Identities=21%  Similarity=0.607  Sum_probs=42.4

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC--CcccccccccCCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQEMIFDLP  210 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~--~CPvCr~~l~~~~~  210 (213)
                      ....|.||.+....+  .....|+|.||..|+..|++.+.  .||.|+..+..+.|
T Consensus       179 ~i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          179 AVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             TCCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCC
T ss_pred             CCCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC
Confidence            456799999988764  55666999999999999997754  99999998766543

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

Probab=96.45  E-value=0.0018  Score=45.97  Aligned_cols=35  Identities=14%  Similarity=0.379  Sum_probs=27.1

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHH-HH
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFE-WM  192 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~-Wl  192 (213)
                      +..|.||++.|...-....+.|+|.||..|+.. |.
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            467999998754433344599999999999998 53

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

Probab=94.32  E-value=0.041  Score=36.19  Aligned_cols=46  Identities=22%  Similarity=0.464  Sum_probs=34.8

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEM  205 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l  205 (213)
                      ....|.||.+.   ++-+..-.|...||..|+...|...    =.||.|....
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            34569999863   4556667799999999999888653    3699997654

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=93.03  E-value=0.034  Score=40.13  Aligned_cols=39  Identities=21%  Similarity=0.330  Sum_probs=29.9

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME  193 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~  193 (213)
                      ..+++.|.||.+.-+.++-+....|+..||..|+..++.
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccc
Confidence            356788999998654333366678999999999988764

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

Probab=90.91  E-value=0.13  Score=31.64  Aligned_cols=44  Identities=23%  Similarity=0.607  Sum_probs=31.1

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQ  203 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~  203 (213)
                      .|.||...-..++-+..-.|...||..|+..=|...    =.||.|+.
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            488998765444556667799999999997544332    24999965

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

Probab=90.48  E-value=0.12  Score=33.18  Aligned_cols=46  Identities=26%  Similarity=0.707  Sum_probs=33.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc----CCCccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----SDTCPVCNQE  204 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~----~~~CPvCr~~  204 (213)
                      ..++.|.||...   ++-+..-.|...||..|+..-|..    .=.||.|++.
T Consensus         9 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            456789999873   344555668899999999986543    2359999753

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.84  E-value=0.045  Score=34.63  Aligned_cols=46  Identities=24%  Similarity=0.591  Sum_probs=33.0

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccc
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQ  203 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~  203 (213)
                      +.+++.|.||...   ++-+..-.|...||..|+.+-|...    =.||.|..
T Consensus         6 ~~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            3566789999874   4445667789999999998655432    24888854

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=89.64  E-value=0.074  Score=35.53  Aligned_cols=51  Identities=20%  Similarity=0.453  Sum_probs=34.9

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc----CCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----SDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~----~~~CPvCr~~l~  206 (213)
                      ++...|.||......+.-+..-.|.--||..|+..-+..    .-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            344579999887654333444568899999999765532    235999977653

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=89.56  E-value=0.086  Score=34.47  Aligned_cols=48  Identities=27%  Similarity=0.562  Sum_probs=34.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l~  206 (213)
                      .+++.|.||.+.   ++-+..-.|...||..|+.+-|...    =.||.|...-.
T Consensus         6 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~~   57 (66)
T 1xwh_A            6 KNEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATV   57 (66)
T ss_dssp             SCCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTCC
T ss_pred             CCCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCccc
Confidence            456789999874   4445566789999999998655432    25999976443

>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=89.44  E-value=0.073  Score=34.28  Aligned_cols=47  Identities=17%  Similarity=0.471  Sum_probs=33.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEM  205 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l  205 (213)
                      ..++.|.||.+.   ++-+..-.|...||..|+..-|...    =.||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            456779999863   3445556688999999998655432    2599997654

>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=89.04  E-value=0.28  Score=33.70  Aligned_cols=34  Identities=26%  Similarity=0.606  Sum_probs=24.1

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHH
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEW  191 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~W  191 (213)
                      .++.|.|| +.|..+...-.--|+-.||..|+.+-
T Consensus        14 ~D~~C~VC-~~~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCcc-ccccccceeccccccccccHhhcccc
Confidence            45679999 45655443323338999999999995

>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=88.62  E-value=0.34  Score=47.22  Aligned_cols=51  Identities=12%  Similarity=0.089  Sum_probs=43.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcC-CeechhHHHHHHhcCCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCE-HHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~Cg-H~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      -++..|||=++-+..   +++++-| +.|-...|.+||....+||+=|+++..++
T Consensus       889 P~~F~cPIs~~lM~D---PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~  940 (968)
T 3m62_A          889 PDEFLDPLMYTIMKD---PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLED  940 (968)
T ss_dssp             CGGGBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             cHHhCCcchhhHHhC---CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccc
Confidence            355789999998866   6788887 68999999999999999999999887554

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=88.46  E-value=0.055  Score=34.67  Aligned_cols=48  Identities=25%  Similarity=0.627  Sum_probs=34.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l~  206 (213)
                      ..++.|.||...   ++-+..-.|.-.||..|+.+-|...    =.||.|...+.
T Consensus         3 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   54 (60)
T 2puy_A            3 IHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQML   54 (60)
T ss_dssp             CCCSSCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHH
T ss_pred             CCCCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhh
Confidence            356779999874   4556667799999999998655432    35999976554

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=87.90  E-value=0.11  Score=33.54  Aligned_cols=50  Identities=26%  Similarity=0.482  Sum_probs=34.1

Q ss_pred             cCCCCccccccccccCC-CCeEEcCcCCeechhHHHHHHh-----cCCCccccccc
Q 028139          155 IEEEDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWME-----RSDTCPVCNQE  204 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~-~~~~~l~CgH~Fh~~CI~~Wl~-----~~~~CPvCr~~  204 (213)
                      +++...|+||...+..+ .-+..-.|..=||..|+.--..     ..-.||.|+..
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            35667899999988543 3233456888999999865332     23469999653

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=87.76  E-value=0.34  Score=33.64  Aligned_cols=51  Identities=20%  Similarity=0.520  Sum_probs=36.2

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccccccCC
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEMIFD  208 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l~~~  208 (213)
                      .+..+.|.||...   ++-+..-.|.-.||..|+.+=|..-    =.||.|+..-..+
T Consensus        22 d~n~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~~~k   76 (88)
T 1fp0_A           22 DDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLK   76 (88)
T ss_dssp             SSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSSC
T ss_pred             CCCCCcCcCcCCC---CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCCccc
Confidence            3566789999974   4445566788999999998766442    3599998654433

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.18  E-value=0.055  Score=37.93  Aligned_cols=49  Identities=16%  Similarity=0.521  Sum_probs=34.4

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc----CCCccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----SDTCPVCNQE  204 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~----~~~CPvCr~~  204 (213)
                      .+...|.||...-..+.-+..-.|...||..|+.+=|..    .=.||.|...
T Consensus        14 ~~~~~C~vC~~~~~~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           14 IDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCSSSCCSGGGGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             cCCCCCccCCCcCCCCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            455679999986544445556679999999999754433    2249999653

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.59  E-value=1.7  Score=31.16  Aligned_cols=32  Identities=22%  Similarity=0.449  Sum_probs=23.9

Q ss_pred             CCccccccccc------cCCCCeEEcCcCCeechhHHH
Q 028139          158 EDVCPTCLEEY------DAENPRIITKCEHHFHLACIF  189 (213)
Q Consensus       158 ~~~C~ICle~~------~~~~~~~~l~CgH~Fh~~CI~  189 (213)
                      ...|.+|+..-      ..++-+....|+..||..||.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            46799999752      233445567799999999995

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=84.24  E-value=0.44  Score=30.74  Aligned_cols=51  Identities=25%  Similarity=0.533  Sum_probs=34.6

Q ss_pred             CCCCccccccccccC--CCCeEEcCcCCeechhHHHHHHh-------cCCCccccccccc
Q 028139          156 EEEDVCPTCLEEYDA--ENPRIITKCEHHFHLACIFEWME-------RSDTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~--~~~~~~l~CgH~Fh~~CI~~Wl~-------~~~~CPvCr~~l~  206 (213)
                      .++..|.||......  +.-+..-.|.-.||..|+..-|.       ..=.|+.|.....
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~   63 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT   63 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTS
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCccc
Confidence            456789999987532  33344466899999999886442       1235998876543

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=84.07  E-value=1.4  Score=33.31  Aligned_cols=48  Identities=23%  Similarity=0.433  Sum_probs=34.4

Q ss_pred             ccCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHh---------c--CCCccccccc
Q 028139          154 VIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME---------R--SDTCPVCNQE  204 (213)
Q Consensus       154 ~~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~---------~--~~~CPvCr~~  204 (213)
                      .+..++.|.||-+.   ++-+..-.|-..||..||.+=|.         .  .=.||+|+..
T Consensus        59 ~Dg~~d~C~vC~~G---G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           59 SDGMDEQCRWCAEG---GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             TTSCBCSCSSSCCC---SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCCCeecccCCC---CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            34566789999984   44355566899999999997653         1  2359999753

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=82.50  E-value=0.72  Score=31.41  Aligned_cols=38  Identities=18%  Similarity=0.315  Sum_probs=27.9

Q ss_pred             CCCccccccccccCCCCeEEcC-cCCeechhHHHHHHhc
Q 028139          157 EEDVCPTCLEEYDAENPRIITK-CEHHFHLACIFEWMER  194 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~-CgH~Fh~~CI~~Wl~~  194 (213)
                      ....|.+|.|.++..+-+.... =+|.||.-|-+..+++
T Consensus        14 a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           14 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            4467999999987654332111 2799999999999976

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=82.27  E-value=0.95  Score=39.47  Aligned_cols=48  Identities=21%  Similarity=0.495  Sum_probs=34.9

Q ss_pred             ccccccccccCCCCeEEcCcCCe--echhHHHHHHhcC--CCcccccccccCCC
Q 028139          160 VCPTCLEEYDAENPRIITKCEHH--FHLACIFEWMERS--DTCPVCNQEMIFDL  209 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~--Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~  209 (213)
                      .|||=+..+  ..++.-..|.|.  |-+.=+....++.  -.||+|.+.+.+++
T Consensus       251 ~CPlS~~ri--~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~d  302 (371)
T 3i2d_A          251 QCPISYTRM--KYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALEN  302 (371)
T ss_dssp             BCTTTSSBC--SSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGG
T ss_pred             cCCCccccc--cccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHH
Confidence            788877765  447888899998  6665565555443  46999999886654

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=81.76  E-value=1.6  Score=32.07  Aligned_cols=41  Identities=17%  Similarity=0.255  Sum_probs=29.4

Q ss_pred             cccccCCCCccccccccccCCCC-eEEcCcCCeechhHHHHH
Q 028139          151 VVAVIEEEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEW  191 (213)
Q Consensus       151 ~~~~~ee~~~C~ICle~~~~~~~-~~~l~CgH~Fh~~CI~~W  191 (213)
                      .+..+.+...|.+|...|..-.. -..-.||++||..|....
T Consensus        62 ~W~~d~~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~~  103 (125)
T 1joc_A           62 KWAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN  103 (125)
T ss_dssp             CCCCGGGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             ccccCCCCCCCcCcCCccccccccccCCCCCeEEChHHhCCc
Confidence            34444566789999999975432 344669999999996654

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=81.63  E-value=1.2  Score=38.65  Aligned_cols=48  Identities=25%  Similarity=0.551  Sum_probs=35.9

Q ss_pred             ccccccccccCCCCeEEcCcCCe--echhHHHHHHhcC--CCcccccccccCCC
Q 028139          160 VCPTCLEEYDAENPRIITKCEHH--FHLACIFEWMERS--DTCPVCNQEMIFDL  209 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~--Fh~~CI~~Wl~~~--~~CPvCr~~l~~~~  209 (213)
                      .|||=+..+  ..+.....|.|.  |-+.=+....++.  -.||+|.+.+.+++
T Consensus       217 ~CPlS~~ri--~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~d  268 (360)
T 4fo9_A          217 MCPLGKMRL--TIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYES  268 (360)
T ss_dssp             BCTTTCSBC--SSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGG
T ss_pred             eCCCcccee--ccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHH
Confidence            699877766  447788899998  7766666655544  46999999887654

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=80.66  E-value=0.26  Score=34.12  Aligned_cols=52  Identities=19%  Similarity=0.319  Sum_probs=33.4

Q ss_pred             CCCCccccccccc--cCCCCeEEcCcCCeechhHHHHHHh--cCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEY--DAENPRIITKCEHHFHLACIFEWME--RSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~--~~~~~~~~l~CgH~Fh~~CI~~Wl~--~~~~CPvCr~~l~~  207 (213)
                      ++++.|.||....  ..+.-+..-.|.-.||..|+..-+.  ..=.||.|......
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            5667899999754  1222334456888999999975431  12359999765443

---

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	213
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	8e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	9e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.003

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 59.9 bits (145), Expect = 3e-13
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 155 IEEEDVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 206
           +++   C  CL E  D E  R + +C H FH  C+  W+    TCP+C   ++
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>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 = 53.0 bits (127), Expect = 1e-10
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 159 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 205
           + CP CLE+    N  +   C H F   CI  W+ ++ TCP+C   +
Sbjct: 6   ERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 53.2 bits (127), Expect = 2e-10
 Identities = 16/66 (24%), Positives = 20/66 (30%), Gaps = 15/66 (22%)

Query: 157 EEDVCPTCLEEYDA---------------ENPRIITKCEHHFHLACIFEWMERSDTCPVC 201
             D C  C                     E       C H FH  CI  W++    CP+ 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 202 NQEMIF 207
           N+E  F
Sbjct: 80  NREWEF 85

>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 = 43.4 bits (102), Expect = 6e-07
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEM 205
               +C  C E    ++ +I   C H    +C+  W E     CP C  E+
Sbjct: 21  STFQLCKICAEND--KDVKI-EPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 42.8 bits (100), Expect = 8e-07
 Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 3/51 (5%)

Query: 157 EEDVCPTCLEEY--DAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQE 204
           ++  CP C      +     ++  C H    +C+       +  CP C   
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTP 52

>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 = 42.5 bits (99), Expect = 9e-07
 Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 4/53 (7%)

Query: 156 EEEDVCPTCLEEYDA--ENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQE 204
           E+  VC  C EE           T    + H +C+  W+  S    C +C   
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

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

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

 Score = 42.0 bits (98), Expect = 4e-06
 Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 6/60 (10%)

Query: 148 VHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQE 204
           V +V+  +++   CP CLE    + P + TKC+H F   C+ + + +      CP+C  +
Sbjct: 11  VQNVINAMQKILECPICLELI--KEP-VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 16/69 (23%), Positives = 22/69 (31%), Gaps = 11/69 (15%)

Query: 136 STKELEVELSKSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-R 194
           STK L V+             +   C  C          + T C+H F   CI   ++  
Sbjct: 8   STKLLAVDFPAHF-------VKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVM 57

Query: 195 SDTCPVCNQ 203
              CP C  
Sbjct: 58  GSYCPSCRY 66

>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 = 36.6 bits (84), Expect = 1e-04
 Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 2/47 (4%)

Query: 161 CPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERSDT-CPVCNQEM 205
           CP C+E  + ++       C +     C        +  CP C +  
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>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 = 37.0 bits (85), Expect = 2e-04
 Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 8/65 (12%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME--------RSDTCPVCNQEMIF 207
                C  CL EY  E    I +C+  F   C+ +++E         + +CP        
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Query: 208 DLPVD 212
            L  +
Sbjct: 63  HLQEN 67

>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 = 37.1 bits (85), Expect = 2e-04
 Identities = 13/59 (22%), Positives = 20/59 (33%), Gaps = 4/59 (6%)

Query: 146 KSVHHVVAVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
                 +  +E+   C  C        P  +  CEH F   C+ + +     CPVC   
Sbjct: 10  AHSRAALDRLEKLLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP 64

>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 = 35.2 bits (81), Expect = 3e-04
 Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 6/49 (12%)

Query: 156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 204
            +   C  C  E   + P++   C H     C+         CP+C   
Sbjct: 4   FQFLRCQQCQAEA--KCPKL-LPCLHTLCSGCLEAS---GMQCPICQAP 46

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.5 bits (83), Expect = 4e-04
 Identities = 20/86 (23%), Positives = 28/86 (32%), Gaps = 22/86 (25%)

Query: 136 STKELEVELSKSVHHVVAVIEEEDVCPTCLE---------------EYDAENPRIITKCE 180
           S+ E E  + K    +    EE+  C  C+E                        +TKC 
Sbjct: 5   SSGEPEQVIRKYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCS 62

Query: 181 HHFHLACIFEWMERSD-----TCPVC 201
           H FHL C+       +      CP C
Sbjct: 63  HAFHLLCLLAMYCNGNKDGSLQCPSC 88

>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 = 32.8 bits (74), Expect = 0.003
 Identities = 6/46 (13%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 205
           +C    +      P +  K    F  + + ++++ +   P+ N+ +
Sbjct: 2   LCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	213
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.76
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.62
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.58
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.56
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.51
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.49
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.4
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.39
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.36
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.35
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.23
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.22
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.21
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.03
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.78
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	95.11
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	92.75
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	92.53
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.13
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	88.1
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	86.45
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	83.92
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	83.15
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	81.35

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.76  E-value=2.2e-19  Score=115.62  Aligned_cols=52  Identities=27%  Similarity=0.781  Sum_probs=45.4

Q ss_pred             CCCCccccccccccCCCCeEEc-CcCCeechhHHHHHHhcCCCcccccccccC
Q 028139          156 EEEDVCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERSDTCPVCNQEMIF  207 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l-~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~  207 (213)
                      +++..|+|||++|..++.++.+ .|||.||..||.+||+++++||+||+.|++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~v   55 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeEC
Confidence            4556799999999887766655 699999999999999999999999998863

>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=99.62  E-value=1.3e-16  Score=106.63  Aligned_cols=47  Identities=34%  Similarity=0.875  Sum_probs=41.8

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCccccccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI  206 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~  206 (213)
                      .+.|+|||+.|.  +..++++|||.||..||.+||+.+.+||+||+++.
T Consensus         5 ~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            456999999985  35678999999999999999999999999999873

>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=99.58  E-value=4.4e-16  Score=109.22  Aligned_cols=52  Identities=29%  Similarity=0.635  Sum_probs=44.0

Q ss_pred             CCCccccccccccCCC---------------CeEEcCcCCeechhHHHHHHhcCCCcccccccccCC
Q 028139          157 EEDVCPTCLEEYDAEN---------------PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD  208 (213)
Q Consensus       157 e~~~C~ICle~~~~~~---------------~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~  208 (213)
                      .++.|+||++.+....               .+.+++|||.||..||.+||+.+++||+||+++.++
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            4456999999885421               467789999999999999999999999999998764

>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=99.56  E-value=1.7e-15  Score=104.05  Aligned_cols=51  Identities=27%  Similarity=0.656  Sum_probs=43.2

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHh-cCCCcccccccccCCCCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~-~~~~CPvCr~~l~~~~~~  211 (213)
                      ...|+||++.+..   .++++|||.||..||..||+ ++++||+||+.|...+.+
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            3569999998764   77899999999999999997 467899999999766543

>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=99.56  E-value=1.2e-15  Score=100.99  Aligned_cols=53  Identities=19%  Similarity=0.477  Sum_probs=41.9

Q ss_pred             CCCccccccccccC--CCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDA--ENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~--~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++.+..  .....+++|||.||..||.+|+++ +.+||+||+.+..++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            45679999998632  334567899999999999999965 568999999885543

>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=99.53  E-value=1e-15  Score=96.98  Aligned_cols=48  Identities=19%  Similarity=0.470  Sum_probs=40.0

Q ss_pred             ccccccccccCCCC-eEEcCcCCeechhHHHHHHhcC-CCcccccccccC
Q 028139          160 VCPTCLEEYDAENP-RIITKCEHHFHLACIFEWMERS-DTCPVCNQEMIF  207 (213)
Q Consensus       160 ~C~ICle~~~~~~~-~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l~~  207 (213)
                      .|+|||++|..++. +..++|||.||..||.+|++.. .+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            59999999976543 4567899999999999999864 579999998754

>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=99.51  E-value=5e-15  Score=108.27  Aligned_cols=51  Identities=29%  Similarity=0.594  Sum_probs=40.7

Q ss_pred             CCccccccccccC---------------CCCeEEcCcCCeechhHHHHHHhcC-----CCcccccccccCC
Q 028139          158 EDVCPTCLEEYDA---------------ENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQEMIFD  208 (213)
Q Consensus       158 ~~~C~ICle~~~~---------------~~~~~~l~CgH~Fh~~CI~~Wl~~~-----~~CPvCr~~l~~~  208 (213)
                      ++.|+||++.+..               ...+.+++|||.||..||.+||+++     .+||+||..+..+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4469999999843               2245678999999999999999864     3799999877554

>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=99.49  E-value=4.1e-15  Score=95.53  Aligned_cols=50  Identities=14%  Similarity=0.274  Sum_probs=43.6

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCCC
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV  211 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~~  211 (213)
                      .|+||++.+..  +++...|||.||..||.+||+++++||+||+++..++.+
T Consensus         2 ~C~Ic~~~~~~--Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLi   51 (56)
T d2baya1           2 LCAISGKVPRR--PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV   51 (56)
T ss_dssp             CCTTTCSCCSS--EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCE
T ss_pred             CCccCCchHHh--cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhce
Confidence            69999998854  555667999999999999999999999999999877654

>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=99.40  E-value=6.3e-14  Score=97.50  Aligned_cols=50  Identities=22%  Similarity=0.485  Sum_probs=41.6

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      ++..|+||++.|..   +++++|||.||..||.+|++. ..+||+||.++...+
T Consensus        22 ~~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            34579999999865   678999999999999999975 468999999875443

>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=99.39  E-value=9.6e-14  Score=90.13  Aligned_cols=53  Identities=25%  Similarity=0.406  Sum_probs=40.1

Q ss_pred             cCCCCccccccccccCCCC--eEEcCcCCeechhHHHHHHhc--CCCcccccccccC
Q 028139          155 IEEEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMER--SDTCPVCNQEMIF  207 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~--~~~l~CgH~Fh~~CI~~Wl~~--~~~CPvCr~~l~~  207 (213)
                      +++..+|.||++++.....  .....|+|.||..||.+|++.  +.+||+||+++.+
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            3667789999998865321  122335699999999999954  5689999998765

>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=99.36  E-value=1e-13  Score=99.51  Aligned_cols=50  Identities=28%  Similarity=0.718  Sum_probs=41.1

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCC---CcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~---~CPvCr~~l~~~~  209 (213)
                      +...|+||++.|..   ++.++|||.||..||.+|+++.+   .||+||+.+..++
T Consensus        20 ~~l~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          20 KILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HHTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             cCcCCCccCchhCC---eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            34569999998854   45689999999999999997753   7999999886544

>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=99.35  E-value=6.3e-14  Score=89.83  Aligned_cols=47  Identities=19%  Similarity=0.426  Sum_probs=39.8

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ...|+||++.|..   .++++|||.||..||.+|   +.+||+||+.+.....
T Consensus         6 ~l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCcccCcccCC---CEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            3579999999865   567899999999999876   6789999999976654

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=7.8e-13  Score=93.77  Aligned_cols=49  Identities=24%  Similarity=0.552  Sum_probs=40.0

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccccccccCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL  209 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~  209 (213)
                      +...|+||++.|..  ++.+++|||.||..||.+|+.  ..||+||..+...+
T Consensus        21 ~~l~C~IC~~~~~~--pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          21 KLLRCSRCTNILRE--PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             HTTSCSSSCSCCSS--CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hcCCCccCCchhhc--CceeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            44679999999854  555678999999999999985  45999999876554

>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=99.22  E-value=3.3e-12  Score=87.35  Aligned_cols=51  Identities=16%  Similarity=0.102  Sum_probs=43.1

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhc-CCCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~-~~~CPvCr~~l~~~~  209 (213)
                      -++..|+||++.|..   +++++|||.|+..||.+|+.+ +.+||+||+.+..++
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CccccCcCcCchhhh---hcccCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            356789999999866   568999999999999999975 567999999886544

>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=99.21  E-value=5.4e-12  Score=85.81  Aligned_cols=51  Identities=22%  Similarity=0.481  Sum_probs=43.3

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC-CCcccccccccCCC
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEMIFDL  209 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~-~~CPvCr~~l~~~~  209 (213)
                      .++..|+||++.|..   .++++|||.||..||.+|++.+ ..||+|+..+..++
T Consensus         6 P~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           6 PEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            366789999999865   5678999999999999999765 67999999887654

>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=99.03  E-value=8.6e-11  Score=83.27  Aligned_cols=51  Identities=12%  Similarity=0.068  Sum_probs=43.6

Q ss_pred             CCCccccccccccCCCCeEEcCcC-CeechhHHHHHHhcCCCcccccccccCCCC
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCE-HHFHLACIFEWMERSDTCPVCNQEMIFDLP  210 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~Cg-H~Fh~~CI~~Wl~~~~~CPvCr~~l~~~~~  210 (213)
                      ++..||||++.|..   +++++|| |.|+..||.+||+++.+||+|++++..++.
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchhh
Confidence            45789999999876   6677766 579999999999999999999999876654

>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=98.78  E-value=7.7e-10  Score=77.28  Aligned_cols=45  Identities=29%  Similarity=0.626  Sum_probs=37.2

Q ss_pred             CCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC--------CCccccc
Q 028139          158 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--------DTCPVCN  202 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~--------~~CPvCr  202 (213)
                      ...|+||++++..++...+++|+|.||..||..|++.+        -+||.|+
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            45699999999877767778999999999999999642        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=95.11  E-value=0.0051  Score=36.72  Aligned_cols=44  Identities=23%  Similarity=0.607  Sum_probs=32.5

Q ss_pred             ccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccc
Q 028139          160 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQ  203 (213)
Q Consensus       160 ~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~  203 (213)
                      .|.||-..-..++-+..-.|...||..|+..-+...    =.||.|+.
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            488997765545545556799999999999877543    24999975

>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=92.75  E-value=0.01  Score=36.78  Aligned_cols=48  Identities=17%  Similarity=0.435  Sum_probs=34.4

Q ss_pred             cCCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCcccccccc
Q 028139          155 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEM  205 (213)
Q Consensus       155 ~ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l  205 (213)
                      +..++.|.||.+.   ++-+..-.|.-.||..||...+...    =.||.|+...
T Consensus         6 d~~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           6 DHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3556679999863   4445556789999999998766542    3599997543

>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=92.53  E-value=0.03  Score=35.52  Aligned_cols=48  Identities=21%  Similarity=0.567  Sum_probs=34.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcC----CCccccccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEMI  206 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~----~~CPvCr~~l~  206 (213)
                      +...+|.||..   .++-+..-.|...||..|+...+...    =.||.|+....
T Consensus         5 d~c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           5 DSATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            34456888865   35556667799999999999887553    24999976543

>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=92.13  E-value=0.048  Score=35.70  Aligned_cols=35  Identities=26%  Similarity=0.571  Sum_probs=25.8

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHHHH
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEW  191 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~W  191 (213)
                      ..+..|.|| +.|..+...-.--|+-.||..|+.+-
T Consensus        13 ~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            445679999 88877553322337999999999986

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.10  E-value=0.053  Score=33.25  Aligned_cols=45  Identities=22%  Similarity=0.535  Sum_probs=32.7

Q ss_pred             CCCccccccccccCCCCeEEcCcCCeechhHHHHHHhcCCCcccc
Q 028139          157 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC  201 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~~Wl~~~~~CPvC  201 (213)
                      ....|--|+..+.....-...+|+++||.+|=.---+.-..||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            345699999888654444567899999999954433455779987

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.45  E-value=0.2  Score=30.67  Aligned_cols=48  Identities=29%  Similarity=0.586  Sum_probs=33.3

Q ss_pred             CCCccccccccccCCCCe-EEcCcCCeechhHHHHHH---h--cCCCccccccc
Q 028139          157 EEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWM---E--RSDTCPVCNQE  204 (213)
Q Consensus       157 e~~~C~ICle~~~~~~~~-~~l~CgH~Fh~~CI~~Wl---~--~~~~CPvCr~~  204 (213)
                      ....|.||...+..+... ..-.|+.-||..|+..=.   .  ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            345699999988665543 357799999999986321   1  12469999753

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.92  E-value=0.28  Score=30.95  Aligned_cols=37  Identities=19%  Similarity=0.331  Sum_probs=27.0

Q ss_pred             CCccccccccccCCCCeEEcC-cCCeechhHHHHHHhc
Q 028139          158 EDVCPTCLEEYDAENPRIITK-CEHHFHLACIFEWMER  194 (213)
Q Consensus       158 ~~~C~ICle~~~~~~~~~~l~-CgH~Fh~~CI~~Wl~~  194 (213)
                      ...|.+|.|..+...-+.... =+|.||.-|-+..+++
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            357999999987644332111 2799999999999976

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.15  E-value=0.58  Score=29.32  Aligned_cols=47  Identities=21%  Similarity=0.483  Sum_probs=30.5

Q ss_pred             CCCCccccccccccCCCCeEEcCcCCeechhHHH------HHH---hcCCCcccccc
Q 028139          156 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIF------EWM---ERSDTCPVCNQ  203 (213)
Q Consensus       156 ee~~~C~ICle~~~~~~~~~~l~CgH~Fh~~CI~------~Wl---~~~~~CPvCr~  203 (213)
                      .+...| ||...+..+.-+..-.|.--||..|+.      ..+   ...-.||.|+.
T Consensus        14 ~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          14 PNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             TTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            344558 898776554444456688899999982      111   22457999964

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.35  E-value=0.073  Score=31.66  Aligned_cols=44  Identities=16%  Similarity=0.536  Sum_probs=30.4

Q ss_pred             ccccccccccCCCC-eEEcCcCCeechhHHHHHHhcCCCcccccc
Q 028139          160 VCPTCLEEYDAENP-RIITKCEHHFHLACIFEWMERSDTCPVCNQ  203 (213)
Q Consensus       160 ~C~ICle~~~~~~~-~~~l~CgH~Fh~~CI~~Wl~~~~~CPvCr~  203 (213)
                      .|.+|...|..-.. -..-.||..|+..|.....+....|..|.+
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhh
Confidence            48899999966433 334669999999998776666677888854