Citrus Sinensis ID: 042206

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
Protein Sequence
MPFAVTPSTCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTADDWSPD
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccEEccccccccccccccHHHHHcccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHccccccHHHHHHcccccccHHHHHcccccccccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mpfavtpstcpndeglRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSteykvkedpraskfkkVSWTAFKRDIinnkshqnddavnkTSTCViclgefrdgdeckvrskcnhifHQTCIddwlddhstcplcrgrvrriawpsvttaddwspd
Flexible Loop (DISEMBL)
mpfavtpstcpndegLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINsteykvkedpraskfkkvswTAFKRDIInnkshqnddavnkTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCrgrvrriawpsvttaddwspd
Low Complexity Region (SEG)
MPFAVTPSTCPNDEGLRLLVLTTPLVISSVVclilflfyicyylfTQLYSSRIQTQNQDIEQGLSSqqqqqqRVIINSTEYKVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTADDWSPD
Disordered region (IsUnstruct)
*************EGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRI**************************************FKKVSWTAFKRDIINNK*****DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTT*******
Disordered Region (DISOPRED)
********************LTTPLVISSVVCLILFLFYICYYLFTQLYSSRI***************************************KKVSWTAFKRDI*************KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGR******************
Disordered Region (DISEMBL)
*********CPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQN***************RVIINSTEYKVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVT********
Disordered Region (DISPRO)
****************RLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRI*******************************EDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV*****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPFAVTPSTCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTADDWSPD
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	184	2.2.26 [Sep-21-2011]
P0C041	310	Putative RING-H2 finger p	yes	no	0.755	0.448	0.344	5e-15
Q7XLY8	383	E3 ubiquitin-protein liga	yes	no	0.777	0.373	0.281	6e-13
Q8LFY8	413	RING-H2 finger protein AT	no	no	0.760	0.338	0.268	1e-11
Q9C919	178	Putative RING-H2 finger p	no	no	0.755	0.780	0.297	2e-11
Q9LF64	362	RING-H2 finger protein AT	no	no	0.396	0.201	0.383	4e-11
Q9SG96	181	RING-H2 finger protein AT	no	no	0.255	0.259	0.553	1e-10
Q9LRB7	325	E3 ubiquitin-protein liga	no	no	0.233	0.132	0.534	2e-10
Q9LZV8	159	RING-H2 finger protein AT	no	no	0.25	0.289	0.565	2e-10
Q9FLC6	176	RING-H2 finger protein AT	no	no	0.255	0.267	0.553	2e-10
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.282	0.146	0.480	3e-10

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

 Score = 80.5 bits (197), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 51/148 (34%), Positives = 67/148 (45%), Gaps = 9/148 (6%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+             YY     Y +   T     E G S        + +NS E  
Sbjct: 59  SPLVIAIFGIFATAFLLAAYYTLVSKYCANDTTNEAASESGRS-----DIILDVNSPERG 113

Query: 83  VKEDPRA--SKFKKVSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRS 139
            ++DP A  S    +  T  K+      K HQN   +N T  C ICLGEF + +  ++  
Sbjct: 114 DQDDPFALESSTAGLDDTLIKKIGFFKLKKHQNGFKINGTD-CSICLGEFNEDESLRLLP 172

Query: 140 KCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           KCNH FH  CID WL  HS CPLCR ++
Sbjct: 173 KCNHTFHVVCIDRWLKSHSNCPLCRAKI 200

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XLY8|ATL41_ORYSJ E3 ubiquitin-protein ligase Os04g0590900 OS=Oryza sativa subsp. japonica GN=Os04g0590900 PE=2 SV=2

 Score = 73.6 bits (179), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 42/149 (28%), Positives = 65/149 (43%), Gaps = 6/149 (4%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+ +  L      + YY F   Y   + +    +    S                 
Sbjct: 56  SPLVIAIIGVLASAFLLVSYYTFISKYCGTVSSLRGRVFGSSSGGAAYGGGAGSGGRHGH 115

Query: 83  VKEDPRASKFKKVSWTAFKRDIINNK----SHQNDDAVNKTSTCVICLGEFRDGDECKVR 138
            +   R+ +   VS  +   + + NK     ++  D    T+ C +CLGEF DG+  ++ 
Sbjct: 116 GQS--RSHESWNVSPPSGLDETLINKITVCKYRRGDGFVHTTDCSVCLGEFSDGESLRLL 173

Query: 139 SKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
            +C+H FHQ CID WL  HS CPLCR  +
Sbjct: 174 PRCSHAFHQQCIDTWLKSHSNCPLCRANI 202

Possesses E3 ubiquitin-protein ligase in vitro.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 69.3 bits (168), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/160 (26%), Positives = 76/160 (47%), Gaps = 20/160 (12%)

Query: 25  LVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKVK 84
           + I ++   +L +    ++L  + +S  +   NQ      + Q   +    +   E++ +
Sbjct: 83  ISIITITGAVLAILLTGFFLVAKFFSDSVNRVNQG-----TYQSDNEDNDTVMEEEFQDR 137

Query: 85  EDPRASKFKKVSW----TAFKRDIINNKS---HQNDDAVNKTSTCVICLGEFRDGDECKV 137
           E     +     W    T  ++ IIN+ +   ++  D + + + C +CL EF + +  ++
Sbjct: 138 E-----QVDHPIWLIRTTGLQQSIINSITICNYKRGDGLIERTDCPVCLNEFEEDESLRL 192

Query: 138 RSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTT 177
             KCNH FH +CID WL  H+ CPLCR     IA  SVTT
Sbjct: 193 LPKCNHAFHISCIDTWLSSHTNCPLCRA---GIAMISVTT 229

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C919|ATL19_ARATH Putative RING-H2 finger protein ATL19 OS=Arabidopsis thaliana GN=ATL19 PE=3 SV=1

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 77/158 (48%), Gaps = 19/158 (12%)

Query: 18  LLVLTTPLVISSVVCLILFLFYICY---YLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRV 74
           L +L   L+ +S + L++++   C    +L T L        + D+E G+   QQ+ + V
Sbjct: 23  LCILLVVLIATSALILVIYVIIDCILRPFLGTCL--------DLDLEIGVQRGQQRARIV 74

Query: 75  I---INSTEYKVKEDPRASKFK----KVSWTAFKRDIINNKSHQNDDAVNKTS-TCVICL 126
               I ST  ++ +  R  K +     V  T   + ++   +H+ D+  +  S  C ICL
Sbjct: 75  TYHTIISTGLRLPDFEREGKKRGLKQSVIETLLPKLLVGQGNHEEDEEKSLESRECAICL 134

Query: 127 GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
             +   +EC+V   C HI+H  CID WL +H TCP CR
Sbjct: 135 SGYVVNEECRVFPVCRHIYHALCIDAWLKNHLTCPTCR 172

Arabidopsis thaliana (taxid: 3702)

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

 Score = 67.8 bits (164), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 28/73 (38%), Positives = 40/73 (54%)

Query: 110 HQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
           +++ D     S C +CL EF + +  ++  KCNH FH  CID WL  HS CPLCR  V  
Sbjct: 130 YKSGDGFVDGSDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFVTG 189

Query: 170 IAWPSVTTADDWS 182
           +  P+ +   + S
Sbjct: 190 VNNPTASVGQNVS 202

Arabidopsis thaliana (taxid: 3702)

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

 Score = 65.9 bits (159), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 33/47 (70%)

Query: 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           K + C+ICLG+F DG++ +V  KCNH FH  CID WL   S+CP CR
Sbjct: 110 KATECLICLGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCR 156

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRB7|EL5_ORYSJ E3 ubiquitin-protein ligase EL5 OS=Oryza sativa subsp. japonica GN=EL5.1 PE=1 SV=1

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 23/43 (53%), Positives = 28/43 (65%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           C +CL E  DG+E +   +C H FH  C+D WL  HSTCPLCR
Sbjct: 134 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 176

Functions as a E3 ubiquitin-protein ligase in cooperation with the E2 ubiquitin conjugating enzymes UBC5A and UBC5B. Involved in root development. Required for the maintenance of cell viability after the initiation of root primordial formation. May mediates the degradation of cytotoxic proteins produced in root cells after the actions of auxin, cytokinin and jasmonic acid. Mediates 'Lys-48'-linked polyubiquitination of MBP in vitro.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LZV8|ATL74_ARATH RING-H2 finger protein ATL74 OS=Arabidopsis thaliana GN=ATL74 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/46 (56%), Positives = 31/46 (67%)

Query: 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            + C ICLGEF DG+  +V   CNH FH +CID WL  HS+CP CR
Sbjct: 102 ATECAICLGEFADGERVRVLPPCNHSFHMSCIDTWLVSHSSCPNCR 147

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLC6|ATL73_ARATH RING-H2 finger protein ATL73 OS=Arabidopsis thaliana GN=ATL73 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 33/47 (70%)

Query: 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           K + C+ICLG+F +G+  +V  KCNH FH  CID WL  HS+CP CR
Sbjct: 109 KATECLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCR 155

Arabidopsis thaliana (taxid: 3702)

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

 Score = 65.1 bits (157), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 33/52 (63%)

Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165
           D   ++S C +CL EF++ +  ++  KCNH FH  CID WL  HS CPLCR 
Sbjct: 151 DGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLKSHSNCPLCRA 202

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	184
2894600	1208	putative protein [Arabidopsis thaliana]	0.744	0.113	0.346	1e-13
186511980	310	putative RING-H2 finger protein ATL53 [A	0.755	0.448	0.344	2e-13
242076978	398	hypothetical protein SORBIDRAFT_06g02698	0.804	0.371	0.284	1e-12
357165731	387	PREDICTED: E3 ubiquitin-protein ligase O	0.815	0.387	0.291	4e-12
255584222	183	RING-H2 finger protein ATL5F, putative [	0.722	0.726	0.308	8e-12
297800294	746	hypothetical protein ARALYDRAFT_354960 [	0.320	0.079	0.5	2e-11
225464303	338	PREDICTED: RING-H2 finger protein ATL51	0.793	0.431	0.282	2e-11
414585686	406	TPA: putative RING zinc finger domain su	0.788	0.357	0.286	2e-11
255634985	364	unknown [Glycine max]	0.722	0.365	0.273	2e-11
125540746	386	hypothetical protein OsI_08541 [Oryza sa	0.75	0.357	0.295	2e-11

>gi|2894600|emb|CAA17134.1| putative protein [Arabidopsis thaliana] gi|7268543|emb|CAB78793.1| putative protein [Arabidopsis thaliana]

 Score = 82.0 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 68/150 (45%), Gaps = 13/150 (8%)

Query: 23   TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVI--INSTE 80
            +PLVI+             YY     Y +   T     E G S        +I  +NS E
Sbjct: 957  SPLVIAIFGIFATAFLLAAYYTLVSKYCANDTTNEAASESGRSD-------IILDVNSPE 1009

Query: 81   YKVKEDPRA--SKFKKVSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKV 137
               ++DP A  S    +  T  K+      K HQN   +N T  C ICLGEF + +  ++
Sbjct: 1010 RGDQDDPFALESSTAGLDDTLIKKIGFFKLKKHQNGFKINGTD-CSICLGEFNEDESLRL 1068

Query: 138  RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
              KCNH FH  CID WL  HS CPLCR ++
Sbjct: 1069 LPKCNHTFHVVCIDRWLKSHSNCPLCRAKI 1098

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186511980|ref|NP_001119003.1| putative RING-H2 finger protein ATL53 [Arabidopsis thaliana] gi|302393676|sp|P0C041.2|ATL53_ARATH RecName: Full=Putative RING-H2 finger protein ATL53 gi|332658566|gb|AEE83966.1| putative RING-H2 finger protein ATL53 [Arabidopsis thaliana]

 Score = 80.5 bits (197), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 51/148 (34%), Positives = 67/148 (45%), Gaps = 9/148 (6%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+             YY     Y +   T     E G S        + +NS E  
Sbjct: 59  SPLVIAIFGIFATAFLLAAYYTLVSKYCANDTTNEAASESGRS-----DIILDVNSPERG 113

Query: 83  VKEDPRA--SKFKKVSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRS 139
            ++DP A  S    +  T  K+      K HQN   +N T  C ICLGEF + +  ++  
Sbjct: 114 DQDDPFALESSTAGLDDTLIKKIGFFKLKKHQNGFKINGTD-CSICLGEFNEDESLRLLP 172

Query: 140 KCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           KCNH FH  CID WL  HS CPLCR ++
Sbjct: 173 KCNHTFHVVCIDRWLKSHSNCPLCRAKI 200

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242076978|ref|XP_002448425.1| hypothetical protein SORBIDRAFT_06g026980 [Sorghum bicolor] gi|241939608|gb|EES12753.1| hypothetical protein SORBIDRAFT_06g026980 [Sorghum bicolor]

 Score = 78.6 bits (192), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 68/151 (45%), Gaps = 3/151 (1%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+ +  L +    + YY F   Y     +    +    S    +++      +   
Sbjct: 63  SPLVIAIIGVLAIAFLLVSYYTFVSRYCGTFGSFRGRVFSSNSGGGARRRGNGGGGSSGG 122

Query: 83  VKEDPRASKFKKVSWTAFKRDIINNKS---HQNDDAVNKTSTCVICLGEFRDGDECKVRS 139
             +      +     T     +I+  +   ++  DA   T+ C +CLGEFRDG+  ++  
Sbjct: 123 QGQSRSQESWNISPSTGLDETLISKITLCKYKRGDASVHTTDCSVCLGEFRDGESLRLLP 182

Query: 140 KCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170
           KC+H FHQ CID WL  HS CPLCR  +  I
Sbjct: 183 KCSHAFHQQCIDKWLKSHSNCPLCRSNITFI 213

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357165731|ref|XP_003580475.1| PREDICTED: E3 ubiquitin-protein ligase Os04g0590900-like [Brachypodium distachyon]

 Score = 76.6 bits (187), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 67/158 (42%), Gaps = 8/158 (5%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+ +  L      + YY F   Y     +    I     S      R         
Sbjct: 63  SPLVIAIIGVLASAFLLVSYYTFISKYCGTFSSLRGRI---FGSSSSSAARNAGGGGGSG 119

Query: 83  VKEDPRASKFKKVSWTAFKRDIINN----KSHQNDDAVNKTSTCVICLGEFRDGDECKVR 138
             +      +     +     +IN     K  + D  VN T+ C +CLGEF DG+  ++ 
Sbjct: 120 QGQSRSQESWNVSPSSGLDETLINKITVCKYRRGDGFVN-TTDCSVCLGEFHDGESLRLL 178

Query: 139 SKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVT 176
            KC+H FHQ CID WL  HS CPLCR  +  ++  +V+
Sbjct: 179 PKCSHAFHQQCIDTWLKSHSNCPLCRSNITFVSVGAVS 216

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255584222|ref|XP_002532849.1| RING-H2 finger protein ATL5F, putative [Ricinus communis] gi|223527386|gb|EEF29527.1| RING-H2 finger protein ATL5F, putative [Ricinus communis]

 Score = 75.9 bits (185), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 72/149 (48%), Gaps = 16/149 (10%)

Query: 25  LVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQ-DIEQGLSSQQQQQQRVIINSTEYKV 83
           ++I +++ + +   YIC     + +    QTQN  D EQG    +  Q +        + 
Sbjct: 37  VLIGALILMQIAAIYICIKSAARFFY---QTQNHNDTEQGRPRNRPPQPQPGNQPPRPQP 93

Query: 84  KEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTST----CVICLGEFRDGDECKVRS 139
               R ++ K +        +I  +  +    V K +     CVICL EF+DG+EC++ +
Sbjct: 94  LPPERMARAKVI--------VIAGRVFEYKSEVQKPNVFCRECVICLEEFKDGEECRIFT 145

Query: 140 KCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168
           KCNH +H  CID WL  H  CP+CR  VR
Sbjct: 146 KCNHFYHNGCIDKWLIKHRHCPICRESVR 174

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297800294|ref|XP_002868031.1| hypothetical protein ARALYDRAFT_354960 [Arabidopsis lyrata subsp. lyrata] gi|297313867|gb|EFH44290.1| hypothetical protein ARALYDRAFT_354960 [Arabidopsis lyrata subsp. lyrata]

 Score = 74.3 bits (181), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 30/60 (50%), Positives = 38/60 (63%), Gaps = 1/60 (1%)

Query: 108 KSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           K HQN   + K + C ICLGEF + +  ++  KCNH FH  CID WL  HS CPLCR ++
Sbjct: 578 KKHQNGFKI-KGTDCSICLGEFNEDESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCRTKI 636

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464303|ref|XP_002266511.1| PREDICTED: RING-H2 finger protein ATL51 [Vitis vinifera] gi|297744791|emb|CBI38059.3| unnamed protein product [Vitis vinifera]

 Score = 74.3 bits (181), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 74/163 (45%), Gaps = 17/163 (10%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PL+++ +  L      + Y+     Y  R + +        S++    Q  ++N    +
Sbjct: 51  SPLILAIIGILASAFLLVIYFTVISKYCRRRRGRRT------SAEGNGNQDEMVNDQPLQ 104

Query: 83  VKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCN 142
           V        F K S T +K        ++    V + + C +CL EF DG+  ++  KCN
Sbjct: 105 VASTGLEEGFIK-SITVYK--------YKKSGGVVEGTDCSVCLSEFEDGENLRLLPKCN 155

Query: 143 HIFHQTCIDDWLDDHSTCPLCRGRVR--RIAWPSVTTADDWSP 183
           H FH  CID WL  HS+CPLCR  +R  +I  P ++ A    P
Sbjct: 156 HAFHLPCIDTWLKSHSSCPLCRFDIRSAKILPPELSEATQGVP 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414585686|tpg|DAA36257.1| TPA: putative RING zinc finger domain superfamily protein [Zea mays]

 Score = 74.3 bits (181), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 67/150 (44%), Gaps = 5/150 (3%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+ +  L +    + YY F   Y    ++    +    S      +          
Sbjct: 63  SPLVIAIIGVLAIAFLLVSYYTFISRYCGTFRSFRGRVFSSSSGGGGGARGSGGGGGGGG 122

Query: 83  VKEDPRASKFKKVS-WTAFKRDIINN----KSHQNDDAVNKTSTCVICLGEFRDGDECKV 137
            +   R+ +   +S  T     +I+     K  + D +    + C +CLGEFRDG+  ++
Sbjct: 123 GQGQSRSQESWNISPSTGLDETLISKIALCKYRRGDASSVHATDCPVCLGEFRDGESLRL 182

Query: 138 RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
             KC+H FHQ CID WL  HS CPLCR  +
Sbjct: 183 LPKCSHAFHQQCIDKWLKSHSNCPLCRSNI 212

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255634985|gb|ACU17851.1| unknown [Glycine max]

 Score = 74.3 bits (181), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/146 (27%), Positives = 71/146 (48%), Gaps = 13/146 (8%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLY-SSRIQTQNQDIEQGLSSQQQQQQRVIINSTEY 81
           +PLVI+ +  L+     + YY     Y  SR  +Q+++ E+ +  ++     +       
Sbjct: 54  SPLVIAVIGVLVSAFLLVSYYTIISKYCGSRESSQSENHEENVELEEDHNPSLHEPWHAP 113

Query: 82  KVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKC 141
            +  D   +  K ++   +K+           D + + + C +CLGEF+D +  ++  KC
Sbjct: 114 TIGLD--EALIKSITVCKYKKG----------DGLVEVTDCSVCLGEFQDDESVRLLPKC 161

Query: 142 NHIFHQTCIDDWLDDHSTCPLCRGRV 167
           +H FH  CID WL  HS+CPLCR  +
Sbjct: 162 SHAFHLPCIDTWLKSHSSCPLCRASI 187

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125540746|gb|EAY87141.1| hypothetical protein OsI_08541 [Oryza sativa Indica Group]

 Score = 73.9 bits (180), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/142 (29%), Positives = 61/142 (42%), Gaps = 4/142 (2%)

Query: 23  TPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYK 82
           +PLVI+ +  L      + YY     Y     +    +   L S   +      +  +  
Sbjct: 66  SPLVIAIIGVLASAFLLVSYYTIISKYCGTFSSLRNRL---LGSSAHRGSGGGADGGDNS 122

Query: 83  VKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCN 142
             ++P +              I   K  + D  V+ T  C +CLGEFRDG+  ++  KC+
Sbjct: 123 RSQEPWSVALSDGMDETLINKITVCKYRRGDGFVDSTD-CSVCLGEFRDGESLRLLPKCS 181

Query: 143 HIFHQTCIDDWLDDHSTCPLCR 164
           H FH  CID WL  HS CPLCR
Sbjct: 182 HAFHVPCIDTWLKSHSNCPLCR 203

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
TAIR|locus:4515103413	310	ATL4H [Arabidopsis thaliana (t	0.494	0.293	0.421	1.7e-15
UNIPROTKB|Q7XLY8	383	LOC_Os04g50100 "E3 ubiquitin-p	0.315	0.151	0.465	4.3e-13
TAIR|locus:2207066	413	AT1G72220 [Arabidopsis thalian	0.418	0.186	0.385	2.4e-12
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.483	0.505	0.385	2.4e-12
TAIR|locus:2090980	204	AT3G14320 [Arabidopsis thalian	0.25	0.225	0.565	3.1e-12
TAIR|locus:2181032	159	DAFL2 "DAF-Like gene 2" [Arabi	0.233	0.270	0.604	3.9e-12
TAIR|locus:2103162	181	DAFL1 "DAF-Like gene 1" [Arabi	0.255	0.259	0.553	6.4e-12
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.489	0.409	0.382	6.4e-12
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.396	0.201	0.383	1.3e-11
TAIR|locus:2028406	225	AT1G49210 [Arabidopsis thalian	0.413	0.337	0.379	1.3e-11

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

 Score = 196 (74.1 bits), Expect = 1.7e-15, P = 1.7e-15
 Identities = 40/95 (42%), Positives = 52/95 (54%)

Query:    76 INSTEYKVKEDPRA--SKFKKVSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFRDG 132
             +NS E   ++DP A  S    +  T  K+      K HQN   +N T  C ICLGEF + 
Sbjct:   107 VNSPERGDQDDPFALESSTAGLDDTLIKKIGFFKLKKHQNGFKINGTD-CSICLGEFNED 165

Query:   133 DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
             +  ++  KCNH FH  CID WL  HS CPLCR ++
Sbjct:   166 ESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCRAKI 200

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q7XLY8 LOC_Os04g50100 "E3 ubiquitin-protein ligase Os04g0590900" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 178 (67.7 bits), Expect = 4.3e-13, P = 4.3e-13
 Identities = 27/58 (46%), Positives = 37/58 (63%)

Query:   110 HQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
             ++  D    T+ C +CLGEF DG+  ++  +C+H FHQ CID WL  HS CPLCR  +
Sbjct:   145 YRRGDGFVHTTDCSVCLGEFSDGESLRLLPRCSHAFHQQCIDTWLKSHSNCPLCRANI 202

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2207066 AT1G72220 [Arabidopsis thaliana (taxid:3702)]

 Score = 172 (65.6 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 32/83 (38%), Positives = 49/83 (59%)

Query:    98 TAFKRDIINNKS---HQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL 154
             T  ++ IIN+ +   ++  D + + + C +CL EF + +  ++  KCNH FH +CID WL
Sbjct:   150 TGLQQSIINSITICNYKRGDGLIERTDCPVCLNEFEEDESLRLLPKCNHAFHISCIDTWL 209

Query:   155 DDHSTCPLCRGRVRRIAWPSVTT 177
               H+ CPLCR  +  I   SVTT
Sbjct:   210 SSHTNCPLCRAGIAMI---SVTT 229

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2153554 DAF "DEFECTIVE IN ANTHER DEHISCENCE1- ( DAD1-) Activating Factor" [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 37/96 (38%), Positives = 53/96 (55%)

Query:    73 RVIINSTE-YKVKEDP---RASKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGE 128
             R ++  T  +   EDP    A+  K +   A K  +I   S+ + +   K + C+ICLG+
Sbjct:    63 RCVLRCTRRFTPNEDPVDTNANVAKGIKKRALK--VIPVDSY-SPELKMKATECLICLGD 119

Query:   129 FRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
             F +G+  +V  KCNH FH  CID WL  HS+CP CR
Sbjct:   120 FVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCR 155

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

TAIR|locus:2090980 AT3G14320 [Arabidopsis thaliana (taxid:3702)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 26/46 (56%), Positives = 32/46 (69%)

Query:   122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
             CV+CL E  DGD+ +V   C+H FH  CID WL  +STCP+CR RV
Sbjct:    88 CVVCLSELADGDKARVLPSCDHWFHVECIDSWLQSNSTCPICRKRV 133

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

TAIR|locus:2181032 DAFL2 "DAF-Like gene 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 26/43 (60%), Positives = 30/43 (69%)

Query:   122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
             C ICLGEF DG+  +V   CNH FH +CID WL  HS+CP CR
Sbjct:   105 CAICLGEFADGERVRVLPPCNHSFHMSCIDTWLVSHSSCPNCR 147

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

TAIR|locus:2103162 DAFL1 "DAF-Like gene 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 26/47 (55%), Positives = 33/47 (70%)

Query:   118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
             K + C+ICLG+F DG++ +V  KCNH FH  CID WL   S+CP CR
Sbjct:   110 KATECLICLGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCR 156

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2830088 AT3G18773 [Arabidopsis thaliana (taxid:3702)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 36/94 (38%), Positives = 46/94 (48%)

Query:    73 RVIINSTEYKVKEDPRASKFKK-VSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFR 130
             R  + S    +   PR S   K +   A K   ++N     N   V +   CVICL +F 
Sbjct:    81 RSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYSPEINLPGVGEE--CVICLSDFV 138

Query:   131 DGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
              G++ +V  KCNH FH  CID WL  H TCP CR
Sbjct:   139 AGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCR 172

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

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

 Score = 164 (62.8 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 28/73 (38%), Positives = 40/73 (54%)

Query:   110 HQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
             +++ D     S C +CL EF + +  ++  KCNH FH  CID WL  HS CPLCR  V  
Sbjct:   130 YKSGDGFVDGSDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFVTG 189

Query:   170 IAWPSVTTADDWS 182
             +  P+ +   + S
Sbjct:   190 VNNPTASVGQNVS 202

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2028406 AT1G49210 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 30/79 (37%), Positives = 43/79 (54%)

Query:    87 PRASKFKKVSWTAFKR-DIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIF 145
             PR+S  K +   A +   +++     N   + +   CVICL +F  G++ ++  KCNH F
Sbjct:   101 PRSSSNKGIKKKALRMFPVVSYSREMNLPGIGEE--CVICLSDFVSGEQLRLLPKCNHGF 158

Query:   146 HQTCIDDWLDDHSTCPLCR 164
             H  CID WL  H TCP CR
Sbjct:   159 HVRCIDKWLQHHLTCPKCR 177

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	184
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-13
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-11
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-08
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	3e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-07
smart00184	40	smart00184, RING, Ring finger	2e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	6e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	3e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.001
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.004

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

 Score = 60.5 bits (147), Expect = 4e-13
 Identities = 23/44 (52%), Positives = 28/44 (63%), Gaps = 1/44 (2%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            C ICL EF  G+E  V   C H+FH+ C+D WL   +TCPLCR
Sbjct: 2   ECPICLDEFEPGEEV-VVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 55.5 bits (134), Expect = 6e-11
 Identities = 22/53 (41%), Positives = 25/53 (47%), Gaps = 9/53 (16%)

Query: 121 TCVICLGEFRD--------GDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            C IC   F          GD+C V   +C H FH  CI  WL   +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|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 = 51.3 bits (123), Expect = 1e-09
 Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRV 167
            C ICL EFR+     V   C H+F ++CID WL    +TCPLCR  +
Sbjct: 1   ECPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 52.7 bits (126), Expect = 1e-08
 Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCR 164
           C IC+  F   D  +V   C+H FH  C+D WL  +S  CP+CR
Sbjct: 326 CAICMSNFIKNDRLRV-LPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

>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 = 48.7 bits (116), Expect = 3e-08
 Identities = 22/45 (48%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 121 TCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDHSTCPLCR 164
           TC  C      GDEC V    CNH FH  CI  WLD    CPL R
Sbjct: 33  TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 45.6 bits (108), Expect = 2e-07
 Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 3/44 (6%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            C ICL   RD     V + C H+F + CI  +L   S CP+CR
Sbjct: 4   ECPICLDLLRD---PVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLC 163
           C ICL E+    +  V   C H F ++CI  WL+  + TCP+C
Sbjct: 1   CPICLEEY---LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 45.3 bits (107), Expect = 6e-06
 Identities = 21/57 (36%), Positives = 26/57 (45%), Gaps = 9/57 (15%)

Query: 117 NKTSTCVICLGEF---------RDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           N   TC IC+ E          R  D    R  C HI H  C+ +WL+   TCP+CR
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICR 341

Length = 491

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

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 21/52 (40%), Positives = 28/52 (53%), Gaps = 6/52 (11%)

Query: 118 KTSTCVICLGEFRDGDECK-----VRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           K   C IC+ +  D  E K     + S CNH+F   CID W  + +TCP+CR
Sbjct: 173 KDKECAICMEKVYD-KEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 4/37 (10%)

Query: 132 GDECK-VRSKCNHIFHQTCIDDWLDDHST---CPLCR 164
           GD+C  V  KC H FH  CI  WL   ++   CP+CR
Sbjct: 42  GDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 35.1 bits (81), Expect = 0.001
 Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 4/43 (9%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLC 163
           C ICL E +D         C H+F   CI  WL+  + TCPLC
Sbjct: 1   CPICLEEPKD---PVTILPCGHLFCSKCILSWLESGNVTCPLC 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|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 36.9 bits (85), Expect = 0.004
 Identities = 16/43 (37%), Positives = 19/43 (44%), Gaps = 4/43 (9%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           C IC   F       V + C+H F   CI   L +   CPLCR
Sbjct: 29  CHICKDFFDV----PVLTSCSHTFCSLCIRRCLSNQPKCPLCR 67

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.73
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.61
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.43
PHA02929	238	N1R/p28-like protein; Provisional	99.42
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.37
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.3
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.28
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.27
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.27
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.23
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.2
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.19
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.17
PHA02926	242	zinc finger-like protein; Provisional	99.13
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.12
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.07
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.01
PF14634	44	zf-RING_5: zinc-RING finger domain	99.01
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.98
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.91
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.88
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.88
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.85
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.8
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.79
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.78
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.75
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.74
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.64
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.64
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.61
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.57
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.53
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.47
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.45
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.43
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.35
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.21
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.1
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.01
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.99
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.94
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.93
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.64
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.53
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.52
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.51
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.46
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.25
COG5152	259	Uncharacterized conserved protein, contains RING a	97.22
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.15
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.13
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.1
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.05
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.04
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.95
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.94
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.92
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.86
PHA02862	156	5L protein; Provisional	96.86
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	96.7
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.68
KOG2660	331	consensus Locus-specific chromosome binding protei	96.65
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.65
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.55
PF04641	260	Rtf2: Rtf2 RING-finger	96.54
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.49
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.23
KOG1940	276	consensus Zn-finger protein [General function pred	96.21
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.18
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.11
PHA03096	284	p28-like protein; Provisional	96.07
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.01
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.98
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.97
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.87
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.86
KOG4739	233	consensus Uncharacterized protein involved in syna	95.74
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.68
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.49
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.04
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.97
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	94.91
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	94.64
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.55
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	94.46
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.46
KOG3002	299	consensus Zn finger protein [General function pred	94.4
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	92.86
KOG3899	381	consensus Uncharacterized conserved protein [Funct	92.83
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.42
KOG1609	323	consensus Protein involved in mRNA turnover and st	92.29
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.17
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.02
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	91.72
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.45
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.28
PF03376	67	Adeno_E3B: Adenovirus E3B protein; InterPro: IPR00	91.05
KOG3053	293	consensus Uncharacterized conserved protein [Funct	90.83
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	90.73
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.1
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.69
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	88.35
PF13974	80	YebO: YebO-like protein	87.63
PF05568	189	ASFV_J13L: African swine fever virus J13L protein;	87.49
PF06716	54	DUF1201: Protein of unknown function (DUF1201); In	86.15
KOG0825	1134	consensus PHD Zn-finger protein [General function	85.97
KOG3113	293	consensus Uncharacterized conserved protein [Funct	85.52
PF12273	130	RCR: Chitin synthesis regulation, resistance to Co	84.75
KOG0269	839	consensus WD40 repeat-containing protein [Function	83.92
KOG2068	327	consensus MOT2 transcription factor [Transcription	83.4
PRK13454	181	F0F1 ATP synthase subunit B'; Provisional	83.1
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	83.07
PF07010	259	Endomucin: Endomucin; InterPro: IPR010740 This fam	82.22
KOG4367	699	consensus Predicted Zn-finger protein [Function un	82.1
PF15102	146	TMEM154: TMEM154 protein family	81.82
PF06143	84	Baculo_11_kDa: Baculovirus 11 kDa family; InterPro	81.23

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

Probab=99.73  E-value=1.3e-17  Score=133.46  Aligned_cols=58  Identities=34%  Similarity=0.891  Sum_probs=48.9

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC-cccccccccccccCCCCCCC
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRRIAWPSVTTA  178 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~-~CP~Cr~~~~~~~~~~~~~~  178 (184)
                      ..|+||+|+|..||+++++ ||+|.||..||++|+.+++ .||+||+++....-.....+
T Consensus       230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e  288 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSE  288 (348)
T ss_pred             ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccC
Confidence            5899999999999999997 5999999999999997765 59999998866554444444

>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=99.61  E-value=2.4e-16  Score=90.81  Aligned_cols=43  Identities=47%  Similarity=1.263  Sum_probs=38.6

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR  164 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr  164 (184)
                      +|+||++.+..++.+..+ +|||.||.+||.+|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence            699999999988887766 5999999999999999999999997

...

>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=99.43  E-value=1e-13  Score=88.32  Aligned_cols=46  Identities=46%  Similarity=1.018  Sum_probs=35.4

Q ss_pred             CccCcccccccccC--------C-cceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206          119 TSTCVICLGEFRDG--------D-ECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR  164 (184)
Q Consensus       119 ~~~C~ICl~~~~~~--------~-~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr  164 (184)
                      +..|+||++.+...        + -.....+|||.||..||.+|++.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            44599999999321        1 2223457999999999999999999999997

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

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.42  E-value=1.2e-13  Score=106.15  Aligned_cols=55  Identities=35%  Similarity=0.830  Sum_probs=45.4

Q ss_pred             CCCccCcccccccccCC----cceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      ..+.+|+||++.+...+    .+.++++|+|.||.+||.+|++.+.+||+||.++....
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~  230 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVI  230 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEe
Confidence            35789999999986543    23466789999999999999999999999999886543

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

Probab=99.37  E-value=1.4e-12  Score=103.96  Aligned_cols=51  Identities=43%  Similarity=1.030  Sum_probs=42.8

Q ss_pred             CCCccCcccccc-cccC--------CcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206          117 NKTSTCVICLGE-FRDG--------DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV  167 (184)
Q Consensus       117 ~~~~~C~ICl~~-~~~~--------~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~  167 (184)
                      +++..|.||+++ +..+        ++.+..+||||++|-+|++.|++++.+||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            478899999999 5444        23445568999999999999999999999999984

>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=99.30  E-value=1.6e-12  Score=76.84  Aligned_cols=47  Identities=32%  Similarity=0.813  Sum_probs=39.8

Q ss_pred             CccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      +..|.||++....    .++.||||. |+..|+..|++....||+||+++..
T Consensus         2 ~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            4679999999766    666689999 9999999999999999999998854

...

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

Probab=99.28  E-value=1.2e-12  Score=101.80  Aligned_cols=51  Identities=37%  Similarity=0.921  Sum_probs=45.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~  169 (184)
                      .+-+|+|||++|..+|+++++ ||+|.||..|++.|+. -+..||+||+++.+
T Consensus       322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            557899999999999998887 5999999999999997 56789999998754

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

Probab=99.27  E-value=2.4e-12  Score=99.78  Aligned_cols=52  Identities=31%  Similarity=0.798  Sum_probs=45.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~  172 (184)
                      +....|.+||+....    +..+||||+||..||..|...+..||+||..+.+...
T Consensus       237 ~a~~kC~LCLe~~~~----pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  237 EATRKCSLCLENRSN----PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV  288 (293)
T ss_pred             CCCCceEEEecCCCC----CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence            466889999999987    7788999999999999999999999999998866544

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.27  E-value=3.3e-12  Score=94.59  Aligned_cols=53  Identities=32%  Similarity=0.769  Sum_probs=42.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----------------CCcccccccccccccCC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----------------HSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----------------~~~CP~Cr~~~~~~~~~  173 (184)
                      .++.+|+||++.+.+    ++.++|||.||..||..|+..                ...||+||.++....+.
T Consensus        16 ~~~~~CpICld~~~d----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv   84 (193)
T PLN03208         16 GGDFDCNICLDQVRD----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV   84 (193)
T ss_pred             CCccCCccCCCcCCC----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence            367889999999876    666789999999999999842                34799999988664443

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

Probab=99.23  E-value=4e-12  Score=95.81  Aligned_cols=60  Identities=27%  Similarity=0.600  Sum_probs=49.3

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCcccccccccccccCCCCCCCC
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLCRGRVRRIAWPSVTTAD  179 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~~~~~~~~~~~~  179 (184)
                      .....+|.|||+.-++    ++++.|||+||.-||.+|+.   ..+.||+||..+...++..+.+..
T Consensus        44 ~~~~FdCNICLd~akd----PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD----PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCceeeeeeccccCC----CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence            4578899999999877    77777999999999999996   356799999999877766664443

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

Probab=99.20  E-value=9e-12  Score=90.18  Aligned_cols=54  Identities=33%  Similarity=0.787  Sum_probs=45.6

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      .+....|+|||+.+..  ++++.++|||+||..||+..++....||+||+.+....
T Consensus       128 ~~~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             cccccCCCceecchhh--ccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            3466889999999976  44456789999999999999999999999998776543

>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=99.19  E-value=1.3e-11  Score=69.03  Aligned_cols=38  Identities=45%  Similarity=1.168  Sum_probs=32.4

Q ss_pred             CcccccccccCCcce-eccCCCCcccHhhHHHHHhCCCccccc
Q 042206          122 CVICLGEFRDGDECK-VRSKCNHIFHQTCIDDWLDDHSTCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~-~~~~C~H~Fh~~Ci~~w~~~~~~CP~C  163 (184)
                      |+||++.+.+    + +.++|||.||..|+..|++.+..||+|
T Consensus         1 C~iC~~~~~~----~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD----PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS----EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC----cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            7899999887    5 466899999999999999989999987

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

Probab=99.17  E-value=1.6e-11  Score=79.01  Aligned_cols=51  Identities=39%  Similarity=0.972  Sum_probs=40.1

Q ss_pred             CCccCcccccccc--------cCCccee-ccCCCCcccHhhHHHHHhC---CCcccccccccc
Q 042206          118 KTSTCVICLGEFR--------DGDECKV-RSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~--------~~~~~~~-~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~  168 (184)
                      +++.|.||...|.        +++..++ .-.|+|.||..||.+|+..   +..||+||++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            4778999999986        4444433 3369999999999999974   568999999764

>PHA02926 zinc finger-like protein; Provisional

Probab=99.13  E-value=3.3e-11  Score=90.39  Aligned_cols=58  Identities=34%  Similarity=0.743  Sum_probs=43.1

Q ss_pred             CCCccCccccccccc-----CCcceeccCCCCcccHhhHHHHHhCC------CcccccccccccccCCC
Q 042206          117 NKTSTCVICLGEFRD-----GDECKVRSKCNHIFHQTCIDDWLDDH------STCPLCRGRVRRIAWPS  174 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~-----~~~~~~~~~C~H~Fh~~Ci~~w~~~~------~~CP~Cr~~~~~~~~~~  174 (184)
                      +.+.+|+||++..-.     +..-.++++|+|.||..||..|.+.+      .+||+||..+....-..
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr  236 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK  236 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence            366789999998632     11234577899999999999999742      45999999886554433

>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=99.12  E-value=4e-11  Score=68.56  Aligned_cols=44  Identities=50%  Similarity=1.185  Sum_probs=35.6

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRV  167 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~  167 (184)
                      +|+||++.+..  . ...++|||.||..|+..|+.. +..||.||..+
T Consensus         1 ~C~iC~~~~~~--~-~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE--P-VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC--c-eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            49999999822  2 334469999999999999986 77899998753

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

Probab=99.07  E-value=9.1e-11  Score=66.50  Aligned_cols=38  Identities=37%  Similarity=0.960  Sum_probs=29.8

Q ss_pred             CcccccccccCCcceeccCCCCcccHhhHHHHHhCC----Cccccc
Q 042206          122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----STCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----~~CP~C  163 (184)
                      |+||++.|.+    ++.++|||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~----Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD----PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS----EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC----ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999    8888999999999999999643    369987

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

Probab=99.01  E-value=8.3e-10  Score=95.33  Aligned_cols=58  Identities=33%  Similarity=0.811  Sum_probs=46.5

Q ss_pred             CCCccCcccccccccCCc--ceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206          117 NKTSTCVICLGEFRDGDE--CKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV  175 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~--~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~  175 (184)
                      ..+..|.||++.+..+..  .+.+ +|+|+||..|+..|+++..+||.||..+........
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~~~  348 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLWQI  348 (543)
T ss_pred             hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhhccccccc
Confidence            357889999999988654  3334 699999999999999999999999996655444333

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.01  E-value=2.4e-10  Score=65.55  Aligned_cols=44  Identities=27%  Similarity=0.838  Sum_probs=36.4

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG  165 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~  165 (184)
                      .|.+|++.|.. +..+.+++|||.||..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~-~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSE-ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccC-CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            48999999933 334666689999999999999867788999985

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

Probab=98.98  E-value=3.8e-10  Score=63.69  Aligned_cols=38  Identities=45%  Similarity=1.141  Sum_probs=32.9

Q ss_pred             CcccccccccCCccee-ccCCCCcccHhhHHHHHh--CCCccccc
Q 042206          122 CVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLD--DHSTCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~--~~~~CP~C  163 (184)
                      |+||++.+..    +. +++|||.||..|+..|++  ....||.|
T Consensus         1 C~iC~~~~~~----~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED----PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS----EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC----CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            7899999887    34 668999999999999998  66789987

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 ....

>smart00504 Ubox Modified RING finger domain

Probab=98.91  E-value=1.1e-09  Score=67.59  Aligned_cols=46  Identities=24%  Similarity=0.450  Sum_probs=40.7

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ..|+||.+.+.+    ++..+|||.|+..||..|++.+.+||+|+.++..
T Consensus         2 ~~Cpi~~~~~~~----Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKD----PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCC----CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            469999999987    6777899999999999999888999999988743

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

>smart00184 RING Ring finger

Probab=98.88  E-value=1.3e-09  Score=60.11  Aligned_cols=38  Identities=47%  Similarity=1.209  Sum_probs=30.9

Q ss_pred             CcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccc
Q 042206          122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~C  163 (184)
                      |+||++....    ...++|||.||..|+..|+. .+..||.|
T Consensus         1 C~iC~~~~~~----~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD----PVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC----cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899988433    44557999999999999997 66779987

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.88  E-value=1.3e-09  Score=89.73  Aligned_cols=53  Identities=30%  Similarity=0.679  Sum_probs=45.0

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      +..+....|+||++.|..    ++.++|||.||..||..|+.....||.||..+...
T Consensus        21 ~~Le~~l~C~IC~d~~~~----PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDV----PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccccCCCcCchhhhC----ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            334577899999999977    66778999999999999998888999999987543

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

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

Probab=98.85  E-value=1.9e-09  Score=67.74  Aligned_cols=47  Identities=45%  Similarity=0.901  Sum_probs=35.3

Q ss_pred             CcccccccccCCccee-ccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          122 CVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      |+-|...+.++++.++ .-.|.|.||..||.+|+..+..||++|++..
T Consensus        34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            3333444446666554 2259999999999999999999999998763

>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=1e-09  Score=68.37  Aligned_cols=51  Identities=39%  Similarity=0.923  Sum_probs=40.2

Q ss_pred             CCccCcccccccc--------cCCcceecc-CCCCcccHhhHHHHHh---CCCcccccccccc
Q 042206          118 KTSTCVICLGEFR--------DGDECKVRS-KCNHIFHQTCIDDWLD---DHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~--------~~~~~~~~~-~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~  168 (184)
                      .++.|.||.-.|.        ++|+.+.+. .|.|.||..||.+|+.   .+..||+||+.+.
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            4558999999885        566666532 5999999999999996   3557999999763

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

Probab=98.79  E-value=7.3e-09  Score=79.75  Aligned_cols=62  Identities=27%  Similarity=0.566  Sum_probs=46.1

Q ss_pred             CcccCCCCccCcccccccccCC-------cceeccCCCCcccHhhHHHHH--hCCCcccccccccccccCCC
Q 042206          112 NDDAVNKTSTCVICLGEFRDGD-------ECKVRSKCNHIFHQTCIDDWL--DDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       112 ~~~~~~~~~~C~ICl~~~~~~~-------~~~~~~~C~H~Fh~~Ci~~w~--~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      ......++..|++|-..+....       +...+ .|+|+||..||+-|-  .++.+||.|+..+.....++
T Consensus       217 lPtkhl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfs  287 (328)
T KOG1734|consen  217 LPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFS  287 (328)
T ss_pred             CCCCCCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhHhhhcc
Confidence            3444457888999998775433       33445 599999999999995  57889999998876554443

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

Probab=98.78  E-value=4.5e-09  Score=59.59  Aligned_cols=34  Identities=24%  Similarity=0.659  Sum_probs=23.3

Q ss_pred             CcccccccccCCcceeccCCCCcccHhhHHHHHhC
Q 042206          122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD  156 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~  156 (184)
                      |+||.+ |.+++..++.++|||.|+.+|+..++++
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~   34 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK   34 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence            899999 8887877887789999999999999974

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

Probab=98.75  E-value=5.1e-09  Score=83.76  Aligned_cols=60  Identities=30%  Similarity=0.627  Sum_probs=49.5

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccccCCCCCCCC
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTAD  179 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~  179 (184)
                      .+...+|.||+++-.+    .+++||+|. .|..|.+...-+.+.||+||+++.+.....+...+
T Consensus       287 ~~~gkeCVIClse~rd----t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~~~~~~  347 (349)
T KOG4265|consen  287 SESGKECVICLSESRD----TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIYVNKED  347 (349)
T ss_pred             ccCCCeeEEEecCCcc----eEEecchhhehhHhHHHHHHHhhcCCCccccchHhhheecccccc
Confidence            3568899999999888    666789997 99999998877889999999999876665555444

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

Probab=98.74  E-value=4.6e-09  Score=80.76  Aligned_cols=52  Identities=29%  Similarity=0.652  Sum_probs=43.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHH-HHhCCCc-ccccccccccccC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDD-WLDDHST-CPLCRGRVRRIAW  172 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~-w~~~~~~-CP~Cr~~~~~~~~  172 (184)
                      ..+..|+||++....    +..++|||+||..||.. |-+++.. ||+||+.......
T Consensus       213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCC----cccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            468899999999877    77778999999999999 9876665 9999998765443

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

Probab=98.64  E-value=7.9e-09  Score=65.14  Aligned_cols=50  Identities=26%  Similarity=0.664  Sum_probs=23.8

Q ss_pred             CccCcccccccccCCccee--c--cCCCCcccHhhHHHHHhC---C--------Ccccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKV--R--SKCNHIFHQTCIDDWLDD---H--------STCPLCRGRVR  168 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~--~--~~C~H~Fh~~Ci~~w~~~---~--------~~CP~Cr~~~~  168 (184)
                      +.+|.||+.....++.++.  .  ..|++.||..||.+||..   .        ..||.|++++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            3579999998774443333  2  268899999999999962   1        25999999874

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

Probab=98.64  E-value=8e-09  Score=81.94  Aligned_cols=52  Identities=27%  Similarity=0.577  Sum_probs=45.6

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~  173 (184)
                      .-..|.||.+.|..    ++++||+|.||..||...|..+..||.|+.++.+..+.
T Consensus        22 ~lLRC~IC~eyf~i----p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   22 DLLRCGICFEYFNI----PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR   73 (442)
T ss_pred             HHHHHhHHHHHhcC----ceeccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence            55689999999988    88889999999999999999999999999887665443

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

Probab=98.61  E-value=1e-08  Score=79.82  Aligned_cols=55  Identities=24%  Similarity=0.509  Sum_probs=48.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVT  176 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~  176 (184)
                      .-..|-||-+.+..    +..++|||.||..||...|..+..||+||.+..+..++.-.
T Consensus        24 s~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s   78 (391)
T COG5432          24 SMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSS   78 (391)
T ss_pred             hHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccch
Confidence            45679999999988    88889999999999999999999999999988777666543

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

Probab=98.59  E-value=2.6e-08  Score=83.04  Aligned_cols=53  Identities=32%  Similarity=0.687  Sum_probs=42.1

Q ss_pred             CccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-----CCcccccccccccccCCCC
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-----HSTCPLCRGRVRRIAWPSV  175 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~CP~Cr~~~~~~~~~~~  175 (184)
                      +..|+||++....    +..+.|||+||..||.+++..     ...||+||..+....+..+
T Consensus       186 ~~~CPICL~~~~~----p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv  243 (513)
T KOG2164|consen  186 DMQCPICLEPPSV----PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV  243 (513)
T ss_pred             CCcCCcccCCCCc----ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence            6789999999876    667779999999999988753     4579999988766444433

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

Probab=98.57  E-value=2e-08  Score=83.12  Aligned_cols=53  Identities=34%  Similarity=0.918  Sum_probs=40.6

Q ss_pred             CCCccCcccccccccC---Ccc----------eeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDG---DEC----------KVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~---~~~----------~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~  169 (184)
                      +....|+||+..+.--   ..+          ..++||.|+||..|+.+|+. .+-.||.||.++..
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4667899999887521   111          23568999999999999998 55599999998753

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

Probab=98.53  E-value=2.3e-08  Score=88.37  Aligned_cols=60  Identities=27%  Similarity=0.690  Sum_probs=43.9

Q ss_pred             CCCCcccCCCCccCcccccccccCC-cce--eccCCCCcccHhhHHHHHh--CCCcccccccccc
Q 042206          109 SHQNDDAVNKTSTCVICLGEFRDGD-ECK--VRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVR  168 (184)
Q Consensus       109 ~~~~~~~~~~~~~C~ICl~~~~~~~-~~~--~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~  168 (184)
                      .+......+...+|+||+..+..-| .++  .++.|+|.||..|+..|++  .+++||+||..++
T Consensus      1459 kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1459 KKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             HhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3444555678999999998886222 111  1335889999999999997  4678999997653

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

Probab=98.49  E-value=3.7e-08  Score=57.47  Aligned_cols=49  Identities=27%  Similarity=0.624  Sum_probs=38.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHh-CCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLD-DHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~  170 (184)
                      ...+|.||++.-.+    .++.-|||. +|..|-.+.++ .+..||+||.++...
T Consensus         6 ~~dECTICye~pvd----sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dv   56 (62)
T KOG4172|consen    6 WSDECTICYEHPVD----SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDV   56 (62)
T ss_pred             cccceeeeccCcch----HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHH
Confidence            45789999998766    455569997 99999776554 788999999988653

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

Probab=98.47  E-value=1.3e-07  Score=60.10  Aligned_cols=49  Identities=24%  Similarity=0.434  Sum_probs=39.0

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~~  170 (184)
                      +...|+|+.+.|.+    ++.+++||.|...||..|+.. +.+||+|+.++...
T Consensus         3 ~~f~CpIt~~lM~d----PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMRD----PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-SS----EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhhC----ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            45689999999999    888899999999999999987 89999999888653

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.45  E-value=1.7e-07  Score=74.53  Aligned_cols=55  Identities=20%  Similarity=0.497  Sum_probs=40.1

Q ss_pred             CCccCcccccc--cccCCcceeccCCCCcccHhhHHHHH-hCCCcccccccccccccCC
Q 042206          118 KTSTCVICLGE--FRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       118 ~~~~C~ICl~~--~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~~~~~  173 (184)
                      ++..|++|...  +.+.-.+.+. +|||.||..|++..+ .....||.|+..+....+.
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr   59 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR   59 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence            34689999995  3333233334 699999999999966 4556899999988765543

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).

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

Probab=98.43  E-value=1.7e-07  Score=54.76  Aligned_cols=42  Identities=36%  Similarity=0.951  Sum_probs=30.4

Q ss_pred             cCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCcccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCR  164 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr  164 (184)
                      .|.||++...+++. . ..||.     |.+|..|+.+|+.  .+.+||+|+
T Consensus         1 ~CrIC~~~~~~~~~-l-~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDP-L-VSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCe-e-EeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            38999983333333 3 34685     8999999999995  455899994

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

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

Probab=98.35  E-value=2.1e-07  Score=61.47  Aligned_cols=50  Identities=32%  Similarity=0.729  Sum_probs=36.8

Q ss_pred             CCccCcccccccc------------cCCc-ceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206          118 KTSTCVICLGEFR------------DGDE-CKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~------------~~~~-~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~  167 (184)
                      ....|+||..-+-            ..++ ....-.|.|.||..||.+|++.+..||+|.++.
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            5567999875431            1222 223346999999999999999999999997754

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

Probab=98.26  E-value=3.4e-07  Score=73.99  Aligned_cols=49  Identities=31%  Similarity=0.897  Sum_probs=35.1

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHHhC---CCcccccccccc
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVR  168 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~  168 (184)
                      ..|.||.+-+....++...-.|||+||..|+.+|+..   +..||+||-.+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            4799995544444444443349999999999999973   358999984443

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

Probab=98.21  E-value=6.5e-07  Score=73.63  Aligned_cols=53  Identities=30%  Similarity=0.751  Sum_probs=40.7

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      ....+..+|++||+.+.+.-.......|.|.||..|+..|.  ..+||+||....
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            33457789999999997654323333599999999999997  478999997554

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

Probab=98.13  E-value=9.5e-07  Score=69.32  Aligned_cols=52  Identities=29%  Similarity=0.488  Sum_probs=41.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~  173 (184)
                      ...+|+||+....-    ++.++|+|.||..||+--.. ...+|++||.++.+...-
T Consensus         6 ~~~eC~IC~nt~n~----Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~   58 (324)
T KOG0824|consen    6 KKKECLICYNTGNC----PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF   58 (324)
T ss_pred             cCCcceeeeccCCc----CccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence            45679999988755    67778999999999997665 456799999999775443

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

Probab=98.10  E-value=1.2e-06  Score=69.62  Aligned_cols=44  Identities=36%  Similarity=0.835  Sum_probs=38.5

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR  164 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr  164 (184)
                      .+...|+||++.|...    ..++|+|.||..|+..++.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            4677899999999984    5668999999999999988667899999

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

Probab=98.01  E-value=1.2e-06  Score=53.35  Aligned_cols=43  Identities=35%  Similarity=0.882  Sum_probs=23.2

Q ss_pred             CccCcccccccccCCccee-ccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV  167 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~  167 (184)
                      -..|++|.+.+..    ++ +..|.|.||+.|+..-+.  ..||+|+.+.
T Consensus         7 lLrCs~C~~~l~~----pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa   50 (65)
T PF14835_consen    7 LLRCSICFDILKE----PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA   50 (65)
T ss_dssp             TTS-SSS-S--SS-----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred             hcCCcHHHHHhcC----CceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence            4579999999987    54 457999999999988554  4599998875

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

Probab=98.00  E-value=3e-06  Score=68.81  Aligned_cols=53  Identities=26%  Similarity=0.708  Sum_probs=40.7

Q ss_pred             CCCccCcccccccccCC----cceeccCCCCcccHhhHHHHH--hC-----CCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWL--DD-----HSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~--~~-----~~~CP~Cr~~~~~  169 (184)
                      ..+.+|.||++....--    ...++++|.|.||..||..|-  .+     .+.||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            46789999999875522    123457899999999999998  34     5789999986644

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

Probab=97.99  E-value=1.6e-06  Score=75.70  Aligned_cols=60  Identities=25%  Similarity=0.478  Sum_probs=45.9

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA  178 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~  178 (184)
                      ....|++|+..+.++...... +|+|.||..|+..|-+...+||+||..+..+......+.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~  181 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGI  181 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccc
Confidence            345677777777654433333 699999999999999999999999998877766655544

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

Probab=97.94  E-value=5.8e-06  Score=67.44  Aligned_cols=49  Identities=37%  Similarity=0.956  Sum_probs=38.0

Q ss_pred             CCccCcccccccccCC-cceeccCCCCcccHhhHHHHHhC--CCcccccccc
Q 042206          118 KTSTCVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLDD--HSTCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~Cr~~  166 (184)
                      ....|+||++.+...- ...+.+.|||.|..+||..|+.+  ...||.|...
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            4568999999997544 33445679999999999999952  4569999653

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

Probab=97.93  E-value=3.1e-06  Score=73.91  Aligned_cols=48  Identities=25%  Similarity=0.753  Sum_probs=40.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~  169 (184)
                      .-..|+.|-....+    .+.++|+|+||..|+..-+. +...||.|...|-.
T Consensus       642 ~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             hceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            55679999988877    67778999999999999885 77899999887643

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

Probab=97.93  E-value=1.7e-06  Score=69.23  Aligned_cols=53  Identities=26%  Similarity=0.545  Sum_probs=42.0

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~  172 (184)
                      ..+..|+|||+.+...   .....|.|.||.+||..-++ .++.||.||+.+.....
T Consensus        41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs   94 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS   94 (381)
T ss_pred             hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence            3667899999998763   33447999999999988775 67899999998865443

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

Probab=97.77  E-value=1.7e-05  Score=65.64  Aligned_cols=51  Identities=29%  Similarity=0.729  Sum_probs=45.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ....+.+|.+|+..+..    ++.+||||.||..||.+-+.....||.||..+.+
T Consensus        80 ~~~sef~c~vc~~~l~~----pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYP----PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCC----CccccccccccHHHHHHHhccCCCCccccccccc
Confidence            33688899999999888    7777999999999999988888899999998865

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

Probab=97.64  E-value=1.8e-05  Score=62.17  Aligned_cols=54  Identities=31%  Similarity=0.813  Sum_probs=41.7

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----------------------CCCcccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----------------------DHSTCPLCRGRVR  168 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----------------------~~~~CP~Cr~~~~  168 (184)
                      +..-....|.|||.-|..++...+. +|.|.||..|+.+++.                       ....||+||..+.
T Consensus       110 ~nn~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  110 ENNHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             cCCCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            3344677899999999988765554 6999999999988864                       0235999998774

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

Probab=97.53  E-value=3.9e-05  Score=62.41  Aligned_cols=50  Identities=28%  Similarity=0.622  Sum_probs=38.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC--Cccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH--STCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~CP~Cr~~~  167 (184)
                      -+..|..|-+.+...++--.-+||.|+||..|+...+.++  .+||.||+-.
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            4567999999886655433344799999999999999754  4799999533

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

Probab=97.52  E-value=3.8e-05  Score=62.70  Aligned_cols=50  Identities=28%  Similarity=0.854  Sum_probs=38.8

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh--CCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~  171 (184)
                      ....|-||.+.   +.++.+. ||||+.|..|+..|-.  ...+||.||..+....
T Consensus       368 TFeLCKICaen---dKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  368 TFELCKICAEN---DKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             hHHHHHHhhcc---CCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            44569999876   3445666 6999999999999984  3678999999886543

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

Probab=97.51  E-value=9.9e-05  Score=59.41  Aligned_cols=53  Identities=23%  Similarity=0.464  Sum_probs=43.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~  173 (184)
                      .++..|+||+-.-.+    .+..||+|.-|+.||.+.+-+.+.|=.|+..+......
T Consensus       420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ld  472 (489)
T KOG4692|consen  420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVILD  472 (489)
T ss_pred             cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceeeehhcc
Confidence            588899999976544    45668999999999999999999999999987654433

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

Probab=97.46  E-value=6.8e-05  Score=62.48  Aligned_cols=52  Identities=31%  Similarity=0.817  Sum_probs=43.6

Q ss_pred             CCCCccCcccccccccCCcceec-cCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      ..++..|++|...+.+    +.. +.|||.||..|+..|+..+..||.|+..+....
T Consensus        18 ~~~~l~C~~C~~vl~~----p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRD----PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccC----CCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            4467889999999988    555 379999999999999999999999988765433

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

Probab=97.26  E-value=0.00025  Score=53.80  Aligned_cols=49  Identities=24%  Similarity=0.722  Sum_probs=40.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--------CCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--------HSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--------~~~CP~Cr~~~~  168 (184)
                      -...|..|-..+.++|.++..  |-|+||.+|+.+|-.+        .-.||.|..++.
T Consensus        49 Y~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            445699999999999988853  9999999999999753        346999988773

>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=97.25  E-value=0.00015  Score=50.87  Aligned_cols=40  Identities=20%  Similarity=0.502  Sum_probs=30.8

Q ss_pred             CCccCcccccccccCCcceeccCCC------CcccHhhHHHHHhCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCN------HIFHQTCIDDWLDDHS  158 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~------H~Fh~~Ci~~w~~~~~  158 (184)
                      ...+|+||++.+..++.+...+ ||      |.||.+|+.+|-+.++
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhcc
Confidence            3568999999999855555554 66      9999999999954333

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.

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

Probab=97.22  E-value=0.00019  Score=53.36  Aligned_cols=47  Identities=21%  Similarity=0.494  Sum_probs=40.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      -...|.||-.+|..    ++.+.|||.||..|...-++....|-+|-+...
T Consensus       195 IPF~C~iCKkdy~s----pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         195 IPFLCGICKKDYES----PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             Cceeehhchhhccc----hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            44579999999998    788889999999999999999999999966543

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

Probab=97.15  E-value=0.00026  Score=42.63  Aligned_cols=41  Identities=32%  Similarity=0.732  Sum_probs=26.9

Q ss_pred             CCccCcccccccccCCcceec-cCCCCcccHhhHHHHHh--CCCcccc
Q 042206          118 KTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLD--DHSTCPL  162 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~--~~~~CP~  162 (184)
                      -...|+|.+..|.+    ++. ..|||.|-.+.|.+|++  ....||.
T Consensus        10 ~~~~CPiT~~~~~~----PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED----PVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS----EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC----CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            45679999999987    543 37999999999999994  3557997

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

Probab=97.13  E-value=0.00028  Score=40.75  Aligned_cols=40  Identities=28%  Similarity=0.920  Sum_probs=26.7

Q ss_pred             CcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccc
Q 042206          122 CVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~C  163 (184)
                      |-||++.-.+++  +...||+     -..|..|+.+|+.  .+.+|++|
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            678998877665  3334565     3689999999996  55678887

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

Probab=97.10  E-value=0.00021  Score=56.27  Aligned_cols=51  Identities=24%  Similarity=0.444  Sum_probs=43.1

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~  172 (184)
                      -...|-||...|..    ++.+.|+|.||..|...-+++...|++|-+......+
T Consensus       240 ~Pf~c~icr~~f~~----pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~  290 (313)
T KOG1813|consen  240 LPFKCFICRKYFYR----PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFN  290 (313)
T ss_pred             CCcccccccccccc----chhhcCCceeehhhhccccccCCcceecccccccccc
Confidence            44569999999988    7888999999999999989888999999877654433

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

Probab=97.05  E-value=0.00032  Score=59.38  Aligned_cols=50  Identities=28%  Similarity=0.745  Sum_probs=39.9

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----CCCccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----DHSTCPLCRGRV  167 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----~~~~CP~Cr~~~  167 (184)
                      +...+..+|.+|-+.-++    .+...|.|.||.-|+.++..     .+.+||.|-..+
T Consensus       531 ~enk~~~~C~lc~d~aed----~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAED----YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             ccccCceeecccCChhhh----hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            334477889999988766    66668999999999998875     457899997655

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

Probab=97.04  E-value=0.00053  Score=55.20  Aligned_cols=66  Identities=27%  Similarity=0.556  Sum_probs=49.2

Q ss_pred             CCcccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHH--HhCCCcccccccccccccCCCCCCCCC
Q 042206          111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDW--LDDHSTCPLCRGRVRRIAWPSVTTADD  180 (184)
Q Consensus       111 ~~~~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w--~~~~~~CP~Cr~~~~~~~~~~~~~~~~  180 (184)
                      ..++..++...|.||.+...-    .-++||+|..|.-|..+.  |..++.||+||.......+..-.++|.
T Consensus        53 SaddtDEen~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI  120 (493)
T COG5236          53 SADDTDEENMNCQICAGSTTY----SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADI  120 (493)
T ss_pred             cccccccccceeEEecCCceE----EEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcc
Confidence            344555677889999988765    345689999999997654  567899999999877776666555554

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

Probab=97.00  E-value=0.00021  Score=56.14  Aligned_cols=43  Identities=33%  Similarity=0.740  Sum_probs=34.6

Q ss_pred             CccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ...|+||++...+    .++++|||. -|..|-...    +.||+||+.+..
T Consensus       300 ~~LC~ICmDaP~D----CvfLeCGHmVtCt~CGkrm----~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD----CVFLECGHMVTCTKCGKRM----NECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc----eEEeecCcEEeehhhcccc----ccCchHHHHHHH
Confidence            6789999999877    677789996 788886543    489999997743

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

Probab=96.95  E-value=0.0005  Score=64.26  Aligned_cols=57  Identities=26%  Similarity=0.709  Sum_probs=41.7

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC----------Cccccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----------STCPLCRGRVRRIA  171 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----------~~CP~Cr~~~~~~~  171 (184)
                      ..+..+..|.||+.+--.......+ .|+|+||..|..+-+++.          -+||+|+.++..+.
T Consensus      3481 tkQD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred             hhcccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence            3456788999999876554443334 799999999998776532          26999998876543

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

Probab=96.94  E-value=0.00095  Score=38.46  Aligned_cols=45  Identities=27%  Similarity=0.645  Sum_probs=22.7

Q ss_pred             CcccccccccCC-cceeccCCCCcccHhhHHHHHh-CCCccccccccc
Q 042206          122 CVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRV  167 (184)
Q Consensus       122 C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~  167 (184)
                      |++|.+++...+ ...-. +||+..+..|...-+. .+..||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            788999994433 22223 5889999999988886 478999999875

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

Probab=96.92  E-value=0.0011  Score=51.84  Aligned_cols=52  Identities=27%  Similarity=0.473  Sum_probs=39.0

Q ss_pred             CCCCccCcccccccccCCccee-ccCCCCcccHhhHHHHHh--CCCccccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~  171 (184)
                      ...+.+|++|-+.-..    +. ..+|+|+||..|+..-+.  ...+||.|-.+..+..
T Consensus       236 ~t~~~~C~~Cg~~Pti----P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTI----PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             ccCCceeeccCCCCCC----CeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            3578899999988655    32 226999999999987664  3478999987765433

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.86  E-value=0.0011  Score=47.72  Aligned_cols=49  Identities=27%  Similarity=0.794  Sum_probs=35.0

Q ss_pred             CCCCccCcccccccccCCcceeccCCC--C---cccHhhHHHHHh--CCCccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCN--H---IFHQTCIDDWLD--DHSTCPLCRGRVRR  169 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~--H---~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~  169 (184)
                      ...+..|-||.++...  ..   .||.  .   .-|.+|+.+|+.  +..+|++|+.++.-
T Consensus         5 s~~~~~CRIC~~~~~~--~~---~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          5 SLMDKCCWICKDEYDV--VT---NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCCeeEecCCCCCC--cc---CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3467789999988542  22   2454  4   469999999995  45689999876643

>PHA02862 5L protein; Provisional

Probab=96.86  E-value=0.00071  Score=47.87  Aligned_cols=45  Identities=22%  Similarity=0.708  Sum_probs=33.4

Q ss_pred             ccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccc
Q 042206          120 STCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRR  169 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~  169 (184)
                      ..|-||.+.-.+  ..   .||.     ..-|.+|+.+|+.  ++..|++|+.++.-
T Consensus         3 diCWIC~~~~~e--~~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDE--RN---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCC--Cc---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            469999998533  22   2464     4589999999995  56789999987643

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

Probab=96.70  E-value=0.0041  Score=55.74  Aligned_cols=38  Identities=18%  Similarity=0.343  Sum_probs=28.3

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD  155 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~  155 (184)
                      .+.+..|.+|...+....  ...-+|||.||.+|+.+-..
T Consensus       814 ~ep~d~C~~C~~~ll~~p--F~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKP--FYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCc--ceeeeccchHHHHHHHHHHH
Confidence            457778999998876532  22337999999999987754

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

Probab=96.68  E-value=0.0063  Score=41.09  Aligned_cols=33  Identities=24%  Similarity=0.656  Sum_probs=25.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHH
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCID  151 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~  151 (184)
                      .++..|++|-..+..  ......||||+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence            467789999999976  333445799999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

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

Probab=96.65  E-value=0.00046  Score=55.18  Aligned_cols=50  Identities=30%  Similarity=0.714  Sum_probs=41.3

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      ......|.+|-..|.+...   ...|-|.||..||...+...++||.|...+-
T Consensus        12 ~n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih   61 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIH   61 (331)
T ss_pred             cccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence            3477789999999977432   3369999999999999999999999987653

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

Probab=96.65  E-value=0.00094  Score=59.38  Aligned_cols=52  Identities=27%  Similarity=0.735  Sum_probs=39.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC-------Ccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-------STCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-------~~CP~Cr~~~~  168 (184)
                      ....+|.||++.+...+.+--...|-|+||..||..|-+..       -.||.|.....
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            47789999999998766554444578999999999998631       24999985443

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

Probab=96.55  E-value=0.0029  Score=51.32  Aligned_cols=46  Identities=33%  Similarity=0.732  Sum_probs=32.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .....|.||+++..+    .+..||||.=|  |..- .+....||+||+.+..
T Consensus       303 ~~p~lcVVcl~e~~~----~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS----AVFVPCGHVCC--CTLC-SKHLPQCPVCRQRIRL  348 (355)
T ss_pred             CCCCceEEecCCccc----eeeecCCcEEE--chHH-HhhCCCCchhHHHHHH
Confidence            456679999999877    55568999844  5433 2334569999987753

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.54  E-value=0.0024  Score=50.47  Aligned_cols=63  Identities=13%  Similarity=0.311  Sum_probs=47.8

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA  178 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~  178 (184)
                      .......|+|...+|........+-+|||+|...++...- ....||+|-.++....+..+.+.
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~  171 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPP  171 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCC
Confidence            3457789999999996555555566899999999999973 45679999998876555544443

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

Probab=96.49  E-value=0.0036  Score=55.83  Aligned_cols=44  Identities=32%  Similarity=0.760  Sum_probs=33.0

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~  167 (184)
                      ....|..|-..+.-.   .+.-.|||.||.+|+.   .+...||-|+..+
T Consensus       839 q~skCs~C~~~LdlP---~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP---FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccc---eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            446899998887652   2233599999999998   4567899998743

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.23  E-value=0.0033  Score=48.48  Aligned_cols=57  Identities=12%  Similarity=0.325  Sum_probs=50.0

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      .-..|++|.+.+.+.-.+.++.+|||+|+.+|....++....||+|-.++.+..+..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence            567799999999998888888899999999999999999999999988887655543

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

Probab=96.21  E-value=0.0027  Score=50.18  Aligned_cols=45  Identities=29%  Similarity=0.607  Sum_probs=39.9

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG  165 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~  165 (184)
                      .|+||.+.+......+..++|||..|..|+...-..+-+||+|.+
T Consensus       160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            399999999888877777789999999999988876799999977

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

Probab=96.18  E-value=0.019  Score=46.05  Aligned_cols=47  Identities=17%  Similarity=0.398  Sum_probs=36.2

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGR  166 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~  166 (184)
                      .+...|++|+..-.+.-.   +.--|-+||..|+...+.+.+.||+=-.+
T Consensus       298 ~~~~~CpvClk~r~Nptv---l~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTV---LEVSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             CccccChhHHhccCCCce---EEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            466789999988766322   22358999999999999999999975443

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

Probab=96.11  E-value=0.0036  Score=50.25  Aligned_cols=49  Identities=29%  Similarity=0.670  Sum_probs=39.4

Q ss_pred             CccCcccccccccC--CcceeccCCCCcccHhhHHHHHhC-CCccccccccc
Q 042206          119 TSTCVICLGEFRDG--DECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRV  167 (184)
Q Consensus       119 ~~~C~ICl~~~~~~--~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~  167 (184)
                      ...|-||-++|..+  +.++..+.|||.|+..|+...+.. ...||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            35799999999877  456666689999999999887754 44699999874

>PHA03096 p28-like protein; Provisional

Probab=96.07  E-value=0.0033  Score=50.15  Aligned_cols=36  Identities=28%  Similarity=0.585  Sum_probs=28.0

Q ss_pred             ccCcccccccccCC----cceeccCCCCcccHhhHHHHHh
Q 042206          120 STCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWLD  155 (184)
Q Consensus       120 ~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~~  155 (184)
                      ..|.||++......    .-.++..|.|.||..|+..|..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~  218 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT  218 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence            57999999876421    2234668999999999999975

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

Probab=96.01  E-value=0.014  Score=48.15  Aligned_cols=37  Identities=30%  Similarity=0.779  Sum_probs=29.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD  155 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~  155 (184)
                      ....|.||+++. .|+.....+||+|+||..|+..++.
T Consensus       183 slf~C~ICf~e~-~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQ-MGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhh-cCcceeeecccchHHHHHHHHHHHH
Confidence            566799999886 4444455668999999999999985

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

Probab=95.98  E-value=0.0047  Score=34.86  Aligned_cols=41  Identities=32%  Similarity=0.878  Sum_probs=23.4

Q ss_pred             CcccccccccCCcceeccCCCCcccHhhHHHHHhCCC--ccccc
Q 042206          122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS--TCPLC  163 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~--~CP~C  163 (184)
                      |.+|-+....|...... .|+=.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777777776554433 4888999999999997554  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.97  E-value=0.0041  Score=45.65  Aligned_cols=30  Identities=37%  Similarity=1.053  Sum_probs=24.1

Q ss_pred             CCCCcccHhhHHHHHhC-----C------Cccccccccccc
Q 042206          140 KCNHIFHQTCIDDWLDD-----H------STCPLCRGRVRR  169 (184)
Q Consensus       140 ~C~H~Fh~~Ci~~w~~~-----~------~~CP~Cr~~~~~  169 (184)
                      .||.-||.-|+..|++.     +      ..||+|..++.-
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            59999999999999972     1      259999887643

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

Probab=95.87  E-value=0.00067  Score=55.37  Aligned_cols=53  Identities=23%  Similarity=0.597  Sum_probs=44.0

Q ss_pred             CCCccCcccccccccC-CcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDG-DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      .-...|+||...+..+ +++... .|||.+|.+|+..|+.....||.||+.+...
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            3566799999999887 555555 4999999999999998888999999887553

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.86  E-value=0.0067  Score=48.91  Aligned_cols=54  Identities=19%  Similarity=0.431  Sum_probs=39.1

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~  171 (184)
                      ++..|+.|++++...|+-..--+||-..|..|..-.-+ -+..||-||+...+..
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            44459999999988776554346998888888554433 3678999999876543

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

Probab=95.74  E-value=0.0033  Score=48.33  Aligned_cols=48  Identities=27%  Similarity=0.630  Sum_probs=32.3

Q ss_pred             CcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206          122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~  173 (184)
                      |.-|..--. ++... ++.|+|+||..|...-..  ..||+||+++..+.+.
T Consensus         6 Cn~C~~~~~-~~~f~-LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~   53 (233)
T KOG4739|consen    6 CNKCFRFPS-QDPFF-LTACRHVFCEPCLKASSP--DVCPLCKKSIRIIQLN   53 (233)
T ss_pred             eccccccCC-CCcee-eeechhhhhhhhcccCCc--cccccccceeeeeecc
Confidence            555554433 45544 447999999999865432  3899999987655443

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

Probab=95.68  E-value=0.033  Score=45.78  Aligned_cols=70  Identities=21%  Similarity=0.618  Sum_probs=42.0

Q ss_pred             HHHHHhhhccCCCCcccCCCCccCccccccccc-------------CC------cceeccCCCCcccHhhHHHHHhC---
Q 042206           99 AFKRDIINNKSHQNDDAVNKTSTCVICLGEFRD-------------GD------ECKVRSKCNHIFHQTCIDDWLDD---  156 (184)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~-------------~~------~~~~~~~C~H~Fh~~Ci~~w~~~---  156 (184)
                      .++..+.....-......++.+.|--|+..-.+             |.      .+.... |...+|.+|+-+|+..   
T Consensus       251 ~F~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~-CRPmWC~~Cm~kwFasrQd  329 (358)
T PF10272_consen  251 AFKEQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCY-CRPMWCLECMGKWFASRQD  329 (358)
T ss_pred             HHHHHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCcccc-ccchHHHHHHHHHhhhcCC
Confidence            334444444444444344577788888865421             10      111222 5678899999999842   


Q ss_pred             ----------CCccccccccccc
Q 042206          157 ----------HSTCPLCRGRVRR  169 (184)
Q Consensus       157 ----------~~~CP~Cr~~~~~  169 (184)
                                +..||.||+.+.-
T Consensus       330 ~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  330 QQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             CCChhhhhcCCCCCCCCccccee
Confidence                      2359999998754

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

>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=95.49  E-value=0.01  Score=42.79  Aligned_cols=52  Identities=31%  Similarity=0.695  Sum_probs=35.6

Q ss_pred             CCccCcccccccccCCcceeccC------------CCC-cccHhhHHHHHhC----------------------------
Q 042206          118 KTSTCVICLGEFRDGDECKVRSK------------CNH-IFHQTCIDDWLDD----------------------------  156 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~------------C~H-~Fh~~Ci~~w~~~----------------------------  156 (184)
                      ++..|+|||+--.+    .+++-            |+- .-|..|+++.-+.                            
T Consensus         1 ed~~CpICme~PHN----AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (162)
T PF07800_consen    1 EDVTCPICMEHPHN----AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQ   76 (162)
T ss_pred             CCccCceeccCCCc----eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccc
Confidence            35689999998765    33332            443 3589999988641                            


Q ss_pred             ---CCcccccccccccccCC
Q 042206          157 ---HSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       157 ---~~~CP~Cr~~~~~~~~~  173 (184)
                         +-.||+||..+..+++.
T Consensus        77 ~~~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   77 EQPELACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccccccCccccCceeceEEc
Confidence               12499999998776553

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.

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

Probab=95.04  E-value=0.0089  Score=53.17  Aligned_cols=55  Identities=24%  Similarity=0.581  Sum_probs=40.8

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--CCcccccccccccccCCCCCCCC
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--HSTCPLCRGRVRRIAWPSVTTAD  179 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~~~~~~~  179 (184)
                      ..|.+|++ ..   . ....+|+|.||..|+..-+..  ...||.||..+....+.+....+
T Consensus       455 ~~c~ic~~-~~---~-~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~  511 (674)
T KOG1001|consen  455 HWCHICCD-LD---S-FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLP  511 (674)
T ss_pred             cccccccc-cc---c-ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhccccc
Confidence            78999999 22   2 344469999999999887753  33699999998887766654433

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.97  E-value=0.011  Score=34.93  Aligned_cols=44  Identities=20%  Similarity=0.525  Sum_probs=30.2

Q ss_pred             CccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      ...|..|...-..    ...++|||+.+..|..-  .+-+-||+|-+++.
T Consensus         7 ~~~~~~~~~~~~~----~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~   50 (55)
T PF14447_consen    7 EQPCVFCGFVGTK----GTVLPCGHLICDNCFPG--ERYNGCPFCGTPFE   50 (55)
T ss_pred             ceeEEEccccccc----cccccccceeeccccCh--hhccCCCCCCCccc
Confidence            3445555544333    45568999999999765  45678999988764

>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=94.91  E-value=0.01  Score=33.81  Aligned_cols=31  Identities=26%  Similarity=0.682  Sum_probs=22.8

Q ss_pred             cCCC-CcccHhhHHHHHhCCCccccccccccc
Q 042206          139 SKCN-HIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       139 ~~C~-H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ..|. |..|..|+...+.+...||+|..+++.
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            3586 999999999999999999999998854

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.

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

Probab=94.64  E-value=0.019  Score=50.86  Aligned_cols=23  Identities=30%  Similarity=1.000  Sum_probs=21.3

Q ss_pred             CCCCcccHhhHHHHHhCCCcccc
Q 042206          140 KCNHIFHQTCIDDWLDDHSTCPL  162 (184)
Q Consensus       140 ~C~H~Fh~~Ci~~w~~~~~~CP~  162 (184)
                      .|+|+.|.+|...|++....||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            59999999999999999999985

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

Probab=94.55  E-value=0.043  Score=43.63  Aligned_cols=43  Identities=30%  Similarity=0.677  Sum_probs=33.0

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHH-hCCCccccccc
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRG  165 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~  165 (184)
                      ..|+.|-..+.+.-+   .+-|+|.||.+||..-| .....||.|.+
T Consensus       275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCccc
Confidence            679999988877322   22589999999999766 56788999943

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

Probab=94.46  E-value=0.014  Score=42.26  Aligned_cols=30  Identities=33%  Similarity=0.780  Sum_probs=26.1

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccH
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQ  147 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~  147 (184)
                      .+..+|.|||+++..++.+..+ ||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARL-PCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARL-PCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence            4677999999999999998877 59988886

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.46  E-value=0.05  Score=32.12  Aligned_cols=41  Identities=27%  Similarity=0.708  Sum_probs=33.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPL  162 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~  162 (184)
                      ....|.+|-+.|.+++++.+.+.||--+|.+|-.+    ...|-.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            45679999999999999999999999999999543    345544

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

Probab=94.40  E-value=0.02  Score=46.06  Aligned_cols=46  Identities=20%  Similarity=0.556  Sum_probs=37.2

Q ss_pred             CCCCccCcccccccccCCcceeccCC--CCcccHhhHHHHHhCCCccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKC--NHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C--~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ..+-.+|++|.+.+..    ++. .|  ||+-|..|-.   +..+.||.||.++..
T Consensus        45 ~~~lleCPvC~~~l~~----Pi~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSP----PIF-QCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             chhhccCchhhccCcc----cce-ecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            4477899999999988    666 48  6999999975   346789999988763

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

Probab=92.86  E-value=0.15  Score=45.93  Aligned_cols=53  Identities=21%  Similarity=0.568  Sum_probs=39.0

Q ss_pred             CCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~  171 (184)
                      +++..|-||..+=..++.+.-  ||+     ...|.+|+.+|+.  ....|-+|..++.=..
T Consensus        10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            456789999988777666443  454     4589999999996  4456999987664433

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.83  E-value=0.051  Score=43.06  Aligned_cols=32  Identities=19%  Similarity=0.568  Sum_probs=24.8

Q ss_pred             CCCcccHhhHHHHHh-------------CCCcccccccccccccC
Q 042206          141 CNHIFHQTCIDDWLD-------------DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       141 C~H~Fh~~Ci~~w~~-------------~~~~CP~Cr~~~~~~~~  172 (184)
                      |....|.+|+-+|+.             ++.+||.||+++.-...
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            678899999999984             24479999998865433

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

Probab=92.42  E-value=0.047  Score=41.63  Aligned_cols=40  Identities=23%  Similarity=0.569  Sum_probs=29.7

Q ss_pred             CcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          122 CVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       122 C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      |-.|-+.-..    ..++||.|+ +|..|-..    -..||+|+.....
T Consensus       161 Cr~C~~~~~~----VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGEREAT----VLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCCce----EEeecccceEeccccccc----CccCCCCcChhhc
Confidence            8888877555    556689986 99999643    3569999876543

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

Probab=92.29  E-value=0.11  Score=41.89  Aligned_cols=52  Identities=23%  Similarity=0.653  Sum_probs=37.2

Q ss_pred             CCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~  169 (184)
                      ++..|-||..+...........||.     +..|..|+..|+.  .+..|.+|......
T Consensus        77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            3578999999876543213344564     6689999999996  67789999775543

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

Probab=92.17  E-value=0.038  Score=51.75  Aligned_cols=46  Identities=30%  Similarity=0.691  Sum_probs=37.8

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG  165 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~  165 (184)
                      .....|.||++.+.....   ...|||.+|..|...|+..+..||.|+.
T Consensus      1151 ~~~~~c~ic~dil~~~~~---I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGG---IAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcCC---eeeechhHhhhHHHHHHHHhccCcchhh
Confidence            355689999999984322   2259999999999999999999999974

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

Probab=92.02  E-value=0.051  Score=43.42  Aligned_cols=48  Identities=31%  Similarity=0.627  Sum_probs=31.2

Q ss_pred             CccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      .-.|.-|--.+..  .-| ..+|+|+||.+|...  ..-+.||.|-..+..+.
T Consensus        90 VHfCd~Cd~PI~I--YGR-mIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe  137 (389)
T KOG2932|consen   90 VHFCDRCDFPIAI--YGR-MIPCKHVFCLECARS--DSDKICPLCDDRVQRIE  137 (389)
T ss_pred             eEeecccCCccee--eec-ccccchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence            4456666544433  113 337999999999754  34578999977665544

>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=91.72  E-value=0.16  Score=40.26  Aligned_cols=51  Identities=22%  Similarity=0.516  Sum_probs=34.9

Q ss_pred             cCcccccccc-cCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccccc
Q 042206          121 TCVICLGEFR-DGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       121 ~C~ICl~~~~-~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~  171 (184)
                      .|+.|-...- +.+-.....+|+|..|..|++..+. ....||-|-..+....
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n   54 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN   54 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence            4788875532 2222222337999999999999985 5668999977665443

>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=91.45  E-value=0.071  Score=41.13  Aligned_cols=55  Identities=20%  Similarity=0.573  Sum_probs=38.3

Q ss_pred             CCccCcccccccc--cCCcceeccCCCCcccHhhHHHHHhC-CCccc--ccccccccccC
Q 042206          118 KTSTCVICLGEFR--DGDECKVRSKCNHIFHQTCIDDWLDD-HSTCP--LCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~--~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP--~Cr~~~~~~~~  172 (184)
                      .+..|++|-.+--  ++-++.+-+.|-|.+|..|+++.+.. ...||  -|.+-+....+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf   68 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKF   68 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcc
Confidence            5668999987643  33344445459999999999999964 45799  78665544433

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

Probab=91.28  E-value=3.6  Score=29.03  Aligned_cols=54  Identities=19%  Similarity=0.397  Sum_probs=38.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~~~~  171 (184)
                      .-.+|.||.+...++.-+..---||-..|.-|.-..++   ....||.|++.+....
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            67799999998766432222223898899998776554   4668999999886544

>PF03376 Adeno_E3B: Adenovirus E3B protein; InterPro: IPR005041 Adenoviruses are medium-sized, non-enveloped viruses containing double-stranded DNA

Probab=91.05  E-value=1.4  Score=26.87  Aligned_cols=47  Identities=21%  Similarity=0.429  Sum_probs=38.4

Q ss_pred             CCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206            6 TPSTCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSR   52 (184)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r   52 (184)
                      .|.+-|+...+.++.+...+.+.+++++++.++=++-|++.+..-.|
T Consensus         5 ~pdCl~pf~vYlif~fv~c~~iCSi~~~~it~~Q~iDy~~vR~~Y~R   51 (67)
T PF03376_consen    5 EPDCLPPFAVYLIFAFVTCTCICSIVCFVITFFQCIDYIYVRIAYRR   51 (67)
T ss_pred             CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555999999999999999999999998888888888777666444

They can cause a variety of diseases including pneumonia, cystitis, conjunctivitis and diarrhoea, all of which can be fatal to patients who are immunocompromised []. These viruses have many mechanisms to evade the host immune response, including several proteins which are expressed as part of the early transcription unit 3 (E3) []. One of the regions of E3, known as the E3B region, encodes three proteins known as 10.4K, 14.5K and 14.7K. Two of these proteins, 10.4K and 14.5K, form the RID complex (receptor internalisation and degradation) which protects the infected cell from host-induced lysis by clearing the the TNF and Fas receptors from the cell surface []. Other receptors, such as the epidermal growth factor receptor, are also known to be cleared by RID []. This entry represents the E3B region 10.4K protein, also known as the RID alpha subunit.; GO: 0016020 membrane

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.83  E-value=0.13  Score=40.05  Aligned_cols=54  Identities=26%  Similarity=0.673  Sum_probs=35.1

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHhC--------CCccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLDD--------HSTCPLCRGRV  167 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~--------~~~CP~Cr~~~  167 (184)
                      +..+.+..|=||+..=+++-.-.-.-||.     |=-|..|+..|+..        ..+||-|++..
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            33457778999997644432111122453     66999999999842        23699998765

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

Probab=90.73  E-value=0.11  Score=43.36  Aligned_cols=37  Identities=27%  Similarity=0.612  Sum_probs=28.0

Q ss_pred             CCccCcccccccccC-CcceeccCCCCcccHhhHHHHHh
Q 042206          118 KTSTCVICLGEFRDG-DECKVRSKCNHIFHQTCIDDWLD  155 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~~  155 (184)
                      ...+|.||+.+.... +.-. ...|+|.||.+|..+.+.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence            577899999444443 4444 446999999999998876

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

Probab=89.10  E-value=0.11  Score=46.00  Aligned_cols=48  Identities=29%  Similarity=0.812  Sum_probs=38.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC---CCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~~  169 (184)
                      ...+|+||...+..    +.+++|.|.|+..|+..-|..   ...||+|+..+..
T Consensus        20 k~lEc~ic~~~~~~----p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   20 KILECPICLEHVKE----PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hhccCCceeEEeec----cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            45689999999988    677789999999998866543   4579999876544

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

Probab=88.69  E-value=0.16  Score=44.50  Aligned_cols=42  Identities=26%  Similarity=0.519  Sum_probs=34.9

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCP  161 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP  161 (184)
                      +...|.||+..|..+.-.++.+.|||..|..|+..-.  +.+||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence            3456999999998888778888999999999998755  46788

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

Probab=88.35  E-value=0.38  Score=39.85  Aligned_cols=45  Identities=16%  Similarity=0.426  Sum_probs=34.0

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC---Cccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLC  163 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~CP~C  163 (184)
                      ....|+|=-+.-.++. -|..+.|||+...+-+.+..++.   ..||+|
T Consensus       333 SvF~CPVlKeqtsdeN-PPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDEN-PPMMLICGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ceeecccchhhccCCC-CCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence            5567888666554443 36666799999999999988754   369999

>PF13974 YebO: YebO-like protein

Probab=87.63  E-value=1.6  Score=27.94  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHhhchHHHhhhH
Q 042206           37 LFYICYYLFTQLYSSRIQTQNQ   58 (184)
Q Consensus        37 l~~~~~~~~~~~~~~r~~~~~~   58 (184)
                      ++.++.|+|..+..-|...|-+
T Consensus         9 lv~livWFFVnRaSvRANEQI~   30 (80)
T PF13974_consen    9 LVGLIVWFFVNRASVRANEQIE   30 (80)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHH
Confidence            3344445555555545444433

>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ]

Probab=87.49  E-value=1.5  Score=31.38  Aligned_cols=38  Identities=11%  Similarity=0.207  Sum_probs=16.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHH
Q 042206           15 GLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRI   53 (184)
Q Consensus        15 ~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~   53 (184)
                      ..++|.-.+.++++.++++++++++.++| +.++.+++.
T Consensus        23 ~psffsthm~tILiaIvVliiiiivli~l-cssRKkKaa   60 (189)
T PF05568_consen   23 PPSFFSTHMYTILIAIVVLIIIIIVLIYL-CSSRKKKAA   60 (189)
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhHHHH
Confidence            33444444444444444444444333333 333333343

>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length

Probab=86.15  E-value=2.9  Score=23.73  Aligned_cols=33  Identities=18%  Similarity=0.302  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206           20 VLTTPLVISSVVCLILFLFYICYYLFTQLYSSR   52 (184)
Q Consensus        20 ~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r   52 (184)
                      ...+++....++++.++.+...+|+++++..-|
T Consensus         6 Rs~L~~~F~~lIC~Fl~~~~~F~~F~~Kqilfr   38 (54)
T PF06716_consen    6 RSYLLLAFGFLICLFLFCLVVFIWFVYKQILFR   38 (54)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            344555555566666666666666666655433

The function of this currently unknown.

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

Probab=85.97  E-value=0.68  Score=41.76  Aligned_cols=57  Identities=14%  Similarity=0.223  Sum_probs=38.2

Q ss_pred             ccCCCCccCcccccccccCCccee---ccCCCCcccHhhHHHHHhC------CCcccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKV---RSKCNHIFHQTCIDDWLDD------HSTCPLCRGRVRRI  170 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~---~~~C~H~Fh~~Ci~~w~~~------~~~CP~Cr~~~~~~  170 (184)
                      ....+...|.+|..++...++-.-   +-.|+|.||..||..|..+      .-.|++|..-|..+
T Consensus        91 eK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW  156 (1134)
T KOG0825|consen   91 EKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW  156 (1134)
T ss_pred             cccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence            333466678888877776332222   2249999999999999852      34589997766543

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.52  E-value=0.55  Score=36.62  Aligned_cols=60  Identities=12%  Similarity=0.206  Sum_probs=42.3

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA  178 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~  178 (184)
                      .....|+|---+|.....-..+.+|||+|-..-+.+.  ...+|++|...+......-+.++
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~  168 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGT  168 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCC
Confidence            4566788876666544333445579999999888774  36889999998876655555444

>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls

Probab=84.75  E-value=0.93  Score=31.82  Aligned_cols=8  Identities=13%  Similarity=-0.093  Sum_probs=3.3

Q ss_pred             HhhchHHH
Q 042206           47 QLYSSRIQ   54 (184)
Q Consensus        47 ~~~~~r~~   54 (184)
                      ...++|++
T Consensus        21 ~~~rRR~r   28 (130)
T PF12273_consen   21 CHNRRRRR   28 (130)
T ss_pred             HHHHHHhh
Confidence            34444433

Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].

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

Probab=83.92  E-value=0.7  Score=41.40  Aligned_cols=41  Identities=24%  Similarity=0.477  Sum_probs=30.7

Q ss_pred             ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccc
Q 042206          120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPL  162 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~  162 (184)
                      ..|.+|-..+.....  ....|||.-|.+|+..|+.....||.
T Consensus       780 ~~CtVC~~vi~G~~~--~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIRGVDV--WCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceeeeeEe--ecccccccccHHHHHHHHhcCCCCcc
Confidence            357788766644222  23469999999999999998888876

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=83.40  E-value=1.1  Score=36.43  Aligned_cols=57  Identities=23%  Similarity=0.414  Sum_probs=41.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      -...|+||.+.....+...+=-+|++..|..|+..-.....+||.||++......+.
T Consensus       248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~~s  304 (327)
T KOG2068|consen  248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNTKKS  304 (327)
T ss_pred             cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccCcccc
Confidence            346899999988554432222258888888888888888899999997765554443

>PRK13454 F0F1 ATP synthase subunit B'; Provisional

Probab=83.10  E-value=5  Score=29.87  Aligned_cols=19  Identities=11%  Similarity=0.134  Sum_probs=7.5

Q ss_pred             HHhhchHHHhhhHHHHhhh
Q 042206           46 TQLYSSRIQTQNQDIEQGL   64 (184)
Q Consensus        46 ~~~~~~r~~~~~~~~~~~~   64 (184)
                      +.....-+..+...+...+
T Consensus        53 ~~PI~~~l~~R~~~I~~~l   71 (181)
T PRK13454         53 LPRIGAVLAERQGTITNDL   71 (181)
T ss_pred             HHHHHHHHHHHHHHHHhHH
Confidence            3334333444444443333

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

Probab=83.07  E-value=0.4  Score=43.03  Aligned_cols=45  Identities=18%  Similarity=0.424  Sum_probs=29.4

Q ss_pred             CCccCcccccccccCC---cceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206          118 KTSTCVICLGEFRDGD---ECKVRSKCNHIFHQTCIDDWLDDHSTCPLC  163 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~---~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C  163 (184)
                      .+..|.-|.+......   ...+...|||.||..|+..-..++. |-.|
T Consensus       783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~  830 (846)
T KOG2066|consen  783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE  830 (846)
T ss_pred             ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence            4447999988765322   2223336999999999986654443 5555

>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins

Probab=82.22  E-value=3.6  Score=31.69  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206           22 TTPLVISSVVCLILFLFYICYYLFT   46 (184)
Q Consensus        22 ~~~ivi~~iv~li~~l~~~~~~~~~   46 (184)
                      +++++|+++|+.++.+.++.+|.+-
T Consensus       190 ilpvvIaliVitl~vf~LvgLyr~C  214 (259)
T PF07010_consen  190 ILPVVIALIVITLSVFTLVGLYRMC  214 (259)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3555555555555554444444433

Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.

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

Probab=82.10  E-value=0.67  Score=39.01  Aligned_cols=35  Identities=23%  Similarity=0.551  Sum_probs=29.5

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD  155 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~  155 (184)
                      +++..|+||..-|.+    ++.++|+|..|.-|...-+.
T Consensus         2 eeelkc~vc~~f~~e----piil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYRE----PIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccC----ceEeecccHHHHHHHHhhcc
Confidence            356789999999988    77778999999999887664

>PF15102 TMEM154: TMEM154 protein family

Probab=81.82  E-value=0.15  Score=36.38  Aligned_cols=21  Identities=24%  Similarity=0.502  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 042206           22 TTPLVISSVVCLILFLFYICY   42 (184)
Q Consensus        22 ~~~ivi~~iv~li~~l~~~~~   42 (184)
                      ++.++|.++++++++++.+++
T Consensus        58 iLmIlIP~VLLvlLLl~vV~l   78 (146)
T PF15102_consen   58 ILMILIPLVLLVLLLLSVVCL   78 (146)
T ss_pred             EEEEeHHHHHHHHHHHHHHHh
Confidence            344444444443333333333

>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size

Probab=81.23  E-value=12  Score=24.20  Aligned_cols=6  Identities=33%  Similarity=0.528  Sum_probs=2.2

Q ss_pred             HHHHHH
Q 042206           26 VISSVV   31 (184)
Q Consensus        26 vi~~iv   31 (184)
                      +++.++
T Consensus        39 Vic~~l   44 (84)
T PF06143_consen   39 VICCFL   44 (84)
T ss_pred             HHHHHH
Confidence            333333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	184
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		6e-11
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		5e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		5e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-05
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-05

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 24/50 (48%), Positives = 31/50 (62%)
Query: 115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           A++    C +CL E  DG+E +   +C H FH  C+D WL  HSTCPLCR
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>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 = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           ++  AV +   C IC  E+  GD       C+H FH+ C+  WL    TCP+CR
Sbjct: 32  EDHGAVGQEMCCPICCSEYVKGDV-ATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           C ICL    +G++ + R  C H+FHQ C+D WL  +  CP+CR
Sbjct: 17  CTICLSILEEGEDVR-RLPCMHLFHQVCVDQWLITNKKCPICR 58

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 105 INNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            N  +HQ++  +     CV+C+ +F      +V   CNH FH  C+D WL  + TCP+CR
Sbjct: 14  FNPNNHQSEQTL-----CVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKANRTCPICR 67
Query: 165 G 165
Sbjct: 68  A 68

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 106 NNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           ++ S   ++ V     C +C  ++  G+  + +  CNH+FH +CI  WL+ H +CP+CR
Sbjct: 2   SSGSSGTEEHVGSGLECPVCKEDYALGESVR-QLPCNHLFHDSCIVPWLEQHDSCPVCR 59

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171
           +N    C +CL +F+  DE  +   C H FH+ C+  WL+    CPLC   V ++A
Sbjct: 12  LNLHELCAVCLEDFKPRDELGI-CPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-21
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-18
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	4e-18
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-17
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-17
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-17
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	8e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-11
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	7e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-09
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-09
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	8e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	6e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	8e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-05
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	3e-05
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	5e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	1e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	1e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	4e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-04

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

 Score = 82.2 bits (204), Expect = 1e-21
 Identities = 24/46 (52%), Positives = 29/46 (63%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           C +CL E  DG+E +   +C H FH  C+D WL  HSTCPLCR  V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 75.1 bits (185), Expect = 1e-18
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168
           ++  ++ + CV+C+ +F      +V   CNH FH  C+D WL  + TCP+CR    
Sbjct: 17  NNHQSEQTLCVVCMCDFESRQLLRVLP-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 = 73.6 bits (181), Expect = 4e-18
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168
             C ICL    +G++ +    C H+FHQ C+D WL  +  CP+CR  + 
Sbjct: 15  EKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 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 = 1e-17
 Identities = 15/45 (33%), Positives = 21/45 (46%)

Query: 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           S C ICL +            C H+ H+TC ++ L +   CPLC 
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 71.7 bits (176), Expect = 2e-17
 Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 116 VNKTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           +N    C +CL +F+  DE  +    C H FH+ C+  WL+    CPLC   V
Sbjct: 12  LNLHELCAVCLEDFKPRDE--LGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62

>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 = 71.7 bits (176), Expect = 3e-17
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 109 SHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           S   ++ V     C +C  ++  G+  +    CNH+FH +CI  WL+ H +CP+CR
Sbjct: 5   SSGTEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59

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

 Score = 71.6 bits (176), Expect = 3e-17
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           ++  AV +   C IC  E+  GD       C+H FH+ C+  WL    TCP+CR
Sbjct: 32  EDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

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

 Score = 63.2 bits (154), Expect = 4e-14
 Identities = 20/71 (28%), Positives = 27/71 (38%), Gaps = 7/71 (9%)

Query: 109 SHQNDDAVNKTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           S      +     C IC+      D        C H F Q CID W D H  CP+CR ++
Sbjct: 5   SSGRVKQLTDEEECCICM------DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58

Query: 168 RRIAWPSVTTA 178
                 S  ++
Sbjct: 59  TGANESSGPSS 69

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

 Score = 62.8 bits (153), Expect = 5e-14
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170
             C ICL +  +     +   C H F   CI  W+  + TCPLC+  V  +
Sbjct: 6   ERCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV 53

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

 Score = 62.6 bits (152), Expect = 8e-14
 Identities = 16/44 (36%), Positives = 24/44 (54%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
            C+ C  E +  D   V  +CNH FH  C+  W+  ++ CPLC+
Sbjct: 28  ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 60.7 bits (147), Expect = 3e-13
 Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 3/54 (5%)

Query: 117 NKTSTCVICLGEFRD---GDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           + T +C IC+  + +        V ++C H+F   C+ D L + +TCP CR ++
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 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 = 59.1 bits (143), Expect = 2e-12
 Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 117 NKTSTCVICLGEFRD---GDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
           + T +C IC+  + +        V ++C H+F   C+ D L + +TCP CR ++  
Sbjct: 8   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

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

 Score = 58.2 bits (141), Expect = 3e-12
 Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)

Query: 121 TCVICLGEFRD---GDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
           +C IC+  + +        V ++C H+F   C+ D L + +TCP CR ++  
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 56

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

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 3/56 (5%)

Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
             +     C IC G   D       ++C H F ++CI       + CP C   V +
Sbjct: 10  SELTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

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

 Score = 54.8 bits (132), Expect = 7e-11
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 4/62 (6%)

Query: 112 NDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171
             +       C IC   F++     V +KC H F ++C  +       C +C      I 
Sbjct: 8   GSEEEEIPFRCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPTGGIF 63

Query: 172 WP 173
            P
Sbjct: 64  NP 65

>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 = 54.5 bits (131), Expect = 1e-10
 Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 4/63 (6%)

Query: 107 NKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRG 165
           +   Q+ +++ +   C IC+ + RD   C     C+ +   +CI  WL +  + CP CR 
Sbjct: 10  HMDEQSVESIAEVFRCFICMEKLRDARLC---PHCSKLCCFSCIRRWLTEQRAQCPHCRA 66

Query: 166 RVR 168
            ++
Sbjct: 67  PLQ 69

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

 Score = 51.4 bits (123), Expect = 1e-09
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 4/47 (8%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
            C ICL          V   C H+F   C+         C LCR  +
Sbjct: 17  ECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 51.8 bits (123), Expect = 2e-09
 Identities = 12/41 (29%), Positives = 13/41 (31%)

Query: 124 ICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
                    +       CNH FH  CI  WL     CPL  
Sbjct: 56  ANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 52.4 bits (125), Expect = 3e-09
 Identities = 21/110 (19%), Positives = 45/110 (40%), Gaps = 8/110 (7%)

Query: 61  EQGLSSQQQQQQRVIINSTEYKVKEDPRASKFKKVSWTAFKRDIINNKSHQNDDAVNKTS 120
           E     ++  + +    +      ++   +K +K    A K +++++ +    D +    
Sbjct: 10  EHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMN----DVLENEL 65

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170
            C+IC   F +     V   C H F   CI++W+     CP+CR  ++  
Sbjct: 66  QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 111

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 51.4 bits (123), Expect = 3e-09
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
            CV+C G F D        +C H F +TCI  +L+    CP+C  +V +
Sbjct: 17  MCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

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

 Score = 51.4 bits (122), Expect = 4e-09
 Identities = 12/41 (29%), Positives = 13/41 (31%)

Query: 124 ICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
                    +       CNH FH  CI  WL     CPL  
Sbjct: 67  ANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 52.2 bits (124), Expect = 1e-08
 Identities = 16/73 (21%), Positives = 26/73 (35%), Gaps = 15/73 (20%)

Query: 107 NKSHQNDDAVNKTSTCVICLGEFRDGDECKVR----SKCNHIFHQTCIDDWLDD------ 156
           +   + D+  N+   C IC     DG E  +     +KC    H  C+++W         
Sbjct: 296 SDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKT 355

Query: 157 -----HSTCPLCR 164
                   CP C+
Sbjct: 356 FLEVSFGQCPFCK 368

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

 Score = 50.2 bits (119), Expect = 2e-08
 Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 121 TCVICLGEFRDGDECK---VRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP 173
           +C IC+  + +  +     V ++C H+F   C+ D L + +TCP CR ++    + 
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

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

 Score = 45.2 bits (106), Expect = 8e-07
 Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 101 KRDIINNKSHQNDDAVNKTSTCVICLGEFRD---GDECKVRSKCNHIFHQTCIDDWLDDH 157
            R  IN+K +      + T +C IC+  + +        V ++C H+F   C+ D L + 
Sbjct: 54  CRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA 113

Query: 158 STCPLCR 164
           +TCP CR
Sbjct: 114 NTCPTCR 120

>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 = 47.6 bits (113), Expect = 3e-08
 Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 5/50 (10%)

Query: 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH--STCPLCR 164
           +    C IC      G  C+    C    H  C+  +   +    CP C 
Sbjct: 13  DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCN 59

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 50.9 bits (121), Expect = 4e-08
 Identities = 12/70 (17%), Positives = 24/70 (34%), Gaps = 5/70 (7%)

Query: 101 KRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHST 159
              +   +     +  +    C IC    +D         C H+   +C+  W + +   
Sbjct: 314 HIKVTQEQYELYCEMGSTFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQG 369

Query: 160 CPLCRGRVRR 169
           CP CR  ++ 
Sbjct: 370 CPFCRCEIKG 379

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

 Score = 46.7 bits (111), Expect = 1e-07
 Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 3/56 (5%)

Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
             ++    C IC   F       +  +C+H +   CI  +L   + CP C   V  
Sbjct: 17  KTIDDLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE 69

>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 = 45.2 bits (106), Expect = 6e-07
 Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 19/63 (30%)

Query: 121 TCVICLGEFRDGDECK--------------VRSKCNHIFHQTCIDDWL-----DDHSTCP 161
            C+IC+ +                        +KC+H FH  C+         D    CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 162 LCR 164
            C+
Sbjct: 87  SCK 89

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

 Score = 45.5 bits (107), Expect = 2e-06
 Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 5/70 (7%)

Query: 97  WTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD 156
           +T   R I+  + +  +   +    C IC      G  C+    C    H  C+  +   
Sbjct: 158 FTLHGRAILEMEQYIRETYPDAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQS 214

Query: 157 H--STCPLCR 164
           +    CP C 
Sbjct: 215 NAEPRCPHCN 224

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

 Score = 41.6 bits (97), Expect = 7e-06
 Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 1/54 (1%)

Query: 112 NDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCR 164
           + DA      C +C+      D       C +   + C      D +  CP CR
Sbjct: 4   SPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

>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 = 42.3 bits (99), Expect = 8e-06
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 5/50 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRR 169
            C+ C           + + C H   + C+D        +CP CR  + R
Sbjct: 54  QCICCQELVFR----PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR 99

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

 Score = 40.5 bits (95), Expect = 1e-05
 Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 5/50 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRR 169
            C  C            +++C H F ++C+   L   S  C  C+  + +
Sbjct: 17  KCEKCHLVLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQESIVK 62

>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 = 41.4 bits (97), Expect = 1e-05
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRRIA 171
            C IC+    +     V   CNH   + C    ++  S  CP CR RV    
Sbjct: 17  QCGICMEILVE----PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWT 64

>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 = 40.5 bits (95), Expect = 2e-05
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 5/46 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCR 164
            C+IC     D     V   C + +   CI   L   D  TCP C 
Sbjct: 17  LCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

>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 = 41.0 bits (96), Expect = 2e-05
 Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 5/49 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
            C  C    R+         C HIF   C+ D +   + CP+C      
Sbjct: 24  RCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI 67

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLCRGRVRR 169
            C ICL   ++     V +KC+HIF + C+   L+     S CPLC+  + +
Sbjct: 23  ECPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70

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

 Score = 39.7 bits (93), Expect = 3e-05
 Identities = 16/52 (30%), Positives = 20/52 (38%), Gaps = 7/52 (13%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVRR 169
            C ICL   +      V   C H F   CI    +       CPLC+  VR+
Sbjct: 22  ICPICLDILQK----PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK 69

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

 Score = 40.7 bits (95), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 5/57 (8%)

Query: 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRVR 168
                K+ +C IC     D     V + C H+F + CI   L    S CP CR    
Sbjct: 17  PAHFVKSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

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

 Score = 39.3 bits (92), Expect = 5e-05
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 10/55 (18%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH------STCPLCRGRVRR 169
           TC ICL   ++     V + CNH F + CI    + +        CP+CR     
Sbjct: 21  TCPICLELLKE----PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF 71

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 39.7 bits (92), Expect = 1e-04
 Identities = 12/65 (18%), Positives = 19/65 (29%), Gaps = 5/65 (7%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRVRRIAWPSVTTAD 179
            C  C    R       +++C H +   C+   L      C  C          S+  + 
Sbjct: 33  LCSACRNVLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESS 88

Query: 180 DWSPD 184
              PD
Sbjct: 89  SAFPD 93

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

 Score = 37.5 bits (87), Expect = 1e-04
 Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 3/59 (5%)

Query: 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFH-QTCIDDWLDDHSTCPLCRGRVRRI 170
           +D  N    C +C    RDG    +  +  H+     C        ++CP+C+  ++ +
Sbjct: 1   EDCQNLLKPCSLCEKRPRDG--NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLV 57

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

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 5/45 (11%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCR 164
            C ICL   R+     V++ C H F + CI   + D    CP+  
Sbjct: 20  ECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

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

 Score = 38.8 bits (90), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 4/53 (7%)

Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRV 167
           ++    C ICL   ++        +C H F   CI   L      CP CR ++
Sbjct: 51  LHSELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKL 100

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

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 5/46 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCR 164
            C+IC     D     V   C + +   CI   L   D  TCP C 
Sbjct: 15  LCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

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

 Score = 36.5 bits (85), Expect = 4e-04
 Identities = 13/56 (23%), Positives = 18/56 (32%), Gaps = 11/56 (19%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHST-------CPLCRGRVRR 169
           TC ICL    +     +   C H   + CI     +  T       CP+C      
Sbjct: 14  TCPICLELLTE----PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF 65

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 5/53 (9%)

Query: 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170
            +S C +CLGE+   ++    ++C  IF   C+  +++      +  G    I
Sbjct: 4   GSSGCKLCLGEY-PVEQMTTIAQCQCIFCTLCLKQYVELL----IKEGLETAI 51

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 10/55 (18%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH------STCPLCRGRVRR 169
           TC ICL          +   C H F Q C+             S+CP+CR   + 
Sbjct: 21  TCPICLELLTQ----PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP 71

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 37.3 bits (86), Expect = 7e-04
 Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 5/45 (11%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCR 164
            CV C           V ++C H   + C+         +CP CR
Sbjct: 80  MCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACR 120

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.65
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.63
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.61
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.61
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.61
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.59
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.59
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.59
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.55
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.54
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.54
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.53
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.51
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.5
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.5
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.5
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.48
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.47
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.47
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.46
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.44
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.44
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.44
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.43
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.42
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.39
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.39
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.39
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.38
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.38
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.38
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.37
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.36
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.34
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.34
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.33
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.32
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.32
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.31
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.29
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.25
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.25
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.24
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.21
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.21
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.21
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.2
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.2
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.2
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.19
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.19
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.18
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.15
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.14
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.12
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.08
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.08
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.99
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.98
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.97
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.95
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.91
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.89
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.85
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.82
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.65
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.65
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.64
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.6
3nw0_A	238	Non-structural maintenance of chromosomes element	98.27
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.26
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.62
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.85
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.52
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.03
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	91.36
1we9_A	64	PHD finger family protein; structural genomics, PH	89.19
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	88.9
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	88.22
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	88.16
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	87.3
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	87.07
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	86.23
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	85.99
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	85.57
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	85.48
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	84.48
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	83.99
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	83.9
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	83.69
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	82.41
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	82.02
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	81.98
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	80.93
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	80.47

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

Probab=99.65  E-value=6.7e-17  Score=96.65  Aligned_cols=51  Identities=47%  Similarity=1.103  Sum_probs=45.5

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV  167 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~  167 (184)
                      +++.+|+||++.+..++....+++|||.||..|+.+|++.+.+||+||+++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            356789999999999888777756999999999999999999999999876

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

Probab=99.63  E-value=3.7e-16  Score=99.05  Aligned_cols=58  Identities=36%  Similarity=0.836  Sum_probs=49.0

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      ...+..|+||++.+.....+..+ +|+|.||..||.+|++.+.+||+||+++.......
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGIC-PCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS   69 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEE-TTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCSCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEc-CCCCEecHHHHHHHHHcCCcCCCcCcccccccccC
Confidence            34677899999999888777666 69999999999999998889999999987654433

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

Probab=99.61  E-value=5.8e-16  Score=99.15  Aligned_cols=61  Identities=30%  Similarity=0.800  Sum_probs=50.4

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV  175 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~  175 (184)
                      +.......|+||++.|...+.+..+ +|+|.||..||..|++.+.+||+||..+........
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQL-PCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEEC-TTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEe-CCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCC
Confidence            3345678999999999887766655 699999999999999999999999999876555443

>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=99.61  E-value=5.8e-16  Score=96.84  Aligned_cols=54  Identities=33%  Similarity=0.935  Sum_probs=46.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .......|+||++.+..++.+..+ +|||.||..||..|+..+.+||+||..+..
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEEC-TTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             cCCCCCCCeeCCccccCCCcEEEe-CCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            334677899999999877766655 699999999999999988999999998854

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

Probab=99.61  E-value=3e-16  Score=101.33  Aligned_cols=53  Identities=34%  Similarity=0.764  Sum_probs=43.6

Q ss_pred             CCccCccccccccc-----------CCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRD-----------GDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~-----------~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ++..|+||++.+..           ++.++.+++|+|.||.+||.+|+..+.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            56678999888854           344566667999999999999999999999999987543

>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=99.59  E-value=4.9e-16  Score=92.79  Aligned_cols=51  Identities=31%  Similarity=0.757  Sum_probs=44.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      +...|+||++.+.+++.....++|+|.||..|+.+|+..+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            567899999999776665666789999999999999998899999998763

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

Probab=99.59  E-value=8.6e-16  Score=101.33  Aligned_cols=53  Identities=36%  Similarity=0.866  Sum_probs=46.5

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ..++..|+||++.|..++.+..+ +|||.||..||..|++.+.+||+||..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATEL-PCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEE-TTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEec-CCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34677899999999988876666 599999999999999999999999998753

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

Probab=99.59  E-value=3.9e-16  Score=99.28  Aligned_cols=52  Identities=37%  Similarity=0.965  Sum_probs=45.8

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .+...|+||++.+..++.+..+ +|+|.||..||.+|++.+.+||+||+++..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEE-TTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEE-CCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            4677899999999988876766 599999999999999989999999998743

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

Probab=99.55  E-value=2.3e-15  Score=94.68  Aligned_cols=56  Identities=25%  Similarity=0.431  Sum_probs=47.0

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV  175 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~  175 (184)
                      ..+...|+||++.+..    ++.++|||.||..||..|+..+..||+||..+....+...
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~p   67 (71)
T 2d8t_A           12 SLTVPECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSG   67 (71)
T ss_dssp             SSSCCBCSSSSSBCSS----EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHHSCS
T ss_pred             CCCCCCCccCCcccCC----CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHhhccCC
Confidence            3467889999999976    5556899999999999999999999999999876554443

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

Probab=99.54  E-value=2.8e-15  Score=93.52  Aligned_cols=55  Identities=29%  Similarity=0.756  Sum_probs=44.8

Q ss_pred             cCCCCccCcccccccccC---CcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDG---DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ...+...|+||++.+...   ....+.++|||.||..||..|+..+.+||+||.++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            345778899999999763   2223556899999999999999989999999998753

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

Probab=99.54  E-value=2.7e-15  Score=94.19  Aligned_cols=56  Identities=29%  Similarity=0.765  Sum_probs=45.8

Q ss_pred             CCCccCcccccccccC---CcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206          117 NKTSTCVICLGEFRDG---DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~  172 (184)
                      .++..|+||++.+...   ....+.++|||.||..|+.+|++.+.+||+||..+....+
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            3677899999999763   2334566899999999999999988999999999865443

>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=99.53  E-value=1.1e-14  Score=99.87  Aligned_cols=55  Identities=24%  Similarity=0.543  Sum_probs=42.9

Q ss_pred             CCccCcccccccccCC--------------cceeccCCCCcccHhhHHHHH-----hCCCcccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGD--------------ECKVRSKCNHIFHQTCIDDWL-----DDHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~--------------~~~~~~~C~H~Fh~~Ci~~w~-----~~~~~CP~Cr~~~~~~~~  172 (184)
                      .+..|+||++.|....              .+..+++|+|.||..||..|+     ..+.+||+||+.+....-
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g   97 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCC
Confidence            4468999999996543              233356899999999999999     456799999998865543

>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=99.51  E-value=7.1e-15  Score=99.38  Aligned_cols=51  Identities=31%  Similarity=0.670  Sum_probs=41.8

Q ss_pred             CCccCcccccccccC--------------CcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDG--------------DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~--------------~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      ++..|+||++.|...              +....+++|+|.||..||.+|+..+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            567899999998753              112344579999999999999999999999999863

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

Probab=99.50  E-value=6.2e-15  Score=90.55  Aligned_cols=54  Identities=28%  Similarity=0.748  Sum_probs=44.0

Q ss_pred             CCccCcccccccccC---CcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDG---DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      ++.+|+||++.+...   ......++|||.||..|+..|+..+.+||+||+++....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            456899999999763   233355579999999999999998999999999886543

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

Probab=99.50  E-value=1.7e-14  Score=94.24  Aligned_cols=58  Identities=24%  Similarity=0.598  Sum_probs=47.9

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC---Cccccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLCRGRVRRIA  171 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~CP~Cr~~~~~~~  171 (184)
                      +...+...|+||++.|..++..+..++|||.||..|+..|+..+   ..||+||..+....
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            34457788999999998877656666899999999999999765   78999999876543

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

Probab=99.50  E-value=2.3e-14  Score=90.24  Aligned_cols=53  Identities=26%  Similarity=0.560  Sum_probs=44.3

Q ss_pred             cCCCCccCcccccccccCCcceec-cCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      ...+...|+||++.+.+    ++. ++|||.||..||..|+..+..||+||..+....
T Consensus        11 ~~~~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           11 ELTPYILCSICKGYLID----ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCGGGSCTTTSSCCSS----CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hcCCCCCCCCCChHHHC----cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            34567889999999976    443 389999999999999988899999999886543

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

Probab=99.48  E-value=1.9e-14  Score=90.13  Aligned_cols=50  Identities=36%  Similarity=0.852  Sum_probs=42.9

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ..+...|+||++.+..    . .++|||.||..|+..|+..+.+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~----~-~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----L-ILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----E-EETTTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCCCeeCCcCccC----c-ccCCCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            3467889999999876    3 347999999999999999999999999988654

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

Probab=99.47  E-value=3e-14  Score=91.77  Aligned_cols=51  Identities=24%  Similarity=0.603  Sum_probs=44.3

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      +.......|+||++.+..    ++.++|||.||..|+..|+.....||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQN----PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCS----EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             ccCCCCCCCcCCCchhcC----eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            334567789999999977    566789999999999999998899999999875

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

Probab=99.47  E-value=3.1e-14  Score=88.60  Aligned_cols=50  Identities=32%  Similarity=0.780  Sum_probs=42.0

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      .+..|+||++.+...   ...++|||.||..|+..|+..+.+||+||.++...
T Consensus         4 ~~~~C~IC~~~~~~~---~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            4 VAERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCSC---EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCeeCCccccCC---cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhh
Confidence            566899999998652   24557999999999999999889999999988643

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

Probab=99.46  E-value=5.6e-14  Score=86.96  Aligned_cols=51  Identities=20%  Similarity=0.529  Sum_probs=42.7

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHH-hCCCcccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRRI  170 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~~  170 (184)
                      ..+...|+||++.+..    ++.++|||.||..|+..|+ ..+..||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCS----PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESS----CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcC----eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            3567889999999976    4556899999999999999 4667899999987543

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

Probab=99.44  E-value=8.7e-14  Score=87.68  Aligned_cols=52  Identities=31%  Similarity=0.686  Sum_probs=43.2

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCcccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLCRGRVRRI  170 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~~~  170 (184)
                      ...+...|+||++.+..    ++.++|||.||..|+..|+.   ....||+||..+...
T Consensus        16 ~~~~~~~C~IC~~~~~~----~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           16 KLQEEVICPICLDILQK----PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCCBCTTTCSBCSS----EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             hCccCCEeccCCcccCC----eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            34577899999999986    55568999999999999996   456899999987543

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

Probab=99.44  E-value=7.5e-14  Score=88.39  Aligned_cols=51  Identities=27%  Similarity=0.586  Sum_probs=42.5

Q ss_pred             ccCCCCccCcccccccccCCcceeccC-CCCcccHhhHHHHHhCC--Ccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSK-CNHIFHQTCIDDWLDDH--STCPLCRGRVR  168 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~~--~~CP~Cr~~~~  168 (184)
                      +...+...|+||++.+..    ++.++ |||.||..||..|+..+  ..||+||+.+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           10 DPIPDELLCLICKDIMTD----AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CCSCGGGSCSSSCCCCTT----CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             ccCCCCCCCcCCChHHhC----CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            334577889999999987    56678 99999999999999754  68999999753

>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=99.44  E-value=9.6e-15  Score=100.14  Aligned_cols=51  Identities=35%  Similarity=0.823  Sum_probs=1.1

Q ss_pred             CCccCccccccccc-------------CCcc-eeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRD-------------GDEC-KVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~-------------~~~~-~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      ++..|+||++.|..             +++. ...++|+|.||..||.+|++.+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            45689999999975             2322 233579999999999999999999999999863

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

Probab=99.43  E-value=2.9e-14  Score=100.99  Aligned_cols=49  Identities=31%  Similarity=0.869  Sum_probs=42.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ++..|+||++.+..    ++.++|||.||..||..|+..+.+||+||+++...
T Consensus        52 ~~~~C~iC~~~~~~----~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS----EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC----ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            34579999999977    66668999999999999999999999999988543

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

Probab=99.42  E-value=1.1e-13  Score=88.73  Aligned_cols=53  Identities=26%  Similarity=0.666  Sum_probs=43.0

Q ss_pred             CCCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHhCC--Ccccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLDDH--STCPLCRGRVRRI  170 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~~--~~CP~Cr~~~~~~  170 (184)
                      ..++..|.||++++..++.+ + +||+     |.||..||++|+..+  .+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~-~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-I-TPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-E-CSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-E-eccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            34667899999999877664 3 4796     999999999999754  5999999988543

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

Probab=99.39  E-value=3.1e-13  Score=87.38  Aligned_cols=51  Identities=31%  Similarity=0.698  Sum_probs=43.4

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC------CCcccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD------HSTCPLCRGRVRRI  170 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~------~~~CP~Cr~~~~~~  170 (184)
                      ..+...|+||++.+..    ++.++|||.||..|+..|+..      ...||.||..+...
T Consensus        16 ~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           16 IKEEVTCPICLELLKE----PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CCTTTSCTTTCSCCSS----CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             CccCCCCcCCChhhCc----ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4567899999999977    556689999999999999976      67899999988654

>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=99.39  E-value=1e-13  Score=92.82  Aligned_cols=51  Identities=27%  Similarity=0.771  Sum_probs=43.4

Q ss_pred             CCccCcccccccccCCcceec-cCCCCcccHhhHHHHHhCC-CcccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDH-STCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~-~~CP~Cr~~~~~~~~  172 (184)
                      +...|+||++.+..    ++. ++|||.||..||..|+..+ ..||+||.++....+
T Consensus        21 ~~~~C~IC~~~~~~----p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l   73 (100)
T 3lrq_A           21 EVFRCFICMEKLRD----ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL   73 (100)
T ss_dssp             HHTBCTTTCSBCSS----EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCccCCccccC----ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHh
Confidence            56689999999986    565 7899999999999999876 799999999865443

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

Probab=99.39  E-value=1e-13  Score=88.62  Aligned_cols=53  Identities=26%  Similarity=0.550  Sum_probs=44.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-------CCccccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-------HSTCPLCRGRVRRIA  171 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-------~~~CP~Cr~~~~~~~  171 (184)
                      ...+...|+||++.+..    ++.++|||.||..|+..|+..       ...||+||..+....
T Consensus         8 ~~~~~~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            8 NVQEEVTCPICLELLTE----PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCCEETTTTEECSS----CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             hcccCCCCcCCCcccCC----eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            34577889999999977    555689999999999999976       668999999886543

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

Probab=99.38  E-value=2.5e-13  Score=86.69  Aligned_cols=50  Identities=26%  Similarity=0.539  Sum_probs=43.5

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~~  170 (184)
                      .+...|+||++.+.+    ++.++|||.||..||..|+.. +.+||+||.++...
T Consensus         6 ~~~~~C~IC~~~~~~----Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            6 PEYFRCPISLELMKD----PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSS----EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cccCCCCCccccccC----CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            467889999999987    666689999999999999986 78999999988543

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

Probab=99.38  E-value=4.5e-13  Score=86.64  Aligned_cols=54  Identities=30%  Similarity=0.618  Sum_probs=44.7

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC------CCcccccccccccccC
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD------HSTCPLCRGRVRRIAW  172 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~------~~~CP~Cr~~~~~~~~  172 (184)
                      ...+...|+||++.+..    ++.++|||.||..|+..|+..      ...||.||..+....+
T Consensus        15 ~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQ----PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCCCTTTCSCCSS----CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             HccCCCCCCCCCcccCC----ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            34577899999999976    455689999999999999976      7789999998865433

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

Probab=99.38  E-value=4.5e-13  Score=84.37  Aligned_cols=49  Identities=22%  Similarity=0.706  Sum_probs=42.1

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC--Ccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH--STCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~CP~Cr~~~~  168 (184)
                      +...+|+||.+.+..++...   .|+|.||..||.+||+.+  .+||+||+++.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            35678999999998876554   699999999999999876  89999998764

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

Probab=99.37  E-value=2.7e-13  Score=83.55  Aligned_cols=55  Identities=20%  Similarity=0.540  Sum_probs=42.8

Q ss_pred             CCccCccccc-ccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206          118 KTSTCVICLG-EFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~-~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~  172 (184)
                      ++..|+||++ .+.......+.++|||.||..|+..|+. ....||+||+.+....+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            4567999999 7776544345568999999999999975 45689999998865443

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

Probab=99.36  E-value=7.3e-13  Score=81.08  Aligned_cols=46  Identities=30%  Similarity=0.723  Sum_probs=38.6

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLC  163 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~C  163 (184)
                      +...++..|+||++.+.+    ++.++|||.||..||..|+.   ....||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQK----PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSS----CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCC----eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            334577899999999987    55568999999999999997   45689998

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

Probab=99.34  E-value=3.5e-13  Score=94.26  Aligned_cols=57  Identities=28%  Similarity=0.743  Sum_probs=46.4

Q ss_pred             CCccCcccccccccC---CcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206          118 KTSTCVICLGEFRDG---DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      +..+|+||++.+...   ....+.++|||.||..||.+|++.+.+||+||+.+.......
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~   65 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP   65 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEE
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccccc
Confidence            567899999999763   233355689999999999999999999999999987655433

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

Probab=99.34  E-value=9.1e-13  Score=79.16  Aligned_cols=45  Identities=29%  Similarity=0.888  Sum_probs=37.4

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHH---hCCCccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL---DDHSTCPLC  163 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~---~~~~~CP~C  163 (184)
                      ...+...|+||++.+.+    ++.++|||.||..||..|+   ..+..||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKE----PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSS----CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCc----cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34577899999999987    4556899999999999995   456789988

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

Probab=99.33  E-value=4.3e-13  Score=89.56  Aligned_cols=48  Identities=27%  Similarity=0.623  Sum_probs=41.8

Q ss_pred             CCccCcccccccccCCcceecc-CCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      +...|+||++.+..    ++.+ +|||.||..|+..|+..+.+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNI----AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSS----EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCC----cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            45689999999987    5444 799999999999999988999999998865

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

Probab=99.32  E-value=7.7e-13  Score=87.09  Aligned_cols=51  Identities=29%  Similarity=0.634  Sum_probs=42.7

Q ss_pred             cccCCCCccCcccccccccCCcceeccC-CCCcccHhhHHHHHhC--CCccccccccc
Q 042206          113 DDAVNKTSTCVICLGEFRDGDECKVRSK-CNHIFHQTCIDDWLDD--HSTCPLCRGRV  167 (184)
Q Consensus       113 ~~~~~~~~~C~ICl~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~--~~~CP~Cr~~~  167 (184)
                      .+...+...|+||++.|.+    ++.++ |||.||..||..|+..  ...||+||..+
T Consensus         7 ~~~~~~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A            7 DDPIPDELLCLICKDIMTD----AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CCCCCTTTEETTTTEECSS----CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             cccCCcCCCCCCCChhhcC----ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            3344578899999999987    66778 9999999999999963  36899999986

>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=99.32  E-value=2.9e-13  Score=94.06  Aligned_cols=48  Identities=25%  Similarity=0.605  Sum_probs=41.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC-Cccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-~~CP~Cr~~~~~  169 (184)
                      +...|+||++.+..    ++.++|||.||..||..|+..+ ..||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR----PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS----EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC----cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            55689999999987    6666899999999999999754 499999998855

>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=99.31  E-value=3.9e-13  Score=91.19  Aligned_cols=49  Identities=37%  Similarity=0.806  Sum_probs=42.6

Q ss_pred             CCCccCcccccccccCCcceecc-CCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .+...|+||++.+..    ++.+ +|||.||..||..|+..+..||.||..+..
T Consensus        13 ~~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           13 NPHLMCVLCGGYFID----ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGGTBCTTTSSBCSS----EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CCcCCCccCChHHhC----cCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            366789999999976    5554 899999999999999989999999998754

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

Probab=99.29  E-value=5.5e-12  Score=80.49  Aligned_cols=57  Identities=16%  Similarity=0.342  Sum_probs=43.1

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~  172 (184)
                      .+++..|+||++.+...+....-.+|||.||..|+..|+. ....||.||+.+.....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            3477889999998865443222225999999999999874 46789999999866443

>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=99.25  E-value=4.2e-12  Score=86.41  Aligned_cols=51  Identities=33%  Similarity=0.830  Sum_probs=41.8

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC---cccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS---TCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~---~CP~Cr~~~~~~~~  172 (184)
                      +...|+||++.+..    ++.++|||.||..|+..|+..+.   .||+||..+....+
T Consensus        20 ~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCCCCSS----CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccChhhcC----eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            34579999999976    55568999999999999998654   89999998865433

>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=99.25  E-value=3.3e-12  Score=87.95  Aligned_cols=52  Identities=27%  Similarity=0.595  Sum_probs=43.7

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC-cccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRRI  170 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~-~CP~Cr~~~~~~  170 (184)
                      ...+...|+||++.+..    ++.++|||.||..||..|+..+. +||+||..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           14 PLESKYECPICLMALRE----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCCGGGBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCcCChhhcC----eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            34567789999999987    56668999999999999997654 999999988653

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

Probab=99.24  E-value=1.8e-12  Score=90.56  Aligned_cols=55  Identities=29%  Similarity=0.754  Sum_probs=45.0

Q ss_pred             CCCccCcccccccccC---CcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          117 NKTSTCVICLGEFRDG---DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      .+...|+||++.+...   ....+.++|||.||..|+.+|++.+++||+||.++....
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            4677899999999762   223355579999999999999999999999999986654

>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=99.21  E-value=3.6e-12  Score=87.44  Aligned_cols=51  Identities=33%  Similarity=0.621  Sum_probs=43.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCcccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~~~~  172 (184)
                      +...|+||++.+.+    ++.++|||.||..||..|+.. +.+||+||..+....+
T Consensus        22 ~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           22 KSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HHTBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCCcHhcC----cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            46689999999977    666789999999999999975 7799999999866443

>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=99.21  E-value=2.7e-12  Score=93.41  Aligned_cols=48  Identities=29%  Similarity=0.708  Sum_probs=40.8

Q ss_pred             CCccCcccccccccCCcceecc-CCCCcccHhhHHHHHhC-CCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~  169 (184)
                      +...|+||++.+..    ++.+ +|||.||..||..|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN----TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS----EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC----cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            55689999999987    4433 89999999999999986 7889999998743

>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=99.21  E-value=8.3e-12  Score=89.48  Aligned_cols=49  Identities=22%  Similarity=0.569  Sum_probs=42.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC-cccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~-~CP~Cr~~~~~~  170 (184)
                      +...|+||++.+..    ++.++|||.||..||..|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ----PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSS----EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcC----CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45689999999987    66678999999999999998654 899999998654

>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=99.20  E-value=1.3e-12  Score=89.51  Aligned_cols=48  Identities=29%  Similarity=0.731  Sum_probs=41.6

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~  169 (184)
                      ++..|+||++.+..    ++.++|||.||..||..|+.. +..||.||..+..
T Consensus        14 ~~~~C~iC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVE----PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSS----CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCc----eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            56789999999987    566689999999999999975 6789999998864

>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=99.20  E-value=3.8e-12  Score=90.35  Aligned_cols=49  Identities=18%  Similarity=0.520  Sum_probs=42.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC-Cccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRV  167 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-~~CP~Cr~~~  167 (184)
                      ...+...|+||++.+..    ++.++|||.||..||..|+..+ ..||.||.++
T Consensus        27 ~l~~~~~C~IC~~~~~~----pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRR----PFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GCCGGGBCTTTCSBCSS----EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCCcCcCCCCCChhhcC----cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            34577899999999987    6667899999999999999755 4899999975

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

Probab=99.20  E-value=4.5e-12  Score=77.87  Aligned_cols=48  Identities=27%  Similarity=0.615  Sum_probs=40.9

Q ss_pred             CCccCcccccccccCCcceecc--CCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRS--KCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~--~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ++.+|.||++...+    .+++  ||||. |+..|+..|...+..||+||+++..
T Consensus         7 ~~~~C~IC~~~~~~----~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKN----GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSC----EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCC----EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            55689999998876    4444  89999 8999999999988999999998854

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

Probab=99.19  E-value=1.9e-11  Score=79.28  Aligned_cols=50  Identities=16%  Similarity=0.097  Sum_probs=44.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      .+...|+||++.|.+    ++.++|||.|+..||..|+..+.+||+||.++...
T Consensus        12 p~~~~CpI~~~~m~d----PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTD----PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CTTTBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             chheECcccCchhcC----CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            467899999999998    88888999999999999998889999999987543

>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=99.19  E-value=1.2e-11  Score=100.49  Aligned_cols=55  Identities=24%  Similarity=0.639  Sum_probs=46.1

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccCCCCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAWPSVT  176 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~~~  176 (184)
                      ....|+||++.+..    ++.++|||.||..|+..|+. ...+||+||.++.......+.
T Consensus       331 ~~~~C~ICle~~~~----pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~v~  386 (389)
T 2y1n_A          331 TFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVD  386 (389)
T ss_dssp             SSSBCTTTSSSBCC----EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEECSCC
T ss_pred             CCCCCCccCcCCCC----eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCceeEecC
Confidence            34689999999976    66678999999999999998 788999999998776554443

>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=99.18  E-value=6.4e-12  Score=76.94  Aligned_cols=48  Identities=19%  Similarity=0.471  Sum_probs=40.4

Q ss_pred             CCccCcccccccccCCcceecc--CCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRS--KCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~--~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      ....|.||++...+    ..+.  ||||. |+..|+..|.+.+..||+||+++..
T Consensus         6 ~~~~C~IC~~~~~~----~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRD----GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSC----EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCC----eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            55689999998765    3333  89998 9999999999888999999998854

>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=99.15  E-value=3.2e-11  Score=80.61  Aligned_cols=49  Identities=18%  Similarity=0.127  Sum_probs=44.6

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .+...|+||++.|.+    ++.++|||.|+..||..|+..+.+||.||.++..
T Consensus        27 p~~~~CpI~~~~m~d----PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLMTD----PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBCSS----EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcccC----CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            467899999999998    8878899999999999999988999999998754

>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=99.14  E-value=4.5e-11  Score=79.56  Aligned_cols=49  Identities=16%  Similarity=0.037  Sum_probs=44.7

Q ss_pred             CCCccCcccccccccCCcceeccCCC-CcccHhhHHHHHhCCCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCN-HIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      .+...|+||++.|.+    ++.++|| |.|+..||..|+..+.+||+||.++..
T Consensus        20 p~~~~CpI~~~~m~d----PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCD----PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBCSS----EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHhcCCcCccccccC----CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            467899999999998    8888999 999999999999888999999998854

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

Probab=99.12  E-value=1.1e-11  Score=74.08  Aligned_cols=45  Identities=20%  Similarity=0.455  Sum_probs=38.0

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      .+...|+||++.+..    ++.++|||.||..|+..|   ...||+||+.+.
T Consensus         4 ~~~~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC----PKLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBC----CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccCC----eEEcCCCCcccHHHHccC---CCCCCcCCcEee
Confidence            366789999999987    566689999999999874   578999999874

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

Probab=99.08  E-value=3.1e-11  Score=95.88  Aligned_cols=55  Identities=27%  Similarity=0.745  Sum_probs=43.4

Q ss_pred             CCCCccCcccccccccCCccee----ccCCCCcccHhhHHHHHhCC-----------Ccccccccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKV----RSKCNHIFHQTCIDDWLDDH-----------STCPLCRGRVRRI  170 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~----~~~C~H~Fh~~Ci~~w~~~~-----------~~CP~Cr~~~~~~  170 (184)
                      .+...+|+||++.+.++..++.    .++|+|.||..|+.+|++..           .+||+||+++...
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            3467799999999988555542    23699999999999999742           4799999988643

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

Probab=99.08  E-value=1.7e-11  Score=77.44  Aligned_cols=45  Identities=22%  Similarity=0.557  Sum_probs=38.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ++..|+||++.+.+    ++.+||||. ||..|+..|    ..||+||.++...
T Consensus        23 ~~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           23 EEKLCKICMDRNIA----IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHTBCTTTSSSBCC----EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             cCCCCCCCCCCCCC----EEEcCCCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            45579999999877    667789999 999999998    8899999988654

>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=99.06  E-value=2.2e-11  Score=83.63  Aligned_cols=45  Identities=31%  Similarity=0.744  Sum_probs=39.6

Q ss_pred             CCccCcccccccccCCcceecc-CCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      +...|+||++.+..    ++.+ +|||.||..||..|+.  ..||+||..+.
T Consensus        21 ~~~~C~IC~~~~~~----pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           21 KLLRCSRCTNILRE----PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             HTTSCSSSCSCCSS----CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hCCCCCCCChHhhC----ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            56789999999977    6666 8999999999999997  88999999874

>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=1.6e-10  Score=84.31  Aligned_cols=52  Identities=27%  Similarity=0.591  Sum_probs=43.6

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC-Ccccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRVRRI  170 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-~~CP~Cr~~~~~~  170 (184)
                      ...+...|+||++.+..    ++.++|||.||..|+..|+..+ .+||.||..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           14 PLESKYECPICLMALRE----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCCGGGBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCChhhcC----cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            34577899999999987    5667899999999999999754 4999999988653

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

Probab=98.98  E-value=4.6e-10  Score=69.62  Aligned_cols=48  Identities=25%  Similarity=0.629  Sum_probs=39.5

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ...+...|.||++...+    .+++||||. ||..|+..    ...||+||.++...
T Consensus        11 ~~~~~~~C~IC~~~~~~----~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVN----WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCCSSCCSSSSSSCCC----CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             cCCCCCCCCCcCcCCCC----EEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            33467889999998876    677789999 99999984    47899999988653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.97  E-value=5.4e-10  Score=87.30  Aligned_cols=51  Identities=12%  Similarity=0.191  Sum_probs=44.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccccc
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR  169 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~  169 (184)
                      ...+...|+||++.|.+    ++.++|||.||..||..|+.. +.+||+||.++..
T Consensus       204 ~~~~~~~c~i~~~~~~d----Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          204 DIPDYLCGKISFELMRE----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCCSTTBCTTTCSBCSS----EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCCcccCCcCcCCHhcC----CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            34478899999999998    888899999999999999975 4559999998854

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

Probab=98.95  E-value=1.8e-09  Score=79.17  Aligned_cols=53  Identities=11%  Similarity=0.152  Sum_probs=44.9

Q ss_pred             ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCcccccccccccc
Q 042206          114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRRI  170 (184)
Q Consensus       114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~~  170 (184)
                      ....+...|+||++.|.+    ++.++|||.|+..||..|+.. +.+||+||.++...
T Consensus       101 ~~ip~~f~CPI~~elm~D----PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          101 REIPDYLCGKISFELMRE----PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCcHhhcccCccccCCC----CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            334578899999999998    888899999999999999975 45799999988543

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

Probab=98.91  E-value=5.2e-10  Score=70.69  Aligned_cols=44  Identities=23%  Similarity=0.590  Sum_probs=36.8

Q ss_pred             CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      +...|+||++.+.+    ++++||||. ||..|+..    ...||+||.++..
T Consensus        24 ~~~~C~IC~~~~~~----~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIA----IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCC----BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCC----EEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            34579999999877    667789999 99999964    3789999998865

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

Probab=98.89  E-value=5.9e-10  Score=73.55  Aligned_cols=45  Identities=27%  Similarity=0.629  Sum_probs=38.8

Q ss_pred             CCccCcccccccccCCcceeccC-CCCcccHhhHHHHHhCC------Ccccc--cccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSK-CNHIFHQTCIDDWLDDH------STCPL--CRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~~------~~CP~--Cr~~  166 (184)
                      +...|+||++.|.+    ++.++ |||.|+..||..|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~d----PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKK----PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSS----EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcC----CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            56789999999988    77775 99999999999999753      58999  9855

>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=98.85  E-value=4.5e-10  Score=71.75  Aligned_cols=45  Identities=27%  Similarity=0.747  Sum_probs=37.9

Q ss_pred             CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      +...|.||++.+.+    .+++||||. ||..|+..|    ..||+||.++...
T Consensus        17 ~~~~C~IC~~~~~~----~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           17 EAMLCMVCCEEEIN----STFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHTBCTTTSSSBCC----EEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCCEeEEeCcccCc----EEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            34579999999877    677789999 999999876    4999999988664

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

Probab=98.82  E-value=2e-09  Score=64.99  Aligned_cols=48  Identities=27%  Similarity=0.734  Sum_probs=36.5

Q ss_pred             CCCccCcccccccccCCcceeccCCC--C---cccHhhHHHHHh--CCCcccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCN--H---IFHQTCIDDWLD--DHSTCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~--H---~Fh~~Ci~~w~~--~~~~CP~Cr~~~~  168 (184)
                      ++...|.||+++.  ++.+  ..||.  |   .||..|+.+|+.  .+.+||+||..+.
T Consensus         4 ~~~~~CrIC~~~~--~~~l--~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER--FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC--CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce--ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            3667899999974  3333  34665  4   899999999995  4689999998764

>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=98.65  E-value=1.2e-08  Score=67.07  Aligned_cols=51  Identities=25%  Similarity=0.701  Sum_probs=39.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--------CCcccc--cccc--ccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--------HSTCPL--CRGR--VRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--------~~~CP~--Cr~~--~~~  169 (184)
                      +..+|+||++.+...+.+. +.+|||.||.+|+..++..        ...||.  |+..  +..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~-l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEE-ETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCcCCcccCcccccccceE-cCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            5668999999987654433 3369999999999999852        247999  9987  544

>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=98.65  E-value=1.2e-08  Score=61.78  Aligned_cols=52  Identities=19%  Similarity=0.289  Sum_probs=44.4

Q ss_pred             ccCcccccccccCCcceecc-CCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206          120 STCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV  175 (184)
Q Consensus       120 ~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~  175 (184)
                      ..|+|+++.+.+    ++.. ++||.|...||.+|++.+.+||+.+.++....+..+
T Consensus         4 ~~CpIs~~~m~d----PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip~   56 (61)
T 2bay_A            4 MLCAISGKVPRR----PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEI   56 (61)
T ss_dssp             CCCTTTCSCCSS----EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEEC
T ss_pred             EEecCCCCCCCC----CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEEC
Confidence            579999999987    6766 799999999999999888889999999876555443

>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=4.5e-09  Score=84.72  Aligned_cols=45  Identities=29%  Similarity=0.747  Sum_probs=39.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      ++..|+||++.+..    ++.+||||. ||..|+..|    ..||+||.++...
T Consensus       294 ~~~~C~IC~~~~~~----~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVS----VVFIPCGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCC----EEEETTCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCc----eEEcCCCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            56789999999987    677789999 999999988    7899999988653

>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=98.60  E-value=1.8e-08  Score=77.50  Aligned_cols=49  Identities=29%  Similarity=0.602  Sum_probs=41.1

Q ss_pred             CCCccCcccccccccCCcceec-cCCCCcccHhhHHHHHhCC--Ccccc--ccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDH--STCPL--CRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~--~~CP~--Cr~~~~~  169 (184)
                      .....|+||++.|..    ++. ..|||.|+..||..|+..+  ..||+  ||+.+..
T Consensus       179 ~~el~CPIcl~~f~D----PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          179 KIELTCPITCKPYEA----PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             BCCSBCTTTSSBCSS----EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             ceeeECcCccCcccC----CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            467789999999988    665 3899999999999999754  57999  9987754

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

Probab=98.27  E-value=6.8e-07  Score=68.44  Aligned_cols=49  Identities=22%  Similarity=0.695  Sum_probs=40.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC--Cccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH--STCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~CP~Cr~~~~~  169 (184)
                      ....|.||.+....+..+.   .|+|.||..|+..|++.+  ..||.|+.....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~---~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECS---SSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCcccC---ccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            4778999999999875443   499999999999999754  489999887643

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

Probab=98.26  E-value=5.1e-07  Score=59.04  Aligned_cols=49  Identities=24%  Similarity=0.445  Sum_probs=37.4

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~  172 (184)
                      -|.+|--.+..  ..|.. ||+|+||.+|+..|.+ ..++||.|+.++..+..
T Consensus         3 fC~~C~~Pi~i--ygRmI-PCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMI-PCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCSE--EEEEE-TTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeEE--Eeeec-cccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            37777766654  33444 6999999999999985 57899999998866543

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

Probab=95.85  E-value=0.0071  Score=36.59  Aligned_cols=46  Identities=20%  Similarity=0.405  Sum_probs=32.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC----Ccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----STCPLCRGR  166 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----~~CP~Cr~~  166 (184)
                      .....|.+|.+.    .++...-.|...||..|+.+.+...    =.||.|+..
T Consensus        10 ~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           10 APGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            456779999742    3344444688999999999887542    269999754

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

Probab=94.52  E-value=0.023  Score=36.99  Aligned_cols=36  Identities=14%  Similarity=0.355  Sum_probs=25.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHH
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL  154 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~  154 (184)
                      ++..|.||.+.+... .+...+.|+|.||..|+..+.
T Consensus         2 ee~~C~~C~~~~~~~-av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQD-AVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCCB-CCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCCC-ceEECCcCChHHhHHHCHHHh
Confidence            456799999864322 222235799999999999843

>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=94.03  E-value=0.2  Score=31.43  Aligned_cols=37  Identities=19%  Similarity=0.506  Sum_probs=24.9

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHH
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDW  153 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w  153 (184)
                      ....+..|.||- .+..++..+ ..-|+-+||..|+.+-
T Consensus        11 ~~~~D~~C~VC~-~~t~~~l~p-CRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           11 PVVNDEMCDVCE-VWTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTTC-CCCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             CCCCCcccCccc-cccccceec-cccccccccHhhcccc
Confidence            344778899986 333333322 2248899999999996

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

Probab=91.36  E-value=0.14  Score=30.20  Aligned_cols=46  Identities=22%  Similarity=0.650  Sum_probs=30.9

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGR  166 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~  166 (184)
                      ..+..|.+|...    .++...-.|...||..|+.+-+..    .-.||.|+..
T Consensus         9 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            366789999863    233334457788999999875432    2359999653

>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=89.19  E-value=0.11  Score=30.87  Aligned_cols=50  Identities=18%  Similarity=0.470  Sum_probs=33.2

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----CCCcccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----DHSTCPLCRGR  166 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----~~~~CP~Cr~~  166 (184)
                      ++...|++|...+..+......-.|..=||..|+.--..     ..-.||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            356679999988865443333335777799999864321     34569999753

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.90  E-value=0.068  Score=30.93  Aligned_cols=45  Identities=24%  Similarity=0.697  Sum_probs=29.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRG  165 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~  165 (184)
                      ..+..|.+|...   + .+...-.|...||..|+.+-+..    .-.||.|+.
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            366779999874   2 33444467788999999864432    224888854

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=88.22  E-value=0.14  Score=32.64  Aligned_cols=51  Identities=20%  Similarity=0.386  Sum_probs=33.1

Q ss_pred             CCCccCccccccc-ccCCcceeccCCCCcccHhhHHHHHh--CCCccccccccc
Q 042206          117 NKTSTCVICLGEF-RDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRV  167 (184)
Q Consensus       117 ~~~~~C~ICl~~~-~~~~~~~~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~  167 (184)
                      .++..|.+|...- ..++.+...-.|.-.||..|+.+-..  ..-.||.|....
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~   76 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSR   76 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHT
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCcc
Confidence            4677899998754 22334444446777899999975432  223599996643

>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=88.16  E-value=0.11  Score=30.71  Aligned_cols=45  Identities=22%  Similarity=0.543  Sum_probs=29.6

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~  166 (184)
                      .+..|.+|.+.    ..+...-.|...||..|+.+-+..    .-.||.|+..
T Consensus         8 ~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            8 HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            56679999852    233333357788999999864432    2259999654

>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=87.30  E-value=0.1  Score=38.67  Aligned_cols=46  Identities=26%  Similarity=0.536  Sum_probs=31.5

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~~  167 (184)
                      .+..|.+|...    .++...-.|...||..|+.+-+..    .-.||.|+..-
T Consensus         6 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            55679999743    233444467889999999876643    23599997643

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=87.07  E-value=0.18  Score=30.84  Aligned_cols=51  Identities=20%  Similarity=0.447  Sum_probs=33.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~~~  168 (184)
                      .+...|.+|..... ++.....-.|.--||..|+..-...    .-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            45567999987753 3333333457788999999765432    346999987654

>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=86.23  E-value=4.4  Score=25.60  Aligned_cols=60  Identities=23%  Similarity=0.416  Sum_probs=39.2

Q ss_pred             CCccCcccccccccCCc--cee-ccCCCCcccHhhHHHHH-hCCCccccccccccc-ccCCCCCC
Q 042206          118 KTSTCVICLGEFRDGDE--CKV-RSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRR-IAWPSVTT  177 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~--~~~-~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~-~~~~~~~~  177 (184)
                      ....|.||-+++.....  +.+ ...|+--.|..|+.-=. ..+..||.|++.+.. .-.|.+..
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr~kgsp~v~G   79 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLRGSPRVEG   79 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCTTCCCCTT
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccccccCCCCccc
Confidence            55689999998743322  222 33466668999988443 567899999998853 33444443

>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=85.99  E-value=0.16  Score=36.72  Aligned_cols=46  Identities=26%  Similarity=0.595  Sum_probs=31.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~~  167 (184)
                      .+..|.+|...    .++...-.|...||..|+.+-+..    .-.||.|+..-
T Consensus         3 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            3 NEDWCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCSSCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            45569999843    233444467789999999876543    23599997643

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=85.57  E-value=0.34  Score=29.47  Aligned_cols=50  Identities=20%  Similarity=0.407  Sum_probs=32.6

Q ss_pred             CCCccCccccccc-ccCCcceeccCCCCcccHhhHHHHHh--CCCcccccccc
Q 042206          117 NKTSTCVICLGEF-RDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCRGR  166 (184)
Q Consensus       117 ~~~~~C~ICl~~~-~~~~~~~~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~  166 (184)
                      .++..|.+|...- ..++.+...-.|.-.||..|+..-..  ..=.||.|+..
T Consensus        14 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~~   66 (71)
T 2ku3_A           14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   66 (71)
T ss_dssp             CSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcCc
Confidence            3667899998764 33344444446888999999975332  12358888653

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=85.48  E-value=0.67  Score=41.87  Aligned_cols=50  Identities=16%  Similarity=0.068  Sum_probs=43.5

Q ss_pred             CCCccCcccccccccCCcceeccCCC-CcccHhhHHHHHhCCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCN-HIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      -+...|+|-++.+.+    ++.++-| +.|-...|.+|+..+.+||.=|.++...
T Consensus       889 P~~F~cPIs~~lM~D----PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          889 PDEFLDPLMYTIMKD----PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CGGGBCTTTCSBCSS----EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             cHHhCCcchhhHHhC----CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            467789999999999    8888887 5899999999999899999999888643

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=84.48  E-value=0.19  Score=29.42  Aligned_cols=46  Identities=24%  Similarity=0.701  Sum_probs=30.9

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~~  167 (184)
                      .+..|.+|...   + .+...-.|...||..|+.+-+..    .-.||.|+...
T Consensus         4 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            4 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             CCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            45679999864   2 33444467888999999864432    22599997654

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.99  E-value=0.37  Score=30.88  Aligned_cols=50  Identities=22%  Similarity=0.414  Sum_probs=32.9

Q ss_pred             CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccc
Q 042206          116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGR  166 (184)
Q Consensus       116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~  166 (184)
                      ..++..|.+|...-.. +.+...-.|...||..|+.+=+..    .=.||.|+..
T Consensus        13 ~~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           13 FIDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             ccCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            3466789999876432 233444467889999999754432    2249999764

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=83.90  E-value=0.23  Score=32.99  Aligned_cols=47  Identities=28%  Similarity=0.578  Sum_probs=30.3

Q ss_pred             CccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRG  165 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~  165 (184)
                      -..|.+|...-.+++.+...-.|...||..|+.+-+..    .=.||.|+.
T Consensus        61 C~~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           61 CKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             TCCBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             CCccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            33688888653333444444468899999999765532    225888864

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=83.69  E-value=0.33  Score=28.96  Aligned_cols=45  Identities=22%  Similarity=0.544  Sum_probs=30.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~  166 (184)
                      .+..|.+|.+.    ..+...-.|...||..|+.+-+..    .-.||.|...
T Consensus         7 ~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            7 NEDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CCCSBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            56679999864    233444467788999999864432    2259999653

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=82.41  E-value=0.96  Score=28.13  Aligned_cols=50  Identities=26%  Similarity=0.529  Sum_probs=32.5

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHH------hCCCccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL------DDHSTCPLCRGRV  167 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~------~~~~~CP~Cr~~~  167 (184)
                      +...|.+|...|..-..---...||.+||..|....+      +....|-.|-..+
T Consensus        18 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~~~l~~~~~~~RVC~~C~~~l   73 (82)
T 2yw8_A           18 EATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALPSYPKPVRVCDSCHTLL   73 (82)
T ss_dssp             CCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEEECCTTCSSCEEECHHHHHHT
T ss_pred             cCCcccCcCCcccCccccccCCCCCCEEChHHhCCeeecCCCCCcCEECHHHHHHH
Confidence            5567999999997543323344699999999976432      1223466665544

>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=82.02  E-value=1.1  Score=26.65  Aligned_cols=35  Identities=26%  Similarity=0.659  Sum_probs=24.9

Q ss_pred             CCCccCcccccccccCCcceecc-CCCCcccHhhHH
Q 042206          117 NKTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCID  151 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~  151 (184)
                      .....|.+|...+..++.....- .|.--||..|+.
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            35668999999987766555454 577789999974

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=81.98  E-value=2.2  Score=28.08  Aligned_cols=34  Identities=24%  Similarity=0.563  Sum_probs=24.0

Q ss_pred             CCccCcccccccc-----cCCcceeccCCCCcccHhhHH
Q 042206          118 KTSTCVICLGEFR-----DGDECKVRSKCNHIFHQTCID  151 (184)
Q Consensus       118 ~~~~C~ICl~~~~-----~~~~~~~~~~C~H~Fh~~Ci~  151 (184)
                      ....|.+|+..-.     .++++.....|+..||..|+.
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            4567999987632     233455555799999999995

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=80.93  E-value=1.3  Score=27.99  Aligned_cols=54  Identities=19%  Similarity=0.306  Sum_probs=36.3

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHH-------hCCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-------DDHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-------~~~~~CP~Cr~~~~~~  170 (184)
                      .+...|.+|...|..-..---...||++||..|.....       +....|-.|-..+...
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~~~lp~~g~~~~RVC~~C~~~l~~~   67 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTILTRG   67 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHHHHHHHC
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCCceeccccCCCcCEECHHHHHHHHhc
Confidence            35668999999997643323344699999999976532       1234688886666543

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=80.47  E-value=0.31  Score=32.87  Aligned_cols=48  Identities=21%  Similarity=0.449  Sum_probs=31.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG  165 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~  165 (184)
                      ....|..|-..|..-..---...||.+||..|..........|-.|-.
T Consensus        18 ~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~~   65 (120)
T 1y02_A           18 LEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   65 (120)
T ss_dssp             --CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             ccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHHH
Confidence            445799999998753322334579999999997766555677888844

---

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	184
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-16
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	8e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	9e-09
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 68.0 bits (166), Expect = 1e-16
 Identities = 25/53 (47%), Positives = 32/53 (60%)

Query: 115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
           A++    C +CL E  DG+E +   +C H FH  C+D WL  HSTCPLCR  V
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 56.5 bits (136), Expect = 5e-12
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 3/49 (6%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170
           C ICL +  +     +   C H F   CI  W+  + TCPLC+  V  +
Sbjct: 8   CPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV 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 = 50.8 bits (121), Expect = 8e-10
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 5/50 (10%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR 169
            C IC    +D         C H+   +C+  W + +   CP CR  ++ 
Sbjct: 25  LCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG 70

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 4e-09
 Identities = 13/43 (30%), Positives = 14/43 (32%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
           C          +       CNH FH  CI  WL     CPL  
Sbjct: 38  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.6 bits (113), Expect = 9e-09
 Identities = 9/48 (18%), Positives = 14/48 (29%), Gaps = 7/48 (14%)

Query: 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168
            C  C  E +          C H     C++        CP+C+    
Sbjct: 8   RCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (112), Expect = 1e-08
 Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 120 STCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR 169
             C  C          K+  + C H   ++C+D         CP C   +R+
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK 55

>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 = 45.5 bits (107), Expect = 6e-08
 Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 1/44 (2%)

Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHST-CPLCR 164
           C +C+      D       C +   + C      D +  CP CR
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>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 = 44.3 bits (104), Expect = 5e-07
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 7/59 (11%)

Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS---TCPLCRGRVRR 169
           +A+ K   C ICL   ++     V +KC+HIF + C+   L+       CPLC+  + +
Sbjct: 16  NAMQKILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.4 bits (102), Expect = 6e-07
 Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-STCPLCRGRVRR 169
           K+ +C IC     D     V + C H+F + CI   L    S CP CR     
Sbjct: 22  KSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP 70

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.7 bits (99), Expect = 2e-06
 Identities = 10/57 (17%), Positives = 18/57 (31%), Gaps = 5/57 (8%)

Query: 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-----DDHSTCPLCR 164
           +     +    +   +          +KC+H FH  C+         D    CP C+
Sbjct: 33  EKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>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 = 41.0 bits (95), Expect = 3e-06
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 3/51 (5%)

Query: 121 TCVICLGEFRDGDECKVRSK-CNHIFHQTCIDDWLD--DHSTCPLCRGRVR 168
            C IC  E  +               H++C+  WL    ++ C +C     
Sbjct: 8   VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58

>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 = 35.8 bits (82), Expect = 5e-04
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 9/54 (16%)

Query: 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS--------TCPLCR 164
           +S C +CLGE+       + ++C  IF   C+  +++           +CP   
Sbjct: 5   SSGCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 0.002
 Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 5/55 (9%)

Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168
           D + K   C  C    R+         C HIF   C+ D +   + CP+C     
Sbjct: 17  DRLEKLLRCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPAW 66

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	184
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.78
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.63
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.62
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.56
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.55
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.55
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.53
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.42
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.41
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.36
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.34
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.28
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.2
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.13
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.13
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.95
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.61
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	95.4
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	92.38
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.66
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	88.3
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	87.35
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	87.17
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	86.92
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	86.89
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	85.36
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	84.0
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	83.4
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	81.06
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	80.06

>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=99.78  E-value=3.2e-20  Score=109.57  Aligned_cols=52  Identities=46%  Similarity=1.069  Sum_probs=47.1

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      +++.+|+||+++|..++.+..+++|+|.||..||.+|++.+.+||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            3566899999999999998888789999999999999999999999999763

>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=99.63  E-value=3.9e-17  Score=95.10  Aligned_cols=49  Identities=20%  Similarity=0.467  Sum_probs=42.3

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR  169 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~  169 (184)
                      +|+||+++|..++.....++|||.||.+|+.+|+.. +.+||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999999887776666689999999999999975 5579999998854

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

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

Probab=99.62  E-value=1.1e-16  Score=98.50  Aligned_cols=51  Identities=31%  Similarity=0.774  Sum_probs=42.5

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~  171 (184)
                      ...+|+||++.+.+  . ...++|||.||..||.+|++.+.+||+||+++....
T Consensus         4 ~~d~C~IC~~~~~~--~-~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~   54 (68)
T d1chca_           4 VAERCPICLEDPSN--Y-SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVV   54 (68)
T ss_dssp             CCCCCSSCCSCCCS--C-EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEE
T ss_pred             CCCCCccCCcCccC--C-cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhc
Confidence            45679999999864  2 234579999999999999999999999999986543

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

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

Probab=99.56  E-value=1.8e-15  Score=95.53  Aligned_cols=51  Identities=24%  Similarity=0.690  Sum_probs=42.2

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW  172 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~  172 (184)
                      ....|+||++.+..    ++.++|||.||..||..|+. ++++||+||+.+.....
T Consensus        22 ~~~~C~IC~~~~~~----~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          22 TFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             CTTBCTTTSSSBCC----EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCCccCCCcCCC----eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            34569999999876    66678999999999999997 55789999999865443

>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=99.55  E-value=1.2e-15  Score=98.36  Aligned_cols=51  Identities=31%  Similarity=0.634  Sum_probs=41.2

Q ss_pred             CCccCcccccccccCCc--------------ceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDE--------------CKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~--------------~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      .+..|+||++.+.....              ....++|||.||..||.+|++.+.+||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            45569999988864332              2345579999999999999999999999999874

>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=99.55  E-value=1.1e-15  Score=93.05  Aligned_cols=54  Identities=19%  Similarity=0.418  Sum_probs=41.9

Q ss_pred             CCccCcccccccccCC-cceeccCCCCcccHhhHHHHHh-CCCccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~  171 (184)
                      ++..|+||++.+..+. .....++|||.||.+||..|+. .+.+||+||+++....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            5678999999875443 3334557999999999999995 4568999999886543

>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=99.53  E-value=4.1e-15  Score=100.42  Aligned_cols=57  Identities=21%  Similarity=0.472  Sum_probs=42.7

Q ss_pred             CCccCcccccccccC--------------CcceeccCCCCcccHhhHHHHHhC-----CCcccccccccccccCCC
Q 042206          118 KTSTCVICLGEFRDG--------------DECKVRSKCNHIFHQTCIDDWLDD-----HSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~--------------~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~CP~Cr~~~~~~~~~~  174 (184)
                      .+..|+||++.+...              +....+++|+|.||..||..|++.     +.+||+||+.+....-..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~~q   99 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQ   99 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCcCCC
Confidence            455799999998542              233445689999999999999974     347999999886554433

>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=99.42  E-value=2.3e-14  Score=84.38  Aligned_cols=50  Identities=18%  Similarity=0.277  Sum_probs=42.7

Q ss_pred             cCcccccccccCCcceec-cCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206          121 TCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS  174 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~  174 (184)
                      .|+||++.+.+    ++. +.|||.||.+||.+|++.+.+||+||+++....+..
T Consensus         2 ~C~Ic~~~~~~----Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLip   52 (56)
T d2baya1           2 LCAISGKVPRR----PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   52 (56)
T ss_dssp             CCTTTCSCCSS----EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             CCccCCchHHh----cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhcee
Confidence            59999999987    654 369999999999999999999999999987655443

>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=99.41  E-value=3.3e-14  Score=90.69  Aligned_cols=52  Identities=33%  Similarity=0.605  Sum_probs=43.6

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccCC
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAWP  173 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~  173 (184)
                      +...|+||++.+.+    ++.++|||.||..||..|++ ++..||.||.++....+.
T Consensus        22 ~~l~C~IC~~~~~~----pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSS----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhc----ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            44679999999987    77778999999999999996 566899999988665443

>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=99.36  E-value=3.7e-14  Score=83.26  Aligned_cols=44  Identities=20%  Similarity=0.489  Sum_probs=37.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~  168 (184)
                      +..+|+||++.+.+    ++.++|||.||..||..|   +.+||+||+++.
T Consensus         5 ~~l~C~IC~~~~~~----p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKC----PKLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBC----CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCC----CEEecCCCHHhHHHHHcC---CCcCcCCCCccc
Confidence            45689999999977    566689999999999865   578999999884

>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=99.34  E-value=2.2e-13  Score=90.10  Aligned_cols=50  Identities=36%  Similarity=0.865  Sum_probs=41.1

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC---Cccccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLCRGRVRRIA  171 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~CP~Cr~~~~~~~  171 (184)
                      +...|+||++.+.+    ++.++|||.||..||..|+...   ..||.||.++....
T Consensus        20 ~~l~CpIC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          20 KILECPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HHTSCSSSCCCCSS----CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             cCcCCCccCchhCC----eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            34479999999977    6667899999999999999654   47999999885443

>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=99.28  E-value=1e-12  Score=78.30  Aligned_cols=52  Identities=19%  Similarity=0.461  Sum_probs=38.3

Q ss_pred             CCCccCcccccccccCCcce-eccCCCCcccHhhHHHHHh--CCCcccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECK-VRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVR  168 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~-~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~  168 (184)
                      ++...|.||++.+......+ ....|+|.||..||..|+.  ++.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            36678999999886532221 1113459999999999994  5678999999874

>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=5.4e-12  Score=79.45  Aligned_cols=50  Identities=12%  Similarity=0.141  Sum_probs=43.3

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~  170 (184)
                      .++..|+||++.|.+    ++.++|||.|+..||..|+. .+.+||.||.++...
T Consensus         5 P~~l~CpIc~~l~~d----Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMRE----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSS----EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhh----hcccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            367789999999988    78789999999999999996 566899999987543

>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=99.13  E-value=1.4e-11  Score=77.14  Aligned_cols=49  Identities=27%  Similarity=0.556  Sum_probs=42.7

Q ss_pred             CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRR  169 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~  169 (184)
                      .++..|+||++.|.+    ++.++|||.|+..||..|+.. ...||.|+.++..
T Consensus         6 P~~l~CpIc~~~m~d----PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           6 PEYFRCPISLELMKD----PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS----EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CccCCCcCcCchhhC----ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            367889999999988    777789999999999999975 5679999998754

>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=99.13  E-value=4.6e-12  Score=82.68  Aligned_cols=46  Identities=30%  Similarity=0.728  Sum_probs=37.8

Q ss_pred             CCccCcccccccccCCccee-ccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR  169 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~  169 (184)
                      +...|+||++.|..    ++ +++|||.||..||..|+.  ..||.||.++..
T Consensus        21 ~~l~C~IC~~~~~~----pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          21 KLLRCSRCTNILRE----PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             HTTSCSSSCSCCSS----CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hcCCCccCCchhhc----CceeCCCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            44579999999976    44 347999999999999985  459999988754

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=3.4e-10  Score=73.67  Aligned_cols=50  Identities=16%  Similarity=0.011  Sum_probs=43.6

Q ss_pred             CCCccCcccccccccCCcceeccCCC-CcccHhhHHHHHhCCCcccccccccccc
Q 042206          117 NKTSTCVICLGEFRDGDECKVRSKCN-HIFHQTCIDDWLDDHSTCPLCRGRVRRI  170 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~  170 (184)
                      -++..|+||.+.|.+    ++.++|+ |.|+..||..|+..+..||+||.++...
T Consensus        20 P~~f~CPI~~~lm~d----PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          20 CDEFLDPIMSTLMCD----PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBCSS----EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cHHhCCcCchhHHHH----HHhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            467899999999999    7777776 5799999999999999999999988543

>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=98.61  E-value=8.8e-09  Score=66.19  Aligned_cols=46  Identities=26%  Similarity=0.671  Sum_probs=35.6

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--------CCcccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--------HSTCPLCR  164 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--------~~~CP~Cr  164 (184)
                      ...+|+||++++..++... +++|+|.||.+|+..|++.        .-.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~-~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEE-ETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEE-ECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            5668999999997655544 4579999999999999962        12599864

>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=95.40  E-value=0.0082  Score=35.99  Aligned_cols=37  Identities=22%  Similarity=0.588  Sum_probs=28.0

Q ss_pred             cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHH
Q 042206          115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDW  153 (184)
Q Consensus       115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w  153 (184)
                      ....+..|.|| +.+..++..+=. -|+.+||..|+.+.
T Consensus        11 ~v~~D~mC~vC-~v~t~~~l~pCR-vCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-Ccccccceecce-eecchhhHHHHHHh
Confidence            34577889999 777766554433 48899999999987

>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=92.38  E-value=0.016  Score=33.10  Aligned_cols=49  Identities=18%  Similarity=0.477  Sum_probs=34.3

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----CCCcccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----DHSTCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----~~~~CP~Cr~~  166 (184)
                      ....|.+|......++.....-.|+.-||..|+..-..     ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            45579999988766655444557899999999863211     23469999753

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.66  E-value=0.031  Score=30.28  Aligned_cols=44  Identities=30%  Similarity=0.691  Sum_probs=29.3

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC----ccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS----TCPLCRG  165 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~----~CP~Cr~  165 (184)
                      .|.||-..-.. +.+...-.|...||..|+.+-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58888765433 33344446889999999988664322    4888864

>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=88.30  E-value=0.033  Score=30.37  Aligned_cols=45  Identities=22%  Similarity=0.492  Sum_probs=29.6

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG  165 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~  165 (184)
                      .|.+|...|..-..-.....||.+|+..|....-.....|..|.+
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            478888888754433344469999999997665555567888853

>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=87.35  E-value=0.17  Score=28.07  Aligned_cols=45  Identities=29%  Similarity=0.585  Sum_probs=31.7

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLC  163 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C  163 (184)
                      ....|.-|...+.+ ..+...+.|++.|+.+|=.-.-+.-.+||-|
T Consensus        14 ~~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKD-QHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTT-SEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCC-CceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            44579999988854 3345577899999999953333455678877

>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=87.17  E-value=0.074  Score=30.82  Aligned_cols=45  Identities=27%  Similarity=0.610  Sum_probs=29.8

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC----Ccccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----STCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----~~CP~Cr~~  166 (184)
                      ....|.+|.+.   + .+...-.|...||..|+.+.+...    -.||.|+..
T Consensus         6 ~c~~C~~C~~~---~-~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   54 (70)
T d1fp0a1           6 SATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   54 (70)
T ss_dssp             SSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCCCCCCc---C-EEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCc
Confidence            34467777642   3 334444688999999999876432    249999653

>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=86.92  E-value=0.041  Score=33.44  Aligned_cols=51  Identities=20%  Similarity=0.512  Sum_probs=32.5

Q ss_pred             CCccCcccccccccC-CcceeccCCCCcccHhhHHHHH-----hC---CCcccccccccc
Q 042206          118 KTSTCVICLGEFRDG-DECKVRSKCNHIFHQTCIDDWL-----DD---HSTCPLCRGRVR  168 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~-----~~---~~~CP~Cr~~~~  168 (184)
                      ....|.||......+ ..+...-.|+..||..|+.+.+     ..   .-.||.|.....
T Consensus        15 ~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            455799998654432 2334344688899999987432     11   336999976443

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.89  E-value=0.058  Score=30.37  Aligned_cols=45  Identities=22%  Similarity=0.543  Sum_probs=29.5

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----CCcccccccc
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----HSTCPLCRGR  166 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----~~~CP~Cr~~  166 (184)
                      ....|.+|.+.    ..+...-.|.-.||..|+...+..    .-.||.|+..
T Consensus         8 ~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           8 HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            34469999742    233444467888999999765542    2359999654

>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=85.36  E-value=1.2  Score=25.88  Aligned_cols=49  Identities=18%  Similarity=0.384  Sum_probs=31.3

Q ss_pred             cCcccccccccCCcceeccCCCCcccHhhHH--HHH-h--CCCccccccccccc
Q 042206          121 TCVICLGEFRDGDECKVRSKCNHIFHQTCID--DWL-D--DHSTCPLCRGRVRR  169 (184)
Q Consensus       121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~--~w~-~--~~~~CP~Cr~~~~~  169 (184)
                      .+-||...+..++.....-.|.--||..|+.  ..- .  .+-.||.|+.....
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp   66 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCC
Confidence            3449988766554434444677789999985  221 2  24679999875433

>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=84.00  E-value=2.8  Score=24.79  Aligned_cols=59  Identities=22%  Similarity=0.394  Sum_probs=38.6

Q ss_pred             CCCccCcccccccccCCc--ce-eccCCCCcccHhhHHHH-HhCCCccccccccccc-ccCCCC
Q 042206          117 NKTSTCVICLGEFRDGDE--CK-VRSKCNHIFHQTCIDDW-LDDHSTCPLCRGRVRR-IAWPSV  175 (184)
Q Consensus       117 ~~~~~C~ICl~~~~~~~~--~~-~~~~C~H~Fh~~Ci~~w-~~~~~~CP~Cr~~~~~-~~~~~~  175 (184)
                      .....|.||-+.+.....  +. ..-.|+--.|..|..-= -..+..||.|++.+.. .-.+.+
T Consensus        14 ~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~kgsprv   77 (93)
T d1weoa_          14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLRGSPRV   77 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCTTCCCC
T ss_pred             cccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhcCCCCC
Confidence            356689999998854332  12 12246666899998743 4567889999988854 334444

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.40  E-value=0.18  Score=24.83  Aligned_cols=29  Identities=17%  Similarity=0.531  Sum_probs=23.4

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhH
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCI  150 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci  150 (184)
                      .-..|++|-..+.+    +++...|-.||..|+
T Consensus         7 tlEkC~~C~~~I~d----riLrA~Gk~yHP~CF   35 (35)
T d2dloa1           7 TLEKCATCSQPILD----RILRAMGKAYHPGCF   35 (35)
T ss_dssp             SCCBCTTTCCBCCS----CCEEETTEEECTTTC
T ss_pred             HHHHHHHhchHHHH----HHHHHhCCCCCCCCC
Confidence            44579999999888    777678989999883

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=81.06  E-value=0.43  Score=27.55  Aligned_cols=35  Identities=20%  Similarity=0.438  Sum_probs=25.8

Q ss_pred             CCccCcccccccccCCcceeccCCCCcccHhhHHH
Q 042206          118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDD  152 (184)
Q Consensus       118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~  152 (184)
                      ++..|.+|...|..-..-.....||++|+..|...
T Consensus        12 ~~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          12 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             cCCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            34579999999976444344557999999999754

>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=80.06  E-value=0.21  Score=28.83  Aligned_cols=47  Identities=21%  Similarity=0.334  Sum_probs=30.3

Q ss_pred             CccCcccccccccCCcceeccCCCCcccHhhHHHHHh----CCCcccccccc
Q 042206          119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD----DHSTCPLCRGR  166 (184)
Q Consensus       119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~~~CP~Cr~~  166 (184)
                      ...| ||......++.....-.|..-||..|+..-..    ....||.|+..
T Consensus        16 ~~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~   66 (72)
T d1weea_          16 KVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             EECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             eEEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCc
Confidence            3457 78776655554445556888899999754211    23469999654