Citrus Sinensis ID: 033041

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQPDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGNSTAPGNDVDIERGRDETQR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEHcccccccEEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDCAVClsefeenesgrvlpgcnhsfhigcidmwfhshstcplcrtpvelvtaqpedpvqpdnpvpvrvsvhepgsssideptgcdssagqgssFVSSFRRMLSrekkgnstapgndvdiergrdetqr
Flexible Loop (DISEMBL)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQPDNPVPVRVSVHEPGSSsideptgcdssagqGSSFVSSFRRMLSrekkgnstapgndvdiergrdetqr
Low Complexity Region (SEG)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQPDNPVPVRVSVHEPGSSSIDEPTGCDssagqgssfvssfRRMLSREKKGNSTAPGNDVDIERGRDETQR
Disordered region (IsUnstruct)
****VCLSEF****SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT*****************************************************************************
Disordered Region (DISOPRED)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV*********************************************************************************
Disordered Region (DISEMBL)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQPDNPVPVRVSV************************VSSFRRML***********GNDVDIERGRDETQR
Disordered Region (DISPRO)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE********************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQPDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGNSTAPGNDVDIERGRDETQR
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	129	2.2.26 [Sep-21-2011]
Q8L9T5	304	RING-H2 finger protein AT	yes	no	0.992	0.421	0.382	6e-21
Q8LF65	235	RING-H2 finger protein AT	no	no	0.379	0.208	0.714	1e-18
Q9LX93	301	E3 ubiquitin-protein liga	no	no	0.573	0.245	0.457	3e-16
Q9LZJ6	257	RING-H2 finger protein AT	no	no	0.457	0.229	0.593	4e-16
Q9SL78	390	Putative RING-H2 finger p	no	no	0.829	0.274	0.376	4e-16
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.496	0.179	0.528	5e-16
Q9LF64	362	RING-H2 finger protein AT	no	no	0.589	0.209	0.55	7e-16
Q8LFY8	413	RING-H2 finger protein AT	no	no	0.527	0.164	0.5	2e-15
O22255	227	RING-H2 finger protein AT	no	no	0.364	0.207	0.702	3e-15
Q9SLC4	217	RING-H2 finger protein AT	no	no	0.860	0.511	0.375	3e-15

>sp|Q8L9T5|ATL2_ARATH RING-H2 finger protein ATL2 OS=Arabidopsis thaliana GN=ATL2 PE=2 SV=2

 Score = 99.4 bits (246), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 72/188 (38%), Positives = 93/188 (49%), Gaps = 60/188 (31%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE----------- 49
           ++CAVCLSEFEE+E+GRVLP C H+FH+ CIDMWFHSHSTCPLCR+ VE           
Sbjct: 117 IECAVCLSEFEESETGRVLPNCQHTFHVDCIDMWFHSHSTCPLCRSLVESLAGIESTAAA 176

Query: 50  ----LVTAQPEDPV---QPDNPVPVRVSVHEPGSSSI----------------------- 79
               +V A   DPV   +P +   +    H  GSS +                       
Sbjct: 177 REREVVIAVDSDPVLVIEPSSSSGLTDEPHGSGSSQMLREDSGRKPAAIEVPRRTFSEFE 236

Query: 80  DEPTGCDSSAGQG----SSFVSSFRRMLSREKKGNST----AP-----------GNDVDI 120
           DE T  DS A Q      S + SF RMLSR+++  S+    AP             + DI
Sbjct: 237 DELTRRDSPASQSFRSPMSRMLSFTRMLSRDRRSASSPIAGAPPLSPTLSCRIQMTESDI 296

Query: 121 ERGRDETQ 128
           ERG +E++
Sbjct: 297 ERGGEESR 304

May be involved in the early steps of the plant defense signaling pathway.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8LF65|ATL17_ARATH RING-H2 finger protein ATL17 OS=Arabidopsis thaliana GN=ATL17 PE=2 SV=2

 Score = 91.3 bits (225), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 45/49 (91%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           M+C+VCLSEF++NESGRV+P C H+FH+ CIDMWFHSHS+CPLCR+ +E
Sbjct: 74  MECSVCLSEFKDNESGRVMPNCKHTFHVHCIDMWFHSHSSCPLCRSQIE 122

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/83 (45%), Positives = 52/83 (62%), Gaps = 9/83 (10%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +C+VCL+EFEE+ES R+LP C+H+FH+ CID W  SH  CPLCR PV L+T  P    + 
Sbjct: 134 ECSVCLNEFEEDESLRLLPKCSHAFHLNCIDTWLLSHKNCPLCRAPVLLITEPPHQETET 193

Query: 62  DNPVPVRVSVHEPGSSSIDEPTG 84
           +         H+P S S ++  G
Sbjct: 194 N---------HQPDSESSNDLRG 207

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LZJ6|ATL5_ARATH RING-H2 finger protein ATL5 OS=Arabidopsis thaliana GN=ATL5 PE=2 SV=1

 Score = 83.2 bits (204), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 44/64 (68%), Gaps = 5/64 (7%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +C+VCLSEFEE++ GRVLP C H FH+ CID WF S S+CPLCR PV     QP  PV  
Sbjct: 112 ECSVCLSEFEEDDEGRVLPKCGHVFHVDCIDTWFRSRSSCPLCRAPV-----QPAQPVTE 166

Query: 62  DNPV 65
             PV
Sbjct: 167 PEPV 170

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SL78|ATL12_ARATH Putative RING-H2 finger protein ATL12 OS=Arabidopsis thaliana GN=ATL12 PE=3 SV=1

 Score = 83.2 bits (204), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 44/117 (37%), Positives = 67/117 (57%), Gaps = 10/117 (8%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           ++C+VCLS+FE+ E  R+LP C H+FHIGCID W   H+TCPLCR  V +   + +  V 
Sbjct: 122 LECSVCLSKFEDVEILRLLPKCRHAFHIGCIDQWLEQHATCPLCRNRVNI---EDDLSVL 178

Query: 61  PDNPVPVRV---SVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSR----EKKGN 110
            ++   +R+   S      S ++     +     GSS  SSFR++L +    E++GN
Sbjct: 179 GNSSTSLRILNQSETREEDSRLEIYIEREEGTNDGSSRFSSFRKILKKSLLLEREGN 235

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score = 82.8 bits (203), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 6/70 (8%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR------TPVELVTAQP 55
           DC+VCLSEF+ENES R+LP CNH+FH+ CID W  SHS CPLCR      + VE+V    
Sbjct: 158 DCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLKSHSNCPLCRAFIVTSSAVEIVDLTN 217

Query: 56  EDPVQPDNPV 65
           +  V  +N +
Sbjct: 218 QQIVTENNSI 227

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LF64|ATL52_ARATH RING-H2 finger protein ATL52 OS=Arabidopsis thaliana GN=ATL52 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 44/80 (55%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           DC+VCLSEFEENES R+LP CNH+FH+ CID W  SHS CPLCR  V  V   P   V  
Sbjct: 141 DCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFVTGVN-NPTASVGQ 199

Query: 62  DNPVPV---RVSVHEPGSSS 78
           +  V V     S H+ GS S
Sbjct: 200 NVSVVVANQSNSAHQTGSVS 219

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LFY8|ATL54_ARATH RING-H2 finger protein ATL54 OS=Arabidopsis thaliana GN=ATL54 PE=2 SV=2

 Score = 80.9 bits (198), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 48/76 (63%), Gaps = 8/76 (10%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           DC VCL+EFEE+ES R+LP CNH+FHI CID W  SH+ CPLCR  + +++        P
Sbjct: 176 DCPVCLNEFEEDESLRLLPKCNHAFHISCIDTWLSSHTNCPLCRAGIAMISV-----TTP 230

Query: 62  DNPVPVRVSVHEPGSS 77
               PV V+   PG S
Sbjct: 231 RYSGPVEVT---PGGS 243

Arabidopsis thaliana (taxid: 3702)

>sp|O22255|ATL64_ARATH RING-H2 finger protein ATL64 OS=Arabidopsis thaliana GN=ATL64 PE=2 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 33/47 (70%), Positives = 38/47 (80%)

Query: 3   CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           C+VCLSEFEE + GR+LP C HSFH+ CID WF S STCPLCR PV+
Sbjct: 108 CSVCLSEFEEEDEGRLLPKCGHSFHVDCIDTWFRSRSTCPLCRAPVQ 154

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SLC4|ATL40_ARATH RING-H2 finger protein ATL40 OS=Arabidopsis thaliana GN=ATL40 PE=2 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/128 (37%), Positives = 65/128 (50%), Gaps = 17/128 (13%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +CAVCLS  EE ++ R+LP C H FH+ C+D W  + STCP+CRT      A+P  P   
Sbjct: 99  ECAVCLSLLEEKDNARMLPNCKHVFHVSCVDTWLTTQSTCPVCRT-----EAEPSHPRLE 153

Query: 62  DNPVPVRVSVHEP--GSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGN-----STAP 114
             P    V    P    + +D  TG     G   S + SFRR+L+RE+  N         
Sbjct: 154 PEPREGPVGDFAPPLDFAGVDNKTG-----GSSVSRLDSFRRILTRERSSNRRDHSRVDQ 208

Query: 115 GNDVDIER 122
             ++DIER
Sbjct: 209 DRELDIER 216

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	129
337733634	234	ring zinc finger transcription factor [C	1.0	0.551	1.0	2e-70
224110402	273	predicted protein [Populus trichocarpa]	0.953	0.450	0.402	3e-23
356564603	245	PREDICTED: RING-H2 finger protein ATL2-l	0.937	0.493	0.463	3e-23
255551823	292	ring finger protein, putative [Ricinus c	0.914	0.404	0.412	7e-22
224130500	293	predicted protein [Populus trichocarpa]	0.992	0.436	0.413	1e-21
57117314	293	RING-H2 subgroup RHE protein [Populus tr	0.992	0.436	0.407	2e-21
449432878	293	PREDICTED: RING-H2 finger protein ATL2-l	0.992	0.436	0.387	3e-21
356519950	245	PREDICTED: RING-H2 finger protein ATL2-l	0.914	0.481	0.431	6e-20
225431784	320	PREDICTED: RING-H2 finger protein ATL2-l	0.527	0.212	0.652	6e-20
225431782	317	PREDICTED: RING-H2 finger protein ATL2-l	0.527	0.214	0.652	9e-20

>gi|337733634|gb|AEI72266.1| ring zinc finger transcription factor [Citrus trifoliata]

 Score =  270 bits (689), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 129/129 (100%), Positives = 129/129 (100%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ
Sbjct: 106 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 165

Query: 61  PDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGNSTAPGNDVDI 120
           PDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGNSTAPGNDVDI
Sbjct: 166 PDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSFRRMLSREKKGNSTAPGNDVDI 225

Query: 121 ERGRDETQR 129
           ERGRDETQR
Sbjct: 226 ERGRDETQR 234

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110402|ref|XP_002315508.1| predicted protein [Populus trichocarpa] gi|222864548|gb|EEF01679.1| predicted protein [Populus trichocarpa]

 Score =  113 bits (282), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 74/184 (40%), Positives = 95/184 (51%), Gaps = 61/184 (33%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           M+CAVCLSEF+ENE+GR LP CNHSFHIGCIDMWFHSHSTCPLCR+PVE VT   E+PVQ
Sbjct: 94  MECAVCLSEFQENETGRTLPKCNHSFHIGCIDMWFHSHSTCPLCRSPVEPVT---ENPVQ 150

Query: 61  PDNP-----VP----------------------------------VRVSVHEPGSSSIDE 81
            D P     VP                                  + V++  P  +   E
Sbjct: 151 -DGPGYGISVPGSGSSSGTMCQHEEDRVGSASTSSFNDRRKQMELIGVTIEVPRRNGNFE 209

Query: 82  PTGCDSSAGQGSSFVS------SFRRMLSREKKGNST------------APGNDVDIERG 123
                 S     +F S      SF+RMLSRE++G ++            +   ++D+ERG
Sbjct: 210 DESNTESPSASHAFRSPMSRMLSFKRMLSRERRGTASPNVATSVSCGGESGTTEMDVERG 269

Query: 124 RDET 127
           +DE+
Sbjct: 270 QDES 273

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564603|ref|XP_003550541.1| PREDICTED: RING-H2 finger protein ATL2-like [Glycine max]

 Score =  112 bits (281), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 69/149 (46%), Positives = 84/149 (56%), Gaps = 28/149 (18%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +CAVCLSEFE  E+GRVLP CNHSFH  CIDMWF SH+TCPLCR PVE   A PE   + 
Sbjct: 95  ECAVCLSEFENGETGRVLPKCNHSFHTECIDMWFQSHATCPLCREPVE---AIPERETRS 151

Query: 62  DNPV------PVRVSVHEPGSSSID----------EPTGCDSSAGQGSSF------VSSF 99
           +  V      PVR  V+  G               E  GC+S    GSSF      + SF
Sbjct: 152 EVAVIVCDNEPVREEVNRSGPVGASSSPSAASLHIESLGCESGCESGSSFRLPVSRILSF 211

Query: 100 RRMLSREKK---GNSTAPGNDVDIERGRD 125
           +R+LSREKK   G   +   D+D+E+ R+
Sbjct: 212 KRVLSREKKESVGGGCSSMTDLDVEQRRE 240

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551823|ref|XP_002516957.1| ring finger protein, putative [Ricinus communis] gi|223544045|gb|EEF45571.1| ring finger protein, putative [Ricinus communis]

 Score =  108 bits (270), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 71/172 (41%), Positives = 91/172 (52%), Gaps = 54/172 (31%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           ++CAVCLSEFEENE GR LP CNHSFHI CIDMWFHSHSTCPLCR+ VE V   PED V+
Sbjct: 109 IECAVCLSEFEENERGRTLPKCNHSFHIECIDMWFHSHSTCPLCRSAVEPV---PEDSVR 165

Query: 61  PDNPVP-------------------------------------VRVSVHEPGSSSI--DE 81
            ++ +                                      V V++  P  + +  DE
Sbjct: 166 VNSEINETGSRAGLCVTCQHEENRVDGVASTSSFNGRRKPAEFVGVTIEVPRRNGVFEDE 225

Query: 82  P-TGCDSSAGQGSSFVSSFRRMLSREKKGNSTAP-----------GNDVDIE 121
           P T   SS     S + SFRR+LSRE++GN+++P           G+ +DIE
Sbjct: 226 PATESPSSYRSPMSRMLSFRRILSRERRGNASSPSSGITPASCGCGSSIDIE 277

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130500|ref|XP_002328624.1| predicted protein [Populus trichocarpa] gi|222838606|gb|EEE76971.1| predicted protein [Populus trichocarpa]

 Score =  107 bits (268), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 74/179 (41%), Positives = 88/179 (49%), Gaps = 51/179 (28%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQP----- 55
           ++CAVCLSEFEENE GRVLP CNHSFH  CIDMWFHSHSTCPLCR+PVE V   P     
Sbjct: 109 IECAVCLSEFEENERGRVLPKCNHSFHTECIDMWFHSHSTCPLCRSPVEPVAENPVPEGS 168

Query: 56  ------------------EDPV------------QPDNPVPVRVSVHEPGSSSIDEPTGC 85
                             ED V            +P   + V + V     +  DE    
Sbjct: 169 NFGISEAGSGLCTSCQHEEDHVGSASTSSFNDGRKPVGLIGVTIDVPRRNGNFEDESNTE 228

Query: 86  DSSAGQG----SSFVSSFRRMLSREKKG-------NSTAPG-----NDVDIERGRDETQ 128
             SA        S + SF+RMLSRE++G       NS + G      + DIE GRDE+ 
Sbjct: 229 SPSASHSFRSPMSRMLSFKRMLSRERRGTVSPTVANSVSCGGGSGTTEFDIEHGRDESM 287

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|57117314|gb|AAW33880.1| RING-H2 subgroup RHE protein [Populus tremula x Populus alba]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 73/179 (40%), Positives = 89/179 (49%), Gaps = 51/179 (28%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQP----- 55
           ++CAVCLSEFEENE GRVLP CNHSFH  CIDMWFHSHSTCPLCR+PVE V   P     
Sbjct: 109 IECAVCLSEFEENERGRVLPKCNHSFHTECIDMWFHSHSTCPLCRSPVEPVAENPVPEGS 168

Query: 56  ------------------EDPV------------QPDNPVPVRVSVHEPGSSSIDEPTGC 85
                             ED +            +P   + V + V     +  DE    
Sbjct: 169 NFGISEAGSGLCTSCQHEEDHLGSASTSSFNGGRKPVGLIGVTIDVPRRNGNFEDESNTE 228

Query: 86  DSSAGQG----SSFVSSFRRMLSREKKG-------NSTAPG-----NDVDIERGRDETQ 128
             SA        S + SF+RMLSRE++G       NS + G      + DIE+GRDE+ 
Sbjct: 229 SPSASHSFRSPMSRMLSFKRMLSRERRGTVSPTVANSVSCGGGSGTTEFDIEQGRDESM 287

Source: Populus tremula x Populus alba

Species: Populus tremula x Populus alba

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449432878|ref|XP_004134225.1| PREDICTED: RING-H2 finger protein ATL2-like [Cucumis sativus] gi|449503830|ref|XP_004162198.1| PREDICTED: RING-H2 finger protein ATL2-like [Cucumis sativus]

 Score =  106 bits (264), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 71/183 (38%), Positives = 91/183 (49%), Gaps = 55/183 (30%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQP----- 55
           +DCAVCLSEFEENE GR LP C+HSFHI CIDMWFHSH+TCPLCR+PVE+ T  P     
Sbjct: 111 IDCAVCLSEFEENEKGRTLPKCSHSFHIDCIDMWFHSHATCPLCRSPVEMPTEAPVEVEI 170

Query: 56  --EDPV----------------QPDNPVP---------VRVSVHEPGSSSIDEPT----- 83
             E+PV                + D   P          R    E G  SI+ PT     
Sbjct: 171 SMEEPVIAESGSSSSGFCAECDRSDRMAPSSTGSRSFRARRKPSETGGVSIEIPTRREGE 230

Query: 84  GCDSSAGQGSSFVS--------SFRRMLSREKKGNSTAPGN----------DVDIERGRD 125
              S +    SF S        SF+ ++  E++G ++  GN          +VDIE+G++
Sbjct: 231 FASSLSPTTPSFKSPISRVMSLSFKMIIGLERRGGASPTGNGVGCSSGSGVEVDIEKGKE 290

Query: 126 ETQ 128
             Q
Sbjct: 291 SVQ 293

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519950|ref|XP_003528631.1| PREDICTED: RING-H2 finger protein ATL2-like [Glycine max]

 Score =  102 bits (253), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 63/146 (43%), Positives = 80/146 (54%), Gaps = 28/146 (19%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +CAVCLSEFE  E+GRVLP CNHSFH  CID+WF SH+TCPLCR  VE   A PE   + 
Sbjct: 95  ECAVCLSEFENGETGRVLPKCNHSFHTECIDVWFQSHATCPLCRETVE---AMPERETRS 151

Query: 62  DNPV------PVRVSVHEPGSSSID----------EPTGCDSSAGQGSSF------VSSF 99
           +  V      PVR  V+  G               E  GC+      SSF      + SF
Sbjct: 152 EVAVIVCETEPVREEVNRSGPVGASSSAAATSLHIENLGCEDGCESESSFRSPVSRILSF 211

Query: 100 RRMLSREKKGNST---APGNDVDIER 122
           +R+LSREKKG+     +   ++D+E+
Sbjct: 212 KRILSREKKGSVVGVCSSMTELDVEQ 237

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431784|ref|XP_002271292.1| PREDICTED: RING-H2 finger protein ATL2-like isoform 2 [Vitis vinifera]

 Score =  102 bits (253), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 47/72 (65%), Positives = 53/72 (73%), Gaps = 4/72 (5%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +CAVCLSEFEENE GR LP CNHSFHIGCIDMWFHSHSTCPLCR+ V   T++       
Sbjct: 115 ECAVCLSEFEENEKGRRLPKCNHSFHIGCIDMWFHSHSTCPLCRSAVNAETSESAS---- 170

Query: 62  DNPVPVRVSVHE 73
            NP  V +S+ E
Sbjct: 171 RNPTDVVISMAE 182

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431782|ref|XP_002271253.1| PREDICTED: RING-H2 finger protein ATL2-like isoform 1 [Vitis vinifera]

 Score =  101 bits (252), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 47/72 (65%), Positives = 53/72 (73%), Gaps = 4/72 (5%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
           +CAVCLSEFEENE GR LP CNHSFHIGCIDMWFHSHSTCPLCR+ V   T++       
Sbjct: 112 ECAVCLSEFEENEKGRRLPKCNHSFHIGCIDMWFHSHSTCPLCRSAVNAETSES----AS 167

Query: 62  DNPVPVRVSVHE 73
            NP  V +S+ E
Sbjct: 168 RNPTDVVISMAE 179

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	129
TAIR|locus:2089398	304	ATL2 "TOXICOS EN LEVADURA 2" [	0.651	0.276	0.549	5.2e-26
TAIR|locus:2062008	227	AT2G47560 [Arabidopsis thalian	0.372	0.211	0.687	5e-19
TAIR|locus:2081740	257	ATL5 "AtL5" [Arabidopsis thali	0.581	0.291	0.537	7.5e-18
TAIR|locus:2197026	310	AT1G53820 [Arabidopsis thalian	0.372	0.154	0.645	1.3e-17
TAIR|locus:2193992	324	ATL3 [Arabidopsis thaliana (ta	0.480	0.191	0.515	2.4e-17
TAIR|locus:2176436	375	AT5G43420 [Arabidopsis thalian	0.503	0.173	0.476	8.2e-17
TAIR|locus:2142449	301	RING1 [Arabidopsis thaliana (t	0.480	0.205	0.545	8.6e-17
UNIPROTKB|Q9LRB7	325	EL5.1 "E3 ubiquitin-protein li	0.542	0.215	0.521	1.1e-16
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.589	0.209	0.55	3.5e-16
TAIR|locus:4515103413	310	ATL4H [Arabidopsis thaliana (t	0.449	0.187	0.576	9.5e-16

TAIR|locus:2089398 ATL2 "TOXICOS EN LEVADURA 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 253 (94.1 bits), Expect = 5.2e-26, Sum P(3) = 5.2e-26
 Identities = 50/91 (54%), Positives = 60/91 (65%)

Query:     1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
             ++CAVCLSEFEE+E+GRVLP C H+FH+ CIDMWFHSHSTCPLCR+ VE +         
Sbjct:   117 IECAVCLSEFEESETGRVLPNCQHTFHVDCIDMWFHSHSTCPLCRSLVESLAGIESTAAA 176

Query:    61 PDNPVPVRVS-----VHEPGSSS--IDEPTG 84
              +  V + V      V EP SSS   DEP G
Sbjct:   177 REREVVIAVDSDPVLVIEPSSSSGLTDEPHG 207

GO:0005634 "nucleus" evidence=ISM

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

GO:0006952 "defense response" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009814 "defense response, incompatible interaction" 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:0035556 "intracellular signal transduction" evidence=RCA

GO:0042742 "defense response to bacterium" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

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

 Score = 209 (78.6 bits), Expect = 5.0e-19, Sum P(2) = 5.0e-19
 Identities = 33/48 (68%), Positives = 39/48 (81%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
             +C+VCLSEFEE + GR+LP C HSFH+ CID WF S STCPLCR PV+
Sbjct:   107 ECSVCLSEFEEEDEGRLLPKCGHSFHVDCIDTWFRSRSTCPLCRAPVQ 154

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2081740 ATL5 "AtL5" [Arabidopsis thaliana (taxid:3702)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 43/80 (53%), Positives = 52/80 (65%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQP---EDP 58
             +C+VCLSEFEE++ GRVLP C H FH+ CID WF S S+CPLCR PV+   AQP    +P
Sbjct:   112 ECSVCLSEFEEDDEGRVLPKCGHVFHVDCIDTWFRSRSSCPLCRAPVQ--PAQPVTEPEP 169

Query:    59 VQPDNPVPVRVSVHEPGSSS 78
             V    P    +   E GSSS
Sbjct:   170 VAAVFPSVKPIEDTEAGSSS 189

GO:0005634 "nucleus" evidence=ISM

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

GO:0006461 "protein complex assembly" evidence=TAS

GO:0016020 "membrane" evidence=ISS

TAIR|locus:2197026 AT1G53820 [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 1.3e-17, Sum P(2) = 1.3e-17
 Identities = 31/48 (64%), Positives = 37/48 (77%)

Query:     1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
             ++CAVCLS+  + +  RVLP CNH FH+ CIDMWF SHSTCPLCR  V
Sbjct:   118 LECAVCLSDLVDGDKARVLPRCNHGFHVDCIDMWFQSHSTCPLCRNTV 165

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2193992 ATL3 [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 2.4e-17, Sum P(2) = 2.4e-17
 Identities = 34/66 (51%), Positives = 47/66 (71%)

Query:     1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV---ELVTAQPED 57
             ++C++CLSE  + +  R+LP CNHSFH+ CIDMWF SHSTCP+CR  V   E  +++  +
Sbjct:   125 LECSICLSELVKGDKARLLPKCNHSFHVECIDMWFQSHSTCPICRNTVLGPEQASSKRVE 184

Query:    58 PVQPDN 63
              V PDN
Sbjct:   185 QV-PDN 189

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2176436 AT5G43420 [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 8.2e-17, Sum P(2) = 8.2e-17
 Identities = 31/65 (47%), Positives = 44/65 (67%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
             +C+VCLSEF++ E  R++P C+H FHI CID+W  +++ CPLCRT V   T+ P D V  
Sbjct:   137 ECSVCLSEFQDEEKLRIIPNCSHLFHIDCIDVWLQNNANCPLCRTRVSCDTSFPPDRVSA 196

Query:    62 DNPVP 66
              +  P
Sbjct:   197 PSTSP 201

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2142449 RING1 [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 36/66 (54%), Positives = 46/66 (69%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPV-- 59
             +C+VCL+EFEE+ES R+LP C+H+FH+ CID W  SH  CPLCR PV L+T  P      
Sbjct:   134 ECSVCLNEFEEDESLRLLPKCSHAFHLNCIDTWLLSHKNCPLCRAPVLLITEPPHQETET 193

Query:    60 --QPDN 63
               QPD+
Sbjct:   194 NHQPDS 199

GO:0005576 "extracellular region" evidence=ISM

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

GO:0010200 "response to chitin" evidence=IEP

GO:0002238 "response to molecule of fungal origin" evidence=IEP

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0009617 "response to bacterium" evidence=IEP;RCA

GO:0012501 "programmed cell death" evidence=IC

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0043068 "positive regulation of programmed cell death" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009627 "systemic acquired resistance" 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:0019761 "glucosinolate biosynthetic process" evidence=RCA

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

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

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

UNIPROTKB|Q9LRB7 EL5.1 "E3 ubiquitin-protein ligase EL5" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 207 (77.9 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 37/71 (52%), Positives = 45/71 (63%)

Query:     1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
             ++CAVCL+E E+ E  R LP C H FH  C+DMW  SHSTCPLCR  V +V   P  PV 
Sbjct:   132 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV-VVPPPPLPPVP 190

Query:    61 PDNPVPVRVSV 71
             P+ P    VS+
Sbjct:   191 PEPPASYTVSL 201

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0048364 "root development" evidence=IMP

GO:0051301 "cell division" evidence=IMP

TAIR|locus:2151421 AT5G17600 [Arabidopsis thaliana (taxid:3702)]

 Score = 205 (77.2 bits), Expect = 3.5e-16, P = 3.5e-16
 Identities = 44/80 (55%), Positives = 50/80 (62%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQP 61
             DC+VCLSEFEENES R+LP CNH+FH+ CID W  SHS CPLCR  V  V   P   V  
Sbjct:   141 DCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFVTGVN-NPTASVGQ 199

Query:    62 DNPVPVRV---SVHEPGSSS 78
             +  V V     S H+ GS S
Sbjct:   200 NVSVVVANQSNSAHQTGSVS 219

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:4515103413 ATL4H [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 34/59 (57%), Positives = 42/59 (71%)

Query:     2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL-VTAQPEDPV 59
             DC++CL EF E+ES R+LP CNH+FH+ CID W  SHS CPLCR  + +  T QPE  V
Sbjct:   154 DCSICLGEFNEDESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCRAKIIVPTTQQPEHHV 212

GO:0005634 "nucleus" evidence=ISM

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: gw1.X.3876.1 hypothetical protein (273 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	129
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-15
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-12
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	6e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	4e-09
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-07
smart00184	40	smart00184, RING, Ring finger	1e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-05
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	4e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-04
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	6e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.004

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

 Score = 64.0 bits (156), Expect = 4e-15
 Identities = 25/46 (54%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47
          +C +CL EFE  E   VLP C H FH  C+D W  S +TCPLCR P
Sbjct: 2  ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 62.7 bits (152), Expect = 1e-12
 Identities = 24/48 (50%), Positives = 35/48 (72%), Gaps = 2/48 (4%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPV 48
           +CA+C+S F +N+  RVLP C+H FH+GC+D W   +S  CP+CRT +
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

>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 = 57.1 bits (138), Expect = 2e-12
 Identities = 23/48 (47%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPV 48
          +C +CL EF E     VL  C H F   CID W     +TCPLCRTP+
Sbjct: 1  ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 60.2 bits (146), Expect = 6e-12
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 4/57 (7%)

Query: 2   DCAVCLSE-FEENESGR---VLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQ 54
           +CA+C+ + +++        +L  CNH F I CID+W    +TCP+CRTP   V   
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKS 232

Length = 238

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

 Score = 49.3 bits (118), Expect = 4e-09
 Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 9/53 (16%)

Query: 2  DCAVCLSEFEENESGRVLPG---------CNHSFHIGCIDMWFHSHSTCPLCR 45
           CA+C + F+        PG         C H+FH+ CI  W  + +TCPLCR
Sbjct: 21 VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 48.4 bits (115), Expect = 2e-07
 Identities = 27/109 (24%), Positives = 46/109 (42%), Gaps = 14/109 (12%)

Query: 3   CAVCLSEFEE----------NESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV--EL 50
           C +C+ E             + + + LP C H  H+ C+  W     TCP+CR PV  + 
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQ 348

Query: 51  VTAQPEDPVQPDNPVPVRVSVHEPGSSSIDEPTGCDSSAGQGSSFVSSF 99
            +  P  P   +  +  +V   +   ++   P G  +S+ QG    S+F
Sbjct: 349 SSPTPASPNVRNTQIATQVPNPDNTPTTTAVP-GITNSSNQGDPQASTF 396

Length = 491

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

 Score = 42.1 bits (99), Expect = 1e-06
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLC 44
          C +CL E+ ++    +LP C H+F   CI  W  S + TCP+C
Sbjct: 1  CPICLEEYLKD--PVILP-CGHTFCRSCIRKWLESGNNTCPIC 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 = 45.8 bits (108), Expect = 1e-06
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 2    DCAVCLSEFEENES---GRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVELV 51
            +CA+C S  +  +     +    C + FH  C+  WF S   S CPLCR+ +  V
Sbjct: 1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITFV 1525

Length = 1525

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

 Score = 39.4 bits (92), Expect = 1e-05
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46
          C +CL    +     VL  C H F   CI  +    S CP+CRT
Sbjct: 5  CPICLDLLRDP---VVLTPCGHVFCRECILRYLKKKSKCPICRT 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 = 39.0 bits (91), Expect = 4e-05
 Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 1/49 (2%)

Query: 3  CAVCLSEFEENESGRVLPG-CNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
          C  C       +   V+ G CNH+FH  CI  W  +   CPL R    L
Sbjct: 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82

Length = 88

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

 Score = 35.9 bits (83), Expect = 3e-04
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCID-MWFHSHSTCPLC 44
          C +CL E ++     +LP C H F   CI       + TCPLC
Sbjct: 1  CPICLEEPKDP--VTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 37.7 bits (87), Expect = 6e-04
 Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 11/62 (17%)

Query: 2   DCAVCLS-----EFEENESGRVLPGCNHSFHIGCIDMWFHSH------STCPLCRTPVEL 50
           +C +C         E +    +L  CNH F I CI++W  +         CP+CRT    
Sbjct: 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231

Query: 51  VT 52
           +T
Sbjct: 232 IT 233

Length = 242

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

 Score = 34.0 bits (78), Expect = 0.004
 Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 3/31 (9%)

Query: 18 VLPGCNHSFHIGCIDMWFHSHST---CPLCR 45
          V   C H+FH+ CI  W  + ++   CP+CR
Sbjct: 48 VWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	129
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.6
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.56
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.39
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.39
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.34
PHA02929	238	N1R/p28-like protein; Provisional	99.29
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.25
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.22
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.18
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.17
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.15
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.15
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.15
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.1
PHA02926	242	zinc finger-like protein; Provisional	99.06
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.03
PF14634	44	zf-RING_5: zinc-RING finger domain	99.01
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.0
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.97
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.94
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.91
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.91
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.9
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.82
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.8
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.62
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.61
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.58
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.55
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.53
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.51
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.48
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.47
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.43
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.39
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.37
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.32
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.29
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.24
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.07
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.07
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.99
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.94
KOG2660	331	consensus Locus-specific chromosome binding protei	97.85
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.85
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.83
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.81
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.75
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.68
COG5152	259	Uncharacterized conserved protein, contains RING a	97.49
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.47
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.47
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.44
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.38
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.16
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.15
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.97
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.89
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.72
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.71
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.71
PHA02862	156	5L protein; Provisional	96.69
PHA03096	284	p28-like protein; Provisional	96.66
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.66
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.63
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.37
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.35
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.3
KOG4739	233	consensus Uncharacterized protein involved in syna	96.27
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.16
PF04641	260	Rtf2: Rtf2 RING-finger	96.15
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.1
KOG1940	276	consensus Zn-finger protein [General function pred	96.06
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.61
KOG3002	299	consensus Zn finger protein [General function pred	95.6
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.41
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.31
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.2
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	95.19
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.15
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	95.05
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.97
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.9
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	94.9
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	94.33
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.67
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	93.4
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.39
KOG3053	293	consensus Uncharacterized conserved protein [Funct	93.21
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.0
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	92.91
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	92.88
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.76
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.39
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.32
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	92.02
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.99
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.75
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.42
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	90.89
KOG4367	699	consensus Predicted Zn-finger protein [Function un	90.81
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	89.0
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	88.56
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	87.75
KOG3899	381	consensus Uncharacterized conserved protein [Funct	87.38
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	87.16
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.07
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	86.85
KOG1609	323	consensus Protein involved in mRNA turnover and st	86.83
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	86.54
KOG0825	1134	consensus PHD Zn-finger protein [General function	85.58
COG5109	396	Uncharacterized conserved protein, contains RING Z	85.31
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.69
KOG0269	839	consensus WD40 repeat-containing protein [Function	84.64
KOG1829	580	consensus Uncharacterized conserved protein, conta	84.38
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	84.28
KOG2068	327	consensus MOT2 transcription factor [Transcription	83.74
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	83.26
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	82.24
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	81.33
KOG3113	293	consensus Uncharacterized conserved protein [Funct	81.15

>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=99.60  E-value=2.3e-16  Score=89.51  Aligned_cols=43  Identities=47%  Similarity=1.224  Sum_probs=39.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr   45 (129)
                      +|+||++.|...+.+..++ |+|.||..||..|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999888889999 999999999999999999999997

...

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

Probab=99.56  E-value=9.1e-15  Score=114.53  Aligned_cols=50  Identities=38%  Similarity=1.097  Sum_probs=45.1

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC-CCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~~   52 (129)
                      +|+||+|+|..++++++|| |+|.||..||++||.... .||+|+..+....
T Consensus       231 ~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  231 TCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             eEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            7999999999999999999 999999999999998875 5999998765443

>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=99.39  E-value=2.3e-13  Score=85.22  Aligned_cols=43  Identities=42%  Similarity=1.020  Sum_probs=34.1

Q ss_pred             ccccccccccCC----------CcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041            2 DCAVCLSEFEEN----------ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr   45 (129)
                      .|+||++.|..+          ..+...+ |||.||..||..||+.+.+||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            599999999432          1233445 999999999999999999999997

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=5.3e-13  Score=104.80  Aligned_cols=51  Identities=33%  Similarity=0.952  Sum_probs=42.3

Q ss_pred             ccccccccccCC----------CcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041            2 DCAVCLSEFEEN----------ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA   53 (129)
Q Consensus         2 ~C~IC~~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   53 (129)
                      .|.||++++-.+          ...+.+| |||.||.+|++.|++++.+||+||.++.....
T Consensus       289 ~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd~~  349 (491)
T COG5243         289 TCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQS  349 (491)
T ss_pred             eEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence            699999995432          2356788 99999999999999999999999999765443

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

Probab=99.34  E-value=4.6e-13  Score=102.72  Aligned_cols=48  Identities=48%  Similarity=1.259  Sum_probs=43.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~   49 (129)
                      .+|+|||+.|...+.++++| |+|.||..|+.+|+. ....||+||.++.
T Consensus       324 veCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCC
Confidence            48999999999999999999 999999999999998 4678999998874

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.29  E-value=2.2e-12  Score=97.01  Aligned_cols=51  Identities=43%  Similarity=0.992  Sum_probs=41.0

Q ss_pred             CccccccccccCCCc----ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENES----GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~----~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      .+|+||++.+..+..    ..+++.|+|.||..||..|+..+.+||+||..+...
T Consensus       175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v  229 (238)
T PHA02929        175 KECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISV  229 (238)
T ss_pred             CCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEE
Confidence            379999998765431    234445999999999999999999999999987643

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.25  E-value=9.6e-12  Score=90.51  Aligned_cols=46  Identities=33%  Similarity=0.855  Sum_probs=38.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----------------CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----------------HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.+..+   .+++ |||.||..||..|+..                ...||+||..+..
T Consensus        19 ~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         19 FDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             cCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            5799999998776   6666 9999999999999852                2479999998854

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

Probab=99.22  E-value=4.7e-12  Score=93.87  Aligned_cols=47  Identities=30%  Similarity=0.839  Sum_probs=39.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~   51 (129)
                      ++|.|||+.-.++   ++.. |||.||+.||.+||+.   .+.||+|+..+...
T Consensus        48 FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   48 FDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             eeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            5899999997776   6666 9999999999999976   34689999987543

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

Probab=99.18  E-value=1.8e-11  Score=78.17  Aligned_cols=50  Identities=32%  Similarity=0.881  Sum_probs=37.7

Q ss_pred             ccccccccccCC---------CcceEeCCCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEEN---------ESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~---------~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~   51 (129)
                      .|+||+..|+..         +...++..|+|.||.+||.+||.+   +..||+||.++...
T Consensus        23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            588999888621         112233359999999999999975   46899999988653

>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=99.17  E-value=3.1e-11  Score=67.16  Aligned_cols=44  Identities=55%  Similarity=1.296  Sum_probs=35.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~   48 (129)
                      +|+||++.+..  .....+ |+|.||..|+..|+.. ...||+|+..+
T Consensus         1 ~C~iC~~~~~~--~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE--PVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC--ceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            59999999833  334444 9999999999999987 67899998753

>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=99.15  E-value=2.3e-11  Score=67.09  Aligned_cols=39  Identities=38%  Similarity=1.054  Sum_probs=31.9

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C   44 (129)
                      |+||++.+.++  +..++ |||.||..|+..|++.+..||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998773  34555 99999999999999998899998

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

Probab=99.15  E-value=2.3e-11  Score=68.34  Aligned_cols=38  Identities=37%  Similarity=1.007  Sum_probs=29.7

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHhCC----CCCCcc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH----STCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP~C   44 (129)
                      |+||++.|..+   +.++ |||.||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999998   7777 99999999999999753    369987

>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=99.15  E-value=3.1e-11  Score=70.03  Aligned_cols=45  Identities=31%  Similarity=0.905  Sum_probs=37.9

Q ss_pred             CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      ..|.||++.+..   +..+| |||. ||..|+..|+.....||+||+++.
T Consensus         3 ~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    3 EECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             SB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            369999998654   47788 9999 999999999999999999999875

...

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

Probab=99.10  E-value=4.4e-11  Score=91.19  Aligned_cols=46  Identities=33%  Similarity=0.845  Sum_probs=40.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      -|.+|++....+   ..+| |||+||..||..|......||+||..+.+.
T Consensus       241 kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  241 KCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             ceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            499999998777   6778 999999999999999988999999987643

>PHA02926 zinc finger-like protein; Provisional

Probab=99.06  E-value=1.2e-10  Score=86.12  Aligned_cols=51  Identities=31%  Similarity=0.841  Sum_probs=38.6

Q ss_pred             CccccccccccCC-----CcceEeCCCCChhhHHhHHHHHhCC------CCCCccCcccccc
Q 033041            1 MDCAVCLSEFEEN-----ESGRVLPGCNHSFHIGCIDMWFHSH------STCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~-----~~~~~lp~C~H~Fh~~Ci~~wl~~~------~~CP~Cr~~~~~~   51 (129)
                      .+|+||++.+..+     ....+++.|+|.||..||..|...+      ..||+||..+...
T Consensus       171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            3799999986432     1234565699999999999999752      3599999987654

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

Probab=99.03  E-value=1.2e-10  Score=83.42  Aligned_cols=48  Identities=29%  Similarity=0.704  Sum_probs=39.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      -|+|||+.+.....  +-.+|||+||..||+..++....||+|++.+..+
T Consensus       133 ~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  133 KCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             CCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            59999999876522  3235999999999999999999999999877654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.01  E-value=3.7e-10  Score=63.87  Aligned_cols=44  Identities=27%  Similarity=0.809  Sum_probs=36.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   46 (129)
                      .|+||++.|.......+++ |||+||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            5999999995444556666 9999999999998855678999974

>smart00504 Ubox Modified RING finger domain

Probab=99.00  E-value=3.8e-10  Score=67.95  Aligned_cols=45  Identities=24%  Similarity=0.613  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      +.|+||++.|..+   .+++ |||+|+..||..|+..+..||+|+.++.
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            4699999999887   6777 9999999999999988889999998774

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=99.00  E-value=2.2e-10  Score=63.53  Aligned_cols=39  Identities=44%  Similarity=1.180  Sum_probs=32.9

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHh--CCCCCCcc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH--SHSTCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~C   44 (129)
                      |+||++.+..+.  ..++ |||.||..||..|+.  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999987762  3566 999999999999998  45679988

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 ....

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

Probab=98.97  E-value=2.6e-10  Score=94.81  Aligned_cols=47  Identities=40%  Similarity=1.003  Sum_probs=41.3

Q ss_pred             ccccccccccCCCc--ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            2 DCAVCLSEFEENES--GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~--~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      .|+||++.+..+..  .+.++ |+|+||..|+..|+++..+||+||..+.
T Consensus       293 ~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  293 LCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             eeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            69999999987543  57888 9999999999999999999999999543

>smart00184 RING Ring finger

Probab=98.94  E-value=1.2e-09  Score=58.62  Aligned_cols=38  Identities=45%  Similarity=1.239  Sum_probs=31.7

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCcc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~C   44 (129)
                      |+||++...   ....++ |+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~~---~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK---DPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC---CcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999843   346777 999999999999998 56679987

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)

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

Probab=98.91  E-value=6.3e-10  Score=73.05  Aligned_cols=36  Identities=31%  Similarity=0.707  Sum_probs=30.7

Q ss_pred             ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041           16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus        16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +.....|+|.||.+||..||+.+..||+|.+++...
T Consensus        75 ~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q  110 (114)
T KOG2930|consen   75 TVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ  110 (114)
T ss_pred             EEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence            333445999999999999999999999999988764

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

Probab=98.91  E-value=1.4e-09  Score=68.27  Aligned_cols=51  Identities=33%  Similarity=0.688  Sum_probs=37.9

Q ss_pred             cccccccccc-----------CCCc-ceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041            2 DCAVCLSEFE-----------ENES-GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~-----------~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   52 (129)
                      .|+||...|.           .++. ......|+|.||.+||.+||..+..||+++..+....
T Consensus        22 ~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~   84 (88)
T COG5194          22 VCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD   84 (88)
T ss_pred             hhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence            4777777653           2222 2223349999999999999999999999999987643

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.90  E-value=7.8e-10  Score=88.61  Aligned_cols=46  Identities=28%  Similarity=0.723  Sum_probs=40.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   ++++ |||.||..||..|+.....||+|+..+..
T Consensus        27 l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        27 LRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            5799999999877   5667 99999999999999888889999997743

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

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

Probab=98.82  E-value=1.4e-09  Score=84.95  Aligned_cols=46  Identities=28%  Similarity=0.768  Sum_probs=41.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|.||++.|..+   .+.| |+|.||..||..+|..+..||.|+.++.+
T Consensus        24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence            4699999999998   7888 99999999999999999999999987743

>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=1.8e-09  Score=67.30  Aligned_cols=49  Identities=31%  Similarity=0.793  Sum_probs=36.3

Q ss_pred             ccccccccccCCCc---------ceEeCCCCChhhHHhHHHHHhC---CCCCCccCccccc
Q 033041            2 DCAVCLSEFEENES---------GRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~---------~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~   50 (129)
                      +|.||.-.|+.--.         ..++..|.|.||.+||.+|+..   +..||+||..+..
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            68999988864221         1122239999999999999965   4579999998764

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

Probab=98.62  E-value=1.7e-08  Score=76.34  Aligned_cols=46  Identities=37%  Similarity=0.860  Sum_probs=38.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHH-HHhCCCC-CCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM-WFHSHST-CPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~   51 (129)
                      .|.||++....+   ..++ |||+||..||.. |-..... ||+||+.+.+.
T Consensus       217 kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         217 KCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            599999997776   6677 999999999998 8666554 99999987654

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

Probab=98.61  E-value=1.8e-08  Score=77.46  Aligned_cols=45  Identities=24%  Similarity=0.603  Sum_probs=40.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      +.|-||.+.|..+   ...+ |||.||..||..+|..+..||+||.+..
T Consensus        26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence            3599999999888   5666 9999999999999999999999998753

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

Probab=98.58  E-value=3.5e-08  Score=55.59  Aligned_cols=38  Identities=34%  Similarity=0.842  Sum_probs=22.0

Q ss_pred             cccccccccCCC-cceEeCCCCChhhHHhHHHHHhCC----CCCC
Q 033041            3 CAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSH----STCP   42 (129)
Q Consensus         3 C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP   42 (129)
                      |+||++ |...+ ..++|+ |||+|+..||.+|+...    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 76543 447788 99999999999998743    3576

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

Probab=98.55  E-value=3.4e-08  Score=80.53  Aligned_cols=47  Identities=30%  Similarity=0.725  Sum_probs=37.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC-----CCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH-----STCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~   51 (129)
                      ..||||++....+   ..+. |||+||..||..+|...     ..||+|+..+...
T Consensus       187 ~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  187 MQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            3699999987666   4444 99999999999888543     4799999988663

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

Probab=98.53  E-value=5.6e-08  Score=60.62  Aligned_cols=47  Identities=21%  Similarity=0.520  Sum_probs=37.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      |.|+|+.+.|.++   ++++ +||.|...+|..|+.. +.+||+|+.++...
T Consensus         5 f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    5 FLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            4699999999998   7888 9999999999999998 78999999887653

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 ....

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

Probab=98.51  E-value=1.9e-08  Score=62.43  Aligned_cols=50  Identities=34%  Similarity=0.941  Sum_probs=24.0

Q ss_pred             Ccccccccccc-CCC-cceEeC--CCCChhhHHhHHHHHhC---C--------CCCCccCccccc
Q 033041            1 MDCAVCLSEFE-ENE-SGRVLP--GCNHSFHIGCIDMWFHS---H--------STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~-~~~-~~~~lp--~C~H~Fh~~Ci~~wl~~---~--------~~CP~Cr~~~~~   50 (129)
                      ++|+||+..+. .+. ...+.+  .|+..||..||..||..   .        ..||.|+.++..
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            47999999865 322 223333  59999999999999953   1        159999998754

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

Probab=98.48  E-value=1.6e-07  Score=54.29  Aligned_cols=42  Identities=26%  Similarity=0.806  Sum_probs=32.3

Q ss_pred             ccccccccccCCCcceEeCCCC-----ChhhHHhHHHHHhC--CCCCCccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCN-----HSFHIGCIDMWFHS--HSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr   45 (129)
                      .|-||++ ...++...+.| |.     |.||..|+.+|+..  ...||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889998 33444556778 75     89999999999965  44899995

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

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

Probab=98.47  E-value=6.1e-08  Score=72.38  Aligned_cols=41  Identities=37%  Similarity=1.006  Sum_probs=36.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR   45 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr   45 (129)
                      ++|+||++.|..+   .+++ |+|.||..||..++.....||.||
T Consensus        14 ~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   14 LTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            5799999999998   7888 999999999999988556899999

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

Probab=98.43  E-value=5e-08  Score=84.40  Aligned_cols=48  Identities=35%  Similarity=0.952  Sum_probs=36.9

Q ss_pred             cccccccccc-CC--CcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041            2 DCAVCLSEFE-EN--ESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~-~~--~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      +|+||+..+. ..  -+-...+.|+|.||..|+.+|+++  +.+||+||..+.
T Consensus      1471 ECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            7999999875 11  122344469999999999999987  558999997764

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

Probab=98.40  E-value=1.2e-07  Score=77.18  Aligned_cols=48  Identities=31%  Similarity=0.932  Sum_probs=37.3

Q ss_pred             CccccccccccCC--------------CcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccc
Q 033041            1 MDCAVCLSEFEEN--------------ESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~--------------~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   49 (129)
                      .+|+||+..++.-              ....+.| |.|+||..|+..|+.. +-.||+||.++.
T Consensus       572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            3799999987421              1133457 9999999999999985 448999998874

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

Probab=98.39  E-value=8.2e-08  Score=73.04  Aligned_cols=52  Identities=37%  Similarity=0.731  Sum_probs=40.9

Q ss_pred             ccccccccccCCC-------cceEeCCCCChhhHHhHHHHHh--CCCCCCccCccccccCCC
Q 033041            2 DCAVCLSEFEENE-------SGRVLPGCNHSFHIGCIDMWFH--SHSTCPLCRTPVELVTAQ   54 (129)
Q Consensus         2 ~C~IC~~~~~~~~-------~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~~~   54 (129)
                      .|+||-..+....       ++-.+. |+|.||..||..|-.  ...+||.|+..+....-.
T Consensus       226 vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf  286 (328)
T KOG1734|consen  226 VCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF  286 (328)
T ss_pred             hhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence            4999998876543       556777 999999999999974  456899999988765433

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

Probab=98.37  E-value=9.3e-08  Score=57.91  Aligned_cols=43  Identities=37%  Similarity=0.925  Sum_probs=22.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   48 (129)
                      +.|.+|.+.|..+   ..+.+|.|+||..||..-+..  .||+|+.+.
T Consensus         8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa   50 (65)
T PF14835_consen    8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPA   50 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred             cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence            4699999999887   555569999999999886543  599998765

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.32  E-value=4.1e-07  Score=70.77  Aligned_cols=49  Identities=27%  Similarity=0.625  Sum_probs=35.8

Q ss_pred             ccccccccc-cCCC-cceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            2 DCAVCLSEF-EENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~-~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      .||||+... ..++ ...+.+ |||.||..|+...+.. ...||.|+.++...
T Consensus         5 ~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         5 GCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            599999953 3332 233334 9999999999996644 55899999887654

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).

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

Probab=98.29  E-value=1.1e-07  Score=74.67  Aligned_cols=51  Identities=27%  Similarity=0.590  Sum_probs=40.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccccCCC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVTAQ   54 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~   54 (129)
                      +-|+||++.+...   +..+.|.|.||..||..-+.. ++.||.||+.+......
T Consensus        44 v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL   95 (381)
T KOG0311|consen   44 VICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL   95 (381)
T ss_pred             hccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence            4699999998766   555679999999999887765 77999999987655433

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

Probab=98.24  E-value=3.7e-07  Score=73.58  Aligned_cols=44  Identities=39%  Similarity=0.976  Sum_probs=35.2

Q ss_pred             ccccccccccCCC-cceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041            2 DCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   48 (129)
                      +|+|||+.|+... .+.... |.|.||..|+..|.  ..+||+||.-.
T Consensus       177 TCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q  221 (493)
T KOG0804|consen  177 TCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQ  221 (493)
T ss_pred             CcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhc
Confidence            7999999998754 344455 99999999999995  45899998643

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

Probab=98.24  E-value=5.5e-07  Score=71.53  Aligned_cols=47  Identities=26%  Similarity=0.861  Sum_probs=35.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~   48 (129)
                      .|.||.+.+.....+.-+..|||+||..|+..|+..   +..||+|+-.+
T Consensus         6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            699996655544444444459999999999999986   45899998443

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

Probab=98.14  E-value=1.3e-06  Score=69.06  Aligned_cols=49  Identities=37%  Similarity=1.032  Sum_probs=37.5

Q ss_pred             ccccccccccCCC----cceEeCCCCChhhHHhHHHHH--hC-----CCCCCccCccccc
Q 033041            2 DCAVCLSEFEENE----SGRVLPGCNHSFHIGCIDMWF--HS-----HSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl--~~-----~~~CP~Cr~~~~~   50 (129)
                      +|.||++.+....    ...++|+|.|.||..||..|-  .+     .+.||.||.....
T Consensus       163 ~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  163 ECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            6999999876542    123457799999999999998  33     4689999986544

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

Probab=98.07  E-value=1.6e-06  Score=66.95  Aligned_cols=47  Identities=28%  Similarity=0.633  Sum_probs=38.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   52 (129)
                      +|+||+....-+   ..++ |+|.||..||+.-... ..+|++||.++...-
T Consensus         9 eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    9 ECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             cceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            799999997776   6677 9999999999876654 456999999986543

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

Probab=98.07  E-value=1.1e-06  Score=74.50  Aligned_cols=46  Identities=24%  Similarity=0.788  Sum_probs=37.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   50 (129)
                      +.|++|-..+.+.    ++++|+|.||..|+...+. ++..||.|.+.|..
T Consensus       644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            5799998665553    4455999999999999885 47799999988864

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

Probab=97.99  E-value=3.8e-06  Score=67.18  Aligned_cols=48  Identities=29%  Similarity=0.771  Sum_probs=37.1

Q ss_pred             CccccccccccCCC-cceEeCCCCChhhHHhHHHHHhC--CCCCCccCccc
Q 033041            1 MDCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~   48 (129)
                      ++|+||++.+..+. .....+.|||.|...||..||.+  ...||.|...-
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            47999999987543 34445569999999999999953  34799997743

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

Probab=97.95  E-value=2e-06  Score=50.45  Aligned_cols=44  Identities=25%  Similarity=0.744  Sum_probs=33.2

Q ss_pred             ccccccccccCCCcceEeCCCCC-hhhHHhHHHHHh-CCCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFH-SHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~-~~~~CP~Cr~~~~   49 (129)
                      +|.||++.-.+.   ++.. ||| -+|..|-.+.++ .+..||+||+++.
T Consensus         9 ECTICye~pvds---VlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    9 ECTICYEHPVDS---VLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ceeeeccCcchH---HHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            799999975443   3444 999 578889766555 5779999999874

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

Probab=97.94  E-value=4.4e-06  Score=65.75  Aligned_cols=46  Identities=39%  Similarity=0.946  Sum_probs=38.6

Q ss_pred             ccccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +|.||+.+..+   +.++| |.| -+|..|.+...-+++.||+||.++...
T Consensus       292 eCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  292 ECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             eeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            79999998544   48999 999 689999988777788999999988653

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

Probab=97.85  E-value=3.7e-06  Score=65.53  Aligned_cols=47  Identities=21%  Similarity=0.621  Sum_probs=39.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|.+|..+|.++   .++..|-|.||..||..+|...+.||.|...+..
T Consensus        16 itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   16 ITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             eehhhccceeecc---hhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            4799999999877   3333499999999999999999999999876643

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

Probab=97.85  E-value=2.9e-06  Score=72.56  Aligned_cols=50  Identities=24%  Similarity=0.499  Sum_probs=38.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   52 (129)
                      .|++|+..+.+.......+ |+|.||.+||..|-+...+||+||..|....
T Consensus       125 ~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            4777777665544334455 9999999999999998999999999876543

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

Probab=97.83  E-value=7.9e-06  Score=65.47  Aligned_cols=43  Identities=30%  Similarity=0.949  Sum_probs=35.2

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      |.||-+.   ...+++-| |||.+|..|+..|-..  ..+||.||.++.
T Consensus       372 CKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  372 CKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            8888775   34567788 9999999999999754  568999999764

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

Probab=97.81  E-value=8.2e-06  Score=63.13  Aligned_cols=49  Identities=27%  Similarity=0.830  Sum_probs=40.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----------------------CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----------------------HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~   51 (129)
                      .|.|||.-|.......+.+ |.|.||..|+..+|..                       ..+||+||..+...
T Consensus       117 qCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  117 QCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             ceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            6999999999888788888 9999999999887621                       12699999987543

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

Probab=97.75  E-value=1.4e-05  Score=64.32  Aligned_cols=46  Identities=35%  Similarity=0.844  Sum_probs=40.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|.||+..+..+   +.+| |||.||..||.+-+....-||.||..+..
T Consensus        85 f~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   85 FECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             hhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            4799999998887   6778 99999999999977777789999998864

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

Probab=97.68  E-value=2.1e-05  Score=46.78  Aligned_cols=40  Identities=25%  Similarity=0.637  Sum_probs=27.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPL   43 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~   43 (129)
                      +.|+|.+..|.+|   .....|+|.|-...|..|+..  ...||+
T Consensus        12 ~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   12 LKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4699999999887   454459999999999999944  447998

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

Probab=97.49  E-value=4.4e-05  Score=56.09  Aligned_cols=44  Identities=25%  Similarity=0.620  Sum_probs=37.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   48 (129)
                      +-|.||..+|..+   ++.. |||.||..|...-++....|-+|.+..
T Consensus       197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence            4699999999887   4554 999999999988888888999997643

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

Probab=97.47  E-value=7.8e-05  Score=59.70  Aligned_cols=48  Identities=29%  Similarity=0.754  Sum_probs=37.8

Q ss_pred             CccccccccccCC-CcceEeCCCCChhhHHhHHHHHhCC--CCCCccCcccc
Q 033041            1 MDCAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~   49 (129)
                      +.|..|-+.+... +...-+| |.|+||..|+..+|..+  .+||.||+...
T Consensus       366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~CrklrS  416 (518)
T KOG1941|consen  366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLRS  416 (518)
T ss_pred             hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence            4688998887643 3566788 99999999999999764  48999995444

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

Probab=97.47  E-value=5.6e-05  Score=60.92  Aligned_cols=49  Identities=27%  Similarity=0.725  Sum_probs=40.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT   52 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   52 (129)
                      +.|+||...+.++   .....|||.||..|+..|+..+..||.|+..+....
T Consensus        22 l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   22 LLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             ccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            4699999999887   221249999999999999999999999988776543

>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=97.44  E-value=6.4e-05  Score=51.94  Aligned_cols=35  Identities=17%  Similarity=0.568  Sum_probs=29.2

Q ss_pred             CccccccccccCCCcceEeCCCC------ChhhHHhHHHHHh
Q 033041            1 MDCAVCLSEFEENESGRVLPGCN------HSFHIGCIDMWFH   36 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~------H~Fh~~Ci~~wl~   36 (129)
                      +||.||++.+...+.++.++ ||      |.||..|+.+|-.
T Consensus        27 ~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   27 VECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             eeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence            48999999998855677777 66      8999999999943

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.

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

Probab=97.39  E-value=0.00013  Score=55.83  Aligned_cols=48  Identities=29%  Similarity=0.473  Sum_probs=36.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~   51 (129)
                      .+|++|-+.-..|  ....+ |+|+||..||..-+..  ..+||.|..++.+.
T Consensus       240 ~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  240 TECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             ceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            4899999986555  22334 9999999999887654  47999998876543

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

Probab=97.38  E-value=0.00022  Score=40.95  Aligned_cols=45  Identities=27%  Similarity=0.684  Sum_probs=22.9

Q ss_pred             cccccccccCCCcceEeC-CCCChhhHHhHHHHHh-CCCCCCccCccc
Q 033041            3 CAVCLSEFEENESGRVLP-GCNHSFHIGCIDMWFH-SHSTCPLCRTPV   48 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~   48 (129)
                      |++|.++++..+. ...| .|++.+|..|...-++ ....||-||.++
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999955432 3333 4999999999988776 477999999876

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

Probab=97.38  E-value=0.00015  Score=54.30  Aligned_cols=48  Identities=23%  Similarity=0.649  Sum_probs=38.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--------CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~   51 (129)
                      .|.+|-..+..++.+++.  |.|.||..|+..|-..        ...||.|..++.+.
T Consensus        52 NC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   52 NCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            377888888888776665  9999999999999743        34799999887553

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

Probab=97.16  E-value=0.00018  Score=59.72  Aligned_cols=46  Identities=28%  Similarity=0.700  Sum_probs=35.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~   51 (129)
                      +|.+|.+.-.+.   .... |.|.||..||..++..     +-+||.|...+...
T Consensus       538 ~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  538 ECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             eecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            699998875544   4444 9999999999999854     45899998777544

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

Probab=97.15  E-value=0.00023  Score=61.63  Aligned_cols=48  Identities=27%  Similarity=0.753  Sum_probs=37.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-------CCCCCccCccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-------HSTCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr~~~   48 (129)
                      .+|.||++.+.....+.-...|.|+||..||..|-.+       ...||.|....
T Consensus       192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            4799999999877666555569999999999999754       23699998433

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

Probab=96.97  E-value=0.00024  Score=54.93  Aligned_cols=45  Identities=22%  Similarity=0.500  Sum_probs=38.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      +-|-||...|..+   ++.. |+|.||..|...-++....|.+|.....
T Consensus       242 f~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  242 FKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             ccccccccccccc---hhhc-CCceeehhhhccccccCCcceecccccc
Confidence            3599999999988   5555 9999999999888888889999977553

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

Probab=96.89  E-value=0.00054  Score=55.15  Aligned_cols=45  Identities=29%  Similarity=0.717  Sum_probs=36.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--------CCCCCccCc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPLCRT   46 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~   46 (129)
                      +.|.||++..........+| |+|+||..|+..++..        .-.||-+.-
T Consensus       185 f~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  185 FDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             ccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            47999999987767788899 9999999999999843        125877654

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

Probab=96.72  E-value=0.00089  Score=61.29  Aligned_cols=46  Identities=26%  Similarity=0.774  Sum_probs=34.8

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC----------CCCccCcccc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS----------TCPLCRTPVE   49 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~----------~CP~Cr~~~~   49 (129)
                      |-||+.+--.....+.+. |+|+||..|....|+...          .||+|+.++.
T Consensus      3489 CmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3489 CMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             EEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            778877655555666776 999999999987765421          6999998774

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

Probab=96.71  E-value=0.0012  Score=47.81  Aligned_cols=31  Identities=32%  Similarity=0.938  Sum_probs=25.2

Q ss_pred             CCCChhhHHhHHHHHhC------CC-----CCCccCcccccc
Q 033041           21 GCNHSFHIGCIDMWFHS------HS-----TCPLCRTPVELV   51 (129)
Q Consensus        21 ~C~H~Fh~~Ci~~wl~~------~~-----~CP~Cr~~~~~~   51 (129)
                      .||..||.-|+..||..      .+     .||+|..++..+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            39999999999999964      11     599999888654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.71  E-value=0.0015  Score=49.58  Aligned_cols=49  Identities=16%  Similarity=0.310  Sum_probs=43.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      -|+||.+.+.+...+.+|..|||+|+..|+.+++.....||+|-.++..
T Consensus       223 iCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  223 ICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             ecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            4999999999888777776699999999999999989999999887754

>PHA02862 5L protein; Provisional

Probab=96.69  E-value=0.0017  Score=45.47  Aligned_cols=47  Identities=28%  Similarity=0.716  Sum_probs=34.1

Q ss_pred             ccccccccccCCCcceEeC-CC---CChhhHHhHHHHHhC--CCCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLP-GC---NHSFHIGCIDMWFHS--HSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp-~C---~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~   52 (129)
                      .|=||++.-.+.    ..| .|   ....|..|+..|+..  ...|++|+.++....
T Consensus         4 iCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~   56 (156)
T PHA02862          4 ICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK   56 (156)
T ss_pred             EEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence            588999875433    345 13   358999999999975  447999999886543

>PHA03096 p28-like protein; Provisional

Probab=96.66  E-value=0.0011  Score=51.31  Aligned_cols=44  Identities=30%  Similarity=0.659  Sum_probs=31.1

Q ss_pred             ccccccccccCC----CcceEeCCCCChhhHHhHHHHHhC---CCCCCccC
Q 033041            2 DCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr   45 (129)
                      +|.||++.....    ..-..+++|.|.||..|+..|...   ..+||.|+
T Consensus       180 ~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~  230 (284)
T PHA03096        180 ICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR  230 (284)
T ss_pred             hcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence            699999976532    123456789999999999999854   23444443

>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=96.66  E-value=0.00094  Score=37.41  Aligned_cols=39  Identities=28%  Similarity=0.770  Sum_probs=23.5

Q ss_pred             cccccccccCCCcceEeC--CCCChhhHHhHHHHHhCCC--CCCcc
Q 033041            3 CAVCLSEFEENESGRVLP--GCNHSFHIGCIDMWFHSHS--TCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl~~~~--~CP~C   44 (129)
                      |.+|.+.+..+   ..-+  .|+-.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G---~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQG---QRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSS---EE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeee---ccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67888887777   3333  3888999999999997754  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=96.63  E-value=0.0016  Score=50.78  Aligned_cols=43  Identities=28%  Similarity=0.686  Sum_probs=34.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHH-hCCCCCCccCc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRT   46 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~   46 (129)
                      |-|+.|...+..+   ...+-|+|.||..||...| .+.+.||.|..
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            4699998888777   3445599999999998766 46789999965

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

Probab=96.37  E-value=0.0024  Score=36.40  Aligned_cols=41  Identities=32%  Similarity=0.915  Sum_probs=26.1

Q ss_pred             cccccccccCCCcceEeC-CCCC---hhhHHhHHHHHhC--CCCCCcc
Q 033041            3 CAVCLSEFEENESGRVLP-GCNH---SFHIGCIDMWFHS--HSTCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~C   44 (129)
                      |-||++.-.... ..+.| .|+-   ..|..||..|+..  ...|++|
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            679999866554 34455 2444   7899999999974  5679887

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.35  E-value=0.0037  Score=44.43  Aligned_cols=46  Identities=22%  Similarity=0.746  Sum_probs=33.7

Q ss_pred             ccccccccccCCCcceEeC-CCCC---hhhHHhHHHHHhC--CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLP-GCNH---SFHIGCIDMWFHS--HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~   51 (129)
                      +|=||++.-..    ...| +|..   ..|..|+..|+..  ...|++|+.++...
T Consensus        10 ~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825         10 CCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             eeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            58899888432    1235 2554   6799999999965  44799999988654

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

Probab=96.30  E-value=0.00067  Score=52.55  Aligned_cols=39  Identities=28%  Similarity=0.726  Sum_probs=29.5

Q ss_pred             cccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccc
Q 033041            3 CAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      |+|||+.   +..+..|+ ||| +-|..|-+..    ..||+||..+.
T Consensus       303 C~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  303 CAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence            8999886   55668888 999 5567776543    37999998664

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

Probab=96.27  E-value=0.0022  Score=48.29  Aligned_cols=48  Identities=23%  Similarity=0.615  Sum_probs=33.6

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA   53 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   53 (129)
                      .|..|..--. ++...++. |.|+||..|...-  ....||+|+..+.....
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l   52 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQL   52 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeeec
Confidence            4777776544 55555665 9999999998652  22389999998755443

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.16  E-value=0.0024  Score=37.53  Aligned_cols=34  Identities=38%  Similarity=0.779  Sum_probs=26.1

Q ss_pred             cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041           15 SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus        15 ~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ...++| |+|..+..|..-+  .-+-||+|.+++...
T Consensus        19 ~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen   19 KGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             cccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence            346788 9999999997654  345799999988654

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.15  E-value=0.0048  Score=47.12  Aligned_cols=49  Identities=22%  Similarity=0.411  Sum_probs=38.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|||....|......+.+..|||+|...+|...- ....||+|-.+|..
T Consensus       114 ~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  114 FICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTE  162 (260)
T ss_pred             eECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcccc
Confidence            35999999996655555554499999999999863 35679999998864

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

Probab=96.10  E-value=0.0043  Score=47.87  Aligned_cols=47  Identities=26%  Similarity=0.750  Sum_probs=36.2

Q ss_pred             CccccccccccCCC---cceEeCCCCChhhHHhHHHHHhCC-CCCCccCccc
Q 033041            1 MDCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFHSH-STCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~   48 (129)
                      ++|.||-++|...+   ..+.+. |||.|+..|+.+.+... ..||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            47999999997652   234444 99999999998877653 4799999875

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

Probab=96.06  E-value=0.0038  Score=48.15  Aligned_cols=44  Identities=27%  Similarity=0.671  Sum_probs=35.6

Q ss_pred             ccccccccccCCC-cceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041            2 DCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   46 (129)
                      .|+||.+.+.... .+..++ |||..|..|+......+.+||+|.+
T Consensus       160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            3889998765443 344566 9999999999998877899999988

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

Probab=95.98  E-value=0.006  Score=48.62  Aligned_cols=45  Identities=27%  Similarity=0.581  Sum_probs=37.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      .|+||+-.-...   +..| |+|.-|..||.+.+-..+.|=.|++.+..
T Consensus       424 lCpICyA~pi~A---vf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  424 LCPICYAGPINA---VFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cCcceecccchh---hccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            599998764333   6778 99999999999999999999999987753

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

Probab=95.61  E-value=0.01  Score=47.29  Aligned_cols=48  Identities=29%  Similarity=0.648  Sum_probs=36.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHH--HhCCCCCCccCccccccCC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW--FHSHSTCPLCRTPVELVTA   53 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w--l~~~~~CP~Cr~~~~~~~~   53 (129)
                      -|-||.+.+.--   .++| |+|..|..|....  |...+.||+||..+.....
T Consensus        63 ~C~ICA~~~TYs---~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~f  112 (493)
T COG5236          63 NCQICAGSTTYS---ARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAVVF  112 (493)
T ss_pred             eeEEecCCceEE---Eecc-CCchHHHHHHHHHHHHHhccCCCccccccceEEE
Confidence            478888876443   6788 9999999997543  4568899999998875543

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

Probab=95.60  E-value=0.0084  Score=46.86  Aligned_cols=44  Identities=25%  Similarity=0.569  Sum_probs=33.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++||||.+.+..+   +..-.=||..|..|-.+   ....||.|+.++..
T Consensus        49 leCPvC~~~l~~P---i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   49 LDCPVCFNPLSPP---IFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN   92 (299)
T ss_pred             ccCchhhccCccc---ceecCCCcEehhhhhhh---hcccCCcccccccc
Confidence            6899999999887   33211369999988754   46689999998853

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

Probab=95.41  E-value=0.0092  Score=52.02  Aligned_cols=41  Identities=24%  Similarity=0.714  Sum_probs=31.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   48 (129)
                      .|.+|--.++.|  .+... |||.||.+|+.   .....||.|+..+
T Consensus       842 kCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  842 KCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            588888888776  23344 99999999997   3456899998743

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.31  E-value=0.014  Score=46.43  Aligned_cols=47  Identities=19%  Similarity=0.505  Sum_probs=35.1

Q ss_pred             cccccccccCCCc-ceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            3 CAVCLSEFEENES-GRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         3 C~IC~~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      |++|++.|+..++ ..-.+ ||-.+|..|...-.+. +..||.||..+..
T Consensus        17 cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          17 CPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             CcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            9999999987654 33455 9999898887654333 5589999987754

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

Probab=95.20  E-value=0.0093  Score=46.94  Aligned_cols=43  Identities=28%  Similarity=0.523  Sum_probs=34.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   47 (129)
                      .|+||+....++   .++.--|-+||..|+..++..+..||+=..+
T Consensus       302 ~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  302 VCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             cChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            599999988776   3333269999999999999999999985433

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

Probab=95.19  E-value=0.0083  Score=46.99  Aligned_cols=30  Identities=43%  Similarity=1.072  Sum_probs=23.5

Q ss_pred             ceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041           16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV   48 (129)
Q Consensus        16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   48 (129)
                      -+++| |+|+||.+|...  ...+.||.|-.+|
T Consensus       104 GRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen  104 GRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             ecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            35788 999999999754  3467899998765

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

Probab=95.15  E-value=0.025  Score=39.15  Aligned_cols=48  Identities=23%  Similarity=0.580  Sum_probs=35.0

Q ss_pred             ccccccccccCCCcceEeC--CCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLP--GCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~   51 (129)
                      +|.||.|...+..  .+-|  -||-..|..|....++.   +.+||+|+..+...
T Consensus        82 eCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   82 ECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             eccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            7999999865441  2223  29999999998766654   66899999988654

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

Probab=95.05  E-value=0.019  Score=46.13  Aligned_cols=44  Identities=18%  Similarity=0.433  Sum_probs=36.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCR   45 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr   45 (129)
                      +.|||=.+.-.+......+. |||+....-|.+..+..   +.||+|=
T Consensus       335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP  381 (394)
T KOG2817|consen  335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP  381 (394)
T ss_pred             eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence            46898888777777778888 99999999999987653   4799993

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.97  E-value=0.023  Score=33.31  Aligned_cols=32  Identities=28%  Similarity=0.751  Sum_probs=28.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHH
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM   33 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~   33 (129)
                      -|++|-+.|...+.+++.|.||-.+|+.|...
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            48999999988888899999999999999654

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

Probab=94.90  E-value=0.015  Score=50.15  Aligned_cols=49  Identities=24%  Similarity=0.594  Sum_probs=36.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCccccccCCC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVELVTAQ   54 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~   54 (129)
                      .+|.||++    .+.....+ |+|.||..|+...+..  ...||+||..+......
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~  505 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL  505 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence            37999999    33446666 9999999999988865  23699999877655433

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

Probab=94.90  E-value=0.012  Score=46.78  Aligned_cols=41  Identities=32%  Similarity=0.750  Sum_probs=28.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      .|.||++....   ...+| |||.-|  |..-. +....||+||..+.
T Consensus       307 lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  307 LCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             ceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            48899988655   47888 999755  55332 22345999998764

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

Probab=94.33  E-value=0.024  Score=49.21  Aligned_cols=23  Identities=35%  Similarity=0.938  Sum_probs=21.4

Q ss_pred             CCCChhhHHhHHHHHhCCCCCCc
Q 033041           21 GCNHSFHIGCIDMWFHSHSTCPL   43 (129)
Q Consensus        21 ~C~H~Fh~~Ci~~wl~~~~~CP~   43 (129)
                      .|+|..|.+|...|+.....||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            39999999999999999999986

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

Probab=93.67  E-value=0.04  Score=48.39  Aligned_cols=32  Identities=28%  Similarity=0.590  Sum_probs=25.7

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF   35 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl   35 (129)
                      .|.+|...+... ...+.| |||.||..||....
T Consensus       819 ~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  819 SCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             chHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            588998877554 667788 99999999998664

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

Probab=93.40  E-value=0.033  Score=45.00  Aligned_cols=35  Identities=29%  Similarity=0.678  Sum_probs=25.5

Q ss_pred             ccccccccc-cCCCcceEeCCCCChhhHHhHHHHHhC
Q 033041            2 DCAVCLSEF-EENESGRVLPGCNHSFHIGCIDMWFHS   37 (129)
Q Consensus         2 ~C~IC~~~~-~~~~~~~~lp~C~H~Fh~~Ci~~wl~~   37 (129)
                      +|.||+... ......... +|+|.||..|+...++.
T Consensus       148 ~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  148 ECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence            799999444 333333434 49999999999998864

>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=93.39  E-value=0.045  Score=31.48  Aligned_cols=43  Identities=19%  Similarity=0.563  Sum_probs=19.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----CCCCCccCcc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTP   47 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~   47 (129)
                      |.|+|....+..+   .....|.|.-|.+ +..||..     ...||+|.++
T Consensus         3 L~CPls~~~i~~P---~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP---VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE---EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC---ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            5688888888765   4444599975543 3445532     3479999753

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.21  E-value=0.042  Score=42.01  Aligned_cols=48  Identities=31%  Similarity=0.823  Sum_probs=31.8

Q ss_pred             cccccccccCCC-cceEeCCC-----CChhhHHhHHHHHhC--------CCCCCccCcccccc
Q 033041            3 CAVCLSEFEENE-SGRVLPGC-----NHSFHIGCIDMWFHS--------HSTCPLCRTPVELV   51 (129)
Q Consensus         3 C~IC~~~~~~~~-~~~~lp~C-----~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~   51 (129)
                      |=||+..=++.. ...+-| |     .|+.|..|+..|+-.        .-.||.|++++...
T Consensus        23 CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv   84 (293)
T KOG3053|consen   23 CWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV   84 (293)
T ss_pred             EEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence            778877533322 223344 4     489999999999832        12699999987543

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

Probab=93.00  E-value=0.031  Score=50.84  Aligned_cols=43  Identities=26%  Similarity=0.802  Sum_probs=35.1

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   47 (129)
                      .|.||++.+..-.  .+.. |||.||..|+..|+..+..||+|+..
T Consensus      1155 ~c~ic~dil~~~~--~I~~-cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1155 VCEICLDILRNQG--GIAG-CGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             chHHHHHHHHhcC--Ceee-echhHhhhHHHHHHHHhccCcchhhh
Confidence            5899999887321  2333 99999999999999999999999853

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

Probab=92.91  E-value=0.0057  Score=49.17  Aligned_cols=46  Identities=22%  Similarity=0.677  Sum_probs=36.8

Q ss_pred             cccccccccCC-CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            3 CAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         3 C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      |.||.+.+... +.+..+- |||.+|..||.+||.....||.|+..+.
T Consensus       199 l~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  199 LSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             hHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            67888877654 3444454 9999999999999998888999988764

>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]

Probab=92.88  E-value=0.068  Score=39.81  Aligned_cols=45  Identities=24%  Similarity=0.661  Sum_probs=36.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      +|.+|......+   +....|+-.+|..|+..+++....||.|..-|.
T Consensus       183 ~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~  227 (235)
T KOG4718|consen  183 NCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT  227 (235)
T ss_pred             HHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence            588898877665   334458889999999999999889999976554

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

Probab=92.76  E-value=0.077  Score=42.52  Aligned_cols=29  Identities=31%  Similarity=0.960  Sum_probs=22.6

Q ss_pred             CCChhhHHhHHHHHhC-------------CCCCCccCccccc
Q 033041           22 CNHSFHIGCIDMWFHS-------------HSTCPLCRTPVEL   50 (129)
Q Consensus        22 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~   50 (129)
                      |.-..|..|+-+|+.+             +-.||+||+.+-.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            6678899999999854             2269999998753

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

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

Probab=92.39  E-value=0.049  Score=31.11  Aligned_cols=28  Identities=25%  Similarity=0.947  Sum_probs=21.4

Q ss_pred             CC-ChhhHHhHHHHHhCCCCCCccCcccc
Q 033041           22 CN-HSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus        22 C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      |. |..|..|+...+.....||+|..++.
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            54 99999999999999999999998774

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.

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=92.32  E-value=0.15  Score=39.62  Aligned_cols=47  Identities=21%  Similarity=0.540  Sum_probs=34.0

Q ss_pred             ccccccccc-cCCC-cceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccc
Q 033041            2 DCAVCLSEF-EENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~-~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   49 (129)
                      .|++|..+. -.++ ...+-+ |+|..|.+|+...+.. ...||.|-..+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            589998753 3343 233345 9999999999988755 458999977653

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

Probab=92.02  E-value=0.044  Score=47.04  Aligned_cols=45  Identities=33%  Similarity=0.913  Sum_probs=35.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~   49 (129)
                      ++|+||+..+..+   ..+. |.|.|+..|+..-+...   ..||+|+..+.
T Consensus        22 lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   22 LECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             ccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            5899999998887   4444 99999999998766543   46999986543

>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=91.99  E-value=0.15  Score=36.32  Aligned_cols=32  Identities=28%  Similarity=0.750  Sum_probs=19.7

Q ss_pred             CccccccccccCCCcceEeC------C-----CCCh-hhHHhHHHHH
Q 033041            1 MDCAVCLSEFEENESGRVLP------G-----CNHS-FHIGCIDMWF   35 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp------~-----C~H~-Fh~~Ci~~wl   35 (129)
                      .+|+|||+.--+.   ++|.      +     |+.. -|..||+++-
T Consensus         3 ~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    3 VTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             ccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence            4799999974333   3332      1     5543 3567998875

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.

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

Probab=91.75  E-value=0.064  Score=45.87  Aligned_cols=40  Identities=25%  Similarity=0.642  Sum_probs=29.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCP   42 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP   42 (129)
                      +-|.||+..|....-..+.+.|||..|.+|+...  .+.+||
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp   51 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP   51 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence            3599999888655333333459999999999875  355788

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

Probab=91.42  E-value=0.064  Score=40.80  Aligned_cols=48  Identities=27%  Similarity=0.608  Sum_probs=34.8

Q ss_pred             cccccccccc-CCC-cceEeCCCCChhhHHhHHHHHhC-CCCCC--ccCcccc
Q 033041            2 DCAVCLSEFE-ENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCP--LCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~-~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP--~Cr~~~~   49 (129)
                      -||||..+.. .|+ ...+.|.|-|.+|.+|++.-+.. ...||  -|.+.+.
T Consensus        12 ~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR   64 (314)
T COG5220          12 RCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR   64 (314)
T ss_pred             cCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence            4999988633 333 34445579999999999998865 45799  6876554

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=90.89  E-value=0.21  Score=28.96  Aligned_cols=43  Identities=28%  Similarity=0.631  Sum_probs=23.0

Q ss_pred             cccccccccCCC------cceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041            3 CAVCLSEFEENE------SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR   45 (129)
Q Consensus         3 C~IC~~~~~~~~------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr   45 (129)
                      |--|+..|....      .....+.|++.||.+|=.---+.-..||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            556777776542      3445678999999999544334455899883

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

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

Probab=90.81  E-value=0.16  Score=41.87  Aligned_cols=32  Identities=31%  Similarity=0.723  Sum_probs=27.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH   36 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~   36 (129)
                      +-|+||..-|.++   +++| |+|.+|..|...-+.
T Consensus         5 lkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    5 LKCPVCGSFYREP---IILP-CSHNLCQACARNILV   36 (699)
T ss_pred             ccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence            4699999999888   8898 999999999875543

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

Probab=89.00  E-value=0.17  Score=37.55  Aligned_cols=39  Identities=31%  Similarity=0.756  Sum_probs=26.0

Q ss_pred             cccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccc
Q 033041            3 CAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      |-+|.+.   ...+.++| |.| .+|..|-..    -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            4445443   45678889 998 667777543    346999987653

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=88.56  E-value=0.69  Score=27.30  Aligned_cols=44  Identities=18%  Similarity=0.619  Sum_probs=31.0

Q ss_pred             cccccccccCCCcceEeCCCC--ChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            3 CAVCLSEFEENESGRVLPGCN--HSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      |-.|-.++........+  |.  ..||..|....|  +..||-|...+..
T Consensus         8 CE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~   53 (57)
T PF06906_consen    8 CECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVR   53 (57)
T ss_pred             ccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence            66677777655422333  55  489999998876  5689999887754

This family contains a number of conserved cysteine residues and its function is unknown.

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=87.75  E-value=0.81  Score=28.81  Aligned_cols=52  Identities=17%  Similarity=0.349  Sum_probs=19.8

Q ss_pred             ccccccccccCCC---cceEeCCCCChhhHHhHHHHHh-CCCCCCccCccccccCC
Q 033041            2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVELVTA   53 (129)
Q Consensus         2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~   53 (129)
                      .|.||-+.+....   ..+..-.|+--.|..|+.-=.+ .++.||.|+.++.....
T Consensus        11 iCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kg   66 (80)
T PF14569_consen   11 ICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKG   66 (80)
T ss_dssp             B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT
T ss_pred             ccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccC
Confidence            5899999875322   2222224788889999865444 47789999988865443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.38  E-value=0.38  Score=37.66  Aligned_cols=29  Identities=24%  Similarity=0.682  Sum_probs=23.1

Q ss_pred             CCChhhHHhHHHHHhC-------------CCCCCccCccccc
Q 033041           22 CNHSFHIGCIDMWFHS-------------HSTCPLCRTPVEL   50 (129)
Q Consensus        22 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~   50 (129)
                      |....|.+|+..|+..             .-+||+||+.+..
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            7789999999999742             3379999998753

>smart00249 PHD PHD zinc finger

Probab=87.16  E-value=0.51  Score=25.33  Aligned_cols=31  Identities=23%  Similarity=0.488  Sum_probs=21.1

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHH
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM   33 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~   33 (129)
                      .|.+|.... .+...+.-..|...||..|+..
T Consensus         1 ~C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPD-DGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcC-CCCCEEECCCCCchhhhhhCCC
Confidence            478888765 3333344445999999999854

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

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

Probab=87.07  E-value=0.69  Score=40.90  Aligned_cols=52  Identities=19%  Similarity=0.575  Sum_probs=37.5

Q ss_pred             ccccccccccCCCcceEeCCCC-----ChhhHHhHHHHHhC--CCCCCccCccccccCCCC
Q 033041            2 DCAVCLSEFEENESGRVLPGCN-----HSFHIGCIDMWFHS--HSTCPLCRTPVELVTAQP   55 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~~   55 (129)
                      .|-||..+=..++.. .-| |+     -..|..|+.+|+.-  ...|-+|+.++..+.-..
T Consensus        14 ~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~   72 (1175)
T COG5183          14 SCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK   72 (1175)
T ss_pred             hceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence            589998875444333 334 54     36899999999975  447999999998776543

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=86.85  E-value=0.32  Score=24.17  Aligned_cols=23  Identities=35%  Similarity=0.758  Sum_probs=10.9

Q ss_pred             ccccccccccCCCcceEeCCCCChh
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSF   26 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~F   26 (129)
                      .|+-|...+..  .....|.|||.|
T Consensus         2 ~CP~C~~~V~~--~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPE--SAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchh--hcCcCCCCCCCC
Confidence            35556555422  223444466655

Several members are annotated as putative helicases.

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

Probab=86.83  E-value=0.38  Score=36.92  Aligned_cols=50  Identities=30%  Similarity=0.713  Sum_probs=33.5

Q ss_pred             ccccccccccCCCc-ceEeC-CCC---ChhhHHhHHHHHh--CCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENES-GRVLP-GCN---HSFHIGCIDMWFH--SHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~-~~~lp-~C~---H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~~   51 (129)
                      .|-||..+...... ....| .|+   +..|..|+..|+.  ....|.+|...+...
T Consensus        80 ~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   80 ICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             cEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            48888886543321 23444 133   5789999999997  456899998766543

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.54  E-value=0.46  Score=38.98  Aligned_cols=33  Identities=21%  Similarity=0.620  Sum_probs=26.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS   37 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~   37 (129)
                      +|.||.+.+..  ....+. |+|.||..|...++..
T Consensus        72 ~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   72 QCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT  104 (444)
T ss_pred             cCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence            69999998765  334455 9999999999998854

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

Probab=85.58  E-value=0.41  Score=42.07  Aligned_cols=48  Identities=15%  Similarity=0.194  Sum_probs=31.9

Q ss_pred             ccccccccccCCC---cceEeCCCCChhhHHhHHHHHhC------CCCCCccCcccc
Q 033041            2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFHS------HSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~   49 (129)
                      +|.||+..+..+.   ....+.+|+|.||..||..|+.+      +-.|++|..-|.
T Consensus        98 Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   98 TSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             ccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            5777777776532   12222259999999999999854      235777766553

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

Probab=85.31  E-value=0.59  Score=36.97  Aligned_cols=44  Identities=18%  Similarity=0.440  Sum_probs=30.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCR   45 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr   45 (129)
                      +.||+-.+.-........+. |||+.-..-+...-+.   .+.||+|=
T Consensus       337 FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP  383 (396)
T COG5109         337 FICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP  383 (396)
T ss_pred             eeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence            35777666555545556676 9999998888776543   45799993

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

Probab=84.69  E-value=0.48  Score=38.32  Aligned_cols=42  Identities=24%  Similarity=0.504  Sum_probs=31.0

Q ss_pred             ccccccccccCC--CcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041            2 DCAVCLSEFEEN--ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC   44 (129)
Q Consensus         2 ~C~IC~~~~~~~--~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C   44 (129)
                      .|++|.-.+.-.  -...... |||.||..|...|...+..|..|
T Consensus       308 ~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  308 QCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             cCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence            588887765433  3445555 99999999999998877777554

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

Probab=84.64  E-value=0.59  Score=40.80  Aligned_cols=40  Identities=25%  Similarity=0.477  Sum_probs=28.6

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPL   43 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~   43 (129)
                      .|.+|...+..-  ....+.|+|.-|..|+..|+..+..||.
T Consensus       781 ~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  781 KCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             Cceeecceeeee--EeecccccccccHHHHHHHHhcCCCCcc
Confidence            366676554321  2234469999999999999998887766

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

Probab=84.38  E-value=0.45  Score=40.43  Aligned_cols=28  Identities=29%  Similarity=0.674  Sum_probs=19.8

Q ss_pred             ceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041           16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT   46 (129)
Q Consensus        16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   46 (129)
                      +.....|+++||..|+..   ....||.|-.
T Consensus       531 ~~rC~~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  531 TRRCSTCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             ceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence            344445999999999755   3445999943

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=84.28  E-value=0.53  Score=26.46  Aligned_cols=43  Identities=26%  Similarity=0.550  Sum_probs=28.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHh------CCCCCCccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH------SHSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~------~~~~CP~Cr   45 (129)
                      .|.||... ......+.-..|+..||..|+..-..      ....||.|+
T Consensus         1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~   49 (51)
T PF00628_consen    1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR   49 (51)
T ss_dssp             EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred             eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence            48899883 33334455556999999999865432      245788875

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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=83.74  E-value=1.3  Score=35.09  Aligned_cols=48  Identities=25%  Similarity=0.656  Sum_probs=35.6

Q ss_pred             ccccccccccCCCcc-eEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESG-RVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~-~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      .|+||.+.+...+.. .-.+ |++..|..|+..-...+..||.||+++..
T Consensus       251 s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~  299 (327)
T KOG2068|consen  251 SCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYER  299 (327)
T ss_pred             CCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCcccc
Confidence            589999987544322 2234 88888888988877778899999966544

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=83.26  E-value=0.95  Score=33.33  Aligned_cols=38  Identities=32%  Similarity=0.850  Sum_probs=26.9

Q ss_pred             cccccccc-----ccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041            2 DCAVCLSE-----FEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~-----~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr   45 (129)
                      .|.||-+.     |+. +.+...++|+..||..|...     ..||-|-
T Consensus       154 iCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~  196 (202)
T PF13901_consen  154 ICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA  196 (202)
T ss_pred             CCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence            57788753     222 35566677999999999752     6799994

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=82.24  E-value=0.59  Score=25.01  Aligned_cols=13  Identities=23%  Similarity=0.736  Sum_probs=8.0

Q ss_pred             ccccccccccCCC
Q 033041            2 DCAVCLSEFEENE   14 (129)
Q Consensus         2 ~C~IC~~~~~~~~   14 (129)
                      +|+-|...|..++
T Consensus         4 ~CP~C~~~f~v~~   16 (37)
T PF13719_consen    4 TCPNCQTRFRVPD   16 (37)
T ss_pred             ECCCCCceEEcCH
Confidence            5777776665443

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

Probab=81.33  E-value=0.88  Score=38.32  Aligned_cols=43  Identities=37%  Similarity=0.927  Sum_probs=32.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   52 (129)
                      .|.||+..+    ..+..+ |.   |..|+.+|+..+.+||+|+..+....
T Consensus       481 ~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~  523 (543)
T KOG0802|consen  481 VCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDD  523 (543)
T ss_pred             cchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccc
Confidence            477787777    224455 77   78999999999999999988776543

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.15  E-value=1.4  Score=33.88  Aligned_cols=48  Identities=19%  Similarity=0.239  Sum_probs=31.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      -|+|=.-+|........+..|||+|-..-+.+.  ....|++|.+.|...
T Consensus       113 iCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~  160 (293)
T KOG3113|consen  113 ICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED  160 (293)
T ss_pred             ecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence            366655555444333334349999988877664  356899999987543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	129
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		6e-13
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		4e-07
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		3e-05

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

Iteration: 1
 Score = 68.9 bits (167), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 29/48 (60%), Positives = 34/48 (70%)
Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          ++CAVCL+E E+ E  R LP C H FH  C+DMW  SHSTCPLCR  V
Sbjct: 6  VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46
          C VC+ +FE  +  RVLP CNH FH  C+D W  ++ TCP+CR 
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          C +CLS  EE E  R LP C H FH  C+D W  ++  CP+CR  +E
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45
          ++C VC  ++   ES R LP CNH FH  CI  W   H +CP+CR
Sbjct: 16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDP 58
          CAVCL +F+  +   + P C H+FH  C+  W      CPLC  PV L  AQ   P
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV-LQLAQLSGP 71

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45
          M C +C SE+ + +    LP C+H FH  C+ +W     TCP+CR
Sbjct: 41 MCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	129
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-28
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-23
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	8e-21
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-20
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-19
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-18
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	9e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-15
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	6e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-11
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	6e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	9e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-08
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	6e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-04

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

 Score = 96.5 bits (241), Expect = 5e-28
 Identities = 29/47 (61%), Positives = 33/47 (70%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          +CAVCL+E E+ E  R LP C H FH  C+DMW  SHSTCPLCR  V
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 90.1 bits (224), Expect = 3e-25
 Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           C VC+ +FE  +  RVLP CNH FH  C+D W  ++ TCP+CR    
Sbjct: 25 LCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSG 71

>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 = 85.1 bits (211), Expect = 2e-23
 Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           C +CLS  EE E  R LP C H FH  C+D W  ++  CP+CR  +E
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62

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

 Score = 79.3 bits (196), Expect = 8e-21
 Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
           C +C SE+ + +    LP C+H FH  C+ +W     TCP+CR   
Sbjct: 42 CCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 77.9 bits (192), Expect = 2e-20
 Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDP 58
          ++C VC  ++   ES R LP CNH FH  CI  W   H +CP+CR  +         P
Sbjct: 16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPP 72

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

 Score = 76.0 bits (187), Expect = 1e-19
 Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
           CAVCL +F+  +   + P C H+FH  C+  W      CPLC  PV
Sbjct: 17 LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

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

 Score = 71.9 bits (177), Expect = 2e-18
 Identities = 12/47 (25%), Positives = 17/47 (36%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
           C +CL +   +     +  C H  H  C +        CPLC  P 
Sbjct: 7  GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 71.1 bits (174), Expect = 9e-18
 Identities = 16/48 (33%), Positives = 26/48 (54%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
          C  C +E ++ +   V   CNHSFH  C+ +W   ++ CPLC+    +
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76

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

 Score = 65.1 bits (159), Expect = 1e-15
 Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 5/48 (10%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          +C +C+    +     +LP C HSF   CID W   H  CP+CR  + 
Sbjct: 17 ECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMT 59

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

 Score = 64.3 bits (157), Expect = 3e-15
 Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          C +CL +         LP C H+F   CI  W   + TCPLC+ PVE
Sbjct: 8  CPICLEDPSNYS--MALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 58.3 bits (140), Expect = 2e-12
 Identities = 14/50 (28%), Positives = 19/50 (38%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
           ++C    +     E       CNH+FH  CI  W  +   CPL     E 
Sbjct: 52  IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 101

>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 = 57.2 bits (137), Expect = 6e-12
 Identities = 14/50 (28%), Positives = 19/50 (38%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
           ++C    +     E       CNH+FH  CI  W  +   CPL     E 
Sbjct: 63  IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 112

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

 Score = 54.8 bits (132), Expect = 1e-11
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 1  MDCAVCLSEFEENESGRVLPG---CNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          + C +C+  + E      L     C H F   C+     + +TCP CR  +
Sbjct: 4  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 54.9 bits (132), Expect = 2e-11
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 1  MDCAVCLSEFEENESGRVLPG---CNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          + C +C+  + E      L     C H F   C+     + +TCP CR  +
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 54.8 bits (132), Expect = 2e-11
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 1  MDCAVCLSEFEENESGRVLPG---CNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          + C +C+  + E      L     C H F   C+     + +TCP CR  +
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 54.5 bits (130), Expect = 6e-10
 Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 15/65 (23%)

Query: 1   MDCAVCLSEFEENESGRVL----PGCNHSFHIGCIDMWFHS-----------HSTCPLCR 45
           + C +C +   +     ++      C    H  C++ WF +              CP C+
Sbjct: 309 LRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCK 368

Query: 46  TPVEL 50
             +  
Sbjct: 369 AKLST 373

>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 = 50.7 bits (121), Expect = 2e-09
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVEL 50
          C +C+ +  +    R+ P C+      CI  W     + CP CR P++L
Sbjct: 25 CFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL 70

>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 = 52.8 bits (126), Expect = 2e-09
 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 10/63 (15%)

Query: 2   DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVELVTAQPEDPVQ 60
            C +C    E ++  ++ P C H     C+  W  S    CP CR  +     +  +P+ 
Sbjct: 334 LCKICA---ENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI-----KGTEPIV 384

Query: 61  PDN 63
            D 
Sbjct: 385 VDP 387

>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 = 48.0 bits (114), Expect = 9e-09
 Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 5/48 (10%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTP 47
           C +C S       G+    C    H+ C+  +F S+    CP C   
Sbjct: 17 ICNICHSLLI---QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

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

 Score = 47.4 bits (113), Expect = 1e-08
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 3/49 (6%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          + C++C     +      +  C H+F   CI   F+  + CP C   V 
Sbjct: 16 ILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

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

 Score = 49.7 bits (118), Expect = 2e-08
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTP 47
             C +C S   +   G+    C    H+ C+  +F S+    CP C   
Sbjct: 181 KICNICHSLLIQ---GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 226

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

 Score = 46.4 bits (110), Expect = 4e-08
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 4/47 (8%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          C +C   F+      V+  C H F   C    F +   C +C  P  
Sbjct: 18 CFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPTG 60

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

 Score = 47.7 bits (113), Expect = 5e-08
 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 1   MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           + C +C   F E     V   C HSF   CI+ W      CP+CR  ++
Sbjct: 65  LQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109

>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 = 45.2 bits (107), Expect = 2e-07
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 3/48 (6%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          + C +C   F +      +  C HSF   CI  +  +   CP+C   V
Sbjct: 16 LMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

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

 Score = 43.3 bits (102), Expect = 6e-07
 Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 10/61 (16%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           +CA+CL          V   C H F   C+         C LCR  +      PED + 
Sbjct: 16 PECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGKRCALCRQEI------PEDFLD 65

Query: 61 P 61
           
Sbjct: 66 S 66

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

 Score = 42.8 bits (101), Expect = 1e-06
 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 3/47 (6%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          C +C   F       ++P C+H++   CI  +    + CP C   V 
Sbjct: 25 CGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68

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

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 3/50 (6%)

Query: 3  CAVCLSEFEENESGRVLP---GCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          C +C+  + E      L     C H F   C+     + +TCP CR  + 
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59

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

 Score = 37.8 bits (87), Expect = 2e-04
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 3/52 (5%)

Query: 1   MDCAVCLSEFEENESGR---VLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
           + C +C+  + E        V   C H F   C+     + +TCP CR  + 
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 124

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

 Score = 42.0 bits (99), Expect = 2e-06
 Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 3/51 (5%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS---TCPLCRTPVEL 50
          C +C+  F E +    L  C H+    C++    S      CP C     +
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI 68

>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 = 41.4 bits (96), Expect = 6e-06
 Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 19/66 (28%)

Query: 2  DCAVCLSEFEENESG--------------RVLPGCNHSFHIGCIDMWF-----HSHSTCP 42
          DC +C+ +                       L  C+H+FH+ C+   +          CP
Sbjct: 27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 43 LCRTPV 48
           C+T  
Sbjct: 87 SCKTIY 92

>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 = 6e-05
 Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 5/49 (10%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPV 48
            C  C           +   C H+    C+D  F     +CP CR  +
Sbjct: 53 FQCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 38.7 bits (90), Expect = 7e-05
 Identities = 16/63 (25%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCI-DMWFHSHSTCPLCRTPVELVTAQPEDPVQ 60
           C +C+    E      LP CNH+    C       +   CP CR  V   T        
Sbjct: 17 QCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNS 72

Query: 61 PDN 63
            N
Sbjct: 73 LVN 75

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

 Score = 36.6 bits (85), Expect = 1e-04
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 7/48 (14%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
          C  C +E +     ++LP C H+   GC++    S   CP+C+ P  L
Sbjct: 9  CQQCQAEAKCP---KLLP-CLHTLCSGCLE---ASGMQCPICQAPWPL 49

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

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 5/46 (10%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          C+ C +   E      L GC H F   C+       + CP+C TP 
Sbjct: 25 CSRCTNILREPVC---LGGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>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 = 35.5 bits (82), Expect = 5e-04
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF--HSHSTCPLCRTPV 48
          C +C     +     V+P C +S+   CI          TCP C    
Sbjct: 18 CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	129
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.62
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.61
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.61
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.6
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.6
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.58
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.55
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.53
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.5
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.5
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.49
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.49
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.49
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.47
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.47
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.46
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.44
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.43
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.43
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.42
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.41
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.4
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.4
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.4
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.38
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.38
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.38
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.38
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.37
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.37
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.37
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.36
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.36
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.33
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.32
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.31
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.3
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.3
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.3
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.28
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.27
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.24
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.23
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.22
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.21
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.2
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.19
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.18
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.15
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.12
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.11
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.08
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.07
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.04
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.01
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.99
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.91
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.9
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.89
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.86
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.8
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.74
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.73
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.7
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.69
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.64
3nw0_A	238	Non-structural maintenance of chromosomes element	98.61
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.3
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.17
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.52
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.52
1we9_A	64	PHD finger family protein; structural genomics, PH	94.65
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	92.77
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	92.74
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	92.62
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	92.58
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	91.43
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	91.33
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	90.55
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	90.53
1wem_A	76	Death associated transcription factor 1; structura	90.32
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	90.2
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.86
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	89.3
1wee_A	72	PHD finger family protein; structural genomics, PH	88.85
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	88.38
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	88.2
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	87.9
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	87.76
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	86.43
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	86.16
1wew_A	78	DNA-binding family protein; structural genomics, P	86.05
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	86.04
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	85.65
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	85.16
1z60_A	59	TFIIH basal transcription factor complex P44 subun	85.13
1weu_A	91	Inhibitor of growth family, member 4; structural g	84.69
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	82.77
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	81.99
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	81.02
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	80.78
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	80.55

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

Probab=99.62  E-value=3.4e-16  Score=97.45  Aligned_cols=51  Identities=41%  Similarity=0.984  Sum_probs=45.7

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT   52 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   52 (129)
                      .+|+||++.|..+..+..++ |+|.||..||..|++.+..||+||..+....
T Consensus        16 ~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             CCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            47999999999887778888 9999999999999999999999999886543

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

Probab=99.61  E-value=4.9e-16  Score=95.79  Aligned_cols=50  Identities=38%  Similarity=0.942  Sum_probs=45.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      .+|+||++.|..+..+..++ |+|.||..||..|++.+..||+||..+...
T Consensus        16 ~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           16 ELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            37999999999888888888 999999999999999888999999988653

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

Probab=99.61  E-value=3.2e-16  Score=91.31  Aligned_cols=49  Identities=59%  Similarity=1.296  Sum_probs=43.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      .+|+||++.|..++....++.|+|.||..||..|++.+.+||+||+.+.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4799999999987777788679999999999999999999999998763

>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=99.60  E-value=6.6e-16  Score=93.97  Aligned_cols=50  Identities=44%  Similarity=1.006  Sum_probs=44.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      .+|+||++.|..+..+..++ |+|.||..||..|+..+.+||+||..+...
T Consensus        15 ~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           15 EKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             CSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            36999999998777778888 999999999999999989999999988654

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

Probab=99.60  E-value=2.6e-16  Score=97.41  Aligned_cols=49  Identities=45%  Similarity=1.080  Sum_probs=44.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +|+||++.|..++.+..++ |+|.||..||..|++.+..||+||+.+...
T Consensus        25 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           25 LCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             EETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            6999999999888888899 999999999999999999999999987653

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

Probab=99.58  E-value=7.9e-16  Score=98.85  Aligned_cols=48  Identities=35%  Similarity=0.967  Sum_probs=44.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +|+||++.|..++.+..++ |+|.||..||..|+..+.+||+||..+..
T Consensus        42 ~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           42 CCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             EETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            6999999998887788899 99999999999999999999999998753

>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=99.55  E-value=4.2e-15  Score=98.62  Aligned_cols=52  Identities=29%  Similarity=0.738  Sum_probs=41.3

Q ss_pred             ccccccccccCCC---------------cceEeCCCCChhhHHhHHHHH-----hCCCCCCccCccccccCCC
Q 033041            2 DCAVCLSEFEENE---------------SGRVLPGCNHSFHIGCIDMWF-----HSHSTCPLCRTPVELVTAQ   54 (129)
Q Consensus         2 ~C~IC~~~~~~~~---------------~~~~lp~C~H~Fh~~Ci~~wl-----~~~~~CP~Cr~~~~~~~~~   54 (129)
                      +|+||++.|..+.               .+.+++ |+|.||..||..|+     ..+.+||+||..+......
T Consensus        27 ~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~   98 (114)
T 1v87_A           27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGT   98 (114)
T ss_dssp             EETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSS
T ss_pred             cCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCC
Confidence            6999999996643               222566 99999999999999     4567999999988765443

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

Probab=99.53  E-value=1.9e-15  Score=95.21  Aligned_cols=50  Identities=32%  Similarity=0.824  Sum_probs=40.8

Q ss_pred             ccccccccccC-----------CCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEE-----------NESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~-----------~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +|+||++.|..           .+.+..++.|+|.||..||..||..+.+||+||+++...
T Consensus        17 ~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           17 TCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            58888888854           334556656999999999999999999999999987643

>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=99.50  E-value=9.7e-15  Score=84.84  Aligned_cols=48  Identities=31%  Similarity=0.832  Sum_probs=40.6

Q ss_pred             CccccccccccCCC-cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      .+|+||++.|.... ....++ |+|.||..||..|+.....||+||..+.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            6 SGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            36999999986543 456666 9999999999999998899999998763

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

Probab=99.50  E-value=7.2e-15  Score=89.55  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=42.0

Q ss_pred             CccccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.|..+    .....++ |||.||..||..|+..+..||+||..+...
T Consensus        11 ~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A           11 VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             CBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            4799999998764    3345666 999999999999999999999999988643

>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=99.49  E-value=1.7e-14  Score=95.40  Aligned_cols=49  Identities=31%  Similarity=0.706  Sum_probs=41.1

Q ss_pred             ccccccccccCCC---------------cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENE---------------SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~---------------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +|+||++.|..+.               .+..++ |+|.||..||..||..+.+||+||++|...
T Consensus        39 ~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~~  102 (106)
T 3dpl_R           39 NCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ  102 (106)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcceee
Confidence            6999999987541               245566 999999999999999999999999987543

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

Probab=99.49  E-value=7.3e-15  Score=88.87  Aligned_cols=48  Identities=25%  Similarity=0.675  Sum_probs=40.7

Q ss_pred             CccccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      ++|+||++.|..+    ..+..++ |||.||..||..|+..+..||+||..+.
T Consensus        16 ~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           16 VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            4799999998764    2335667 9999999999999998899999998875

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

Probab=99.49  E-value=2.3e-14  Score=87.96  Aligned_cols=47  Identities=26%  Similarity=0.619  Sum_probs=41.0

Q ss_pred             CccccccccccCCCcceEe-CCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +.|+||++.|..+   ..+ + |||.||..||..|+..+..||+||..+...
T Consensus        16 ~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           16 ILCSICKGYLIDA---TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             GSCTTTSSCCSSC---EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             CCCCCCChHHHCc---CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            4799999999876   555 6 999999999999998889999999988654

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

Probab=99.47  E-value=1.4e-14  Score=88.66  Aligned_cols=47  Identities=30%  Similarity=0.606  Sum_probs=41.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.+..+   ..++ |||.||..||..|+..+..||+||..+...
T Consensus        16 ~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           16 PECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             CBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            4799999998776   6777 999999999999999889999999988643

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

Probab=99.47  E-value=1.3e-14  Score=86.48  Aligned_cols=49  Identities=24%  Similarity=0.649  Sum_probs=41.7

Q ss_pred             CccccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.+..+    .....++ |||.||..||..|+..+..||+||..+..
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            4 VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   56 (64)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTT
T ss_pred             CCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCc
Confidence            4799999998754    3345677 99999999999999988999999998764

>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=2.2e-14  Score=98.47  Aligned_cols=46  Identities=35%  Similarity=0.889  Sum_probs=41.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   +.++ |||.||..||..|+..+..||+||.++..
T Consensus        54 ~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           54 LQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             SBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             CCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            4799999999776   6788 99999999999999999999999998753

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

Probab=99.44  E-value=9.7e-14  Score=86.19  Aligned_cols=48  Identities=23%  Similarity=0.584  Sum_probs=40.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC--CCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~   52 (129)
                      +|+||++.|..+.   ..+.|+|.||..||.+||+.+  .+||+|+..|....
T Consensus        17 ~C~IC~~~i~~g~---~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           17 ICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             BCSSSCCBCSSSE---ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             cCcchhhHcccCC---ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            7999999998663   333599999999999999887  79999999987543

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

Probab=99.43  E-value=3.3e-14  Score=86.60  Aligned_cols=46  Identities=37%  Similarity=0.973  Sum_probs=40.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.+..    ..++ |||.||..||..|+..+..||+||..+...
T Consensus        16 ~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           16 EECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            479999999866    6778 999999999999999899999999987643

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

Probab=99.43  E-value=5.2e-14  Score=88.12  Aligned_cols=45  Identities=27%  Similarity=0.684  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      ++|+||++.|..+   .+++ |||.||..||..|+.....||+||..+.
T Consensus        16 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           16 FRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             SBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4799999999776   5677 9999999999999998889999999874

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

Probab=99.42  E-value=8.9e-14  Score=85.83  Aligned_cols=46  Identities=26%  Similarity=0.618  Sum_probs=39.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC--CCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~   49 (129)
                      +.|+||++.|..+   ..++.|||.||..||..|+..+  ..||+||..+.
T Consensus        16 ~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           16 LLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             GSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            4799999999877   5666699999999999999764  68999998654

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

Probab=99.41  E-value=1e-13  Score=84.83  Aligned_cols=46  Identities=30%  Similarity=0.751  Sum_probs=39.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh---CCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH---SHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~---~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+.   ....||+||..+..
T Consensus        21 ~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           21 VICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             CEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            4799999998865   6667 999999999999997   35589999998754

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

Probab=99.41  E-value=1e-13  Score=83.56  Aligned_cols=46  Identities=20%  Similarity=0.536  Sum_probs=39.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.+..+   ..++ |||.||..||..|+. ....||+||..+..
T Consensus        16 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           16 YKCEKCHLVLCSP---KQTE-CGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             EECTTTCCEESSC---CCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CCCCCCChHhcCe---eECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            3699999999877   4467 999999999999994 56789999998764

>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=99.40  E-value=7.9e-14  Score=90.87  Aligned_cols=46  Identities=28%  Similarity=0.930  Sum_probs=40.0

Q ss_pred             CccccccccccCCCcceE-eCCCCChhhHHhHHHHHhCC-CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRV-LPGCNHSFHIGCIDMWFHSH-STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~-lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   .. ++ |||.||..||..|+... ..||+||.++..
T Consensus        23 ~~C~IC~~~~~~p---~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           23 FRCFICMEKLRDA---RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             TBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCccCCccccCc---cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            5799999999876   55 66 99999999999999877 699999998854

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

Probab=99.40  E-value=1.4e-13  Score=86.98  Aligned_cols=49  Identities=24%  Similarity=0.800  Sum_probs=41.3

Q ss_pred             CccccccccccCCCc-ceEeCCCCChhhHHhHHHHHhCC---CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENES-GRVLPGCNHSFHIGCIDMWFHSH---STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|...+. ...++ |||.||..||..|+..+   ..||+||..+..
T Consensus        16 ~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           16 LECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            479999999987543 46677 99999999999999865   689999998754

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

Probab=99.40  E-value=1.4e-13  Score=85.40  Aligned_cols=46  Identities=17%  Similarity=0.561  Sum_probs=40.7

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+.. +..||+||..+..
T Consensus         9 ~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            9 FRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            5799999999877   6677 9999999999999987 7799999998754

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

Probab=99.38  E-value=2.1e-13  Score=88.39  Aligned_cols=46  Identities=24%  Similarity=0.735  Sum_probs=40.5

Q ss_pred             CccccccccccCCCcceEe-CCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..+ + |||.||..||..|+..+..||+||..+..
T Consensus        23 ~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           23 LRCGICFEYFNIA---MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             TBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCcccCChhhCCc---CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            4799999999875   555 6 99999999999999988999999998764

>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=99.38  E-value=3.6e-14  Score=95.37  Aligned_cols=49  Identities=31%  Similarity=0.706  Sum_probs=0.0

Q ss_pred             ccccccccccCCC---------------cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENE---------------SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~---------------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      .|+||++.|..+.               .+..++ |+|.||..||..||..+.+||+||.+|...
T Consensus        50 ~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           50 NCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             cCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            6999999997531               122245 999999999999999999999999987643

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

Probab=99.38  E-value=3.8e-13  Score=81.26  Aligned_cols=47  Identities=40%  Similarity=0.980  Sum_probs=40.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      .+|+||++.+..+  ...++ |||.||..||..|+..+..||+||..+..
T Consensus         6 ~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            6 ERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            3699999998653  35667 99999999999999988999999998764

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

Probab=99.38  E-value=2.1e-13  Score=85.86  Aligned_cols=49  Identities=29%  Similarity=0.746  Sum_probs=40.6

Q ss_pred             ccccccccccCCCcceEeCCCC-----ChhhHHhHHHHHhCC--CCCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCN-----HSFHIGCIDMWFHSH--STCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~   52 (129)
                      +|.||++++...+.+ ++| |+     |.||..||.+||..+  .+||+||..|....
T Consensus        17 ~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           17 ICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            699999998766554 678 86     999999999999764  48999999886543

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

Probab=99.37  E-value=2.9e-13  Score=84.65  Aligned_cols=46  Identities=37%  Similarity=0.917  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC------CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS------HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+..      ...||+||..+..
T Consensus        20 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           20 VTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             CCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            4799999999877   5777 9999999999999976      6689999998764

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

Probab=99.37  E-value=3.9e-13  Score=84.04  Aligned_cols=46  Identities=30%  Similarity=0.772  Sum_probs=40.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC------CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS------HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+..      ...||+||..+..
T Consensus        20 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           20 VTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            4799999999876   5667 9999999999999976      6789999998865

>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=1.2e-13  Score=85.67  Aligned_cols=46  Identities=30%  Similarity=0.733  Sum_probs=39.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-------CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-------HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+..       ...||+||..+..
T Consensus        13 ~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           13 VTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             CCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            4799999999876   5577 9999999999999976       5689999998864

>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=3.2e-13  Score=88.89  Aligned_cols=46  Identities=28%  Similarity=0.707  Sum_probs=40.7

Q ss_pred             CccccccccccCCCcceEe-CCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   ..+ + |||.||..||..|+..+..||+||..+..
T Consensus        16 ~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           16 LMCVLCGGYFIDA---TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             TBCTTTSSBCSSE---EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CCCccCChHHhCc---CEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            5799999999775   555 6 99999999999999998999999998754

>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=99.36  E-value=4.6e-13  Score=90.12  Aligned_cols=46  Identities=24%  Similarity=0.577  Sum_probs=39.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC-CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH-STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+..+ ..||+||..+..
T Consensus        53 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           53 FQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             TBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4799999999876   6677 99999999999999854 489999998854

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

Probab=99.35  E-value=5.2e-13  Score=79.67  Aligned_cols=40  Identities=30%  Similarity=0.803  Sum_probs=35.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh---CCCCCCcc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH---SHSTCPLC   44 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~---~~~~CP~C   44 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|++   ....||+|
T Consensus        21 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           21 VICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4799999999876   6677 999999999999997   45689998

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

Probab=99.33  E-value=4.5e-13  Score=90.15  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=42.5

Q ss_pred             CccccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.|..+    .....++ |||.||..||..|++.+..||+||..+...
T Consensus         8 ~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            8 VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            5799999999764    3446677 999999999999999999999999988543

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

Probab=99.32  E-value=6.8e-13  Score=84.71  Aligned_cols=46  Identities=26%  Similarity=0.622  Sum_probs=38.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      +.|+||++.|..+   ..++.|||.||..||..|+..  ...||+||..+.
T Consensus        14 ~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           14 LLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            5799999999887   566559999999999999964  358999998863

>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=99.31  E-value=1.4e-12  Score=85.87  Aligned_cols=46  Identities=28%  Similarity=0.737  Sum_probs=39.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+...   ..||+||..+..
T Consensus        22 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            4799999999776   5567 99999999999999865   389999998764

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

Probab=99.30  E-value=1e-12  Score=76.81  Aligned_cols=40  Identities=35%  Similarity=1.023  Sum_probs=34.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHh---CCCCCCcc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH---SHSTCPLC   44 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~---~~~~CP~C   44 (129)
                      +.|+||++.+..+   ..++ |||.||..||..|+.   ....||+|
T Consensus        16 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           16 ASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             CCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4799999999877   5577 999999999999954   46689998

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

Probab=99.30  E-value=1.9e-12  Score=77.72  Aligned_cols=49  Identities=27%  Similarity=0.687  Sum_probs=39.3

Q ss_pred             Cccccccc-cccCCCcce-EeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLS-EFEENESGR-VLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~-~~~~~~~~~-~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      ++|+||++ .+..+.... .++ |||.||..||..|+.. ...||+||..+..
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            4 QGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            47999999 787765433 456 9999999999999765 4679999998754

>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=99.30  E-value=9e-13  Score=92.72  Aligned_cols=45  Identities=29%  Similarity=0.675  Sum_probs=39.3

Q ss_pred             ccccccccccCCCcceEe-CCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      .|+||++.|..+   ..+ + |||.||..||..|+.. +..||+||..+..
T Consensus        56 ~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           56 MCPICLDMLKNT---MTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             BCTTTSSBCSSE---EEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCcccChHhhCc---CEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            799999999875   555 6 9999999999999987 7789999998753

>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=99.28  E-value=1.6e-12  Score=90.67  Aligned_cols=47  Identities=21%  Similarity=0.532  Sum_probs=40.7

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC-CCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~   51 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+.... .||+||..+...
T Consensus        79 ~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           79 FMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             TBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            4799999999877   6677 999999999999998754 899999988653

>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=99.27  E-value=5.9e-13  Score=88.42  Aligned_cols=46  Identities=30%  Similarity=0.747  Sum_probs=40.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+.. ...||+||..+..
T Consensus        16 ~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           16 CQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            3799999999877   6777 9999999999999976 6689999998764

>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=99.24  E-value=3.4e-12  Score=84.85  Aligned_cols=47  Identities=28%  Similarity=0.562  Sum_probs=40.7

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+.. ...||+||..+...
T Consensus        24 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           24 ISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             TBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            4799999999776   5677 9999999999999986 67999999987653

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

Probab=99.23  E-value=3.9e-12  Score=80.70  Aligned_cols=46  Identities=13%  Similarity=0.075  Sum_probs=41.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.++   ++++ |||.|+..||..|+..+.+||+|+.++..
T Consensus        15 ~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           15 FRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             eECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            5799999999998   7788 99999999999999988899999988754

>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=99.22  E-value=2.6e-12  Score=85.80  Aligned_cols=46  Identities=26%  Similarity=0.595  Sum_probs=40.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC-CCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+.... .||+||..+..
T Consensus        19 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           19 YECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            4799999999876   6677 999999999999998754 99999998765

>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=99.21  E-value=6.1e-12  Score=82.16  Aligned_cols=46  Identities=13%  Similarity=0.087  Sum_probs=42.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.+|   ++++ |||.|+..||..|+..+.+||+|+.++..
T Consensus        30 ~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           30 FRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             hCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            5799999999998   7888 99999999999999988899999988753

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

Probab=99.20  E-value=3.8e-12  Score=85.55  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=41.4

Q ss_pred             CccccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.|..+    .....++ |||.||..||..|++.+++||+||..+...
T Consensus        73 ~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           73 VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            4799999998653    2335666 999999999999999999999999988653

>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=99.19  E-value=1e-11  Score=80.86  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=41.7

Q ss_pred             CccccccccccCCCcceEeCCCC-ChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCN-HSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.++   ++++ || |.|+..||..||..+.+||+|+.++..
T Consensus        23 ~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           23 FLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            5799999999998   7788 99 999999999999988899999988753

>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=99.18  E-value=5.3e-12  Score=84.18  Aligned_cols=43  Identities=30%  Similarity=0.740  Sum_probs=38.1

Q ss_pred             CccccccccccCCCcceEe-CCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      +.|+||++.|..+   ..+ + |||.||..||..|+.  ..||+||..+.
T Consensus        23 ~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           23 LRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             TSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             CCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            5799999999877   566 6 999999999999987  78999999874

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

Probab=99.15  E-value=5.4e-11  Score=74.37  Aligned_cols=51  Identities=20%  Similarity=0.474  Sum_probs=38.9

Q ss_pred             CccccccccccCCCcce-EeCCCCChhhHHhHHHHHhC-CCCCCccCccccccC
Q 033041            1 MDCAVCLSEFEENESGR-VLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVT   52 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~-~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   52 (129)
                      ++|+||++.+...+... -++ |||.||..|+..|+.. ...||+||.++....
T Consensus        12 ~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A           12 VECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             CcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            47999999886433222 234 9999999999998754 568999999887543

>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=99.12  E-value=8.5e-12  Score=86.11  Aligned_cols=45  Identities=18%  Similarity=0.406  Sum_probs=39.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC-CCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~   49 (129)
                      +.|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++.
T Consensus        32 ~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           32 YLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4799999999887   5667 999999999999998654 8999998764

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

Probab=99.11  E-value=1.3e-11  Score=72.31  Aligned_cols=43  Identities=33%  Similarity=0.881  Sum_probs=36.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   +.++ |||.||..||..|   ...||+||..+..
T Consensus         7 ~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T 1bor_A            7 LRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             SSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeec
Confidence            5799999999887   6788 9999999999774   5689999998764

>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=99.09  E-value=3.6e-11  Score=72.31  Aligned_cols=45  Identities=20%  Similarity=0.634  Sum_probs=38.4

Q ss_pred             ccccccccccCCCcceEe--CCCCCh-hhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVL--PGCNHS-FHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~l--p~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +|.||++.+.+.   ..+  | |||. ||..|+..|+..+..||+||.++..
T Consensus        10 ~C~IC~~~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A           10 PCVICQGRPKNG---CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             CCTTTSSSCSCE---EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCCcCCCCCCCE---EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            699999987554   554  8 9999 8999999999988899999998753

>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=5e-11  Score=94.23  Aligned_cols=46  Identities=24%  Similarity=0.756  Sum_probs=40.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~   51 (129)
                      +|+||++.+..+   ..++ |||.||..|+..|+. ....||+||..+...
T Consensus       334 ~C~ICle~~~~p---v~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          334 LCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             BCTTTSSSBCCE---EEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCccCcCCCCe---EEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            799999998665   7788 999999999999998 678999999988653

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

Probab=99.07  E-value=3.4e-11  Score=74.28  Aligned_cols=42  Identities=24%  Similarity=0.636  Sum_probs=36.5

Q ss_pred             CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.+..+   ..+| |||. ||..|+..|    ..||+||..+..
T Consensus        25 ~~C~iC~~~~~~~---~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           25 KLCKICMDRNIAI---VFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             TBCTTTSSSBCCE---EEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCE---EEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            4799999998765   7778 9999 999999998    789999998754

>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=99.04  E-value=7.2e-11  Score=70.75  Aligned_cols=45  Identities=18%  Similarity=0.592  Sum_probs=38.0

Q ss_pred             ccccccccccCCCcceEe--CCCCCh-hhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVL--PGCNHS-FHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~l--p~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +|.||++.+.+.   .++  | |||. ||..|+..|...+..||+||.++..
T Consensus         9 ~C~IC~~~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            9 PCSLCEKRPRDG---NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             BCTTTSSSBSCE---EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CCcccCCcCCCe---EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            699999986554   444  8 9998 9999999999888899999998753

>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=99.02  E-value=9.3e-11  Score=75.48  Aligned_cols=44  Identities=20%  Similarity=0.481  Sum_probs=37.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC------CCCCc--cCcc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH------STCPL--CRTP   47 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~------~~CP~--Cr~~   47 (129)
                      +.|+||++.|.+|   ++++.|||.|+..||..||..+      .+||+  |+..
T Consensus         8 ~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            8 FTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             eECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            5799999999987   6664599999999999999753      48999  9865

>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=99.01  E-value=1.1e-10  Score=87.25  Aligned_cols=46  Identities=13%  Similarity=0.251  Sum_probs=40.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.+|   ++++ |||+||..||..|+.. ..+||+|+.++..
T Consensus       209 ~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          209 LCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             TBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            5799999999988   7788 9999999999999976 4469999988754

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

Probab=98.99  E-value=1e-10  Score=82.36  Aligned_cols=46  Identities=26%  Similarity=0.591  Sum_probs=39.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC-CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH-STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|..+   +.++ |||.||..||..|+... ..||+||..+..
T Consensus        19 ~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           19 YECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             GBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            4799999999887   6677 99999999999999764 499999988765

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

Probab=98.91  E-value=1.6e-10  Score=89.91  Aligned_cols=49  Identities=20%  Similarity=0.624  Sum_probs=37.1

Q ss_pred             ccccccccccCCCcc----eEeCCCCChhhHHhHHHHHhCC-----------CCCCccCccccc
Q 033041            2 DCAVCLSEFEENESG----RVLPGCNHSFHIGCIDMWFHSH-----------STCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~----~~lp~C~H~Fh~~Ci~~wl~~~-----------~~CP~Cr~~~~~   50 (129)
                      +|+||++.+.....+    ...+.|+|.||..||.+||++.           ..||+||.++..
T Consensus       310 ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          310 RCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            799999998762221    1223599999999999999652           369999998753

>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=5.3e-10  Score=68.90  Aligned_cols=41  Identities=24%  Similarity=0.668  Sum_probs=34.5

Q ss_pred             ccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +|+||++.+..+   ..+| |||. ||..|+..    ...||+||.++..
T Consensus        27 ~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           27 LCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             SCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            699999998665   6678 9999 99999965    3689999998754

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

Probab=98.89  E-value=5.4e-10  Score=80.00  Aligned_cols=46  Identities=13%  Similarity=0.241  Sum_probs=40.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.+|   ++++ |||+|+..||..|+.. +.+||+|+.++..
T Consensus       107 f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          107 LCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             GBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             hcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            4799999999988   7778 9999999999999976 3479999988754

>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=98.86  E-value=6.8e-10  Score=71.15  Aligned_cols=46  Identities=22%  Similarity=0.624  Sum_probs=36.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--------CCCCCc--cCcc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPL--CRTP   47 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~--Cr~~   47 (129)
                      ++|+||++.+..+..+.+.+ |||.||..|+..|+..        ...||.  |+..
T Consensus         6 ~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            6 SGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             cCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            57999999987764444456 9999999999999853        237999  9987

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

Probab=98.80  E-value=1.1e-09  Score=68.34  Aligned_cols=43  Identities=37%  Similarity=0.784  Sum_probs=36.0

Q ss_pred             CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ..|.||++.+...   ..+| |||. ||..|+..|    ..||+||..+...
T Consensus        19 ~~C~IC~~~~~~~---v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           19 MLCMVCCEEEINS---TFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             TBCTTTSSSBCCE---EEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CEeEEeCcccCcE---EEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            3699999987665   7788 9999 999999876    3899999988653

>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=98.74  E-value=3.3e-09  Score=79.84  Aligned_cols=47  Identities=23%  Similarity=0.601  Sum_probs=38.8

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC--CCCCc--cCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH--STCPL--CRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~--Cr~~~~~   50 (129)
                      +.|+||++.|..|   +....|||.|+..||..|+..+  ..||+  |+..+..
T Consensus       182 l~CPIcl~~f~DP---Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          182 LTCPITCKPYEAP---LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             SBCTTTSSBCSSE---EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eECcCccCcccCC---eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            5799999999887   4442399999999999999764  47999  9987653

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

Probab=98.73  E-value=5.4e-09  Score=63.44  Aligned_cols=43  Identities=35%  Similarity=0.824  Sum_probs=35.3

Q ss_pred             CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ..|.||++.+...   ..+| |||. ||..|+..    ...||+||..+...
T Consensus        16 ~~C~IC~~~~~~~---v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           16 KDCVVCQNGTVNW---VLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCSSSSSSCCCC---EETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCcCcCCCCE---EEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3699999987654   7788 9999 99999984    46899999988643

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

Probab=98.70  E-value=7.2e-09  Score=61.52  Aligned_cols=45  Identities=24%  Similarity=0.755  Sum_probs=34.5

Q ss_pred             ccccccccccCCCcceEeC-CCCC---hhhHHhHHHHHhC--CCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGRVLP-GCNH---SFHIGCIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      .|.||++....  . .++| +|.|   .||..||.+|+..  +.+||+|+..+.
T Consensus         8 ~CrIC~~~~~~--~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            8 VCWICNEELGN--E-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             EETTTTEECSC--C-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             EeEEeecCCCC--c-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            69999997433  2 3567 2444   9999999999964  678999998875

>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=98.69  E-value=5.7e-09  Score=62.14  Aligned_cols=47  Identities=13%  Similarity=0.248  Sum_probs=41.2

Q ss_pred             CccccccccccCCCcceEe-CCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVL-PGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~l-p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +.|+|+++.|.++   .+. + +||.|...||.+|+..+.+||+.+.++...
T Consensus         4 ~~CpIs~~~m~dP---V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             EEecCCCCCCCCC---EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            4699999999887   666 5 999999999999998888899999888653

>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=98.64  E-value=5e-09  Score=81.80  Aligned_cols=42  Identities=26%  Similarity=0.663  Sum_probs=36.6

Q ss_pred             CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.+..+   ..+| |||. ||..|+..|    ..||+||..+..
T Consensus       296 ~~C~IC~~~~~~~---v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          296 RTCKVCMDKEVSV---VFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             CBCTTTSSSBCCE---EEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCccCCcCCce---EEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            4799999998766   7778 9999 999999987    689999998754

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

Probab=98.61  E-value=4.2e-08  Score=72.98  Aligned_cols=48  Identities=23%  Similarity=0.587  Sum_probs=40.6

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC--CCCccCccccccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS--TCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~--~CP~Cr~~~~~~~   52 (129)
                      +|.||.+.+..+   ...++|+|.||..|+..|++.+.  .||.|+..|....
T Consensus       182 ~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          182 ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             BCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             cCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            699999998876   56666999999999999997654  8999999886553

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

Probab=98.30  E-value=4.7e-07  Score=58.64  Aligned_cols=47  Identities=30%  Similarity=0.701  Sum_probs=37.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      .|.+|--.+..  ..+++| |+|.||..|+..|.+. .+.||.|+.++...
T Consensus         3 fC~~C~~Pi~i--ygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSE--EEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEE--Eeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            47777665532  457889 9999999999999854 68999999988643

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

Probab=95.52  E-value=0.009  Score=35.56  Aligned_cols=42  Identities=24%  Similarity=0.346  Sum_probs=30.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .|.||.+.    ..+.....|...||..|+...|..    ...||.|...
T Consensus        14 ~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           14 RCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            58899753    234555569999999999887754    3479999754

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

Probab=95.52  E-value=0.0053  Score=38.90  Aligned_cols=33  Identities=15%  Similarity=0.420  Sum_probs=23.0

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHH
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW   34 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w   34 (129)
                      +.|.||.+.+..+....-+. |+|.||..|+..+
T Consensus         4 ~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            4 VLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            47999997643221112255 9999999999983

>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=94.65  E-value=0.0049  Score=36.15  Aligned_cols=45  Identities=22%  Similarity=0.509  Sum_probs=31.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHh-----CCCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-----SHSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-----~~~~CP~Cr~   46 (129)
                      .|+||...+......+....|..+||..|+.--..     ....||.|+.
T Consensus         8 ~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            58899887754444444446999999999853221     3568999965

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=92.77  E-value=0.03  Score=39.79  Aligned_cols=46  Identities=17%  Similarity=0.436  Sum_probs=33.3

Q ss_pred             ccccccccccCCCc---ceEeCCCCChhhHHhHHH------HHh-----CCCCCCccCcc
Q 033041            2 DCAVCLSEFEENES---GRVLPGCNHSFHIGCIDM------WFH-----SHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~---~~~lp~C~H~Fh~~Ci~~------wl~-----~~~~CP~Cr~~   47 (129)
                      .|+||...+..++.   .+....|..+||..|+.-      -+.     ....||.|+..
T Consensus         4 ~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            4 FCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             BCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             cCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            69999998877652   455556999999999742      111     15799999764

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=92.74  E-value=0.055  Score=32.97  Aligned_cols=46  Identities=22%  Similarity=0.412  Sum_probs=29.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH-----hCCCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-----HSHSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-----~~~~~CP~Cr~~~   48 (129)
                      .| ||...+......+....|..+||..|+.--.     .....||.|+...
T Consensus        14 ~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           14 YC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             EE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            35 7877664333444444699999999985221     1356899997643

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=92.62  E-value=0.094  Score=29.35  Aligned_cols=43  Identities=19%  Similarity=0.393  Sum_probs=28.2

Q ss_pred             cccccccccCCCcceEeC-CCCChhhHHhHHHH----HhCCCCCCccC
Q 033041            3 CAVCLSEFEENESGRVLP-GCNHSFHIGCIDMW----FHSHSTCPLCR   45 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~w----l~~~~~CP~Cr   45 (129)
                      |.||...+......+... .|..+||..|+.--    ......||.|+
T Consensus         5 cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            5 AQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             CTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             CCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            568888775444444444 48889999997521    13567899885

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=92.58  E-value=0.037  Score=33.29  Aligned_cols=47  Identities=17%  Similarity=0.417  Sum_probs=31.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHh----CCCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH----SHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~----~~~~CP~Cr~~~~   49 (129)
                      .|.||..... ++..+....|.-+||..|+..-+.    ....||.|...+.
T Consensus        20 ~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           20 ICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            4889977643 333444456999999999975443    2457999976553

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=91.43  E-value=0.43  Score=29.96  Aligned_cols=50  Identities=16%  Similarity=0.319  Sum_probs=34.6

Q ss_pred             ccccccccccCCC---cceEeCCCCChhhHHhHHHHH-hCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~~~   51 (129)
                      .|.||-+.+....   ..+..-.|+--.|..|+.--. ..+..||.|++.+...
T Consensus        18 iCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr~   71 (93)
T 1weo_A           18 FCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRL   71 (93)
T ss_dssp             BCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCC
T ss_pred             ccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccccc
Confidence            5999999864322   222222478789999987544 4477899999998644

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=91.33  E-value=0.13  Score=30.33  Aligned_cols=31  Identities=23%  Similarity=0.668  Sum_probs=24.5

Q ss_pred             ccccccccccCCCcceEeC-CCCChhhHHhHH
Q 033041            2 DCAVCLSEFEENESGRVLP-GCNHSFHIGCID   32 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~   32 (129)
                      .|++|...+......+... .|.-+||..|+.
T Consensus        10 ~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A           10 PCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             BCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             cCccCCCccCCCCCeEecccCccccCchhccC
Confidence            4899999887665556655 699999999984

>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=90.55  E-value=0.17  Score=31.49  Aligned_cols=13  Identities=38%  Similarity=0.991  Sum_probs=12.2

Q ss_pred             CCChhhHHhHHHH
Q 033041           22 CNHSFHIGCIDMW   34 (129)
Q Consensus        22 C~H~Fh~~Ci~~w   34 (129)
                      |+-+||..|+.+.
T Consensus        35 C~RvfH~~CL~r~   47 (89)
T 1wil_A           35 CTRVFHDGCLRRM   47 (89)
T ss_dssp             SSSCCCHHHHHHH
T ss_pred             ccccccHhhcccc
Confidence            8999999999986

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

Probab=90.53  E-value=0.11  Score=30.04  Aligned_cols=41  Identities=24%  Similarity=0.622  Sum_probs=28.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   46 (129)
                      .|.||...    ..+.....|...||..|+..-+..    ...||.|..
T Consensus        13 ~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A           13 YCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            47788763    234444468899999999875432    347999965

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=90.32  E-value=0.072  Score=32.11  Aligned_cols=45  Identities=20%  Similarity=0.446  Sum_probs=28.7

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHH---------HhCCCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW---------FHSHSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w---------l~~~~~CP~Cr~~~   48 (129)
                      .| ||...... ...+....|..+||..|+.--         ......||.|+...
T Consensus        18 ~C-~C~~~~~~-~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           18 YC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             EE-ECCCccCC-CCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            35 78776542 233333459999999998421         12467899997543

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=90.20  E-value=0.087  Score=34.17  Aligned_cols=45  Identities=22%  Similarity=0.591  Sum_probs=30.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   46 (129)
                      .|.||...-...+.+.....|...||..|+.+-|..    ...||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            477787643333344555569999999999765543    347999974

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

Probab=89.86  E-value=0.14  Score=28.33  Aligned_cols=44  Identities=27%  Similarity=0.636  Sum_probs=29.7

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   46 (129)
                      .|.||...-. .+.+.....|...||..|+..=+..    ...||.|..
T Consensus         2 ~C~vC~~~~~-~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCC-CCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            5889987532 2344555569999999999754433    346999964

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=89.30  E-value=0.15  Score=32.83  Aligned_cols=46  Identities=26%  Similarity=0.627  Sum_probs=32.1

Q ss_pred             ccccccccccCCCcceEeC-CCCChhhHHhHHHH------H----hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLP-GCNHSFHIGCIDMW------F----HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~w------l----~~~~~CP~Cr~~   47 (129)
                      .|+||...+......+..- .|..+||..|+.--      +    .....||.|+..
T Consensus         5 ~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~   61 (105)
T 2xb1_A            5 PCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKT   61 (105)
T ss_dssp             BCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHT
T ss_pred             CCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCc
Confidence            5999999876554445553 58999999998421      1    034589999764

>1wee_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=88.85  E-value=0.036  Score=33.23  Aligned_cols=45  Identities=27%  Similarity=0.445  Sum_probs=28.7

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH----hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF----HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl----~~~~~CP~Cr~~   47 (129)
                      .| ||......+...+....|..+||..|+.--.    .....||.|+..
T Consensus        18 ~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~~   66 (72)
T 1wee_A           18 DC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             CC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             Ee-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccCC
Confidence            36 6776654443344444699999999985432    235679999754

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=88.38  E-value=0.089  Score=32.79  Aligned_cols=48  Identities=17%  Similarity=0.337  Sum_probs=32.8

Q ss_pred             ccccccccccC-CCcceEeCCCCChhhHHhHHHHHh--------CCCCCCccCcccc
Q 033041            2 DCAVCLSEFEE-NESGRVLPGCNHSFHIGCIDMWFH--------SHSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~-~~~~~~lp~C~H~Fh~~Ci~~wl~--------~~~~CP~Cr~~~~   49 (129)
                      .|.||...-.. ...+.....|...||..|+..-|.        ....|+.|.....
T Consensus        18 ~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~   74 (88)
T 1wev_A           18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhh
Confidence            58999876332 234455556999999999986543        2457999976543

>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=88.20  E-value=0.28  Score=42.82  Aligned_cols=46  Identities=22%  Similarity=0.330  Sum_probs=39.9

Q ss_pred             CccccccccccCCCcceEeCCCC-ChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCN-HSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +.|||-++.|.+|   +++| -| +.|-...|..|+..+.+||+=|.++..
T Consensus       892 F~cPIs~~lM~DP---Vilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~  938 (968)
T 3m62_A          892 FLDPLMYTIMKDP---VILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKL  938 (968)
T ss_dssp             GBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             hCCcchhhHHhCC---eEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCc
Confidence            3599999999988   7888 76 689999999999999999998887754

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=87.90  E-value=0.2  Score=34.61  Aligned_cols=45  Identities=20%  Similarity=0.516  Sum_probs=30.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH-----hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-----HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-----~~~~~CP~Cr~~   47 (129)
                      .| ||..........+....|..+||..|+.--.     .....||.|+..
T Consensus        10 ~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~   59 (174)
T 2ri7_A           10 YC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST   59 (174)
T ss_dssp             ET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHH
T ss_pred             Ee-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcch
Confidence            47 8887754443444555699999999985211     235689999764

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=87.76  E-value=0.089  Score=33.44  Aligned_cols=43  Identities=19%  Similarity=0.430  Sum_probs=28.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~   46 (129)
                      .| ||......+ ..+....|.-+||..|+..-+..   ...||.|+.
T Consensus        30 rC-iC~~~~~~~-~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           30 RC-ICGFTHDDG-YMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CC-TTSCCSCSS-CEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             Ee-ECCCccCCC-cEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            46 776654433 34444569999999998653322   458999963

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}

Probab=86.43  E-value=0.1  Score=31.02  Aligned_cols=43  Identities=21%  Similarity=0.547  Sum_probs=26.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH---hCCCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF---HSHSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl---~~~~~CP~Cr~   46 (129)
                      .| ||..... +...+....|..+||..|+.--.   .....||.|+.
T Consensus        21 ~C-iC~~~~~-~~~MIqCd~C~~WfH~~Cvgi~~~~~~~~~~C~~C~~   66 (68)
T 3o70_A           21 TC-FCMKPFA-GRPMIECNECHTWIHLSCAKIRKSNVPEVFVCQKCRD   66 (68)
T ss_dssp             CS-TTCCCCT-TCCEEECTTTCCEEETTTTTCCTTSCCSSCCCHHHHT
T ss_pred             Ee-ECCCcCC-CCCEEECCCCCccccccccCcCcccCCCcEECCCCCC
Confidence            46 7876544 32334444699999999985322   12457888864

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=86.16  E-value=0.15  Score=35.66  Aligned_cols=42  Identities=26%  Similarity=0.519  Sum_probs=30.3

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .|.||.+.    ..+.....|.-.||..|+..-+..    ...||.|+..
T Consensus         6 ~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   51 (184)
T 3o36_A            6 WCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDL   51 (184)
T ss_dssp             SCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCS
T ss_pred             ccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCc
Confidence            48899754    234555569999999999776543    3479999864

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.05  E-value=0.13  Score=31.24  Aligned_cols=44  Identities=27%  Similarity=0.530  Sum_probs=26.6

Q ss_pred             ccccccccccCCCcceEeC--CCCChhhHHhHHHHH---------hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLP--GCNHSFHIGCIDMWF---------HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl---------~~~~~CP~Cr~~   47 (129)
                      .| ||......+ ..+..-  .|..+||..|+.---         .....||.|+..
T Consensus        18 ~C-iC~~~~~~g-~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T 1wew_A           18 RC-VCGNSLETD-SMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             CC-SSCCCCCCS-CEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             Ee-ECCCcCCCC-CEEEECCccCCccccCEEEccccccccccccCCCCEECCCCCcc
Confidence            35 676653222 223333  499999999985321         135689999753

>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=86.04  E-value=0.11  Score=30.14  Aligned_cols=42  Identities=29%  Similarity=0.603  Sum_probs=28.1

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .|.||.+.    ..+.....|...||..|+..-+..    ...||.|...
T Consensus        11 ~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A           11 FCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            48888752    233444458899999999864433    3469999654

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=85.65  E-value=1.1  Score=28.76  Aligned_cols=31  Identities=26%  Similarity=0.501  Sum_probs=21.7

Q ss_pred             ccccccccc-----cCCCcceEeCCCCChhhHHhHH
Q 033041            2 DCAVCLSEF-----EENESGRVLPGCNHSFHIGCID   32 (129)
Q Consensus         2 ~C~IC~~~~-----~~~~~~~~lp~C~H~Fh~~Ci~   32 (129)
                      .|.+|+..-     ..++.+..-..|+..||..||.
T Consensus         7 ~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            7 ICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             SBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             cccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            488887652     1233455555799999999995

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=85.16  E-value=0.15  Score=36.45  Aligned_cols=43  Identities=28%  Similarity=0.468  Sum_probs=30.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~   48 (129)
                      .|.+|...    ..+.....|...||..|+.+-+..    ...||.|+..-
T Consensus         9 ~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            9 WCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            48888753    234455569999999999776643    34799997643

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=85.13  E-value=0.53  Score=27.23  Aligned_cols=41  Identities=27%  Similarity=0.596  Sum_probs=28.1

Q ss_pred             cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041            3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC   44 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C   44 (129)
                      |-.|...|... .....++|++.||.+|=.---+.-..||-|
T Consensus        18 C~~C~~~~~~~-~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           18 CYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             ETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             ccccCcccCCC-ccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            77777777432 223466799999999964433445689988

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=84.69  E-value=0.34  Score=30.49  Aligned_cols=41  Identities=22%  Similarity=0.547  Sum_probs=25.1

Q ss_pred             ccccccccccCCCcceEeCC--CC-ChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPG--CN-HSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~--C~-H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .| ||..... + ..+...+  |. .+||..|+.  |..    ...||.|+..
T Consensus        38 yC-iC~~~~~-g-~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~   85 (91)
T 1weu_A           38 YC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   85 (91)
T ss_dssp             CS-TTCCBCC-S-CCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCC
T ss_pred             EE-ECCCCCC-C-CEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCc
Confidence            36 7876532 2 2233334  55 699999996  322    4579999754

>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=82.77  E-value=1.1  Score=27.59  Aligned_cols=36  Identities=19%  Similarity=0.404  Sum_probs=26.8

Q ss_pred             CccccccccccCCCcceEeC-CCCChhhHHhHHHHHhC
Q 033041            1 MDCAVCLSEFEENESGRVLP-GCNHSFHIGCIDMWFHS   37 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~~   37 (129)
                      +-|.+|.+.+++. ..+..| .=.|.||..|-...++.
T Consensus        16 l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           16 LCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             eEeecchhhhccC-ceeeCCCccCCeeeccccHHHHHh
Confidence            4699999998765 334444 34699999999988865

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=81.99  E-value=0.66  Score=27.62  Aligned_cols=41  Identities=22%  Similarity=0.547  Sum_probs=24.9

Q ss_pred             ccccccccccCCCcceEeCC--CC-ChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPG--CN-HSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~--C~-H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .| ||..... + ..+..-+  |. .+||..|+.  |..    ...||.|+..
T Consensus        18 ~C-~C~~~~~-g-~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~   65 (71)
T 1wen_A           18 YC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   65 (71)
T ss_dssp             CS-TTCCCSC-S-SEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             EE-ECCCCCC-C-CEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCcc
Confidence            36 7776432 2 2222234  65 699999996  322    4479999754

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.02  E-value=0.11  Score=29.39  Aligned_cols=40  Identities=25%  Similarity=0.655  Sum_probs=26.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccC
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCR   45 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr   45 (129)
                      .|.||...    ..+.....|...||..|+..-|..    ...||.|.
T Consensus        11 ~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~   54 (56)
T 2yql_A           11 FCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ   54 (56)
T ss_dssp             SCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHH
T ss_pred             CCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhh
Confidence            48888764    234444568899999999864433    33688874

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=80.78  E-value=0.19  Score=29.43  Aligned_cols=41  Identities=27%  Similarity=0.651  Sum_probs=28.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   46 (129)
                      .|.||.+.    ..+.....|...||..|+..-|..    ...||.|..
T Consensus        10 ~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A           10 ECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             SBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            58899864    234455568899999999854433    346999964

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=80.55  E-value=1.4  Score=34.54  Aligned_cols=46  Identities=13%  Similarity=0.419  Sum_probs=27.3

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHH--hHHHHHhC--CCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIG--CIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~--Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      |.|+|-+..|..+  ++.. .|.|.-|.+  -+..+...  ...||+|.+.+.
T Consensus       250 L~CPlS~~ri~~P--vRg~-~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~  299 (371)
T 3i2d_A          250 LQCPISYTRMKYP--SKSI-NCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIA  299 (371)
T ss_dssp             SBCTTTSSBCSSE--EEET-TCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCC
T ss_pred             ecCCCcccccccc--CcCC-cCCCcceECHHHHHHHhhcCCceeCCCCCcccC
Confidence            4678777776665  3333 499984433  23222222  457999988763

---

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	129
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-19
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-13
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 72.6 bits (178), Expect = 5e-19
 Identities = 29/47 (61%), Positives = 33/47 (70%)

Query: 2  DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          +CAVCL+E E+ E  R LP C H FH  C+DMW  SHSTCPLCR  V
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

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

 Score = 58.0 bits (140), Expect = 4e-13
 Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPED 57
          C +CL +        +   C H+F   CI  W   + TCPLC+ PVE V    E 
Sbjct: 8  CPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

>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 = 53.6 bits (128), Expect = 3e-11
 Identities = 15/63 (23%), Positives = 21/63 (33%), Gaps = 14/63 (22%)

Query: 2  DCAVCLSEFEENESGR--------------VLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47
          +CA+C +   +                       CNH+FH  CI  W  +   CPL    
Sbjct: 23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

Query: 48 VEL 50
           E 
Sbjct: 83 WEF 85

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (116), Expect = 7e-10
 Identities = 10/50 (20%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVE 49
          ++C +C+   E ++       C +     C        +  CP CR P  
Sbjct: 1  VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 49.0 bits (116), Expect = 9e-10
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 2  DCAVCLSEFEENESGRVLP-GCNHSFHIGCIDMWF-HSHSTCPLCRTPV 48
           C  C +    N S +++   C H+    C+D+ F      CP C TP+
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 49.2 bits (117), Expect = 1e-09
 Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 5/57 (8%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVTAQPEDP 58
          C +C    ++    ++ P C H     C+  W  S    CP CR  ++       DP
Sbjct: 26 CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP 78

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (109), Expect = 1e-08
 Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 7/50 (14%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50
          + C  C +E +     ++LP C H+   GC++        CP+C+ P  L
Sbjct: 7  LRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPL 49

>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 = 43.7 bits (102), Expect = 1e-07
 Identities = 9/48 (18%), Positives = 14/48 (29%), Gaps = 3/48 (6%)

Query: 3  CAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTP 47
          C +C  E            G   + H  C+  W      + C +C   
Sbjct: 9  CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 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 = 43.1 bits (101), Expect = 4e-07
 Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 7/51 (13%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS---TCPLCRTPV 48
          ++C +CL   +E     V   C+H F   C+    +       CPLC+  +
Sbjct: 22 LECPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>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 = 41.4 bits (97), Expect = 1e-06
 Identities = 14/47 (29%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 3  CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH-STCPLCRTPV 48
          C +C     +     V   C H F   CI        S CP CR P 
Sbjct: 26 CQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.8 bits (94), Expect = 4e-06
 Identities = 15/70 (21%), Positives = 26/70 (37%), Gaps = 6/70 (8%)

Query: 3   CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTPV-ELVTAQPE 56
             +  S+         L  C+H+FH+ C+   + +        CP C+T   E    QP 
Sbjct: 42  SDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPW 101

Query: 57  DPVQPDNPVP 66
             ++     P
Sbjct: 102 GKMEVFRSGP 111

>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 = 36.2 bits (83), Expect = 1e-04
 Identities = 10/59 (16%), Positives = 18/59 (30%), Gaps = 9/59 (15%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS--------TCPLCRTPVELV 51
            C +CL E+   +   +   C   F   C+  +             +CP    P +  
Sbjct: 6  SGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGH 63

>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 = 35.5 bits (81), Expect = 2e-04
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
          + C+ C +   E      L GC H F   C+     +   CP+C TP 
Sbjct: 23 LRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIGTG--CPVCYTPA 65

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.3 bits (78), Expect = 3e-04
 Identities = 6/49 (12%), Positives = 12/49 (24%), Gaps = 3/49 (6%)

Query: 1  MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
          M CA+                    F    ++ +       P+   P+ 
Sbjct: 1  MLCAISGKVPRRPVLSPK---SRTIFEKSLLEQYVKDTGNDPITNEPLS 46

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	129
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.72
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.61
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.53
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.52
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.52
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.48
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.44
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.42
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.41
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.39
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.28
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.2
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.2
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.17
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.05
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.71
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.74
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	95.28
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	94.47
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.98
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	91.92
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	90.98
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	90.44
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	90.15
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	90.0
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	89.47
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	88.72
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	87.33
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	86.53
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	85.94
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	84.64

>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=99.72  E-value=1.4e-18  Score=101.05  Aligned_cols=49  Identities=59%  Similarity=1.296  Sum_probs=44.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE   49 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   49 (129)
                      .+|+||++.|..++.+..++.|+|.||..||..|++.+.+||+||.++.
T Consensus         6 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4799999999998888887669999999999999999999999998764

>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=99.61  E-value=9.5e-17  Score=92.06  Aligned_cols=49  Identities=20%  Similarity=0.512  Sum_probs=40.6

Q ss_pred             CccccccccccCCCcce-EeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGR-VLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~-~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      ++|+||+++|..++... .++ |||.||..||..|++. +..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            68999999998765544 345 9999999999999986 4579999998853

>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=99.53  E-value=2.7e-15  Score=90.23  Aligned_cols=46  Identities=41%  Similarity=1.016  Sum_probs=39.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      +|+||++.|..+  .+.++ |||.||..||..|++.+..||+||.++..
T Consensus         7 ~C~IC~~~~~~~--~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           7 RCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCccCCcCccCC--cEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            699999998654  34567 99999999999999999999999998753

>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=99.52  E-value=2.8e-15  Score=94.47  Aligned_cols=49  Identities=31%  Similarity=0.706  Sum_probs=40.8

Q ss_pred             ccccccccccCCC---------------cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENE---------------SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~---------------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      +|+||++.+....               .+..++ |||.||..||..||+.+.+||+||+++...
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            5999999886532               234566 999999999999999999999999998653

>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=99.52  E-value=5.6e-15  Score=96.85  Aligned_cols=51  Identities=29%  Similarity=0.731  Sum_probs=39.2

Q ss_pred             ccccccccccCC---------------CcceEeCCCCChhhHHhHHHHHhC-----CCCCCccCccccccCC
Q 033041            2 DCAVCLSEFEEN---------------ESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTPVELVTA   53 (129)
Q Consensus         2 ~C~IC~~~~~~~---------------~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~~~   53 (129)
                      +|+||++.|..+               ..+.+++ |+|.||..||..||+.     +.+||+||+.|.....
T Consensus        27 ~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~   97 (114)
T d1v87a_          27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             EETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             cccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcC
Confidence            699999988542               1234556 9999999999999964     3479999998865543

>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=99.48  E-value=3.8e-15  Score=86.42  Aligned_cols=48  Identities=15%  Similarity=0.292  Sum_probs=42.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      |.|+||++.|.++   ..++.|||.||..||.+||+.+..||+||.++...
T Consensus         1 l~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            5799999999877   66666999999999999999999999999987654

>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=99.47  E-value=1.4e-14  Score=89.49  Aligned_cols=46  Identities=26%  Similarity=0.770  Sum_probs=39.5

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      .|+||++.+..+   ++++ |||.||..||..|+.. .+.||+||..+...
T Consensus        25 ~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          25 LCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             BCTTTSSSBCCE---ECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCccCCCcCCCe---EEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            599999998765   6777 9999999999999975 56899999988643

>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=99.44  E-value=2.7e-14  Score=89.62  Aligned_cols=47  Identities=28%  Similarity=0.562  Sum_probs=40.5

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   51 (129)
                      +.|+||++.|..+   .+++ |||.||..||..|++. +..||+||.++...
T Consensus        24 l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          24 ISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             TBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            5799999999877   7777 9999999999999975 56899999987644

>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=99.42  E-value=5.1e-14  Score=83.86  Aligned_cols=49  Identities=29%  Similarity=0.610  Sum_probs=37.9

Q ss_pred             CccccccccccCC-Cc-ceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEEN-ES-GRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~-~~-~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      .+|+||++.+..+ +. ..+.+ |||.||..||..|+.. +..||+||.++..
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            3799999986443 33 34445 9999999999999965 5689999998743

>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=99.41  E-value=6.3e-14  Score=90.38  Aligned_cols=46  Identities=28%  Similarity=0.737  Sum_probs=39.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   ..++ |||.||..||..|+...   ..||+||.++..
T Consensus        22 l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            5799999999887   5677 99999999999999764   379999988753

>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=99.39  E-value=2.3e-14  Score=83.12  Aligned_cols=44  Identities=32%  Similarity=0.836  Sum_probs=37.6

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV   51 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   51 (129)
                      ++|+||++.|..+   ++++ |||.||..||..|   ...||+||.++...
T Consensus         7 l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           7 LRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             SSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            5899999999877   6778 9999999999765   56899999988644

>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=99.28  E-value=4.3e-13  Score=85.46  Aligned_cols=45  Identities=31%  Similarity=0.777  Sum_probs=37.1

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      ++|+||++.|..+   +.++.|||.||..||..|+.  ..||+||.++..
T Consensus        23 l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            5799999999877   44433999999999999985  469999987653

>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=99.20  E-value=3.7e-12  Score=77.98  Aligned_cols=46  Identities=17%  Similarity=0.561  Sum_probs=40.4

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      |.|+||++.|.++   ++++ |||.||..||..|+.. ...||.|+.++..
T Consensus         9 l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           9 FRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            5799999999888   7788 9999999999999976 4579999988754

>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=99.20  E-value=3.3e-12  Score=78.56  Aligned_cols=46  Identities=13%  Similarity=0.251  Sum_probs=40.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   50 (129)
                      +.|+||++.|.++   ++++ |||.|+..||..|+.. +..||+|+.++..
T Consensus         8 l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           8 LCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             TBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            5799999999888   6777 9999999999999975 5689999988754

>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=99.17  E-value=7e-12  Score=73.13  Aligned_cols=48  Identities=19%  Similarity=0.521  Sum_probs=35.6

Q ss_pred             ccccccccccCCCcce-EeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041            2 DCAVCLSEFEENESGR-VLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE   49 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~-~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   49 (129)
                      .|.||++.+..+.... ...+|+|.||..||..|+..  +.+||+||++|.
T Consensus         8 ~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           8 VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             EETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            6999999886552111 11135699999999999953  568999999875

>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=99.05  E-value=4.9e-11  Score=76.03  Aligned_cols=47  Identities=19%  Similarity=0.248  Sum_probs=40.9

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL   50 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   50 (129)
                      |.|+||++.|.++   ++++.|+|.|+..||..||..+..||+|+.++..
T Consensus        23 f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          23 FLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             hCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            5799999999998   7787345689999999999999999999998754

>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=98.71  E-value=1.3e-09  Score=68.31  Aligned_cols=45  Identities=20%  Similarity=0.547  Sum_probs=34.2

Q ss_pred             CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----C---CCCCccCc
Q 033041            1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----H---STCPLCRT   46 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~---~~CP~Cr~   46 (129)
                      .+|+||++++...+.+..++ |+|.||..|+..|++.     .   -.||.|.-
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           6 SGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            37999999987654445555 9999999999999953     1   25998653

>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=95.74  E-value=0.00073  Score=38.40  Aligned_cols=46  Identities=22%  Similarity=0.483  Sum_probs=32.9

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH-----hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-----HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-----~~~~~CP~Cr~~   47 (129)
                      .|.||..........+....|+.+||..|+..-.     .....||.|+..
T Consensus         8 ~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             cCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            6899998766655555556799999999985321     125689999753

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.28  E-value=0.017  Score=33.83  Aligned_cols=46  Identities=22%  Similarity=0.392  Sum_probs=30.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHH--HH-Hh--CCCCCCccCccc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCID--MW-FH--SHSTCPLCRTPV   48 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~--~w-l~--~~~~CP~Cr~~~   48 (129)
                      .| ||...+......+...+|.-+||..|+.  .. +.  ....||.|+...
T Consensus        14 ~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          14 YC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             Ee-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            45 8987665544445556799999999984  21 11  246899997643

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.47  E-value=0.0055  Score=36.67  Aligned_cols=48  Identities=17%  Similarity=0.362  Sum_probs=31.9

Q ss_pred             CccccccccccCC-CcceEeCCCCChhhHHhHHHHH-----h---CCCCCCccCccc
Q 033041            1 MDCAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWF-----H---SHSTCPLCRTPV   48 (129)
Q Consensus         1 ~~C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl-----~---~~~~CP~Cr~~~   48 (129)
                      +.|.||....... ..++....|...||..|+...+     .   ....||.|....
T Consensus        17 ~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          17 LACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             CCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            4699998754432 2344455699999999986432     1   145799997544

>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=93.98  E-value=0.0091  Score=32.01  Aligned_cols=44  Identities=27%  Similarity=0.636  Sum_probs=31.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   46 (129)
                      .|.||...-. ++.++.-..|...||..|+..-+..    ...||.|+.
T Consensus         2 ~C~vC~~~~~-~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCC-CCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5889976543 3345555579999999999876543    336999974

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {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 At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.92  E-value=0.0071  Score=34.81  Aligned_cols=45  Identities=27%  Similarity=0.445  Sum_probs=29.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHH----hCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF----HSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl----~~~~~CP~Cr~~   47 (129)
                      .| ||..........+....|..+||..|+..-.    .....||.|+..
T Consensus        18 ~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~   66 (72)
T d1weea_          18 DC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             CC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             Ee-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCc
Confidence            46 6776555554455555799999999985422    135579999654

>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=90.98  E-value=0.051  Score=30.90  Aligned_cols=42  Identities=24%  Similarity=0.533  Sum_probs=28.8

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .|.||.+.    ..+.....|...||..|+...+..    ...||.|+..
T Consensus         9 ~C~~C~~~----~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   54 (70)
T d1fp0a1           9 ICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   54 (70)
T ss_dssp             CCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCCCc----CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCc
Confidence            36666542    234555569999999999877643    3469999643

>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=90.44  E-value=0.074  Score=29.45  Aligned_cols=42  Identities=26%  Similarity=0.547  Sum_probs=28.6

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC   44 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C   44 (129)
                      .|--|...+... .....++|++.||..|-.---+.-..||-|
T Consensus        17 ~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          17 FCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CccCCCCcCCCC-ceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            466777776533 344566799999999964433445679988

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.15  E-value=0.45  Score=28.15  Aligned_cols=51  Identities=16%  Similarity=0.311  Sum_probs=34.9

Q ss_pred             ccccccccccCCC---cceEeCCCCChhhHHhHHHHH-hCCCCCCccCccccccC
Q 033041            2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVELVT   52 (129)
Q Consensus         2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~~~~   52 (129)
                      .|.||-+.+....   ..+-.-.|+--.|..|+.-=+ ..++.||.|+.++....
T Consensus        18 ~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~k   72 (93)
T d1weoa_          18 FCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLR   72 (93)
T ss_dssp             BCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCT
T ss_pred             hhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhc
Confidence            5899999875332   222222477788999986444 45779999999886544

>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=90.00  E-value=0.02  Score=31.77  Aligned_cols=42  Identities=29%  Similarity=0.603  Sum_probs=28.2

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      .|.||.+.    ..++....|.-.||..|+...+..    ...||.|+..
T Consensus        11 ~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_          11 FCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            37778653    233444469999999998755543    4479999754

>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=89.47  E-value=0.085  Score=30.12  Aligned_cols=44  Identities=20%  Similarity=0.427  Sum_probs=28.0

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHH----HH-----HhCCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCID----MW-----FHSHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~----~w-----l~~~~~CP~Cr~~   47 (129)
                      .| ||...... ...+....|.-+||..|+.    ..     ......||.|+..
T Consensus        18 ~C-iC~~~~~~-~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          18 YC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             EE-ECCCccCC-CeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            46 78765433 2344455699999999982    11     1235789999644

>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=88.72  E-value=0.18  Score=28.94  Aligned_cols=36  Identities=19%  Similarity=0.404  Sum_probs=26.6

Q ss_pred             CccccccccccCCCcceEeC-CCCChhhHHhHHHHHhC
Q 033041            1 MDCAVCLSEFEENESGRVLP-GCNHSFHIGCIDMWFHS   37 (129)
Q Consensus         1 ~~C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~~   37 (129)
                      +.|.+|.+.+++. ..+..| .=+|.||..|-...++.
T Consensus         9 l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           9 LCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             eeeeeehhhhcCC-ceEeCCCCcCCceeccccHHHHHh
Confidence            4699999998765 334433 24699999999988864

>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=87.33  E-value=0.023  Score=30.66  Aligned_cols=45  Identities=20%  Similarity=0.530  Sum_probs=28.4

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT   46 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   46 (129)
                      .|.+|...|..-..--.--.||.+|+..|.........+|..|..
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            478888888643322333359999999997655445567887753

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.53  E-value=0.11  Score=29.72  Aligned_cols=40  Identities=25%  Similarity=0.535  Sum_probs=23.6

Q ss_pred             cccccccccCCCcceEeC--CC-CChhhHHhHHHHHhC----CCCCCccCcc
Q 033041            3 CAVCLSEFEENESGRVLP--GC-NHSFHIGCIDMWFHS----HSTCPLCRTP   47 (129)
Q Consensus         3 C~IC~~~~~~~~~~~~lp--~C-~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   47 (129)
                      | ||.......  ....-  +| ..+||..|+.  |..    ...||.|+..
T Consensus        19 C-iC~~~~~~~--~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          19 C-LCNQVSYGE--MIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             S-TTCCCCCSS--EECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             E-EeCCCCCCC--EEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            5 887653322  22221  24 4589999984  322    4579999753

>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=85.94  E-value=0.19  Score=29.62  Aligned_cols=31  Identities=26%  Similarity=0.549  Sum_probs=21.1

Q ss_pred             ccccccccccCCCcceEeCCCCChhhHHhHHHH
Q 033041            2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW   34 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w   34 (129)
                      .|.|| +.+.......-. -|+-+||..|+.+.
T Consensus        17 mC~vC-~v~t~~~l~pCR-vCtRv~H~~CL~r~   47 (89)
T d1wila_          17 MCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             ccccc-Ccccccceecce-eecchhhHHHHHHh
Confidence            48888 666554322222 28899999999987

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=84.64  E-value=0.19  Score=28.88  Aligned_cols=44  Identities=27%  Similarity=0.558  Sum_probs=27.6

Q ss_pred             ccccccccccCCCcceEeC--CCCChhhHHhHHH----HHh-----CCCCCCccCcc
Q 033041            2 DCAVCLSEFEENESGRVLP--GCNHSFHIGCIDM----WFH-----SHSTCPLCRTP   47 (129)
Q Consensus         2 ~C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~----wl~-----~~~~CP~Cr~~   47 (129)
                      .| ||......+ ..+.+-  .|..+||..|+.-    +..     ....||.|+..
T Consensus        18 ~C-~C~~~~~~~-~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T d1wewa_          18 RC-VCGNSLETD-SMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             CC-SSCCCCCCS-CEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             Ee-ECCCccCCC-cEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCc
Confidence            47 888766543 223332  4999999999832    101     14689999754