Citrus Sinensis ID: 046929

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-
Protein Sequence
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGTASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccEEEccccccccHHHHHHHHHHccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEccccccHHHccccccccccccccHHHHHHHHHcccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccEHHccccccccEEEcccccccHHHHHHHHHHcccccccccEEEEcccc
Coil and Loop (DISEMBL)
mgsfcccpcieefedytnpsnsiyrncICIRFFFHQLLNGYGAmfhrlegrsvpisnlgtassassvpattlpdnslndnqfsvsrpatydtdqrysrlqrdglvsrrdkSMIYfqedaqpirrnmsssgreslgfgkkqnvvdseedcklvdsessdKALATkaaygpytqtstededvcptcldeytpenpkittrcshhfHLGCIYEWlersescpicgkemefcesp
Flexible Loop (DISEMBL)
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGTASSASSVPAttlpdnslndnqfsvsrpatydtdqrysrlqrdglvsrrdksmiyfqedaqpirrnmsssgreslgfgkkqnvvdseEDCKLVDSESSDKALATKaaygpytqtstededvcPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP
Low Complexity Region (SEG)
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGtassassvpattLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP
Disordered region (IsUnstruct)
***FCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRS******************************************************************************************************************************DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE*******
Disordered Region (DISOPRED)
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNG*************************************************************************************************************************************STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF****
Disordered Region (DISEMBL)
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLG*********ATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPY*********VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP
Disordered Region (DISPRO)
*GSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLE**************************SLNDNQFSVSRPATYDTDQRYSRLQ*****************************************************************************EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGTASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP
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	231	2.2.26 [Sep-21-2011]
Q8LE94	231	E3 ubiquitin-protein liga	no	no	0.939	0.939	0.416	1e-42
Q4TU14	371	E3 ubiquitin-protein liga	no	no	0.190	0.118	0.477	4e-08
Q9M2S6	273	E3 ubiquitin-protein liga	no	no	0.359	0.304	0.337	1e-07
Q9CY62	165	E3 ubiquitin-protein liga	yes	no	0.341	0.478	0.402	2e-07
Q9ZT42	375	E3 ubiquitin-protein liga	no	no	0.216	0.133	0.38	2e-06
Q0IJ20	695	RING finger protein 145 O	no	no	0.186	0.061	0.413	1e-05
Q5BIY5	695	RING finger protein 145 O	N/A	no	0.186	0.061	0.413	1e-05
Q6AXU4	165	E3 ubiquitin-protein liga	yes	no	0.341	0.478	0.390	1e-05
Q75CC8	575	ERAD-associated E3 ubiqui	yes	no	0.251	0.100	0.362	2e-05
Q08109	551	ERAD-associated E3 ubiqui	yes	no	0.216	0.090	0.35	4e-05

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

 Score =  172 bits (437), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 102/245 (41%), Positives = 142/245 (57%), Gaps = 28/245 (11%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG    C  +E+ ++Y NP++S+YRNC CIR   H  LN Y ++F R E RS+P     +
Sbjct: 1   MGCVSSCFRVEDIDEYMNPNSSVYRNCPCIRCLAHNFLNLYISVFRRGETRSLP----SS 56

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
             + +S+ +++  DN L++   S  RP  YD D RY R     LVSRR+K   +  E+ +
Sbjct: 57  VQATASITSSSSHDNFLSEAFRSTPRPLPYDADPRYFR----SLVSRREKGSSHSHEEVE 112

Query: 121 PIRRNMSSSGRESLGFG------KKQNVVDSEED--------CKLVDSESSDKALATKAA 166
           P+R + S +  ES G G       K  + D +           +++ S S      ++  
Sbjct: 113 PLRSD-SDADSESFGVGGCKWANNKSTLSDKDSKEEYSSKSSLRILRSRSKSIMADSENM 171

Query: 167 YGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226
           Y       +EDEDVCPTCL+EYT ENPKI T+CSHHFHL CIYEW+ERSE+CP+CGK ME
Sbjct: 172 Y-----ILSEDEDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKVME 226

Query: 227 FCESP 231
           F E+P
Sbjct: 227 FNETP 231

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

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

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%)

Query: 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           +D C  CL+ +T ++P   T C H +HL CI EW +RS+ CPIC
Sbjct: 43  DDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPIC 86

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M2S6|SDIR1_ARATH E3 ubiquitin-protein ligase SDIR1 OS=Arabidopsis thaliana GN=SDIR1 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 38/83 (45%)

Query: 139 KQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTR 198
           K  V+D E  C L    S+  +          ++  TEDE  C  CL++ T      T  
Sbjct: 169 KYKVLDPENGCSLAKQASTSSSAEKMLDSANESKKGTEDELTCSVCLEQVTVGEIVRTLP 228

Query: 199 CSHHFHLGCIYEWLERSESCPIC 221
           C H FH GCI  WL +  +CP+C
Sbjct: 229 CLHQFHAGCIDPWLRQQGTCPVC 251

E3 ubiquitin-protein ligase that acts as a positive regulator of abscisic acid-related stress signal transduction.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 56.6 bits (135), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 40/82 (48%), Gaps = 3/82 (3%)

Query: 147 EDCKLVDSESSDKALATKAAYG--PYTQTSTEDEDV-CPTCLDEYTPENPKITTRCSHHF 203
           ED  LVD E      A KA     P T  S+   D+ CP CL E+  E   I   C H F
Sbjct: 51  EDLGLVDWEHHLPPPAAKAVVESLPRTVISSAKADLKCPVCLLEFEAEETVIEMPCHHLF 110

Query: 204 HLGCIYEWLERSESCPICGKEM 225
           H  CI  WL ++ SCP+C  E+
Sbjct: 111 HSNCILPWLSKTNSCPLCRHEL 132

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

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 28/50 (56%)

Query: 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
           +D C  CL+ +   +P   T C H +HL CI EW +RS  CP+C + +  
Sbjct: 30  DDACSICLESFCESDPSTLTSCKHEYHLQCILEWCQRSSQCPMCWQSISL 79

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q0IJ20|RN145_XENTR RING finger protein 145 OS=Xenopus tropicalis GN=rnf145 PE=2 SV=1

 Score = 50.1 bits (118), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           +  D+C  C   Y   N  + T CSH FH GC+ +WL   E+CP+C
Sbjct: 532 QHNDICSIC---YQDMNSAVITPCSHFFHPGCLKKWLYVQETCPLC 574

Xenopus tropicalis (taxid: 8364)

>sp|Q5BIY5|RN145_XENLA RING finger protein 145 OS=Xenopus laevis GN=rnf145 PE=2 SV=1

 Score = 50.1 bits (118), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           +  D+C  C   Y   N  + T CSH FH GC+ +WL   E+CP+C
Sbjct: 532 QHNDICSIC---YQDMNSAVITPCSHFFHPGCLKKWLYVQETCPLC 574

Xenopus laevis (taxid: 8355)

>sp|Q6AXU4|RN181_RAT E3 ubiquitin-protein ligase RNF181 OS=Rattus norvegicus GN=Rnf181 PE=1 SV=1

 Score = 50.1 bits (118), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/82 (39%), Positives = 40/82 (48%), Gaps = 3/82 (3%)

Query: 147 EDCKLVDSESSDKALATKAAYGPYTQT---STEDEDVCPTCLDEYTPENPKITTRCSHHF 203
           ED  LVD E      A KA      +T   S++ E  CP CL E+  E   I   C H F
Sbjct: 51  EDLGLVDWEHHLPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHLF 110

Query: 204 HLGCIYEWLERSESCPICGKEM 225
           H  CI  WL ++ SCP+C  E+
Sbjct: 111 HSNCILPWLSKTNSCPLCRHEL 132

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

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q75CC8|HRD1_ASHGO ERAD-associated E3 ubiquitin-protein ligase HRD1 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=HRD1 PE=3 SV=2

 Score = 49.7 bits (117), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 34/69 (49%), Gaps = 11/69 (15%)

Query: 164 KAAYGPYTQTSTEDED----VCPTCLDEYTP--ENPKITTR-----CSHHFHLGCIYEWL 212
           K  Y   +  S E  D    +C  C+D+  P  E  K+  R     C H  H GC+  W+
Sbjct: 299 KKLYEKLSDVSEEQLDDTDSMCIICMDDMLPTTETTKMNRRAKMLPCGHMLHFGCLKSWM 358

Query: 213 ERSESCPIC 221
           ERS++CPIC
Sbjct: 359 ERSQTCPIC 367

E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated E2 ligases, and transfers it to substrates promoting their degradation. Mediates the degradation of endoplasmic reticulum proteins (ERQC), also called ER-associated degradation (ERAD). Component of the HRD1 ubiquitin ligase complex, which is part of the ERAD-L and ERAD-M pathways responsible for the rapid degradation of soluble lumenal and membrane proteins with misfolded lumenal domains (ERAD-L), or ER-membrane proteins with misfolded transmembrane domains (ERAD-M).

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q08109|HRD1_YEAST ERAD-associated E3 ubiquitin-protein ligase HRD1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=HRD1 PE=1 SV=1

 Score = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 10/60 (16%)

Query: 172 QTSTEDEDVCPTCLDE--YTPENPKITTR--------CSHHFHLGCIYEWLERSESCPIC 221
           Q S  D+++C  C+DE  ++P       +        C H  HL C+  W+ERS++CPIC
Sbjct: 340 QNSANDDNICIICMDELIHSPNQQTWKNKNKKPKRLPCGHILHLSCLKNWMERSQTCPIC 399

E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC1 and UBC7 E2 ligases, and transfers it to substrates promoting their degradation. Mediates the degradation of endoplasmic reticulum proteins (ERQC), also called ER-associated degradation (ERAD). Component of the HRD1 ubiquitin ligase complex, which is part of the ERAD-L and ERAD-M pathways responsible for the rapid degradation of soluble lumenal and membrane proteins with misfolded lumenal domains (ERAD-L), or ER-membrane proteins with misfolded transmembrane domains (ERAD-M). ERAD-L substrates are ubiquitinated through HRD1 in conjunction with the E2 ubiquitin-conjugating enzymes UBC1 and UBC7-CUE1. Ubiquitinated substrates are then removed to the cytosol via the action of the UFD1-NPL4-CDC48/p97 (UNC) AAA ATPase complex and targeted to the proteasome. ERAD-M substrates are processed by the same HRD1-HRD3 core complex, but only a subset of the other components is required for ERAD-M.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	231
225425294	232	PREDICTED: E3 ubiquitin-protein ligase A	1.0	0.995	0.728	7e-95
224057856	223	predicted protein [Populus trichocarpa]	0.952	0.986	0.687	8e-84
147771744	244	hypothetical protein VITISV_040926 [Viti	0.813	0.770	0.687	9e-69
226494656	225	LOC100282797 [Zea mays] gi|194706242|gb|	0.974	1.0	0.558	8e-67
115441961	229	Os01g0926200 [Oryza sativa Japonica Grou	0.987	0.995	0.547	1e-66
242055471	229	hypothetical protein SORBIDRAFT_03g04449	0.991	1.0	0.549	2e-66
357126608	229	PREDICTED: E3 ubiquitin-protein ligase A	0.987	0.995	0.551	1e-65
20160724	235	P0482D04.13 [Oryza sativa Japonica Group	0.952	0.936	0.535	6e-62
414878909	230	TPA: putative RING zinc finger domain su	0.935	0.939	0.540	3e-61
449447440	227	PREDICTED: E3 ubiquitin-protein ligase A	0.974	0.991	0.510	4e-57

>gi|225425294|ref|XP_002268079.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290 isoform 1 [Vitis vinifera] gi|359473838|ref|XP_003631366.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290 isoform 2 [Vitis vinifera] gi|296085542|emb|CBI29274.3| unnamed protein product [Vitis vinifera]

 Score =  352 bits (903), Expect = 7e-95,   Method: Compositional matrix adjust.
 Identities = 169/232 (72%), Positives = 193/232 (83%), Gaps = 1/232 (0%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MGSFCCCPC +EFE+Y NPSNSIYR+CIC+RFFF QL +GY A+ HR +GRSVP    G 
Sbjct: 1   MGSFCCCPCGDEFEEYANPSNSIYRHCICLRFFFQQLFSGYTAISHRPDGRSVPSPIQGA 60

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
            S ASS   T LPD+SL+D    VSR A YD +QRYSRLQRDGLVSRRDKSM +FQ+ +Q
Sbjct: 61  TSLASSGIGTALPDSSLSDTHHPVSRTAPYDAEQRYSRLQRDGLVSRRDKSMTHFQDGSQ 120

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYG-PYTQTSTEDED 179
           P+RRN+SSSG E LGFGKK   V++EED KL  SE+S+K LATKAA+G  Y QT++EDED
Sbjct: 121 PLRRNISSSGMEPLGFGKKNYGVETEEDGKLAQSEASEKTLATKAAHGLAYIQTTSEDED 180

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
           VCPTCLDEYTPENPKITT+CSHHFHLGCIYEW+ERSESCPICGKEMEFCESP
Sbjct: 181 VCPTCLDEYTPENPKITTQCSHHFHLGCIYEWMERSESCPICGKEMEFCESP 232

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224057856|ref|XP_002299358.1| predicted protein [Populus trichocarpa] gi|222846616|gb|EEE84163.1| predicted protein [Populus trichocarpa]

 Score =  315 bits (808), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 154/224 (68%), Positives = 181/224 (80%), Gaps = 4/224 (1%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG+FCCCPC +E E++    NSIYR+C+C+RF FHQL +GYG +FHRLEGR+V  +  GT
Sbjct: 1   MGAFCCCPCSDEHEEHAYSGNSIYRHCVCLRFLFHQLRSGYGTVFHRLEGRTVSPTQEGT 60

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
           + +++ V  T LPD S ND Q S SRP  YDTDQRY+RLQR GLVSR  KSM +FQE++Q
Sbjct: 61  SLASTGV-GTGLPDGSENDTQLSSSRPLPYDTDQRYARLQRYGLVSR--KSMTHFQEESQ 117

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYG-PYTQTSTEDED 179
           P+RRNMSSS  ESLGFG+++N +DSE+D KL  SE SDK+LATK AY   Y Q S+EDED
Sbjct: 118 PLRRNMSSSAVESLGFGRRRNGIDSEDDNKLGYSELSDKSLATKVAYRLTYAQPSSEDED 177

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223
            CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK
Sbjct: 178 ACPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 221

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771744|emb|CAN78164.1| hypothetical protein VITISV_040926 [Vitis vinifera]

 Score =  265 bits (678), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 130/189 (68%), Positives = 151/189 (79%), Gaps = 1/189 (0%)

Query: 37  LLNGYGAMFHRLEGRSVPISNLGTASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRY 96
           ++  Y A+ HR +GRSVP    G  S ASS   T LPD+SL+D    VSR A YD +QRY
Sbjct: 1   MMMQYTAISHRPDGRSVPSPIQGATSLASSGIGTALPDSSLSDTHHPVSRTAPYDAEQRY 60

Query: 97  SRLQRDGLVSRRDKSMIYFQEDAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSES 156
           SRLQRDGLVSRRDKSM +FQ+ +QP+RRN+SSSG E LGFGKK   V++EED KL  SE+
Sbjct: 61  SRLQRDGLVSRRDKSMTHFQDGSQPLRRNISSSGMEPLGFGKKNYGVETEEDGKLAQSEA 120

Query: 157 SDKALATKAAYG-PYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS 215
           S+K LATKAA+G  Y QT++EDEDVCPTCLDEYTPENPKITT+CSHHFHLGCIYEW+ERS
Sbjct: 121 SEKTLATKAAHGLAYIQTTSEDEDVCPTCLDEYTPENPKITTQCSHHFHLGCIYEWMERS 180

Query: 216 ESCPICGKE 224
           ESCPICGK 
Sbjct: 181 ESCPICGKH 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226494656|ref|NP_001149175.1| LOC100282797 [Zea mays] gi|194706242|gb|ACF87205.1| unknown [Zea mays] gi|195625262|gb|ACG34461.1| protein binding protein [Zea mays] gi|224029405|gb|ACN33778.1| unknown [Zea mays] gi|414878907|tpg|DAA56038.1| TPA: putative RING zinc finger domain superfamily protein isoform 1 [Zea mays] gi|414878908|tpg|DAA56039.1| TPA: putative RING zinc finger domain superfamily protein isoform 2 [Zea mays]

 Score =  259 bits (661), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 129/231 (55%), Positives = 163/231 (70%), Gaps = 6/231 (2%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG FCCC   EEF++Y  P+N IYR C+ +R  FH +  GY A F RLE R    +  G 
Sbjct: 1   MGGFCCCLSAEEFDEYVYPNNPIYRQCVSLRHLFHSIFGGYTATFQRLESRPNNPAQ-GV 59

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
           A   S+ P+  + DNSLN     VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++ 
Sbjct: 60  APLGSTNPSVNINDNSLN----LVSRPPPYDTDPRYARVQREGLVSRREKSINLAQEESL 115

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDV 180
            +RRN SSSG E L   KK+N  ++E + K+  SES+ K+L+ KA    Y   ++EDEDV
Sbjct: 116 ALRRNASSSGIEHLAAQKKRNSTENEGEYKVHRSEST-KSLSAKAYSSSYAVVASEDEDV 174

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
           CPTCL+EYTP+NPKI T+C HHFHLGCIYEW+ERS++CPICGKEMEFCESP
Sbjct: 175 CPTCLEEYTPDNPKIITKCCHHFHLGCIYEWMERSDTCPICGKEMEFCESP 225

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115441961|ref|NP_001045260.1| Os01g0926200 [Oryza sativa Japonica Group] gi|57900128|dbj|BAD88190.1| zinc finger (C3HC4-type RING finger) protein-like [Oryza sativa Japonica Group] gi|113534791|dbj|BAF07174.1| Os01g0926200 [Oryza sativa Japonica Group] gi|215707113|dbj|BAG93573.1| unnamed protein product [Oryza sativa Japonica Group] gi|218189648|gb|EEC72075.1| hypothetical protein OsI_05009 [Oryza sativa Indica Group] gi|222619796|gb|EEE55928.1| hypothetical protein OsJ_04613 [Oryza sativa Japonica Group]

 Score =  258 bits (660), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 127/232 (54%), Positives = 166/232 (71%), Gaps = 4/232 (1%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGR-SVPISNLG 59
           MG FCCC C ++FE+Y +P+N IYR  +C+R FFH    GY A F RLE R S P    G
Sbjct: 1   MGGFCCCLCTDDFEEYAHPNNPIYRQGVCLRNFFHNFFGGYTATFQRLESRPSNPAQ--G 58

Query: 60  TASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDA 119
            A  AS+ P+T + DNSL++    VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++
Sbjct: 59  AAPLASTNPSTNITDNSLSETYHLVSRPPPYDTDPRYARVQREGLVSRREKSINLTQEES 118

Query: 120 QPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDED 179
             +RRN SSSG E L   KK +  + E + K+  SES+ K+L+ K+    +   ++EDED
Sbjct: 119 LALRRNGSSSGIEHLAAQKKWSSTEPEGEYKVHRSEST-KSLSAKSYNSSFAVVTSEDED 177

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
           VCPTCL+EYTP+NPKI  +CSHH+HL CIYEW+ERS++CPICGKEMEFCE+P
Sbjct: 178 VCPTCLEEYTPDNPKIIAKCSHHYHLSCIYEWMERSDTCPICGKEMEFCETP 229

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242055471|ref|XP_002456881.1| hypothetical protein SORBIDRAFT_03g044490 [Sorghum bicolor] gi|241928856|gb|EES02001.1| hypothetical protein SORBIDRAFT_03g044490 [Sorghum bicolor]

 Score =  258 bits (658), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 127/231 (54%), Positives = 162/231 (70%), Gaps = 2/231 (0%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG FCCC   E+FE+Y  P+N IYR CI +R FFH +  GY A F RLE R    +  G 
Sbjct: 1   MGGFCCCLSTEDFEEYVYPNNPIYRQCISLRHFFHSIFGGYTATFQRLESRPNNPAQ-GV 59

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
               S+ P+  + DNSL +    VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++ 
Sbjct: 60  TPPGSTNPSVNINDNSLAETYHLVSRPPPYDTDPRYARVQREGLVSRREKSINLAQEESL 119

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDV 180
            +RRN SSSG E L   KK++  ++E +  +  SES+ K+L+ KA    Y   ++EDEDV
Sbjct: 120 ALRRNGSSSGIEHLAAQKKRSSTENEGEYMVHRSEST-KSLSAKAYSSSYAVVASEDEDV 178

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
           CPTCL+EYTP+NPKI T+C HHFHLGCIYEW+ERS++CPICGKEMEFCESP
Sbjct: 179 CPTCLEEYTPDNPKIITKCCHHFHLGCIYEWMERSDTCPICGKEMEFCESP 229

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357126608|ref|XP_003564979.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290-like [Brachypodium distachyon]

 Score =  255 bits (651), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 128/232 (55%), Positives = 165/232 (71%), Gaps = 4/232 (1%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGR-SVPISNLG 59
           MG FCCC   E+FE+Y +P+N +YR CI +R FFH +  G+ A F RL+ R S P    G
Sbjct: 1   MGGFCCCLRTEDFEEYVHPNNPVYRQCISLRHFFHNIFGGHTATFQRLDSRPSNPAQ--G 58

Query: 60  TASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDA 119
               AS+ P T + D+SL++    VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++
Sbjct: 59  APPLASTNPITNITDSSLSETYHLVSRPPPYDTDPRYARVQREGLVSRREKSINLTQEES 118

Query: 120 QPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDED 179
             +RRN SSSG E L   KK +  + E + K+  SES+ K+L+ KA    Y   +TEDED
Sbjct: 119 PVLRRNGSSSGVEHLAAQKKWSNTELEGEHKVRRSEST-KSLSAKAYNSGYAVATTEDED 177

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
           VCPTCL++YTPENPKI T+CSHHFHL CIYEW+ERS++CP+CGKEMEFCESP
Sbjct: 178 VCPTCLEDYTPENPKIITKCSHHFHLSCIYEWMERSDTCPMCGKEMEFCESP 229

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|20160724|dbj|BAB89666.1| P0482D04.13 [Oryza sativa Japonica Group]

 Score =  243 bits (619), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 120/224 (53%), Positives = 158/224 (70%), Gaps = 4/224 (1%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGR-SVPISNLG 59
           MG FCCC C ++FE+Y +P+N IYR  +C+R FFH    GY A F RLE R S P    G
Sbjct: 1   MGGFCCCLCTDDFEEYAHPNNPIYRQGVCLRNFFHNFFGGYTATFQRLESRPSNPAQ--G 58

Query: 60  TASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDA 119
            A  AS+ P+T + DNSL++    VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++
Sbjct: 59  AAPLASTNPSTNITDNSLSETYHLVSRPPPYDTDPRYARVQREGLVSRREKSINLTQEES 118

Query: 120 QPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDED 179
             +RRN SSSG E L   KK +  + E + K+  SES+ K+L+ K+    +   ++EDED
Sbjct: 119 LALRRNGSSSGIEHLAAQKKWSSTEPEGEYKVHRSEST-KSLSAKSYNSSFAVVTSEDED 177

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223
           VCPTCL+EYTP+NPKI  +CSHH+HL CIYEW+ERS++CPICGK
Sbjct: 178 VCPTCLEEYTPDNPKIIAKCSHHYHLSCIYEWMERSDTCPICGK 221

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414878909|tpg|DAA56040.1| TPA: putative RING zinc finger domain superfamily protein [Zea mays]

 Score =  240 bits (613), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 120/222 (54%), Positives = 154/222 (69%), Gaps = 6/222 (2%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG FCCC   EEF++Y  P+N IYR C+ +R  FH +  GY A F RLE R    +  G 
Sbjct: 1   MGGFCCCLSAEEFDEYVYPNNPIYRQCVSLRHLFHSIFGGYTATFQRLESRPNNPAQ-GV 59

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
           A   S+ P+  + DNSLN     VSRP  YDTD RY+R+QR+GLVSRR+KS+   QE++ 
Sbjct: 60  APLGSTNPSVNINDNSLN----LVSRPPPYDTDPRYARVQREGLVSRREKSINLAQEESL 115

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDEDV 180
            +RRN SSSG E L   KK+N  ++E + K+  SES+ K+L+ KA    Y   ++EDEDV
Sbjct: 116 ALRRNASSSGIEHLAAQKKRNSTENEGEYKVHRSEST-KSLSAKAYSSSYAVVASEDEDV 174

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICG 222
           CPTCL+EYTP+NPKI T+C HHFHLGCIYEW+ERS++CPICG
Sbjct: 175 CPTCLEEYTPDNPKIITKCCHHFHLGCIYEWMERSDTCPICG 216

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447440|ref|XP_004141476.1| PREDICTED: E3 ubiquitin-protein ligase At3g02290-like [Cucumis sativus]

 Score =  226 bits (577), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 118/231 (51%), Positives = 154/231 (66%), Gaps = 6/231 (2%)

Query: 1   MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGT 60
           MG+ CCC  +E+FEDY NP++S+YRNC C+  F    LN Y  +F R E  SV  S  G 
Sbjct: 1   MGAVCCCLSVEDFEDYVNPNSSVYRNCTCLSCFIQSFLNAYTLIFRRGEVHSVSSSIQG- 59

Query: 61  ASSASSVPATTLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
              A+S+ +T   DNSL++   S  RP  YD D RY RLQRDGL+SRR+K   +  E+++
Sbjct: 60  ---ATSMNSTASTDNSLSEMYRSPPRPLPYDADPRYIRLQRDGLISRREKGSSHLHEESE 116

Query: 121 PIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYG-PYTQTSTEDED 179
           P+R  + +   +SLG G K+N     E+ K    +SS K  +TK+  G  Y  TS+EDED
Sbjct: 117 PLRSEVDTDS-DSLGSGGKRNGSACLEESKENLGKSSLKFPSTKSTSGLGYAYTSSEDED 175

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230
           VCPTCL+EYT ENPKI T+CSHHFHLGCIYEW+ERS++CP+CGK M F E+
Sbjct: 176 VCPTCLEEYTSENPKIVTKCSHHFHLGCIYEWMERSDNCPVCGKAMAFDET 226

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	231
TAIR|locus:2143251	232	AT5G15790 [Arabidopsis thalian	0.987	0.982	0.442	1.6e-47
TAIR|locus:2076542	231	AT3G02290 [Arabidopsis thalian	0.961	0.961	0.445	1.6e-45
TAIR|locus:2177881	212	AT5G41350 [Arabidopsis thalian	0.333	0.363	0.482	1.1e-20
TAIR|locus:505006415	190	RHB1A "RING-H2 finger B1A" [Ar	0.450	0.547	0.389	1.6e-17
MGI|MGI:1913760	165	Rnf181 "ring finger protein 18	0.341	0.478	0.402	8.4e-10
UNIPROTKB|Q3T0W3	153	RNF181 "E3 ubiquitin-protein l	0.484	0.732	0.316	1.1e-09
UNIPROTKB|E2QUN1	153	RNF181 "Uncharacterized protei	0.484	0.732	0.316	1.1e-09
RGD|1359698	165	Rnf181 "ring finger protein 18	0.341	0.478	0.390	1.8e-09
UNIPROTKB|Q6AXU4	165	Rnf181 "E3 ubiquitin-protein l	0.341	0.478	0.390	1.8e-09
UNIPROTKB|F1SVB7	153	RNF181 "Uncharacterized protei	0.484	0.732	0.307	2.9e-09

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

 Score = 497 (180.0 bits), Expect = 1.6e-47, P = 1.6e-47
 Identities = 104/235 (44%), Positives = 137/235 (58%)

Query:     1 MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGX 60
             MG    C  +++FEDY NPS+S+ R+C C R   +  LN Y ++F R E RS+P S+L  
Sbjct:     1 MGCVSSCFGVDDFEDYPNPSSSVNRSCPCPRCLVNNFLNLYISLFRRGETRSLP-SSLQA 59

Query:    61 XXXXXXXXXXXLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
                          DN +++   S  RP  YD D RY R +RD LVSRRDK   +  E+A+
Sbjct:    60 TNVSIATSTSY--DNFMSNTFHSTPRPLPYDADPRYFRSRRDSLVSRRDKGSSHSHEEAE 117

Query:   121 PIRRNMSSSGRESLGFGKK--QNVVDSEEDCKLVDSESSDKALA--TKAAYGPYTQTSTE 176
             P+R +           G K    ++ S ED K   S SS + L   T +        +++
Sbjct:   118 PLRSDADVDSESFSVEGSKWANKLIISGEDSKEEFSRSSRRILQSRTMSTSNEGLYITSD 177

Query:   177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
             DEDVCPTCL+EY  ENPKI T+CSHHFHL CIYEW+ERSE+CP+CGK MEF E+P
Sbjct:   178 DEDVCPTCLEEYISENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKVMEFHETP 232

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

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

 Score = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 107/240 (44%), Positives = 140/240 (58%)

Query:     1 MGSFCCCPCIEEFEDYTNPSNSIYRNCICIRFFFHQLLNGYGAMFHRLEGRSVPISNLGX 60
             MG    C  +E+ ++Y NP++S+YRNC CIR   H  LN Y ++F R E RS+P S    
Sbjct:     1 MGCVSSCFRVEDIDEYMNPNSSVYRNCPCIRCLAHNFLNLYISVFRRGETRSLPSSVQAT 60

Query:    61 XXXXXXXXXXXLPDNSLNDNQFSVSRPATYDTDQRYSRLQRDGLVSRRDKSMIYFQEDAQ 120
                          DN L++   S  RP  YD D RY R     LVSRR+K   +  E+ +
Sbjct:    61 ASITSSSSH----DNFLSEAFRSTPRPLPYDADPRYFR----SLVSRREKGSSHSHEEVE 112

Query:   121 PIRRNMSSSGRESLGFG--KKQNVVD--SEEDCKL-VDSESSDKALATKA----AYGPYT 171
             P+R + S +  ES G G  K  N     S++D K    S+SS + L +++    A     
Sbjct:   113 PLRSD-SDADSESFGVGGCKWANNKSTLSDKDSKEEYSSKSSLRILRSRSKSIMADSENM 171

Query:   172 QTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCESP 231
                +EDEDVCPTCL+EYT ENPKI T+CSHHFHL CIYEW+ERSE+CP+CGK MEF E+P
Sbjct:   172 YILSEDEDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVCGKVMEFNETP 231

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 222 (83.2 bits), Expect = 1.1e-20, Sum P(2) = 1.1e-20
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:   146 EEDCKL---VDSESSDKA--LATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCS 200
             E D K+   +D ES+++     +KA + P      E+E+ CP CL+EY  ENPK+  +C 
Sbjct:   126 ETDSKIQTEIDLESTEEIDPKLSKAVFIPI-----EEEEDCPICLEEYDIENPKLVAKCD 180

Query:   201 HHFHLGCIYEWLERSESCPICGKEMEF 227
             HHFHL CI EW+ERSE+CP+C KEM F
Sbjct:   181 HHFHLACILEWMERSETCPVCNKEMVF 207

GO:0005634 "nucleus" evidence=ISM

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0006914 "autophagy" evidence=RCA

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

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

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 44/113 (38%), Positives = 63/113 (55%)

Query:   118 DAQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTST-- 175
             D++ I+  MS S  E+L   +       E DCK +   SS      K+ +  +       
Sbjct:    79 DSESIKGRMSGSSFETLATCEDLG----ESDCKTL--ASSVILSPRKSDFSKHQGLKILV 132

Query:   176 -EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
              E+ED CP C ++Y  ENP++TT+C H FHL C+ EW+ERS+ CPIC KE+ F
Sbjct:   133 DEEEDCCPICFEDYDVENPRLTTKCEHEFHLSCLLEWIERSDRCPICDKEVVF 185

GO:0005634 "nucleus" evidence=ISM

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

GO:0048573 "photoperiodism, flowering" evidence=RCA

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

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 33/82 (40%), Positives = 40/82 (48%)

Query:   147 EDCKLVDSESSDKALATKAAYG--PYTQTSTEDEDV-CPTCLDEYTPENPKITTRCSHHF 203
             ED  LVD E      A KA     P T  S+   D+ CP CL E+  E   I   C H F
Sbjct:    51 EDLGLVDWEHHLPPPAAKAVVESLPRTVISSAKADLKCPVCLLEFEAEETVIEMPCHHLF 110

Query:   204 HLGCIYEWLERSESCPICGKEM 225
             H  CI  WL ++ SCP+C  E+
Sbjct:   111 HSNCILPWLSKTNSCPLCRHEL 132

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 37/117 (31%), Positives = 52/117 (44%)

Query:   114 YFQE-DAQPIRRNMSSSGRESLGFGKKQ-NVVDSEEDCKLVDSESSDKALATKAAYGPYT 171
             YF E D +P+ R         L   +   N +D E+   +VD +      A K A     
Sbjct:     4 YFDEHDCEPLDRERDPRTNMLLELARSLFNRMDFEDLGLVVDWDHHLPPPAAKTAVENLP 63

Query:   172 QT---STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225
             +T    ++ E  CP CL E+  E   I   C H FH  CI  WL ++ SCP+C  E+
Sbjct:    64 RTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSNCILPWLSKTNSCPLCRHEL 120

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2QUN1 RNF181 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 37/117 (31%), Positives = 53/117 (45%)

Query:   114 YFQE-DAQPIRRNMSSSGRESLGFGKKQ-NVVDSEEDCKLVDSESSDKALATKAAYGPYT 171
             YF E D +P+     +     L   +   N +D E+   +VD +      A KA      
Sbjct:     4 YFDEHDCEPLDSEQEARTSMLLELARSLFNRMDFEDLGLVVDWDHHLPPPAAKAVVENLP 63

Query:   172 QT---STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225
             +T   S++ E  CP CL E+  E   I   C H FH  CI  WL ++ SCP+C  E+
Sbjct:    64 RTVIRSSQAELKCPVCLLEFEEEETAIEMPCRHLFHSNCILPWLSKTNSCPLCRHEL 120

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 32/82 (39%), Positives = 40/82 (48%)

Query:   147 EDCKLVDSESSDKALATKAAYGPYTQT---STEDEDVCPTCLDEYTPENPKITTRCSHHF 203
             ED  LVD E      A KA      +T   S++ E  CP CL E+  E   I   C H F
Sbjct:    51 EDLGLVDWEHHLPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHLF 110

Query:   204 HLGCIYEWLERSESCPICGKEM 225
             H  CI  WL ++ SCP+C  E+
Sbjct:   111 HSNCILPWLSKTNSCPLCRHEL 132

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

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

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 32/82 (39%), Positives = 40/82 (48%)

Query:   147 EDCKLVDSESSDKALATKAAYGPYTQT---STEDEDVCPTCLDEYTPENPKITTRCSHHF 203
             ED  LVD E      A KA      +T   S++ E  CP CL E+  E   I   C H F
Sbjct:    51 EDLGLVDWEHHLPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHLF 110

Query:   204 HLGCIYEWLERSESCPICGKEM 225
             H  CI  WL ++ SCP+C  E+
Sbjct:   111 HSNCILPWLSKTNSCPLCRHEL 132

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 36/117 (30%), Positives = 52/117 (44%)

Query:   114 YFQE-DAQPIRRNMSSSGRESLGFGKKQ-NVVDSEEDCKLVDSESSDKALATKAAYGPYT 171
             YF E D +P+     +     L   +   N +D E+   +VD +      A K       
Sbjct:     4 YFDEHDCEPLDPEPDARTNMLLELARSLFNRMDFEDLGLVVDWDHHLPPPAAKTVVENLP 63

Query:   172 QT---STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225
             +T    ++ E  CP CL E+  E   I   C H FH GCI  WL ++ SCP+C  E+
Sbjct:    64 RTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSGCILPWLSKTNSCPLCRHEL 120

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00006215001 SubName- Full=Chromosome chr1 scaffold_166, whole genome shotgun sequence; (232 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	231
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	9e-10
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	4e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	8e-06
smart00184	40	smart00184, RING, Ring finger	6e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	5e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.002

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

 Score = 52.4 bits (126), Expect = 9e-10
 Identities = 19/46 (41%), Positives = 25/46 (54%)

Query: 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           D CP CLDE+ P    +   C H FH  C+ +WL  S +CP+C   
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 52.4 bits (126), Expect = 1e-09
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 10/55 (18%)

Query: 177 DEDVCPTCLDEY----------TPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           ++DVC  C + +            + P +   C H FHL CI  WL+   +CP+C
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLC 72

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 = 45.9 bits (109), Expect = 2e-07
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKE 224
           CP CL+E+    P +   C H F   CI +WL+  + +CP+C   
Sbjct: 2   CPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

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

 Score = 49.6 bits (118), Expect = 4e-07
 Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 10/66 (15%)

Query: 175 TEDEDVCPTCLDEY-------TPENPKITTR---CSHHFHLGCIYEWLERSESCPICGKE 224
           T  +  C  C+DE         P    +T +   C H  HL C+  WLER ++CPIC + 
Sbjct: 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRP 343

Query: 225 MEFCES 230
           + F +S
Sbjct: 344 VIFDQS 349

Length = 491

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

 Score = 45.2 bits (107), Expect = 4e-07
 Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223
           +E  CP CLD     +P + T C H F   CI  +L++   CPIC  
Sbjct: 1   EELECPICLDL--LRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 43.3 bits (102), Expect = 5e-06
 Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 2/51 (3%)

Query: 179 DVCPTCLDEYTPEN--PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
             CP C    TP +  P +   C+H FH  CIY WL+    CP+  +    
Sbjct: 32  GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82

Length = 88

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

 Score = 42.5 bits (100), Expect = 8e-06
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 6/53 (11%)

Query: 181 CPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSES---CPICGKEMEFCE 229
           CP C  ++  ++ P +  +C H+FH+ CI +WL    S   CP+C +   F E
Sbjct: 35  CPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQTFVFAE 85

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

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

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 20/42 (47%), Positives = 25/42 (59%), Gaps = 3/42 (7%)

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPIC 221
           CP CL+EY  ++P I   C H F   CI +WLE    +CPIC
Sbjct: 1   CPICLEEY-LKDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 40.0 bits (93), Expect = 5e-04
 Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 155 ESSDKALATKAAYGPYTQTSTE-----DEDV-CPTCLDEYTPENPKITTRCSHHFHLGCI 208
            SS +A+ T    G     S E     D+ V C  C+  +   +      C H FH+GC+
Sbjct: 294 YSSSEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCV 353

Query: 209 YEWL-ERSESCPICGKEM 225
            +WL   S  CP+C   +
Sbjct: 354 DKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPIC 221
           CP CL+E    +P     C H F   CI  WLE  + +CP+C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	231
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.65
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.57
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.45
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.38
PHA02929	238	N1R/p28-like protein; Provisional	99.35
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.33
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.29
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.26
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.25
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.24
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.23
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.21
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.18
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.17
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.08
PF14634	44	zf-RING_5: zinc-RING finger domain	99.06
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.03
PHA02926	242	zinc finger-like protein; Provisional	98.99
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.98
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.96
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.95
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.95
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.87
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.83
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.7
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.67
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.56
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.54
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.52
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.46
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.43
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.39
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.31
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.27
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.21
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.09
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.92
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.91
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.8
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.78
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.69
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.68
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.58
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.58
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.46
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.42
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.35
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
COG5152	259	Uncharacterized conserved protein, contains RING a	97.3
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.25
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.19
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.14
KOG2660	331	consensus Locus-specific chromosome binding protei	97.1
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.01
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.95
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.93
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.91
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.9
PHA02862	156	5L protein; Provisional	96.84
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.8
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.65
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.58
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.39
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.27
PF04641	260	Rtf2: Rtf2 RING-finger	96.17
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.14
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.05
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.76
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.75
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.72
PHA03096	284	p28-like protein; Provisional	95.69
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.67
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.32
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.17
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.6
KOG1940	276	consensus Zn-finger protein [General function pred	94.56
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.47
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.31
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.79
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	93.4
KOG3002	299	consensus Zn finger protein [General function pred	93.34
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.33
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.99
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	92.82
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.63
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.59
KOG3053	293	consensus Uncharacterized conserved protein [Funct	92.51
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.16
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	91.3
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	90.8
KOG1609	323	consensus Protein involved in mRNA turnover and st	89.81
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	89.41
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	88.26
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	88.07
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	87.98
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	87.37
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	86.08
KOG1829	580	consensus Uncharacterized conserved protein, conta	86.0
KOG3899	381	consensus Uncharacterized conserved protein [Funct	84.76
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	84.34
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	83.39

>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=99.65  E-value=3.4e-17  Score=103.55  Aligned_cols=44  Identities=45%  Similarity=1.143  Sum_probs=40.4

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICG  222 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr  222 (231)
                      ++|+||+++|..++.++.++|+|.||.+||.+||+++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            57999999999888999999999999999999999999999997

...

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

Probab=99.57  E-value=1.2e-15  Score=134.30  Aligned_cols=49  Identities=35%  Similarity=0.965  Sum_probs=44.8

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcC
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEF  227 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~  227 (231)
                      ++|+||||+|..|+++++|||+|.||..||+.||.+. ..||+||+++..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            6999999999999999999999999999999999665 569999997654

>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=99.45  E-value=4.9e-14  Score=98.63  Aligned_cols=46  Identities=35%  Similarity=0.962  Sum_probs=37.5

Q ss_pred             CCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929          177 DEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLERSESCPICG  222 (231)
Q Consensus       177 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr  222 (231)
                      .++.|+||++.|..          +..+.+.+|||.||..||.+||+.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            35569999999943          23456678999999999999999999999998

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

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

Probab=99.38  E-value=2e-13  Score=119.60  Aligned_cols=58  Identities=36%  Similarity=0.904  Sum_probs=49.6

Q ss_pred             CCCCCCCccccccCc-cCCC---------CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929          173 TSTEDEDVCPTCLDE-YTPE---------NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES  230 (231)
Q Consensus       173 ~~~~~~~~C~ICle~-~~~~---------~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s  230 (231)
                      ....++..|.||+|+ |..+         ..++.|||||.||++|++.||+|+++||+||.++.++.+
T Consensus       282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~  349 (491)
T COG5243         282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS  349 (491)
T ss_pred             hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence            445678899999999 5554         245789999999999999999999999999999988764

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.35  E-value=7.9e-13  Score=111.83  Aligned_cols=73  Identities=18%  Similarity=0.484  Sum_probs=51.2

Q ss_pred             chHHHhhhhchhccCCCCCCCCCCCCCccccccCccCCCCC-----ceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          153 DSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENP-----KITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       153 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~-----~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      .......++.........  .....+.+|+||++.+.....     .++++|+|.||..||.+|++++.+||+||..+..
T Consensus       151 ~~~~i~~lp~vl~~~e~~--~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~  228 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKL--YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS  228 (238)
T ss_pred             hHHHHHhcchhhhhhhhh--hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence            444555555543211111  123456899999999875331     3567899999999999999999999999998653

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

Probab=99.33  E-value=8e-13  Score=93.83  Aligned_cols=54  Identities=35%  Similarity=0.925  Sum_probs=44.9

Q ss_pred             CCCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~~~~  229 (231)
                      ..++.|.||...|+.          +-+++.-.|+|.||..||.+||+.   +..||+||+++.+++
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~   85 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE   85 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence            348899999999974          225666679999999999999975   468999999998875

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

Probab=99.29  E-value=1.1e-12  Score=112.31  Aligned_cols=51  Identities=27%  Similarity=0.840  Sum_probs=46.9

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~  226 (231)
                      ...-+|+|||+.|..++..++|||.|.||..||.+||. -+..||+||.+++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            44578999999999999999999999999999999997 7889999999875

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

Probab=99.26  E-value=8.1e-12  Score=99.65  Aligned_cols=55  Identities=31%  Similarity=0.707  Sum_probs=46.1

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...++...|+|||+.+.... .+-++|||+||..||+.-++....||+|+++|..+
T Consensus       126 ~~~~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  126 LRKEGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             cccccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            34455689999999998632 25589999999999999999999999999988655

>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=99.25  E-value=3.9e-12  Score=82.46  Aligned_cols=46  Identities=30%  Similarity=0.803  Sum_probs=40.8

Q ss_pred             CCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      +..|.||++...+   .+++||||. ||..|+..|+++...||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            5789999999776   889999999 999999999999999999999875

...

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

Probab=99.24  E-value=4.2e-12  Score=105.38  Aligned_cols=53  Identities=32%  Similarity=0.736  Sum_probs=44.8

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcCcC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEMEFCE  229 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~~~~  229 (231)
                      .......|.||||.-++   .+++.|||+||+.||++||..   ++.|||||..|..+.
T Consensus        43 ~~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            35667899999999776   778889999999999999975   457999999887653

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.23  E-value=8.6e-12  Score=101.71  Aligned_cols=52  Identities=27%  Similarity=0.684  Sum_probs=43.0

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc----------------CCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER----------------SESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----------------s~~CPvCr~~~~~~  228 (231)
                      ...++.+|+||++.+.+   .++++|||.||..||.+|+..                ...||+||.++...
T Consensus        14 ~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         14 DSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             cCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            44567899999999876   677899999999999999853                24799999988643

>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=99.21  E-value=6.7e-12  Score=77.12  Aligned_cols=39  Identities=46%  Similarity=1.153  Sum_probs=34.2

Q ss_pred             cccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvC  221 (231)
                      |+||++.+.+  +.+.++|||.||..||.+|++.+..||+|
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            8999999887  55789999999999999999998999998

>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=99.18  E-value=2.3e-11  Score=75.82  Aligned_cols=44  Identities=36%  Similarity=1.056  Sum_probs=37.6

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEM  225 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~  225 (231)
                      .|+||++.+.  +...+++|+|.||..|+..|++. ...||+||+.+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983  35666779999999999999987 77899999864

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

Probab=99.17  E-value=1.4e-11  Score=105.11  Aligned_cols=53  Identities=28%  Similarity=0.739  Sum_probs=46.6

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...+....|.||||...+   +..+||||+||..||.+|...+..||+||.++...
T Consensus       234 ~i~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  234 SIPEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             cCCCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            344567899999999876   88999999999999999999999999999987654

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

Probab=99.08  E-value=6.5e-11  Score=73.87  Aligned_cols=38  Identities=34%  Similarity=0.899  Sum_probs=30.4

Q ss_pred             cccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvC  221 (231)
                      |+||++.|.+   .+.|+|||.|+..||..|++..    ..||+|
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            8999999997   8899999999999999999754    369987

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.06  E-value=1.2e-10  Score=73.41  Aligned_cols=44  Identities=34%  Similarity=0.776  Sum_probs=39.6

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK  223 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~  223 (231)
                      .|+||++.|..+....+++|||.||..||..++.....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999966667899999999999999999977789999986

>smart00504 Ubox Modified RING finger domain

Probab=99.03  E-value=3.1e-10  Score=76.64  Aligned_cols=47  Identities=17%  Similarity=0.400  Sum_probs=42.2

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ..|+||++.+.+   .++++|||+|+..||.+|++.+.+||+|++++..+
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~   48 (63)
T smart00504        2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE   48 (63)
T ss_pred             cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence            579999999986   57789999999999999999889999999988554

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

>PHA02926 zinc finger-like protein; Provisional

Probab=98.99  E-value=2.7e-10  Score=94.21  Aligned_cols=52  Identities=25%  Similarity=0.677  Sum_probs=40.4

Q ss_pred             CCCCccccccCccCCC----C--CceecCCCCccCHHHHHHHHhcC------CCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPE----N--PKITTRCSHHFHLGCIYEWLERS------ESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~----~--~~~~l~C~H~Fh~~CI~~Wl~~s------~~CPvCr~~~~~  227 (231)
                      ..+.+|+||||.....    +  ..++.+|+|.||..||..|.+.+      .+||+||..+.+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            3478999999986431    1  24567899999999999999753      469999998754

>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=3.2e-10  Score=70.19  Aligned_cols=39  Identities=44%  Similarity=1.165  Sum_probs=34.2

Q ss_pred             cccccCccCCCCCceecCCCCccCHHHHHHHHh--cCCCCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE--RSESCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~s~~CPvC  221 (231)
                      |+||++.+..  +..+++|||.||..||.+|++  ....||+|
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            8999999886  335899999999999999998  55689998

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

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

Probab=98.96  E-value=4.4e-10  Score=78.01  Aligned_cols=53  Identities=30%  Similarity=0.749  Sum_probs=42.0

Q ss_pred             CCccccccCccCC-----------CC--CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929          178 EDVCPTCLDEYTP-----------EN--PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES  230 (231)
Q Consensus       178 ~~~C~ICle~~~~-----------~~--~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s  230 (231)
                      .+.|+||...|..           ++  +++.-.|.|.||..||++||..++.||++|+++.+.+.
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~   85 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG   85 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence            4677777666533           22  45566799999999999999999999999999887653

>smart00184 RING Ring finger

Probab=98.95  E-value=7e-10  Score=66.65  Aligned_cols=38  Identities=42%  Similarity=1.163  Sum_probs=33.4

Q ss_pred             cccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvC  221 (231)
                      |+||++...   ..+.++|+|.||..||..|++ ....||+|
T Consensus         1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999844   488899999999999999998 66789987

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

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

Probab=98.95  E-value=2.4e-10  Score=108.16  Aligned_cols=52  Identities=29%  Similarity=0.793  Sum_probs=45.5

Q ss_pred             CCCCCCccccccCccCCCCC--ceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929          174 STEDEDVCPTCLDEYTPENP--KITTRCSHHFHLGCIYEWLERSESCPICGKEM  225 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~--~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~  225 (231)
                      ....++.|+||+|++..+..  ..+++|+|.||..|+..||+++++||+||..+
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            34458899999999997554  67899999999999999999999999999844

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

Probab=98.87  E-value=3.2e-10  Score=78.05  Aligned_cols=53  Identities=30%  Similarity=0.810  Sum_probs=42.5

Q ss_pred             CCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhcC---CCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLERS---ESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~~~~~~  229 (231)
                      .+++|.||.-.|+.          +-++++-.|.|.||..||.+|+...   ..||+||+.+.+++
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e   84 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE   84 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence            34599999999875          2255555699999999999999653   47999999998864

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.83  E-value=2.5e-09  Score=96.75  Aligned_cols=52  Identities=29%  Similarity=0.560  Sum_probs=45.0

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ...+....|+||++.|..   .++++|||.||..||..|+.....||+||..+..
T Consensus        21 ~~Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            344667899999999976   5679999999999999999988899999998754

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

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

Probab=98.70  E-value=7.3e-09  Score=87.62  Aligned_cols=51  Identities=27%  Similarity=0.607  Sum_probs=43.9

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHH-HHhcCC-CCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE-WLERSE-SCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~-Wl~~s~-~CPvCr~~~~~~~  229 (231)
                      +.+..|.||++....   ...++|||+||+.||.. |=.++. .||+||+.+..+.
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            568899999999886   88999999999999999 986654 5999999876653

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

Probab=98.67  E-value=1.2e-08  Score=63.84  Aligned_cols=38  Identities=34%  Similarity=0.906  Sum_probs=23.5

Q ss_pred             cccccCccC-CCCCceecCCCCccCHHHHHHHHhcC----CCCC
Q 046929          181 CPTCLDEYT-PENPKITTRCSHHFHLGCIYEWLERS----ESCP  219 (231)
Q Consensus       181 C~ICle~~~-~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CP  219 (231)
                      |+||+| |. .+++.++|+|||+|+.+||.+|++++    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 75 46678889999999999999999854    2576

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

Probab=98.56  E-value=5.4e-08  Score=62.69  Aligned_cols=42  Identities=29%  Similarity=0.831  Sum_probs=33.0

Q ss_pred             ccccccCccCCCCCceecCCC-----CccCHHHHHHHHhcC--CCCCccC
Q 046929          180 VCPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLERS--ESCPICG  222 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~s--~~CPvCr  222 (231)
                      .|.||++..+.++ ..+.||.     |.+|..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~~~~~~~-~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGD-PLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCC-eeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999444444 4578885     899999999999655  4899995

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

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

Probab=98.54  E-value=1.4e-08  Score=70.40  Aligned_cols=52  Identities=25%  Similarity=0.612  Sum_probs=26.4

Q ss_pred             CCccccccCccC-CCCC--cee--cCCCCccCHHHHHHHHhcC-----------CCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYT-PENP--KIT--TRCSHHFHLGCIYEWLERS-----------ESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~-~~~~--~~~--l~C~H~Fh~~CI~~Wl~~s-----------~~CPvCr~~~~~~~  229 (231)
                      +..|.||++... .+..  ++.  ..|++.||..||.+||+..           ..||.|+++|..+.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~~   69 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWSF   69 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEec
Confidence            568999999876 3322  222  2699999999999999731           26999999987764

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

Probab=98.52  E-value=5.1e-08  Score=89.32  Aligned_cols=49  Identities=33%  Similarity=0.752  Sum_probs=41.3

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-----CCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-----ESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-----~~CPvCr~~~~~~~  229 (231)
                      +..|||||+....   ..++.|||+||..||.+.+..+     ..||+||..+..++
T Consensus       186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            7899999999876   6667799999999999888654     48999999887654

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

Probab=98.46  E-value=9.3e-08  Score=66.76  Aligned_cols=49  Identities=20%  Similarity=0.398  Sum_probs=39.5

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      +...|+|+.+-+.+   .+++++||.|...+|..||++ ..+||+|++.+...
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            45789999999998   888999999999999999988 88999999988754

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

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

Probab=98.43  E-value=7.7e-08  Score=70.14  Aligned_cols=55  Identities=31%  Similarity=0.629  Sum_probs=42.8

Q ss_pred             CCCCCccccccCccCC-------------CC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          175 TEDEDVCPTCLDEYTP-------------EN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~-------------~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ....+.|+||..-+-+             ++ .+..--|.|.||..||.+||+.++.||+|.++..++.
T Consensus        43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr  111 (114)
T KOG2930|consen   43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR  111 (114)
T ss_pred             eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence            3457889998654321             22 3445569999999999999999999999999988764

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

Probab=98.40  E-value=1.1e-07  Score=86.67  Aligned_cols=52  Identities=23%  Similarity=0.675  Sum_probs=41.2

Q ss_pred             CCCCCccccccCccCC---CCC-----------ceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929          175 TEDEDVCPTCLDEYTP---ENP-----------KITTRCSHHFHLGCIYEWLE-RSESCPICGKEME  226 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~---~~~-----------~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~  226 (231)
                      ......|+||+.+++.   +..           -.++||.|+||..|+.+||+ .+-.||+||.++.
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            3456789999998764   111           12569999999999999999 5559999999875

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

Probab=98.39  E-value=5.9e-08  Score=82.28  Aligned_cols=56  Identities=25%  Similarity=0.641  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccCccCCCC-------CceecCCCCccCHHHHHHHH--hcCCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPEN-------PKITTRCSHHFHLGCIYEWL--ERSESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~-------~~~~l~C~H~Fh~~CI~~Wl--~~s~~CPvCr~~~~~~  228 (231)
                      ....++..|+||-..+....       ..-.|.|+|+||..||..|-  -++++||.|++++..+
T Consensus       219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            34456789999998887643       55678999999999999996  5678999999988654

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

Probab=98.31  E-value=1.8e-07  Score=81.70  Aligned_cols=49  Identities=29%  Similarity=0.633  Sum_probs=43.8

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .+.-..|.||.|.|..   ..++||+|.||.-||...|..+..||.|+.++.
T Consensus        20 lD~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~   68 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT   68 (442)
T ss_pred             hHHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence            3556789999999997   788999999999999999999999999988754

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

Probab=98.27  E-value=2e-07  Score=90.45  Aligned_cols=55  Identities=27%  Similarity=0.815  Sum_probs=43.1

Q ss_pred             CCCCCCCccccccCccCC-CC---CceecCCCCccCHHHHHHHHhcC--CCCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTP-EN---PKITTRCSHHFHLGCIYEWLERS--ESCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~-~~---~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~  227 (231)
                      ....+.++|+||+..+.. +.   .++...|.|.||..|+++|++.+  ++||+||.+++|
T Consensus      1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            344677899999988762 11   24556699999999999999865  589999998876

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

Probab=98.21  E-value=6e-07  Score=77.03  Aligned_cols=48  Identities=25%  Similarity=0.486  Sum_probs=43.0

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      +.-..|-||-+.|..   ...++|||.||.-||...|..+..||+||.+..
T Consensus        23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            446789999999987   788999999999999999999999999998643

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

Probab=98.18  E-value=6.2e-07  Score=76.82  Aligned_cols=48  Identities=29%  Similarity=0.732  Sum_probs=41.8

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK  223 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~  223 (231)
                      ...++...|+||++.|..   ..+++|+|.||..||..|+.....||.||.
T Consensus         8 ~~~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             hhccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            344678899999999997   388999999999999999986678999994

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

Probab=98.09  E-value=1.7e-06  Score=77.01  Aligned_cols=53  Identities=32%  Similarity=0.779  Sum_probs=42.1

Q ss_pred             CCCCccccccCccCCCC-----CceecCCCCccCHHHHHHHH--hc-----CCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPEN-----PKITTRCSHHFHLGCIYEWL--ER-----SESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl--~~-----s~~CPvCr~~~~~~  228 (231)
                      ..+.+|.||+|......     -.++.+|.|.||..||..|.  .+     ++.||.||....+.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v  223 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV  223 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence            56889999999987633     22346699999999999998  44     57899999877654

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

Probab=98.01  E-value=3.6e-06  Score=74.31  Aligned_cols=48  Identities=29%  Similarity=0.681  Sum_probs=42.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      +...+|.|||.+-.+   ..+|||.|. .|.+|.+.-.-..+.||+||+++.
T Consensus       288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            457899999999887   899999997 899999987777899999999864

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

Probab=97.92  E-value=2.5e-06  Score=57.31  Aligned_cols=49  Identities=24%  Similarity=0.594  Sum_probs=25.3

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      .-..|++|.+.+..  ++.+..|.|.||..||..-+.  ..||+|+.+.-.+|
T Consensus         6 ~lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    6 ELLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             HhcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            35679999999876  556778999999999988554  35999998865554

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

Probab=97.91  E-value=6.3e-06  Score=74.58  Aligned_cols=52  Identities=31%  Similarity=0.812  Sum_probs=41.1

Q ss_pred             CCCCCCCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ....+-.+|+||||-++... -++.+.|.|.||..|+.+|-  ..+|||||.-..
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            34456789999999999754 34556799999999999995  358999997543

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

Probab=97.80  E-value=2e-06  Score=75.65  Aligned_cols=51  Identities=29%  Similarity=0.712  Sum_probs=41.3

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      ..+..|+|||+-+..  ......|.|.||.+||.+-|+. .+.||.||+.+.-+
T Consensus        41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            457789999999875  3445569999999999998865 56999999987543

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

Probab=97.78  E-value=5.7e-06  Score=53.56  Aligned_cols=46  Identities=22%  Similarity=0.579  Sum_probs=36.5

Q ss_pred             CCccccccCccCCCCCceecCCCCc-cCHHHHHHHH-hcCCCCCccCCCCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWL-ERSESCPICGKEME  226 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl-~~s~~CPvCr~~~~  226 (231)
                      .++|.||+|.-.+   .++-.|||. .|.+|-.+-+ ..+..||+||.++.
T Consensus         7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            4899999998765   667779996 7888865544 47889999998764

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

Probab=97.69  E-value=3.4e-05  Score=74.63  Aligned_cols=50  Identities=32%  Similarity=0.754  Sum_probs=38.6

Q ss_pred             CCCCCCCccccccCccCCCCCc-eecCCCCccCHHHHHHHHhcCC-------CCCccC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPK-ITTRCSHHFHLGCIYEWLERSE-------SCPICG  222 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~s~-------~CPvCr  222 (231)
                      ......++|.||++.+....++ ....|-|+||+.||.+|-+...       .||.|+
T Consensus       186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq  243 (950)
T KOG1952|consen  186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ  243 (950)
T ss_pred             HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence            4456678999999999864433 3345889999999999986432       699998

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

Probab=97.68  E-value=6.6e-06  Score=78.77  Aligned_cols=50  Identities=24%  Similarity=0.595  Sum_probs=44.4

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM  225 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~  225 (231)
                      .....|+||+..+.++......+|+|.||..||..|-+.-++||+||+++
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            45678999999998877677778999999999999999999999999875

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

Probab=97.58  E-value=2.5e-05  Score=74.92  Aligned_cols=51  Identities=24%  Similarity=0.609  Sum_probs=43.3

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~~~~  229 (231)
                      .+-..|+.|-+-+.+   .++++|+|+||..||..-++ |...||.|...+-..|
T Consensus       641 K~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            345789999988887   88999999999999999995 5679999998876544

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

Probab=97.58  E-value=3.2e-05  Score=51.29  Aligned_cols=44  Identities=27%  Similarity=0.692  Sum_probs=30.4

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--CCCCCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--SESCPI  220 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--s~~CPv  220 (231)
                      ......|||.+..|.+  +++...|+|.|-++.|.+||++  ...||+
T Consensus         8 ~~~~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3456899999999986  6777799999999999999943  457998

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

Probab=97.46  E-value=7.2e-05  Score=75.76  Aligned_cols=53  Identities=38%  Similarity=0.813  Sum_probs=45.2

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----------CCCCccCCCCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----------ESCPICGKEME  226 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----------~~CPvCr~~~~  226 (231)
                      ..+.++.|.||+.+--...+.+.|.|+|+||+.|...-|++.          -+||+|+.++.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            456789999999987777789999999999999999888764          27999998864

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

Probab=97.42  E-value=7.8e-05  Score=68.09  Aligned_cols=52  Identities=33%  Similarity=0.838  Sum_probs=44.0

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      .+++..|+||...+.+  ++..+.|||.||..||.+|+..+..||.|+..+...
T Consensus        18 ~~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             CcccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            4667899999999886  333368999999999999999999999999877543

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

Probab=97.35  E-value=4.3e-05  Score=66.06  Aligned_cols=54  Identities=24%  Similarity=0.676  Sum_probs=44.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-----------------------CCCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-----------------------SESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----------------------s~~CPvCr~~~~~~~  229 (231)
                      -....|.|||-.|..+...+++.|-|.||..|+...|..                       ...|||||..+....
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            456789999999999888999999999999999876531                       237999999887654

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

Probab=97.31  E-value=0.00016  Score=65.84  Aligned_cols=48  Identities=31%  Similarity=0.739  Sum_probs=43.1

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ..+..|.||+..+..   .+.++|||.||..||.+-|.....||.||..+.
T Consensus        82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence            568899999998886   778899999999999999998999999998875

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

Probab=97.30  E-value=0.00012  Score=59.96  Aligned_cols=48  Identities=25%  Similarity=0.640  Sum_probs=42.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .-...|.||.++|..   ++++.|||.||..|...-++....|-+|.+.+.
T Consensus       194 ~IPF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         194 KIPFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             CCceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            345689999999997   888999999999999999999999999988654

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

Probab=97.25  E-value=0.0001  Score=66.07  Aligned_cols=47  Identities=21%  Similarity=0.680  Sum_probs=39.1

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhc--CCCCCccCCCCcCc
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--SESCPICGKEMEFC  228 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--s~~CPvCr~~~~~~  228 (231)
                      ..|.||-|.-.+   +++-||||..|..|+..|-..  .++||.||.++.-.
T Consensus       370 eLCKICaendKd---vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKD---VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCC---cccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            469999887554   888999999999999999843  57999999987643

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

Probab=97.19  E-value=0.00029  Score=62.34  Aligned_cols=51  Identities=24%  Similarity=0.601  Sum_probs=43.7

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ....++..|+||...-..   .+..||+|.-|.+||.+.|.+.+.|=.|+..+.
T Consensus       417 lp~sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CCCcccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            444678899999876554   678899999999999999999999999998765

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

Probab=97.19  E-value=0.00018  Score=45.75  Aligned_cols=40  Identities=25%  Similarity=0.835  Sum_probs=28.1

Q ss_pred             cccccCccCCCCCceecCCC-----CccCHHHHHHHHh--cCCCCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLE--RSESCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~--~s~~CPvC  221 (231)
                      |-||++.-..++ ..+.||.     -..|.+|+.+|+.  .+.+|++|
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            789999987655 5567775     3789999999997  44679887

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

Probab=97.14  E-value=0.00042  Score=59.37  Aligned_cols=52  Identities=29%  Similarity=0.689  Sum_probs=43.1

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh--cCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE--RSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~s~~CPvCr~~~~  226 (231)
                      .....+.+|++|-+.-+.  +.+..+|+|+||.-||..=+.  .+.+||.|..++.
T Consensus       234 s~~t~~~~C~~Cg~~Pti--P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTI--PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccccCCceeeccCCCCCC--CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            445678899999998775  777888999999999988664  4579999998776

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

Probab=97.10  E-value=0.00011  Score=64.29  Aligned_cols=50  Identities=28%  Similarity=0.582  Sum_probs=41.9

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM  225 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~  225 (231)
                      ......+|.+|--.|.+  ...+.-|-|.||.+||.+.|+..+.||+|...+
T Consensus        11 ~~n~~itC~LC~GYliD--ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLID--ATTITECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             hcccceehhhccceeec--chhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            34567899999888876  455667999999999999999999999997654

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

Probab=97.01  E-value=0.0002  Score=64.12  Aligned_cols=48  Identities=40%  Similarity=0.703  Sum_probs=40.1

Q ss_pred             CCCCccccccCccCC-CCCceecCCCCccCHHHHHHHHhcC--CCCCccCC
Q 046929          176 EDEDVCPTCLDEYTP-ENPKITTRCSHHFHLGCIYEWLERS--ESCPICGK  223 (231)
Q Consensus       176 ~~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPvCr~  223 (231)
                      +-+.-|..|-|.|-. ++.+-.|||.|+||..|+.+.|++.  .+||-||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            446789999998875 3457789999999999999999766  48999994

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

Probab=96.95  E-value=0.00029  Score=60.95  Aligned_cols=46  Identities=22%  Similarity=0.541  Sum_probs=41.6

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .+.|-||...|..   .+++.|+|.||..|...-+++...|.+|.+.+.
T Consensus       241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Ccccccccccccc---chhhcCCceeehhhhccccccCCcceecccccc
Confidence            4569999999997   888999999999999999999999999988754

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.93  E-value=0.00073  Score=57.09  Aligned_cols=53  Identities=17%  Similarity=0.335  Sum_probs=46.6

Q ss_pred             CCCccccccCccCCCCCceec-CCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ..+.|+||.+.+.+..+...| +|||+|+.+|+.+.+..-..||+|.+++.-++
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            568999999999987766655 59999999999999999999999999987655

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

Probab=96.91  E-value=0.00029  Score=54.40  Aligned_cols=35  Identities=17%  Similarity=0.408  Sum_probs=29.9

Q ss_pred             CCccccccCccCCCCCceecCCC------CccCHHHHHHHH
Q 046929          178 EDVCPTCLDEYTPENPKITTRCS------HHFHLGCIYEWL  212 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~------H~Fh~~CI~~Wl  212 (231)
                      ..+|.||++.+..+.-++.+.|+      |.||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            56899999999985567777776      999999999994

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.90  E-value=0.00093  Score=52.98  Aligned_cols=51  Identities=31%  Similarity=0.696  Sum_probs=38.2

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCC-----ccCHHHHHHHHhcC--CCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSH-----HFHLGCIYEWLERS--ESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H-----~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~  228 (231)
                      .+..+..|-||.++...    ...||.-     .-|.+|+.+|+..+  ..|++|+.+..+.
T Consensus         4 ~s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          4 VSLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             cCCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            45668899999998643    1246653     56999999999755  5899999886554

>PHA02862 5L protein; Provisional

Probab=96.84  E-value=0.00072  Score=52.66  Aligned_cols=49  Identities=22%  Similarity=0.600  Sum_probs=34.8

Q ss_pred             CCccccccCccCCCCCceecCC---CCccCHHHHHHHHhcC--CCCCccCCCCcCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRC---SHHFHLGCIYEWLERS--ESCPICGKEMEFC  228 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C---~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~  228 (231)
                      .+.|-||+++-+.+  ..-=.|   ...-|.+|+.+|++.+  ..|++|+.+..++
T Consensus         2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            46899999986542  110112   2578999999999754  5899999987654

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

Probab=96.80  E-value=0.00068  Score=62.93  Aligned_cols=55  Identities=29%  Similarity=0.587  Sum_probs=44.8

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-----CCCCCccCCCCcCcCC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-----SESCPICGKEMEFCES  230 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----s~~CPvCr~~~~~~~s  230 (231)
                      ....++.+|.+|-+.-++   .+...|.|.||.-||.++++.     .-+||+|...+.++.+
T Consensus       531 ~enk~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls  590 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS  590 (791)
T ss_pred             ccccCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence            445667899999998765   778899999999999888753     3489999998887754

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

Probab=96.65  E-value=0.0014  Score=41.65  Aligned_cols=44  Identities=27%  Similarity=0.582  Sum_probs=22.0

Q ss_pred             cccccCccCCCCCceec--CCCCccCHHHHHHHHh-cCCCCCccCCCC
Q 046929          181 CPTCLDEYTPENPKITT--RCSHHFHLGCIYEWLE-RSESCPICGKEM  225 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l--~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~  225 (231)
                      |++|.++++..+ ....  +|++.+++.|...-++ ....||-||++.
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999995422 3334  4789999999888776 478999999864

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.58  E-value=0.0011  Score=43.32  Aligned_cols=48  Identities=29%  Similarity=0.579  Sum_probs=36.6

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ....|..|...   +...++++|+|+.+..|...  ++-+-||+|.+++.+.+
T Consensus         6 ~~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            34456555544   34578899999999999654  68899999999998765

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

Probab=96.39  E-value=0.0026  Score=51.34  Aligned_cols=57  Identities=21%  Similarity=0.541  Sum_probs=42.2

Q ss_pred             CCCCCCccccccCccCCCC----CceecCCCCccCHHHHHHHHhcC-----------CCCCccCCCCcCcCC
Q 046929          174 STEDEDVCPTCLDEYTPEN----PKITTRCSHHFHLGCIYEWLERS-----------ESCPICGKEMEFCES  230 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~----~~~~l~C~H~Fh~~CI~~Wl~~s-----------~~CPvCr~~~~~~~s  230 (231)
                      ..++...|.||+..--+|.    ..--..||.-||.-|++.||+.-           ..||+|.+++.++-+
T Consensus       161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS  232 (234)
T KOG3268|consen  161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS  232 (234)
T ss_pred             cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence            4455677999976544433    23346799999999999999731           379999999987754

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

Probab=96.27  E-value=0.0012  Score=52.41  Aligned_cols=33  Identities=18%  Similarity=0.467  Sum_probs=29.9

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCH
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHL  205 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~  205 (231)
                      ...++.-+|.||||++..++.+..|||-.+||+
T Consensus       172 VL~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  172 VLKDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             hhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            556777899999999999999999999999996

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.17  E-value=0.0057  Score=52.88  Aligned_cols=55  Identities=24%  Similarity=0.546  Sum_probs=43.0

Q ss_pred             CCCCCCccccccCccCCCCCce-ecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          174 STEDEDVCPTCLDEYTPENPKI-TTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      .......|||...+|......+ +-+|||+|...+|.+- .....||+|.+++...|
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            3567889999999996544444 4589999999999996 34678999999876443

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

Probab=96.14  E-value=0.005  Score=51.51  Aligned_cols=51  Identities=24%  Similarity=0.564  Sum_probs=40.4

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--------CCCCCccCCCCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--------SESCPICGKEME  226 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------s~~CPvCr~~~~  226 (231)
                      ++-..-|..|-..+..++.+ .|-|-|+||.+|+.+|-..        .-.||-|..++-
T Consensus        47 sDY~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             cCCCCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            34466799999888877754 5679999999999999753        237999998863

>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=96.05  E-value=0.003  Score=46.57  Aligned_cols=35  Identities=20%  Similarity=0.459  Sum_probs=29.5

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHH
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIY  209 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~  209 (231)
                      ..+++..|++|-..+.. ...++.||||+||..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            44667889999999876 567889999999999975

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 [].

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

Probab=95.76  E-value=0.0016  Score=56.34  Aligned_cols=43  Identities=26%  Similarity=0.607  Sum_probs=34.3

Q ss_pred             CCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ....|.||++...+   .+.|+|||. -|..|=.    +-+.||+||+.|.
T Consensus       299 ~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGk----rm~eCPICRqyi~  342 (350)
T KOG4275|consen  299 TRRLCAICMDAPRD---CVFLECGHMVTCTKCGK----RMNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHHhcCCcc---eEEeecCcEEeehhhcc----ccccCchHHHHHH
Confidence            37889999999886   889999995 6777753    3459999998764

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

Probab=95.75  E-value=0.0098  Score=52.76  Aligned_cols=51  Identities=25%  Similarity=0.543  Sum_probs=42.2

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHH--HHhcCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE--WLERSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~--Wl~~s~~CPvCr~~~~  226 (231)
                      ...++...|.||-+.++.   ..++||+|..|--|...  -|-..+.||+||.+..
T Consensus        56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            566778899999999886   88999999999999854  3456789999998753

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

Probab=95.72  E-value=0.0063  Score=54.15  Aligned_cols=48  Identities=25%  Similarity=0.632  Sum_probs=36.0

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ......+.|.||+++..+   .+.+||||+-|  |+.-- +.-.+||+||+.+.
T Consensus       300 ~~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  300 RELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             cccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            444567889999999887   88999999965  65443 23345999998764

>PHA03096 p28-like protein; Provisional

Probab=95.69  E-value=0.0059  Score=53.39  Aligned_cols=44  Identities=27%  Similarity=0.588  Sum_probs=31.3

Q ss_pred             CccccccCccCCCC-----CceecCCCCccCHHHHHHHHhcC---CCCCccC
Q 046929          179 DVCPTCLDEYTPEN-----PKITTRCSHHFHLGCIYEWLERS---ESCPICG  222 (231)
Q Consensus       179 ~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr  222 (231)
                      .+|.||+|......     --++..|.|.||..||..|...+   .+||.||
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~  230 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR  230 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence            78999999876421     12345699999999999998643   3444444

>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=95.67  E-value=0.0023  Score=40.36  Aligned_cols=35  Identities=43%  Similarity=0.814  Sum_probs=25.1

Q ss_pred             ceecCCC-CccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          194 KITTRCS-HHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       194 ~~~l~C~-H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ..+..|. |..|+.|+..-|.++..||+|+++++.+
T Consensus        13 k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   13 KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            4466787 9999999999999999999999998764

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.

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

Probab=95.32  E-value=0.0095  Score=53.91  Aligned_cols=47  Identities=21%  Similarity=0.355  Sum_probs=37.3

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--------CCCCCccCC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--------SESCPICGK  223 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------s~~CPvCr~  223 (231)
                      .-..|.||+++..-....+.+||+|+||+.|+...+..        .-.||-++-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            35689999999875578899999999999999988752        126877653

>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=95.17  E-value=0.01  Score=36.96  Aligned_cols=41  Identities=22%  Similarity=0.637  Sum_probs=23.7

Q ss_pred             cccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCcc
Q 046929          181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPIC  221 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvC  221 (231)
                      |.+|.+....|..-....|+=.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            677888777655444446888999999999997655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.60  E-value=0.019  Score=50.07  Aligned_cols=47  Identities=32%  Similarity=0.544  Sum_probs=36.1

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCcc-CCCCcC
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPIC-GKEMEF  227 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvC-r~~~~~  227 (231)
                      ..|+.|...+.+  ++++.-|+|.||..||..-|. .-..||.| |+.+.+
T Consensus       275 LkCplc~~Llrn--p~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll  323 (427)
T COG5222         275 LKCPLCHCLLRN--PMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL  323 (427)
T ss_pred             ccCcchhhhhhC--cccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence            789999887765  455545899999999998875 45689999 445444

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

Probab=94.56  E-value=0.019  Score=49.80  Aligned_cols=46  Identities=30%  Similarity=0.605  Sum_probs=38.4

Q ss_pred             CCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929          178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGK  223 (231)
Q Consensus       178 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~  223 (231)
                      ...|+||.+.+.... .+..++|||.-|..|..+-....=+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            344999999987644 5678999999999999888766689999988

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

Probab=94.47  E-value=0.002  Score=57.72  Aligned_cols=51  Identities=20%  Similarity=0.484  Sum_probs=43.5

Q ss_pred             CCCccccccCccCCC-CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          177 DEDVCPTCLDEYTPE-NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       177 ~~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      -...|+||.+.|... +....+-|||.+|.+||.+||.....||.|+.++..
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            456799999998764 456678899999999999999999999999988754

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

Probab=94.31  E-value=0.039  Score=48.65  Aligned_cols=54  Identities=24%  Similarity=0.575  Sum_probs=43.4

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ....+...|+||+..-.+  +.++.-=|-+||..||...+...+.|||=..+..++
T Consensus       295 ~l~~~~~~CpvClk~r~N--ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~  348 (357)
T KOG0826|consen  295 LLPPDREVCPVCLKKRQN--PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD  348 (357)
T ss_pred             cCCCccccChhHHhccCC--CceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence            455567899999998765  455555699999999999999999999987776543

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

Probab=93.79  E-value=0.03  Score=54.96  Aligned_cols=42  Identities=26%  Similarity=0.725  Sum_probs=35.7

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE  224 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~  224 (231)
                      ...|.+|--.++.  +.+-..|||.||..|+.   +....||-|+-+
T Consensus       840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            4689999888776  78888999999999998   566799999864

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

Probab=93.40  E-value=0.069  Score=48.28  Aligned_cols=48  Identities=23%  Similarity=0.495  Sum_probs=40.7

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC---CCCCccCCC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS---ESCPICGKE  224 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~  224 (231)
                      ...+|||=.+.-.++|++..|.|||+..++-|.+-.+..   ..||+|=.+
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            357899999999999999999999999999999976543   479999443

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

Probab=93.34  E-value=0.048  Score=48.09  Aligned_cols=46  Identities=26%  Similarity=0.566  Sum_probs=36.3

Q ss_pred             CCCCCCccccccCccCCCCCceecCC--CCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRC--SHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ...+-.+||||.+.+..    -+.+|  ||+-|..|=.   +.++.||.||.+|.
T Consensus        44 ~~~~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             cchhhccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            34556789999999984    45678  5888888854   56889999999875

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

Probab=93.33  E-value=0.033  Score=48.74  Aligned_cols=44  Identities=23%  Similarity=0.575  Sum_probs=30.6

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      -.|--|--.+..  --++++|.|+||++|...  ..-+.||.|-.+|.
T Consensus        91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence            345556444332  356789999999999754  44679999977654

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.99  E-value=0.081  Score=46.96  Aligned_cols=54  Identities=20%  Similarity=0.552  Sum_probs=37.4

Q ss_pred             CCCCCCCccccccCccCCCCC-ceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENP-KITTRCSHHFHLGCIYEWLE-RSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~  226 (231)
                      ...++++.|+.|+|+++..++ ..--+||-..|.-|...--+ -...||-||....
T Consensus         9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175           9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            355667779999999987443 33456887777777544322 3568999998654

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

Probab=92.82  E-value=0.092  Score=51.47  Aligned_cols=53  Identities=34%  Similarity=0.765  Sum_probs=41.9

Q ss_pred             CCCCccccccCccCCCCCceecCCC-----CccCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLERS--ESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~  229 (231)
                      ++...|.||..+=..++++ .-||.     -..|.+|+.+||+-+  ..|-+|+.++.|++
T Consensus        10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            4558999999987766655 34554     468999999999865  47999999998875

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

Probab=92.63  E-value=0.044  Score=53.46  Aligned_cols=44  Identities=32%  Similarity=0.830  Sum_probs=36.4

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCccCCCCc
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKEME  226 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvCr~~~~  226 (231)
                      ..|.||++ .+   ..++++|+|.||.+|+.+-++.+.  .||+||..+.
T Consensus       455 ~~c~ic~~-~~---~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LD---SFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-cc---cceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            79999999 33   478899999999999998886543  6999997654

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

Probab=92.59  E-value=0.028  Score=57.39  Aligned_cols=45  Identities=33%  Similarity=0.615  Sum_probs=39.0

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK  223 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~  223 (231)
                      +...|.||++.+..  ...+..|||.+|..|+..|+.++..||+|+.
T Consensus      1152 ~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            35689999999884  3556779999999999999999999999973

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.51  E-value=0.051  Score=46.43  Aligned_cols=55  Identities=24%  Similarity=0.589  Sum_probs=39.6

Q ss_pred             CCCCCCCccccccCccCCCCCc-eecCCC-----CccCHHHHHHHHhcCC--------CCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPK-ITTRCS-----HHFHLGCIYEWLERSE--------SCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~-----H~Fh~~CI~~Wl~~s~--------~CPvCr~~~~~  227 (231)
                      ...+.+..|-||+..=+++-.. -+-||.     |-.|..||..|+..++        +||.|+.+...
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            4557788999999885542222 245664     8899999999995442        69999987543

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

Probab=92.16  E-value=0.079  Score=51.53  Aligned_cols=30  Identities=27%  Similarity=0.772  Sum_probs=26.0

Q ss_pred             CCCceecCCCCccCHHHHHHHHhcCCCCCc
Q 046929          191 ENPKITTRCSHHFHLGCIYEWLERSESCPI  220 (231)
Q Consensus       191 ~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPv  220 (231)
                      +...+...|+|+-|.+|+.+|++....||.
T Consensus      1040 gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1040 GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            445567789999999999999999999985

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

Probab=91.30  E-value=0.093  Score=51.85  Aligned_cols=40  Identities=25%  Similarity=0.498  Sum_probs=32.6

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE  213 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~  213 (231)
                      ...+..+.|.||.-.+-. .+-.+.+|||.||++||.+-..
T Consensus       812 ~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  812 RVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             EEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence            455778999999888765 4677889999999999987653

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

Probab=90.80  E-value=0.12  Score=47.17  Aligned_cols=40  Identities=20%  Similarity=0.531  Sum_probs=30.4

Q ss_pred             CCCCcccccc-CccCCCCCceecCCCCccCHHHHHHHHhcC
Q 046929          176 EDEDVCPTCL-DEYTPENPKITTRCSHHFHLGCIYEWLERS  215 (231)
Q Consensus       176 ~~~~~C~ICl-e~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s  215 (231)
                      ....+|.||+ +....+.......|+|.||.+|+.+.++.+
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            3567899999 544443444478899999999999888744

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

Probab=89.81  E-value=0.2  Score=43.89  Aligned_cols=49  Identities=24%  Similarity=0.617  Sum_probs=37.6

Q ss_pred             CCccccccCccCCCCC-ceecCCC-----CccCHHHHHHHHh--cCCCCCccCCCCc
Q 046929          178 EDVCPTCLDEYTPENP-KITTRCS-----HHFHLGCIYEWLE--RSESCPICGKEME  226 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~-~~~l~C~-----H~Fh~~CI~~Wl~--~s~~CPvCr~~~~  226 (231)
                      +..|-||.++....+. ....+|.     +..|..|+..|+.  ....|.+|.....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            5789999998764321 4567775     6789999999997  5668999987544

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

Probab=89.41  E-value=0.39  Score=30.77  Aligned_cols=43  Identities=28%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             CccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CC--CCCccCCC
Q 046929          179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SE--SCPICGKE  224 (231)
Q Consensus       179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~--~CPvCr~~  224 (231)
                      ..|+|....+..  +.+...|.|.-+.+ +..||+.   ..  .||+|+++
T Consensus         3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            468888888765  77778899984433 3445542   22  69999874

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

>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=88.26  E-value=0.67  Score=36.91  Aligned_cols=37  Identities=16%  Similarity=0.435  Sum_probs=22.1

Q ss_pred             CCCccccccCccCCCC---------CceecCCC-CccCHHHHHHHHh
Q 046929          177 DEDVCPTCLDEYTPEN---------PKITTRCS-HHFHLGCIYEWLE  213 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~---------~~~~l~C~-H~Fh~~CI~~Wl~  213 (231)
                      ++-+|+||||--.+.-         -.+-.-|+ -.-|..|+++.-+
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            3568999999987610         00001133 2357899998743

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.

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

Probab=88.07  E-value=0.3  Score=44.15  Aligned_cols=53  Identities=21%  Similarity=0.609  Sum_probs=34.9

Q ss_pred             CCCCCCccccccCccCCCCCcee-------------------cC--CCCccCHHHHHHHHhc-------------CCCCC
Q 046929          174 STEDEDVCPTCLDEYTPENPKIT-------------------TR--CSHHFHLGCIYEWLER-------------SESCP  219 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~-------------------l~--C~H~Fh~~CI~~Wl~~-------------s~~CP  219 (231)
                      ..++.+.|--|+..-.+  .+..                   .+  |.=++|.+||-+|+..             +-.||
T Consensus       267 ~~~e~e~CigC~~~~~~--vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP  344 (358)
T PF10272_consen  267 SGQELEPCIGCMQAQPN--VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCP  344 (358)
T ss_pred             CccccCCccccccCCCC--cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence            44677888889886433  1111                   12  3356799999999843             23799


Q ss_pred             ccCCCCcCc
Q 046929          220 ICGKEMEFC  228 (231)
Q Consensus       220 vCr~~~~~~  228 (231)
                      +||+++-.-
T Consensus       345 tCRa~FCil  353 (358)
T PF10272_consen  345 TCRAKFCIL  353 (358)
T ss_pred             CCcccceee
Confidence            999986543

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

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

Probab=87.98  E-value=0.28  Score=41.01  Aligned_cols=38  Identities=24%  Similarity=0.503  Sum_probs=28.5

Q ss_pred             cccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCC
Q 046929          181 CPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEM  225 (231)
Q Consensus       181 C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~  225 (231)
                      |-+|-+.=.   .+.++||.|+ +|..|=..    -..||+|+...
T Consensus       161 Cr~C~~~~~---~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGEREA---TVLLLPCRHLCLCGICDES----LRICPICRSPK  199 (207)
T ss_pred             ceecCcCCc---eEEeecccceEeccccccc----CccCCCCcChh
Confidence            888877644   4889999985 88888533    45699998754

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=87.37  E-value=1.1  Score=29.30  Aligned_cols=46  Identities=22%  Similarity=0.636  Sum_probs=32.8

Q ss_pred             CCCccccccCccCCC-CCceecCCCCccCHHHHHHHHhcCCCCCc--cCCCCc
Q 046929          177 DEDVCPTCLDEYTPE-NPKITTRCSHHFHLGCIYEWLERSESCPI--CGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPv--Cr~~~~  226 (231)
                      ....|.+|-+.|.++ +.++...|+-.+|+.|..    +...|-+  |...+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~----~~g~C~~~~c~~~~~   52 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE----KAGGCINYSCGTGFE   52 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHh----hCCceEeccCCCCcc
Confidence            356899999999854 455666699999999943    3556655  665543

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

Probab=86.08  E-value=0.32  Score=46.43  Aligned_cols=51  Identities=35%  Similarity=0.699  Sum_probs=42.3

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES  230 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s  230 (231)
                      ...+..+.|.||+++.    ..+..+|.   |..|+.+|+..+..||+|++.+..++.
T Consensus       474 ~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  474 QLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF  524 (543)
T ss_pred             hhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence            4456688999999998    35667787   899999999999999999998877653

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

Probab=86.00  E-value=0.27  Score=47.05  Aligned_cols=45  Identities=27%  Similarity=0.683  Sum_probs=31.0

Q ss_pred             CCCCCccccccCc-----cCCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929          175 TEDEDVCPTCLDE-----YTPENPKITTRCSHHFHLGCIYEWLERSESCPICG  222 (231)
Q Consensus       175 ~~~~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr  222 (231)
                      ......|.||...     |..++..+...|+++||..|.   -+++..||.|-
T Consensus       508 ~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~---~r~s~~CPrC~  557 (580)
T KOG1829|consen  508 TGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCL---RRKSPCCPRCE  557 (580)
T ss_pred             ccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHH---hccCCCCCchH
Confidence            3456788888432     333455677889999999994   34555699993

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.76  E-value=0.44  Score=41.61  Aligned_cols=30  Identities=23%  Similarity=0.578  Sum_probs=23.0

Q ss_pred             CCCccCHHHHHHHHh-------------cCCCCCccCCCCcCc
Q 046929          199 CSHHFHLGCIYEWLE-------------RSESCPICGKEMEFC  228 (231)
Q Consensus       199 C~H~Fh~~CI~~Wl~-------------~s~~CPvCr~~~~~~  228 (231)
                      |.-++|.+|+.+|+.             .+-+||+||+++-+.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            556788999988864             345899999987543

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

Probab=84.34  E-value=0.23  Score=48.18  Aligned_cols=47  Identities=26%  Similarity=0.662  Sum_probs=38.1

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~  226 (231)
                      ...+|+||++.+..   .+.+.|.|.|+..|+..-|+.   ...||+|+..+.
T Consensus        20 k~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   20 KILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             hhccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            35689999999986   588999999999999766543   458999986554

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

Probab=83.39  E-value=1  Score=34.84  Aligned_cols=52  Identities=15%  Similarity=0.328  Sum_probs=36.5

Q ss_pred             CCCccccccCccCCCCCceec-CCCCccCHHHHHHHHh---cCCCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLE---RSESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~---~s~~CPvCr~~~~~~  228 (231)
                      .-.+|.||.|.-.++.-+.-- =||-..|..|...-++   ....||+|+..+...
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            678999999987763322211 2898889888765444   356899999876543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	231
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		2e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		2e-04
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-04
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		3e-04

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           ++C  CL+++ P +      C H FH  C+ +WLE  + CP+C
Sbjct: 16  ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 154 SESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213
            E  +K  A K     +     E+E  C  C  EY  E   +T  C+H F   CI EW++
Sbjct: 29  KEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIE--AVTLNCAHSFCSYCINEWMK 85
Query: 214 RSESCPICGKEME 226
           R   CPIC K+++
Sbjct: 86  RKIECPICRKDIK 98

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 154 SESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213
            E  +K  A K     +     E+E  C  C  EY  E   +T  C+H F   CI EW++
Sbjct: 29  KEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIE--AVTLNCAHSFCSYCINEWMK 85
Query: 214 RSESCPICGKEME 226
           R   CPIC K+++
Sbjct: 86  RKIECPICRKDIK 98

>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 = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 25/45 (55%)
Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225
           CP C ++Y          C+H FH  CI  WLE+ +SCP+C K +
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           +   E  CP C  EY   +      C H+FH  C+  WL++S +CP+C
Sbjct: 36  AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 154 SESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213
            E  +K  A K     +     E+E  C  C  EY  E   +T  C+H F   CI EW++
Sbjct: 40  KEEKEKMQAQKEEVLSHMNDVLENELQCIIC-SEYFIE--AVTLNCAHSFCSYCINEWMK 96
Query: 214 RSESCPICGKEME 226
           R   CPIC K+++
Sbjct: 97  RKIECPICRKDIK 109

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	231
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-12
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	5e-12
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-11
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-11
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-11
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-10
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-10
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-09
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-09
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-08
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	5e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	8e-05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	9e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	1e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	2e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	3e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	4e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	6e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	7e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	9e-04

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

 Score = 59.3 bits (144), Expect = 3e-12
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
             DE+ C  C+D        +   C+H F   CI +W +R  +CPIC
Sbjct: 12  LTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPIC 54

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

 Score = 58.9 bits (143), Expect = 5e-12
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 172 QTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225
             +   E  CP C  EY   +      C H+FH  C+  WL++S +CP+C    
Sbjct: 34  HGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 57.4 bits (139), Expect = 1e-11
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
              + CP CL++    N  +   C H F   CI  W+ ++ +CP+C
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46

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

 Score = 57.2 bits (138), Expect = 2e-11
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
            D C  C  E   E+   +   C+H FH  C+  W++++  CP+C ++   
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76

>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 = 56.7 bits (137), Expect = 3e-11
 Identities = 18/51 (35%), Positives = 25/51 (49%)

Query: 171 TQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           T+        CP C ++Y          C+H FH  CI  WLE+ +SCP+C
Sbjct: 8   TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVC 58

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

 Score = 56.3 bits (136), Expect = 4e-11
 Identities = 15/51 (29%), Positives = 25/51 (49%)

Query: 171 TQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
                   ++C  CL+++ P +      C H FH  C+ +WLE  + CP+C
Sbjct: 8   KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

 Score = 54.5 bits (131), Expect = 2e-10
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 4/58 (6%)

Query: 171 TQTSTEDEDVCPTCLDEYT----PENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           T         CP C+D Y+         ++T C H F   C+ + L+ + +CP C K+
Sbjct: 8   TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

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

 Score = 53.6 bits (129), Expect = 3e-10
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 181 CPTCLDEYT----PENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           CP C+D Y+         ++T C H F   C+ + L+ + +CP C K+
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 53

>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 = 53.5 bits (129), Expect = 3e-10
 Identities = 16/49 (32%), Positives = 22/49 (44%)

Query: 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           T  + E+ C  CL             C H FH  C+ +WL  ++ CPIC
Sbjct: 9   TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPIC 57

>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 = 53.3 bits (128), Expect = 4e-10
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 4/58 (6%)

Query: 171 TQTSTEDEDVCPTCLDEYT----PENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           T         CP C+D Y+         ++T C H F   C+ + L+ + +CP C K+
Sbjct: 3   TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

>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 = 51.5 bits (124), Expect = 1e-09
 Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 176 EDEDVCPTCLDEY-TPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
                CP CL++  T         C H  H  C  E L+    CP+C
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49

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

 Score = 51.9 bits (125), Expect = 1e-09
 Identities = 13/51 (25%), Positives = 25/51 (49%)

Query: 171 TQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
                 ++ +C  C+ ++          C+H FH  C+ +WL+ + +CPIC
Sbjct: 16  PNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPIC 66

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

 Score = 51.4 bits (124), Expect = 2e-09
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 174 STEDEDVCPTCLDEYTP-ENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           + +D   C  CL E    E  +   RC H FH  C+  WL    +CP+C
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

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

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 7/63 (11%)

Query: 168 GPYTQTSTEDED----VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223
           G    +   +E+     C  C   +   NP + T+C H+F   C  E    +  C IC +
Sbjct: 1   GSSGSSGGSEEEEIPFRCFICRQAFQ--NP-VVTKCRHYFCESCALEHFRATPRCYICDQ 57

Query: 224 EME 226
              
Sbjct: 58  PTG 60

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

 Score = 48.6 bits (116), Expect = 2e-08
 Identities = 12/49 (24%), Positives = 14/49 (28%), Gaps = 2/49 (4%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
               +C  C       +    T C H F   CI      S  CP C   
Sbjct: 13  TPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIV 59

>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 = 49.4 bits (118), Expect = 3e-08
 Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 2/49 (4%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
               +C  C   +   +      C H F   CI  +LE S+ CPIC  +
Sbjct: 13  NPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQ 59

>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 = 49.1 bits (117), Expect = 3e-08
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 3/49 (6%)

Query: 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPIC 221
           S  +   C  C++     + ++   CS      CI  WL      CP C
Sbjct: 18  SIAEVFRCFICME--KLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHC 64

>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 = 49.5 bits (117), Expect = 4e-08
 Identities = 14/56 (25%), Positives = 21/56 (37%)

Query: 172 QTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
                  +         + E       C+H FH  CI  WL+  + CP+  +E EF
Sbjct: 57  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 112

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

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 3/49 (6%)

Query: 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
             +     C  CL      +P ++  C H F   C+       + C +C
Sbjct: 10  APSLTVPECAICLQTCV--HP-VSLPCKHVFCYLCVKGASWLGKRCALC 55

>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 = 47.1 bits (111), Expect = 2e-07
 Identities = 14/56 (25%), Positives = 21/56 (37%)

Query: 172 QTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227
                  +         + E       C+H FH  CI  WL+  + CP+  +E EF
Sbjct: 46  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 101

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

 Score = 47.7 bits (113), Expect = 2e-07
 Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 3/72 (4%)

Query: 155 ESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER 214
           E  +K  A K     +     E+E  C  C + +      +T  C+H F   CI EW++R
Sbjct: 41  EEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI--EA-VTLNCAHSFCSYCINEWMKR 97

Query: 215 SESCPICGKEME 226
              CPIC K+++
Sbjct: 98  KIECPICRKDIK 109

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

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           +D   C  C + +      I  +CSH++   CI ++L     CP C   
Sbjct: 20  DDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

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

 Score = 49.0 bits (116), Expect = 4e-07
 Identities = 21/93 (22%), Positives = 32/93 (34%), Gaps = 6/93 (6%)

Query: 135 GFGKKQNVVDSEED-CKLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENP 193
           GF    +  +   D   L +    D    T+  Y  Y +       +C  C +     + 
Sbjct: 289 GFYLFPDGRNQNPDLTGLCEPTPQDHIKVTQEQYELYCE-MGSTFQLCKICAENDK--DV 345

Query: 194 KITTRCSHHFHLGCIYEWLE-RSESCPICGKEM 225
           KI   C H     C+  W E   + CP C  E+
Sbjct: 346 KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 377

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

 Score = 46.3 bits (109), Expect = 6e-07
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 4/45 (8%)

Query: 181 CPTCLDEYTPENPK----ITTRCSHHFHLGCIYEWLERSESCPIC 221
           CP C+D Y+         ++T C H F   C+ + L+ + +CP C
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 54

>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 = 43.3 bits (101), Expect = 5e-06
 Identities = 15/71 (21%), Positives = 22/71 (30%), Gaps = 20/71 (28%)

Query: 171 TQTSTEDEDVCPTCLDEYT---------------PENPKITTRCSHHFHLGCIYEWLERS 215
            +     E+ C  C+++                 P      T+CSH FHL C+       
Sbjct: 18  EELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNG 77

Query: 216 E-----SCPIC 221
                  CP C
Sbjct: 78  NKDGSLQCPSC 88

>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 = 42.2 bits (99), Expect = 6e-06
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 4/51 (7%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSES--CPICGKE 224
           +   +C  C           T  C    HL C+ ++ + +    CP C   
Sbjct: 13  DAVKICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

>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 = 41.7 bits (98), Expect = 9e-06
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 4/56 (7%)

Query: 171 TQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKE 224
                 DE +C  C D  T  +  +   C + +   CI   L  S+  +CP C + 
Sbjct: 8   EDDPIPDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61

>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 = 1e-05
 Identities = 17/86 (19%), Positives = 29/86 (33%), Gaps = 5/86 (5%)

Query: 138 KKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTST-EDEDVCPTCLDEYTPENPKIT 196
           +   + + + + KL +   +       +        S  E+   C  C +      P IT
Sbjct: 11  QSSLIREDKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVF--RP-IT 67

Query: 197 TRCSHHFHLGCIYEWLERSE-SCPIC 221
           T C H+    C+         SCP C
Sbjct: 68  TVCQHNVCKDCLDRSFRAQVFSCPAC 93

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKE 224
              DE +C  C D  T  +  +   C + +   CI   L  S+  +CP C + 
Sbjct: 9   PIPDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

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

 Score = 43.7 bits (102), Expect = 2e-05
 Identities = 13/77 (16%), Positives = 20/77 (25%), Gaps = 16/77 (20%)

Query: 165 AAYGPYTQTSTEDEDVCPTCLDEYTPENPKI-----TTRCSHHFHLGCIYEWLERSES-- 217
            + GP       +E  C  C                  +C    H  C+ EW +      
Sbjct: 295 WSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGK 354

Query: 218 ---------CPICGKEM 225
                    CP C  ++
Sbjct: 355 TFLEVSFGQCPFCKAKL 371

>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 = 40.8 bits (95), Expect = 8e-05
 Identities = 19/100 (19%), Positives = 34/100 (34%), Gaps = 8/100 (8%)

Query: 127 SSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAY----GPYTQTSTEDEDVCP 182
           S   + S      +    + +   L+  +  ++ L  +       GP      E   +C 
Sbjct: 23  SKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFMCV 82

Query: 183 TCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPIC 221
            C +      P +TT C H+    C+    +    SCP C
Sbjct: 83  CCQELVY--QP-VTTECFHNVCKDCLQRSFKAQVFSCPAC 119

>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 = 39.7 bits (93), Expect = 9e-05
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 6/52 (11%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPICGKE 224
           +    CP CL+      P ++T+C H F   C+ + L + +    CP+C  +
Sbjct: 19  QKILECPICLELIK--EP-VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 Length = 61

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 6/47 (12%), Positives = 19/47 (40%), Gaps = 2/47 (4%)

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226
           +C        P  P ++ +    F    + ++++ + + PI  + + 
Sbjct: 5   LCAISGK--VPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS 49

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

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKE 224
           ED+  C  C       +P   T C H F   C+   L  S   C  C + 
Sbjct: 13  EDKYKCEKCHL--VLCSP-KQTECGHRFCESCMAALLSSSSPKCTACQES 59

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 37.3 bits (87), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 6/49 (12%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPIC 221
           + E  C  CL+      P +   C H+F   CI  W E  E    CP+C
Sbjct: 13  QVEASCSVCLEYLK--EP-VIIECGHNFCKACITRWWEDLERDFPCPVC 58

>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 = 39.6 bits (92), Expect = 2e-04
 Identities = 21/106 (19%), Positives = 40/106 (37%), Gaps = 12/106 (11%)

Query: 119 AQPIRRNMSSSGRESLGFGKKQNVVDSEEDCKLVDSESSDKALATKAAYGPYTQTSTEDE 178
              + + + ++G + L    + ++ + +   +   ++  +  ++ +         S   E
Sbjct: 4   GSHMSQAVQTNGTQPLSKTWELSLYELQRTPQEAITDGLEIVVSPR---------SLHSE 54

Query: 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGK 223
            +CP CLD     N   T  C H F   CI   L      CP C K
Sbjct: 55  LMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRK 98

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

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 6/63 (9%)

Query: 171 TQTSTEDEDVCPTCLDEYTPENPKITT-RCS---HHFHLGCIYEWLERSES--CPICGKE 224
           T  +   +D+C  C  E   E+P IT   C+   H  H  C+ +W++ S++  C +C  E
Sbjct: 8   TSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYE 67

Query: 225 MEF 227
              
Sbjct: 68  FIM 70

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

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 9/54 (16%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE------SCPICGK 223
           ++E  CP CL+  T   P ++  C H F   C+    ++S       SCP+C  
Sbjct: 17  KEEVTCPICLELLT--QP-LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRI 67

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

 Score = 39.7 bits (92), Expect = 4e-04
 Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 4/51 (7%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSES--CPICGKE 224
           +   +C  C         +    C    HL C+ ++ + +    CP C   
Sbjct: 178 DAVKICNICHSLLIQ--GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 226

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

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           E    C  C +      P     C H F   C+ + +     CP+C
Sbjct: 20  EKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGT--GCPVC 61

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

 Score = 37.4 bits (87), Expect = 4e-04
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 9/55 (16%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE------SCPICGKE 224
           ++E  CP CL+      P ++  C+H F   CI    E +       +CP+C   
Sbjct: 17  KEEVTCPICLELLK--EP-VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPIC 221
           ++E +CP CLD      P +T  C H+F L CI +  E S     CP+C
Sbjct: 18  QEEVICPICLDILQ--KP-VTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 36.2 bits (84), Expect = 6e-04
 Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPIC 221
           ++E +CP CLD      P +T  C H+F L CI +  E S     CP+C
Sbjct: 18  QEEVICPICLDILQ--KP-VTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 = 7e-04
 Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 10/56 (17%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-------SCPICGKE 224
           ++E  CP CL+  T   P ++  C H     CI    + +        SCP+CG  
Sbjct: 10  QEEVTCPICLELLT--EP-LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62

>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} Length = 267

 Score = 38.8 bits (89), Expect = 7e-04
 Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 14/66 (21%)

Query: 169 PYTQTSTEDEDV----------CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSES- 217
           P  Q   +++D+          CP     Y  E P I+ +C+H F    I  +L+   + 
Sbjct: 162 PDLQNPADEDDLQIEGGKIELTCPITCKPY--EAPLISRKCNHVFDRDGIQNYLQGYTTR 219

Query: 218 -CPICG 222
            CP   
Sbjct: 220 DCPQAA 225

>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 = 37.2 bits (86), Expect = 9e-04
 Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 4/54 (7%)

Query: 169 PYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPIC 221
           P     +  E  C  C++      P +T  C+H     C    +E++   CP C
Sbjct: 6   PKDAIPSLSECQCGICMEILV--EP-VTLPCNHTLCKPCFQSTVEKASLCCPFC 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	231
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.66
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.66
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.64
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.64
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.62
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.62
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.59
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.58
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	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
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.52
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.5
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.5
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.5
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.5
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.5
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.48
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.48
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.47
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.47
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.46
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.46
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.46
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.42
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.41
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.4
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.4
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.39
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.39
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.38
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.38
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.36
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.34
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.33
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.32
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.32
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.31
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.28
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.26
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.25
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.25
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.23
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.22
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.22
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.21
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.2
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.2
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.2
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.18
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.18
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.17
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.15
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.14
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.06
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.06
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.03
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.01
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.97
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.95
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.94
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.93
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.88
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.83
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.8
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.78
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.71
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.71
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.58
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.31
3nw0_A	238	Non-structural maintenance of chromosomes element	98.01
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.71
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.77
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.8
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	92.56
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	91.01
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	90.4
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	89.9
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.04
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	88.86
1we9_A	64	PHD finger family protein; structural genomics, PH	88.74
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	87.47
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	86.78
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	86.78
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	85.86
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	84.0
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	83.48
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	83.0
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	82.12
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	80.82

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

Probab=99.66  E-value=3.8e-17  Score=118.08  Aligned_cols=75  Identities=27%  Similarity=0.538  Sum_probs=60.1

Q ss_pred             cccchHHHhhhhchhccCCCCCCCCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          150 KLVDSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       150 k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      .+..++.+..|+...+..   .....+++..|+||++.|..++..+.++|+|.||..||.+||+.+.+||+||+.+..
T Consensus        15 ~~~s~~~i~~lp~~~~~~---~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           15 PPASKESIDALPEILVTE---DHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             CCCCHHHHHTSCEEECCT---TCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCHHHHHhCCCeeecc---cccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            345556777777665511   113446678999999999988888899999999999999999999999999998753

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

Probab=99.66  E-value=5.4e-17  Score=105.97  Aligned_cols=52  Identities=29%  Similarity=0.705  Sum_probs=47.3

Q ss_pred             CCCCccccccCccCCCCCceecC-CCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTR-CSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +++..|+||++.|..++..+.++ |+|.||..||.+|++++.+||+||+++.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~v   55 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeEC
Confidence            56789999999999888788887 99999999999999999999999998753

>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=99.64  E-value=2.1e-16  Score=107.97  Aligned_cols=56  Identities=30%  Similarity=0.690  Sum_probs=49.9

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...+.+..|+||++.|..+..++.++|+|.||..||.+|++++.+||+||+.+...
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            44566789999999998877888999999999999999999999999999998754

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

Probab=99.64  E-value=4.6e-17  Score=113.22  Aligned_cols=55  Identities=24%  Similarity=0.735  Sum_probs=49.2

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...++..|+||++.|..++.++.++|+|.||..||.+|++.+.+||+||+++...
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            3456789999999999888888999999999999999999999999999988653

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

Probab=99.62  E-value=2.8e-16  Score=109.94  Aligned_cols=57  Identities=32%  Similarity=0.742  Sum_probs=50.5

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ....+...|+||++.|......+.++|+|.||..||.+|++.+.+||+||+.+...+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            445667899999999998777888999999999999999999999999999987654

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

Probab=99.62  E-value=3.1e-16  Score=108.58  Aligned_cols=55  Identities=27%  Similarity=0.782  Sum_probs=49.0

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ....++..|+||++.|......++++|+|.||..||.+|++.+.+||+||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           10 KELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             ccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            3456678999999999988888888999999999999999999999999998753

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

Probab=99.59  E-value=6e-16  Score=109.43  Aligned_cols=53  Identities=25%  Similarity=0.670  Sum_probs=43.2

Q ss_pred             CCCCccccccCccCC-----------CCCc-eecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTP-----------ENPK-ITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~-----------~~~~-~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      .+++.|+||++.|..           ++.+ ++++|+|.||..||.+||+++.+||+||+++.+.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            456778888888854           3334 4456999999999999999999999999998764

>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=99.58  E-value=1.1e-15  Score=99.52  Aligned_cols=51  Identities=25%  Similarity=0.610  Sum_probs=44.9

Q ss_pred             CCCCccccccCccCC-CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTP-ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .++..|+||++.|.. ++..++++|+|.||..||.+|++.+.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            457889999999965 346788999999999999999999999999999874

>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=99.55  E-value=2.4e-15  Score=111.73  Aligned_cols=54  Identities=30%  Similarity=0.625  Sum_probs=46.2

Q ss_pred             CCCCccccccCccCCC---------------CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPE---------------NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~---------------~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      .+++.|+||++.|...               ..+++++|+|.||..||.+||+++.+||+||+++.++.
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~~~  103 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQK  103 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEEE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcceeec
Confidence            3578899999999853               23677899999999999999999999999999987653

>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=3.6e-15  Score=101.38  Aligned_cols=55  Identities=27%  Similarity=0.722  Sum_probs=46.7

Q ss_pred             CCCCCCCccccccCccCC----CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTP----ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ....+...|+||++.|..    +...++++|||.||..||.+|++.+.+||+||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            344667899999999975    2334789999999999999999999999999998864

>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=1.8e-15  Score=103.69  Aligned_cols=56  Identities=27%  Similarity=0.702  Sum_probs=47.9

Q ss_pred             CCCCCCccccccCccCC----CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          174 STEDEDVCPTCLDEYTP----ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ..+++..|+||++.|..    +...+.++|||.||..||.+|++++.+||+||+.+..++
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            34567899999999875    244588999999999999999999999999999987654

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

Probab=99.52  E-value=1.4e-14  Score=99.83  Aligned_cols=55  Identities=22%  Similarity=0.442  Sum_probs=46.6

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ...++...|+||++.|.+  ++.+++|||.||..||.+|++.+..||+||+.+...+
T Consensus        10 ~~~~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           10 SELTPYILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSS--CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hhcCCCCCCCCCChHHHC--cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            445667899999999986  4444599999999999999999999999999987654

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

Probab=99.50  E-value=1.2e-14  Score=102.47  Aligned_cols=56  Identities=29%  Similarity=0.715  Sum_probs=47.3

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCC-----CccCHHHHHHHHhcCC--CCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLERSE--SCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~s~--~CPvCr~~~~~~~  229 (231)
                      ....+++.|.||+++|..++.+ ++||+     |.||..||.+||..++  +||+||..+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            4455678999999999877766 58996     9999999999998764  8999999987754

>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=99.50  E-value=1.2e-14  Score=108.84  Aligned_cols=52  Identities=29%  Similarity=0.584  Sum_probs=42.4

Q ss_pred             CCCccccccCccCCCC---------------CceecCCCCccCHHHHHHHH-----hcCCCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPEN---------------PKITTRCSHHFHLGCIYEWL-----ERSESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~---------------~~~~l~C~H~Fh~~CI~~Wl-----~~s~~CPvCr~~~~~~  228 (231)
                      .++.|+|||+.|....               ..++++|+|.||..||.+||     +.+.+||+||+.+..+
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4568999999996532               33478999999999999999     4567999999987654

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

Probab=99.50  E-value=1e-14  Score=100.18  Aligned_cols=51  Identities=20%  Similarity=0.448  Sum_probs=45.3

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ...+...|+||++.+..   .+.++|+|.||..||.+|++....||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             cCCCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            34567899999999976   6788999999999999999999999999998764

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

Probab=99.50  E-value=5.6e-15  Score=98.96  Aligned_cols=53  Identities=28%  Similarity=0.727  Sum_probs=45.6

Q ss_pred             CCCccccccCccCC----CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTP----ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ++..|+||++.+..    +...+.++|||.||..||.+|++++.+||+||+.+..++
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            46789999999975    234588999999999999999999999999999987653

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

Probab=99.50  E-value=1.3e-14  Score=98.53  Aligned_cols=50  Identities=28%  Similarity=0.778  Sum_probs=44.2

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +.+..|+||++.+..  +.+.++|||.||..||.+|++++.+||+||+.+..
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            457789999999874  45889999999999999999999999999998753

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

Probab=99.48  E-value=3.8e-14  Score=100.92  Aligned_cols=56  Identities=25%  Similarity=0.584  Sum_probs=48.0

Q ss_pred             CCCCCCCccccccCccCCCCC-ceecCCCCccCHHHHHHHHhcC---CCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENP-KITTRCSHHFHLGCIYEWLERS---ESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~~~~~  228 (231)
                      ....+...|+||++.|..++. .++++|||.||..||.+|++.+   ..||+||+.+...
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            455677899999999987653 7788999999999999999876   7999999987654

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

Probab=99.48  E-value=4.7e-14  Score=97.74  Aligned_cols=54  Identities=26%  Similarity=0.487  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccCccCCCCCceecC-CCCccCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTR-CSHHFHLGCIYEWLERS--ESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~  229 (231)
                      ....++..|+||++.|.+   .++++ |||.||..||..|++.+  ..||+||+++...+
T Consensus        10 ~~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           10 DPIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             CCSCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             ccCCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            445677899999999986   66788 99999999999999866  69999999865443

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

Probab=99.47  E-value=1.3e-14  Score=99.29  Aligned_cols=52  Identities=33%  Similarity=0.779  Sum_probs=45.8

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ...+...|+||++.+..    +.++|+|.||..||.+|++++.+||+||+.+...+
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             cCCCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            44567899999999875    78999999999999999999999999999887554

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

Probab=99.47  E-value=4.7e-14  Score=97.07  Aligned_cols=54  Identities=31%  Similarity=0.675  Sum_probs=46.1

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh---cCCCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE---RSESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~---~s~~CPvCr~~~~~~~  229 (231)
                      ...++...|+||++.|..   .+.++|||.||..||..|++   ....||+||+.+..++
T Consensus        15 ~~~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             HhCccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            345667899999999986   67789999999999999997   4568999999987764

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

Probab=99.46  E-value=5.2e-14  Score=95.23  Aligned_cols=53  Identities=25%  Similarity=0.492  Sum_probs=44.9

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHH-hcCCCCCccCCCCcCcC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWL-ERSESCPICGKEMEFCE  229 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl-~~s~~CPvCr~~~~~~~  229 (231)
                      ...+...|+||++.+..   .+.++|||.||..||.+|+ .....||+||+.+..++
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             SCCCCEECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             cCCcCCCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            34567899999999986   5558999999999999999 45679999999987664

>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=99.46  E-value=6.1e-15  Score=111.18  Aligned_cols=53  Identities=30%  Similarity=0.654  Sum_probs=1.2

Q ss_pred             CCCccccccCccCCC---------------CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTPE---------------NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~~---------------~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      +++.|+||++.|...               ..++.++|+|.||..||.+||+++.+||+||+++.++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~k  114 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQK  114 (117)
T ss_dssp             CC------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeeeec
Confidence            468999999999752               13445689999999999999999999999999987653

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

Probab=99.46  E-value=5.9e-14  Score=98.79  Aligned_cols=51  Identities=24%  Similarity=0.524  Sum_probs=44.8

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ...+....|+||++.|..   .++++|||.||..||.+|++....||+||+.+.
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            344557789999999976   677999999999999999999999999999875

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

Probab=99.42  E-value=2.4e-13  Score=95.83  Aligned_cols=53  Identities=28%  Similarity=0.680  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc------CCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER------SESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~------s~~CPvCr~~~~~~  228 (231)
                      ....+...|+||++.|..   .++++|+|.||..||..|++.      ...||+||+.+..+
T Consensus        14 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSS---CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             HhCccCCCCcCCChhhCc---ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            344567899999999986   567899999999999999987      67999999998754

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

Probab=99.41  E-value=4.9e-14  Score=109.21  Aligned_cols=49  Identities=37%  Similarity=0.859  Sum_probs=43.8

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +++..|+||++.|..   +++++|||.||..||..|+.++.+||+||+++..
T Consensus        51 ~~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           51 ENELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            345689999999986   7789999999999999999999999999998754

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

Probab=99.40  E-value=1.8e-13  Score=95.51  Aligned_cols=51  Identities=16%  Similarity=0.411  Sum_probs=45.0

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      ..++..|+||++.|.+   .++++|||.||..||.+|++. +.+||+||+.+...
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CcccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            4568899999999986   677899999999999999987 78999999988654

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

Probab=99.40  E-value=3.2e-13  Score=95.13  Aligned_cols=54  Identities=26%  Similarity=0.654  Sum_probs=45.9

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc------CCCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER------SESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~------s~~CPvCr~~~~~~~  229 (231)
                      ....+...|+||++.|..   .+.++|||.||..||..|++.      ...||+||+.+...+
T Consensus        14 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             HHccCCCCCCCCCcccCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            344567899999999976   566899999999999999987      789999999987543

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

Probab=99.39  E-value=5e-13  Score=89.43  Aligned_cols=46  Identities=37%  Similarity=0.820  Sum_probs=39.7

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh---cCCCCCcc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE---RSESCPIC  221 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~---~s~~CPvC  221 (231)
                      ...+++..|+||++.|.+   .++++|||.||..||.+|++   ....||+|
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            445678899999999986   67789999999999999998   45689998

>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=9e-14  Score=97.04  Aligned_cols=53  Identities=30%  Similarity=0.701  Sum_probs=45.1

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-------CCCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-------SESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-------s~~CPvCr~~~~~~  228 (231)
                      ...+++..|+||++.|..   .+.++|||.||..||.+|++.       ...||+||+.+...
T Consensus         7 ~~~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCCCEETTTTEECSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             hhcccCCCCcCCCcccCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            345668899999999986   566899999999999999987       67899999998654

>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=99.38  E-value=1.3e-13  Score=100.99  Aligned_cols=50  Identities=22%  Similarity=0.612  Sum_probs=43.6

Q ss_pred             CCCCccccccCccCCCCCcee-cCCCCccCHHHHHHHHhcC-CCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKIT-TRCSHHFHLGCIYEWLERS-ESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~-l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~~  228 (231)
                      .++..|+||++.|..   .+. ++|||.||..||.+|++.+ ..||+||+.+..+
T Consensus        20 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            446789999999986   555 9999999999999999888 6999999998654

>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=5.2e-13  Score=92.50  Aligned_cols=55  Identities=18%  Similarity=0.483  Sum_probs=46.3

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS--ESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~  229 (231)
                      ...+..+.|+||++.+..+.  ....|+|.||..||.+||+++  .+||+||+++.++.
T Consensus        10 ~y~~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           10 TYPDAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CCSSSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             hccCCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            34466789999999998643  344899999999999999887  89999999998764

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

Probab=99.36  E-value=7e-13  Score=95.32  Aligned_cols=51  Identities=27%  Similarity=0.536  Sum_probs=43.8

Q ss_pred             CCCCCCCccccccCccCCCCCceecC-CCCccCHHHHHHHHhcC--CCCCccCCCCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTR-CSHHFHLGCIYEWLERS--ESCPICGKEME  226 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~  226 (231)
                      ....++..|+||++.|.+   .++++ |||.||..||..|+..+  ..||+||+.+.
T Consensus         8 ~~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             ccCCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            455678899999999986   67788 99999999999999754  59999999873

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

Probab=99.34  E-value=8.8e-13  Score=86.49  Aligned_cols=46  Identities=33%  Similarity=0.862  Sum_probs=38.8

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHH---hcCCCCCcc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWL---ERSESCPIC  221 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl---~~s~~CPvC  221 (231)
                      ....+...|+||++.+..   .++++|||.||..||.+|+   ++...||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hccccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            344567899999999986   5678999999999999995   456799998

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

Probab=99.33  E-value=7.5e-13  Score=89.17  Aligned_cols=53  Identities=25%  Similarity=0.661  Sum_probs=42.1

Q ss_pred             CCCccccccC-ccCCCC-CceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLD-EYTPEN-PKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle-~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~~  229 (231)
                      ++..|+||++ .|.... ..++++|||.||..||.+|+.+ ...||+||+.+..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            4678999999 776533 2256899999999999999764 468999999987543

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

Probab=99.32  E-value=4.8e-13  Score=97.59  Aligned_cols=49  Identities=27%  Similarity=0.604  Sum_probs=42.2

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +...|+||++.|..  ++.+++|||.||..||..|++.+..||+||+.+..
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            46689999999986  33344899999999999999999999999998864

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

Probab=99.32  E-value=4.3e-13  Score=102.16  Aligned_cols=53  Identities=28%  Similarity=0.740  Sum_probs=45.7

Q ss_pred             CCCCccccccCccCC----CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTP----ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      .++..|+||++.|..    +...+.++|||.||..||.+||+.+.+||+||+.+..+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            456789999999975    23448899999999999999999999999999988654

>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=1e-12  Score=97.44  Aligned_cols=50  Identities=28%  Similarity=0.619  Sum_probs=43.3

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      .++..|+||++.|..  ++.+++|||.||..||..|++.+..||+||+.+..
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            557889999999986  34444999999999999999999999999998765

>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=99.28  E-value=1.3e-12  Score=99.17  Aligned_cols=49  Identities=27%  Similarity=0.514  Sum_probs=42.8

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC-CCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~-~CPvCr~~~~~  227 (231)
                      ++...|+||++.|..   .+.++|||.||..||..|+.... .||+||+.+..
T Consensus        50 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            456789999999986   77789999999999999998554 99999998865

>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=99.26  E-value=3.3e-12  Score=94.82  Aligned_cols=48  Identities=27%  Similarity=0.713  Sum_probs=41.6

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC---CCCccCCCCcCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPICGKEMEFC  228 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~---~CPvCr~~~~~~  228 (231)
                      ...|+||++.|..   .+.++|||.||..||..|+..+.   .||+||+.+...
T Consensus        21 ~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcC---eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            5689999999975   56689999999999999998764   899999988654

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

Probab=99.25  E-value=1.7e-12  Score=98.79  Aligned_cols=55  Identities=27%  Similarity=0.709  Sum_probs=46.8

Q ss_pred             CCCCCccccccCccCC----CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          175 TEDEDVCPTCLDEYTP----ENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~----~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      .++...|+||++.|..    +...+.++|||.||..||.+||+.+++||+||+.+..++
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            3567789999999875    234478999999999999999999999999999987653

>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=2.2e-12  Score=97.13  Aligned_cols=53  Identities=25%  Similarity=0.536  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC-CCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~-~CPvCr~~~~~~  228 (231)
                      ...++...|+||++.+..   .+.++|||.||..||.+|++.+. +||+||+.+..+
T Consensus        13 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           13 PPLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCcCChhhcC---eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            345667899999999986   67789999999999999998765 999999988654

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

Probab=99.23  E-value=8.8e-12  Score=88.67  Aligned_cols=52  Identities=15%  Similarity=0.041  Sum_probs=46.5

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...++..|+||++.|.+   .++++|||.|+..||.+|+....+||+||+.+...
T Consensus        10 ~~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTD---PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TCCTTTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             cCchheECcccCchhcC---CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            34568899999999997   88899999999999999999889999999988654

>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=99.22  E-value=2.7e-12  Score=102.13  Aligned_cols=50  Identities=34%  Similarity=0.725  Sum_probs=42.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~  227 (231)
                      .+...|+||++.|..  ++.+++|||.||..||..|++. +..||+||+.+..
T Consensus        52 ~~~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            456789999999986  4444599999999999999987 7789999998853

>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=99.22  E-value=1.4e-12  Score=97.74  Aligned_cols=50  Identities=24%  Similarity=0.601  Sum_probs=43.5

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEME  226 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~  226 (231)
                      ...++..|+||++.|..   .+.++|||.||..||..|++. ...||+||+.+.
T Consensus        11 ~~~~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           11 PSLSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             CCHHHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            44567899999999986   677899999999999999976 678999999875

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

Probab=99.21  E-value=2.9e-12  Score=83.98  Aligned_cols=49  Identities=22%  Similarity=0.399  Sum_probs=41.8

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ..+...|+||++.|..   .++++|||.||..||..|   ...||+||+.+....
T Consensus         3 e~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             SCCCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cccCCCceEeCCccCC---eEEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            3567789999999986   678999999999999884   678999999987654

>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=99.20  E-value=4.5e-12  Score=95.03  Aligned_cols=50  Identities=24%  Similarity=0.423  Sum_probs=43.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      .++..|+||++.+.+   .+.++|||.||..||..|++. ..+||+||+.+...
T Consensus        21 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           21 VKSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            346789999999986   677899999999999999987 67999999988654

>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=99.20  E-value=8.8e-12  Score=97.93  Aligned_cols=50  Identities=24%  Similarity=0.539  Sum_probs=43.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC-CCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~-~CPvCr~~~~~~  228 (231)
                      .+...|+||++.|..   .++++|||.||..||..|++... .||+||+.+...
T Consensus        76 ~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            346789999999986   77799999999999999998765 899999998754

>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=8.6e-12  Score=83.99  Aligned_cols=48  Identities=17%  Similarity=0.479  Sum_probs=42.0

Q ss_pred             CCCCccccccCccCCCCCceec--CCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITT--RCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l--~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .++..|.||++.+.+   .+.+  ||||. |+..|+..|++.+..||+||+++.
T Consensus         6 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            456789999999876   5555  99999 899999999999999999999875

>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=99.18  E-value=2.2e-11  Score=88.94  Aligned_cols=52  Identities=13%  Similarity=0.055  Sum_probs=46.5

Q ss_pred             CCCCCCccccccCccCCCCCceecCCC-CccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCS-HHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...++..|+||++.|.+   +++++|| |.|+..||.+||....+||+||+++...
T Consensus        18 ~~p~~~~CpI~~~~m~d---PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             SCCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             cCcHhcCCcCccccccC---CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            34567899999999997   8889999 9999999999999889999999998754

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

Probab=99.18  E-value=2.7e-11  Score=84.77  Aligned_cols=54  Identities=20%  Similarity=0.370  Sum_probs=42.3

Q ss_pred             CCCCCCccccccCccCCCCCceec--CCCCccCHHHHHHHHh-cCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITT--RCSHHFHLGCIYEWLE-RSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l--~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~~~  228 (231)
                      ..+++..|+||++.+...+. +.+  +|||.||..||..|++ ....||+||+.+...
T Consensus         7 ~~~~~~~CpICle~~~~~d~-~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDI-NFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTT-TCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccccCCcCCccCccCccccc-cccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            34677899999999865333 334  4999999999999984 457899999987654

>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=99.17  E-value=1.6e-11  Score=90.00  Aligned_cols=52  Identities=15%  Similarity=0.052  Sum_probs=46.5

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ...+...|+||++.|.+   +++++|||.|+..||..||....+||+||+++...
T Consensus        25 ~~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTD---PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             SCSTTTBCTTTCSBCSS---EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             cCcHhhCCcCccCcccC---CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            34568899999999997   88899999999999999999889999999988754

>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=99.15  E-value=7.1e-12  Score=97.47  Aligned_cols=50  Identities=20%  Similarity=0.523  Sum_probs=43.3

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC-CCCccCCCCcC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-SCPICGKEMEF  227 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~-~CPvCr~~~~~  227 (231)
                      .++...|+||++.+..   .+.++|||.||..||.+|++... .||+||+++.+
T Consensus        28 l~~~~~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhcC---cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            4567899999999986   57789999999999999998665 89999997644

>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=99.14  E-value=2e-11  Score=81.92  Aligned_cols=49  Identities=24%  Similarity=0.436  Sum_probs=41.9

Q ss_pred             CCCCCccccccCccCCCCCceec--CCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITT--RCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l--~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      .+....|.||++...+   .+++  ||||. ||..|+..|.+++..||+||+++.
T Consensus         4 ~~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            4 QNLLKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGGSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCcCCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3456789999998765   4455  99998 999999999998899999999874

>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=99.09  E-value=1.7e-11  Score=92.09  Aligned_cols=48  Identities=21%  Similarity=0.520  Sum_probs=41.3

Q ss_pred             CCCCccccccCccCCCCCceec-CCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      .+...|+||++.|..   .+.+ +|||.||..||..|+.  ..||+||+.+...
T Consensus        20 ~~~~~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           20 EKLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HHTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hhCCCCCCCChHhhC---ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            346789999999986   5566 9999999999999998  7899999988654

>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=99.06  E-value=9.5e-11  Score=104.66  Aligned_cols=47  Identities=23%  Similarity=0.647  Sum_probs=42.4

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEMEF  227 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~~  227 (231)
                      ...|+||++.+..   ++.++|||.||..||..|++ .+.+||+||+.+..
T Consensus       332 ~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            4689999999976   78899999999999999998 78899999998754

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

Probab=99.06  E-value=3.2e-11  Score=83.45  Aligned_cols=44  Identities=25%  Similarity=0.673  Sum_probs=39.0

Q ss_pred             CCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ++..|+||++.+.+   .+.++|||. ||..||..|    ..||+||+.+..
T Consensus        23 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            45689999999886   788999999 999999999    899999998753

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

Probab=99.03  E-value=1.1e-10  Score=84.55  Aligned_cols=50  Identities=20%  Similarity=0.521  Sum_probs=41.6

Q ss_pred             CCCCCccccccCccCCCCCceecC-CCCccCHHHHHHHHhcC------CCCCc--cCCC-CcC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTR-CSHHFHLGCIYEWLERS------ESCPI--CGKE-MEF  227 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~s------~~CPv--Cr~~-~~~  227 (231)
                      ..++..|+||++.|.+   +++++ |||.|+..||.+||...      .+||+  |++. +..
T Consensus         4 ~~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             CSSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             CCcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            3567899999999997   77775 99999999999999764      49999  9866 543

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=99.01  E-value=1.3e-10  Score=92.71  Aligned_cols=52  Identities=25%  Similarity=0.554  Sum_probs=44.8

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~~  228 (231)
                      ..++...|+||++.|..   .+.++|||.||..||.+|++.+ .+||+||+.+..+
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            45667899999999986   6778999999999999999765 4999999988654

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

Probab=98.97  E-value=1.4e-10  Score=101.28  Aligned_cols=55  Identities=20%  Similarity=0.530  Sum_probs=43.1

Q ss_pred             CCCCCCccccccCccCCCCCc-----eecCCCCccCHHHHHHHHhcC-----------CCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPK-----ITTRCSHHFHLGCIYEWLERS-----------ESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~-----~~l~C~H~Fh~~CI~~Wl~~s-----------~~CPvCr~~~~~~  228 (231)
                      ..+...+|+||++.+..+..+     ..++|+|.||..||++||++.           ++||+||++|..+
T Consensus       304 ~ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          304 EDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CCCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            345678999999999873322     135899999999999999753           4799999988654

>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=98.95  E-value=5.5e-10  Score=95.01  Aligned_cols=53  Identities=13%  Similarity=0.044  Sum_probs=45.3

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~~  228 (231)
                      ....+...|+||++.|.+   +++++|||.||..||..|+..+ .+||+||.++...
T Consensus       203 ~~~~~~~~c~i~~~~~~d---Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          203 RDIPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             CCCCSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CCCCcccCCcCcCCHhcC---CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            344568899999999997   8889999999999999999864 4599999998654

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

Probab=98.94  E-value=6.4e-10  Score=73.83  Aligned_cols=51  Identities=31%  Similarity=0.678  Sum_probs=40.2

Q ss_pred             CCCCCccccccCccCCCCCceecCCC--C---ccCHHHHHHHHhc--CCCCCccCCCCcCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCS--H---HFHLGCIYEWLER--SESCPICGKEMEFC  228 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~--H---~Fh~~CI~~Wl~~--s~~CPvCr~~~~~~  228 (231)
                      .++...|.||+++..  +.+ ++||.  |   .||..||.+|+..  +.+||+|+.++.++
T Consensus         3 ~~~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~r   60 (60)
T 1vyx_A            3 DEDVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR   60 (60)
T ss_dssp             TCSCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCCC
T ss_pred             CCCCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeecC
Confidence            356789999999843  344 68865  4   9999999999964  57899999988763

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

Probab=98.93  E-value=1.3e-09  Score=74.17  Aligned_cols=48  Identities=23%  Similarity=0.545  Sum_probs=40.2

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      ...++...|.||++...+   .+++||||. ||..|+..    ...||+||+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             ccCCCCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            344567889999998876   889999999 99999983    5799999998753

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

Probab=98.88  E-value=8.5e-10  Score=76.28  Aligned_cols=43  Identities=26%  Similarity=0.680  Sum_probs=36.9

Q ss_pred             CCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +..|+||++.+.+   .+.++|||. ||..|+..    ...||+||+++..
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            5579999999876   778999999 99999954    4799999998754

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

Probab=98.83  E-value=1.9e-09  Score=86.80  Aligned_cols=53  Identities=13%  Similarity=0.032  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcCc
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEFC  228 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~~  228 (231)
                      ....+...|+||++.|.+   +++++|||.|+..||..|+... .+||+||.++...
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            344678899999999997   7888999999999999999864 4699999988654

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

Probab=98.80  E-value=9.1e-10  Score=77.10  Aligned_cols=43  Identities=26%  Similarity=0.648  Sum_probs=37.6

Q ss_pred             CCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ++..|+||++.+.+   .+.+||||. ||..|+..|    ..||+||+.+.
T Consensus        17 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            35689999999886   888999999 999999887    39999999875

>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=98.78  E-value=2.4e-09  Score=71.24  Aligned_cols=49  Identities=10%  Similarity=0.215  Sum_probs=42.8

Q ss_pred             CCccccccCccCCCCCceec-CCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ...|+|+++.+.+   .+++ ++||.|.+.||.+||+++.+||+.++++..++
T Consensus         3 ~~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            4689999999996   5666 89999999999999998889999999987654

>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=98.71  E-value=4e-09  Score=75.93  Aligned_cols=49  Identities=31%  Similarity=0.629  Sum_probs=39.0

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC--------CCCCc--cCCC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS--------ESCPI--CGKE  224 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s--------~~CPv--Cr~~  224 (231)
                      .+..+|+||++++...+...+++|||.||..||..+++.+        -.||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3467899999998864444445899999999999998632        37999  9987

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.71  E-value=4.8e-09  Score=88.77  Aligned_cols=53  Identities=26%  Similarity=0.597  Sum_probs=43.4

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC--CCCCc--cCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS--ESCPI--CGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPv--Cr~~~~~~  228 (231)
                      ....+..|+||++.|.+  +++.+.|||.|+..||..|++.+  ..||+  |++.+...
T Consensus       177 ~~~~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          177 GGKIELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             SSBCCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             CCceeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            34567899999999986  44456999999999999999764  47999  99977653

>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=98.58  E-value=9.7e-09  Score=90.77  Aligned_cols=45  Identities=24%  Similarity=0.612  Sum_probs=39.6

Q ss_pred             CCCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      +++..|+||++.+..   .+.+||||. ||..||..|    ..||+||+.+..
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            356789999999986   888899999 999999988    789999998753

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

Probab=98.31  E-value=2.9e-07  Score=66.38  Aligned_cols=46  Identities=20%  Similarity=0.423  Sum_probs=38.1

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEF  227 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~  227 (231)
                      -|.+|--.+..  ..+++||+|+||.+|+..|.++ .++||.|+.++..
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            47778777664  5788999999999999999854 5899999998754

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

Probab=98.01  E-value=2.9e-06  Score=71.17  Aligned_cols=50  Identities=18%  Similarity=0.535  Sum_probs=41.6

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvCr~~~~~~  228 (231)
                      ....|.||.+....|  .+...|+|.||..|+.+|++.+.  .||.|+..+...
T Consensus       179 ~i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            478899999998874  33445999999999999997654  999999988764

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

Probab=95.77  E-value=0.0051  Score=43.96  Aligned_cols=36  Identities=14%  Similarity=0.375  Sum_probs=27.2

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHH-HH
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE-WL  212 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~-Wl  212 (231)
                      ++..|.||++.|...-....+.|+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            3578999998754323334499999999999998 53

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

Probab=94.80  E-value=0.028  Score=37.28  Aligned_cols=48  Identities=21%  Similarity=0.453  Sum_probs=35.7

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCCCC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE----SCPICGKEM  225 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~----~CPvCr~~~  225 (231)
                      ......|.||.+.   ++.+..-.|...||..|+...|....    .||.|+...
T Consensus         9 ~~~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            9 LAPGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CCTTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            3456789999854   44455566899999999998886543    799997654

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

Probab=92.56  E-value=0.15  Score=35.33  Aligned_cols=35  Identities=26%  Similarity=0.667  Sum_probs=24.6

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHH
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEW  211 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~W  211 (231)
                      ..++.|.|| +.|..+...-.=-|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC-~~~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCcc-ccccccceeccccccccccHhhcccc
Confidence            467899999 44554333323337899999999985

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=91.01  E-value=0.14  Score=35.85  Aligned_cols=54  Identities=24%  Similarity=0.537  Sum_probs=38.4

Q ss_pred             CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCCCcCcC
Q 046929          173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKEMEFCE  229 (231)
Q Consensus       173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~~~~~~  229 (231)
                      ...+.++.|.||...   ++.+..-.|.-.||..|+..=|...    -.||.|+..-..++
T Consensus        20 ~~d~n~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~~~ke   77 (88)
T 1fp0_A           20 TLDDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLKE   77 (88)
T ss_dssp             SSSSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSSCC
T ss_pred             ccCCCCCcCcCcCCC---CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCCccch
Confidence            445667899999875   3445555688899999997755432    27999987655554

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=90.40  E-value=0.085  Score=38.35  Aligned_cols=39  Identities=18%  Similarity=0.319  Sum_probs=29.3

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE  213 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~  213 (231)
                      ...++.|.||.+.-+.++-+.-..|...||..||..++.
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccc
Confidence            456889999988744333355567999999999987764

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

Probab=89.90  E-value=0.13  Score=33.29  Aligned_cols=48  Identities=29%  Similarity=0.696  Sum_probs=34.1

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKE  224 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~  224 (231)
                      ....+..|.||.+.   ++.+..-.|.-.||..|+..-|...    =.||.|++.
T Consensus         7 ~~~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SSCCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             cCCCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            44567889999874   3334445688899999998755432    379999754

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

Probab=89.04  E-value=0.21  Score=30.93  Aligned_cols=44  Identities=25%  Similarity=0.562  Sum_probs=30.7

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGK  223 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~  223 (231)
                      .|.||...-..++-+..-.|...||..|+..=|...    =.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            588998765444455556788999999997544332    26999975

>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=88.86  E-value=0.13  Score=33.31  Aligned_cols=48  Identities=21%  Similarity=0.484  Sum_probs=33.8

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCCC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKEM  225 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~~  225 (231)
                      ...+..|.||.+.   ++.+..-.|...||..|+..-|...    =.||.|+...
T Consensus         6 d~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            6 DHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            4557789999863   3345555688999999998655432    2699997654

>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=88.74  E-value=0.08  Score=34.52  Aligned_cols=50  Identities=20%  Similarity=0.496  Sum_probs=34.7

Q ss_pred             CCCCCccccccCccCCCCCc-eecCCCCccCHHHHHHHHh-----cCCCCCccCCC
Q 046929          175 TEDEDVCPTCLDEYTPENPK-ITTRCSHHFHLGCIYEWLE-----RSESCPICGKE  224 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~-----~s~~CPvCr~~  224 (231)
                      .++...|+||...+..+... ..-.|..-||..|+..-..     ..-.||.|+.+
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            45677899999988643333 3345888999999864322     34579999764

>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=87.47  E-value=0.37  Score=47.45  Aligned_cols=52  Identities=13%  Similarity=0.090  Sum_probs=45.1

Q ss_pred             CCCCCCccccccCccCCCCCceecCCC-CccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCS-HHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      ..-++..|||=++-+.+   +++++-| +.|-+..|.+||..+.+||+=|+++...
T Consensus       887 ~iP~~F~cPIs~~lM~D---PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~  939 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKD---PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE  939 (968)
T ss_dssp             CSCGGGBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCcHHhCCcchhhHHhC---CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            34567889999999998   8889987 5899999999999999999999888654

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=86.78  E-value=0.088  Score=35.48  Aligned_cols=52  Identities=17%  Similarity=0.389  Sum_probs=34.8

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc----CCCCCccCCCCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER----SESCPICGKEME  226 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----s~~CPvCr~~~~  226 (231)
                      ..+...|.||......+.-+..-.|.--||..|+..-+..    .-.||.|+..+.
T Consensus        15 ~~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           15 GNQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             SCEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            3455679999887643223334458889999999765432    347999976543

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=86.78  E-value=0.065  Score=34.14  Aligned_cols=47  Identities=30%  Similarity=0.633  Sum_probs=33.1

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCC
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGK  223 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~  223 (231)
                      ....++.|.||...   ++.+..-.|...||..|+..-|...    -.||.|.+
T Consensus         5 ~~~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            5 SSGHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CCSSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             cCCCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            34567889999875   3445556688999999998655432    25888854

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=85.86  E-value=0.049  Score=35.19  Aligned_cols=49  Identities=29%  Similarity=0.569  Sum_probs=34.1

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~~~~  227 (231)
                      ..++.|.||...   ++-+..-.|.-.||..|+..-|...    -.||.|...+..
T Consensus         3 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~   55 (60)
T 2puy_A            3 IHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLK   55 (60)
T ss_dssp             CCCSSCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHH
T ss_pred             CCCCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhc
Confidence            357789999874   4445556688999999998654332    269999665433

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=84.00  E-value=0.18  Score=33.18  Aligned_cols=47  Identities=28%  Similarity=0.576  Sum_probs=33.3

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKE  224 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~  224 (231)
                      ...++.|.||.+.   ++.+..-.|.-.||..|+..-|...    =.||.|...
T Consensus         5 ~~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            5 QKNEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CSCCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            4567899999874   3445555688999999998544332    269999653

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=83.48  E-value=1.9  Score=31.11  Aligned_cols=34  Identities=26%  Similarity=0.545  Sum_probs=24.8

Q ss_pred             CCCCccccccCcc------CCCCCceecCCCCccCHHHHH
Q 046929          176 EDEDVCPTCLDEY------TPENPKITTRCSHHFHLGCIY  209 (231)
Q Consensus       176 ~~~~~C~ICle~~------~~~~~~~~l~C~H~Fh~~CI~  209 (231)
                      +....|.+|+..-      ..++-+.-..|+..||..||.
T Consensus         3 ~p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            3 EPIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CCCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             ccCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            3567899998763      223445566799999999995

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=83.00  E-value=0.95  Score=39.86  Aligned_cols=50  Identities=18%  Similarity=0.393  Sum_probs=35.5

Q ss_pred             CCccccccCccCCCCCceecCCCCc--cCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHH--FHLGCIYEWLERS--ESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~--Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~  229 (231)
                      ...|||=+..+..  +.+-..|.|.  |-+.=+....++.  -.||+|.+.+.+.+
T Consensus       249 SL~CPlS~~ri~~--PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~d  302 (371)
T 3i2d_A          249 SLQCPISYTRMKY--PSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALEN  302 (371)
T ss_dssp             ESBCTTTSSBCSS--EEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGG
T ss_pred             eecCCCccccccc--cCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHH
Confidence            4678887777765  7788889998  5555555544443  37999999876543

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=82.12  E-value=1.1  Score=39.36  Aligned_cols=50  Identities=24%  Similarity=0.474  Sum_probs=36.7

Q ss_pred             CCccccccCccCCCCCceecCCCCc--cCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHH--FHLGCIYEWLERS--ESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~--Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~  229 (231)
                      ...|+|=+..+..  +.+-..|.|.  |-+.=+....++.  -.||+|.+.+.+.+
T Consensus       215 SL~CPlS~~ri~~--P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~d  268 (360)
T 4fo9_A          215 SLMCPLGKMRLTI--PCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYES  268 (360)
T ss_dssp             ESBCTTTCSBCSS--EEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGG
T ss_pred             eeeCCCccceecc--CCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHH
Confidence            4679988777765  7788889999  6666555555444  37999999887643

>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=80.82  E-value=2.6  Score=29.39  Aligned_cols=50  Identities=22%  Similarity=0.449  Sum_probs=36.7

Q ss_pred             CCCccccccCccCC---CC-CceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 046929          177 DEDVCPTCLDEYTP---EN-PKITTRCSHHFHLGCIY-EWLERSESCPICGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~---~~-~~~~l~C~H~Fh~~CI~-~Wl~~s~~CPvCr~~~~  226 (231)
                      ....|.||-++.-.   ++ -+..--|+--.|..|+. ++-+.++.||.|+....
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            45799999998653   32 23344588889999995 44467789999998774

---

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	231
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-12
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-09
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-06
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-04
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	0.001
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 = 58.0 bits (140), Expect = 2e-12
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 174 STEDEDVCPTCLDEYT-PENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
           + +D   C  CL E    E  +   RC H FH  C+  WL    +CP+C
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

>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 = 51.9 bits (124), Expect = 5e-10
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226
           + CP CL++    N  +   C H F   CI  W+ ++ +CP+C   +E
Sbjct: 6   ERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 50.1 bits (119), Expect = 4e-09
 Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 15/66 (22%)

Query: 177 DEDVCPTCLDEYT---------------PENPKITTRCSHHFHLGCIYEWLERSESCPIC 221
             D C  C +                   E       C+H FH  CI  WL+  + CP+ 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 222 GKEMEF 227
            +E EF
Sbjct: 80  NREWEF 85

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

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

 Score = 44.6 bits (105), Expect = 4e-07
 Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 5/70 (7%)

Query: 158 DKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSE 216
           D    T+  Y  Y +  +  + +C  C +    ++ KI   C H     C+  W E   +
Sbjct: 4   DHIKVTQEQYELYCEMGSTFQ-LCKICAEND--KDVKIE-PCGHLMCTSCLTSWQESEGQ 59

Query: 217 SCPICGKEME 226
            CP C  E++
Sbjct: 60  GCPFCRCEIK 69

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 41.8 bits (97), Expect = 2e-06
 Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 4/53 (7%)

Query: 176 EDEDVCPTCLDEYT--PENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKE 224
           ED  VC  C +E           T    + H  C+  WL  S   +C ICG  
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 39.8 bits (92), Expect = 1e-05
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 3/51 (5%)

Query: 177 DEDVCPTCLDEYT--PENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKE 224
           D+  CP C       P    +   C H     C+       + +CP CG  
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTP 52

>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 = 39.3 bits (91), Expect = 4e-05
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 6/52 (11%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPICGKE 224
           +    CP CL+      P ++T+C H F   C+ + L + +    CP+C  +
Sbjct: 19  QKILECPICLELIK--EP-VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.2 bits (86), Expect = 2e-04
 Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 4/42 (9%)

Query: 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSES-CPIC 221
           C  C          + T C H F   CI   L+   S CP C
Sbjct: 26  CQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSC 64

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 3e-04
 Identities = 12/45 (26%), Positives = 14/45 (31%), Gaps = 6/45 (13%)

Query: 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
            C  C  E   + P     C H    GC+         CPIC   
Sbjct: 8   RCQQCQAEA--KCP-KLLPCLHTLCSGCLEAS---GMQCPICQAP 46

>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 = 34.7 bits (79), Expect = 5e-04
 Identities = 8/43 (18%), Positives = 14/43 (32%), Gaps = 2/43 (4%)

Query: 181 CPTCLDEYTPENPKI-TTRCSHHFHLGCIYEWLERSE-SCPIC 221
           CP C++    ++       C +     C +         CP C
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPAC 45

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (82), Expect = 6e-04
 Identities = 13/45 (28%), Positives = 15/45 (33%), Gaps = 5/45 (11%)

Query: 182 PTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE-----SCPIC 221
            T      P      T+CSH FHL C+              CP C
Sbjct: 44  MTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSC 88

>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 = 35.4 bits (81), Expect = 0.001
 Identities = 13/56 (23%), Positives = 19/56 (33%), Gaps = 8/56 (14%)

Query: 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--------SCPICG 222
           +     C  CL EY  E      +C   F   C+ +++E           SCP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 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 = 34.4 bits (78), Expect = 0.002
 Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 4/49 (8%)

Query: 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224
           E    C  C +      P     C H F   C+ + +     CP+C   
Sbjct: 20  EKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGT--GCPVCYTP 64

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	231
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.75
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.61
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.58
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.54
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.48
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.45
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.37
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.36
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.35
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.35
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.25
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.21
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.19
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.98
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.69
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.41
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	92.55
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	91.55
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	90.92
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	85.49
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	84.47
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	84.04
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	83.04
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	82.64
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	80.47

>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=99.75  E-value=2.8e-19  Score=115.92  Aligned_cols=53  Identities=30%  Similarity=0.723  Sum_probs=46.8

Q ss_pred             CCCCCccccccCccCCCCCceec-CCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLERSESCPICGKEMEF  227 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~  227 (231)
                      .+++.+|+|||++|..++.++.+ .|+|.||..||.+||+++++||+||++|.+
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~v   55 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeEC
Confidence            35677899999999988777666 599999999999999999999999998863

>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=99.61  E-value=1.6e-16  Score=107.11  Aligned_cols=48  Identities=29%  Similarity=0.831  Sum_probs=43.0

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME  226 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~  226 (231)
                      ..+.|+||++.+..  ..+.++|||.||..||.+||+++.+||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            46789999999964  5677999999999999999999999999999874

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=4.9e-16  Score=109.93  Aligned_cols=52  Identities=31%  Similarity=0.659  Sum_probs=44.6

Q ss_pred             CCCccccccCccCCCC---------------CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPEN---------------PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~---------------~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~  228 (231)
                      .++.|+||++.+....               .+.+++|+|.||..||.+||+.+++||+||+++.++
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            4567999999887522               357789999999999999999999999999998875

>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=99.54  E-value=1.6e-15  Score=101.25  Aligned_cols=53  Identities=23%  Similarity=0.560  Sum_probs=42.6

Q ss_pred             CCCccccccCccCC--CCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTP--ENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~~  229 (231)
                      ++.+|+||++.+..  .....+++|||.||..||.+||++ +..||+||+++..++
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            56899999998643  234566799999999999999965 568999999986543

>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=99.54  E-value=3.3e-15  Score=103.53  Aligned_cols=49  Identities=24%  Similarity=0.642  Sum_probs=42.6

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~~~~  229 (231)
                      ...|+||++.+.+   .++++|||.||..||..||+ ++++||+||+.+...+
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            3579999999886   78899999999999999997 5678999999986543

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.2e-15  Score=97.45  Aligned_cols=48  Identities=19%  Similarity=0.418  Sum_probs=40.4

Q ss_pred             ccccccCccCCCCC-ceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcC
Q 046929          180 VCPTCLDEYTPENP-KITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEF  227 (231)
Q Consensus       180 ~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~  227 (231)
                      +|+||+++|..++. ++.++|||.||..||.+|++.. .+||+||+++.-
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            69999999987554 4567899999999999999864 579999998753

>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=99.48  E-value=9e-15  Score=107.98  Aligned_cols=52  Identities=27%  Similarity=0.512  Sum_probs=41.5

Q ss_pred             CCCccccccCccCC---------------CCCceecCCCCccCHHHHHHHHhcC-----CCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTP---------------ENPKITTRCSHHFHLGCIYEWLERS-----ESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~---------------~~~~~~l~C~H~Fh~~CI~~Wl~~s-----~~CPvCr~~~~~~  228 (231)
                      .++.|+||++.|..               ...+.+++|+|.||..||.+||+++     .+||+||..+..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            35679999999854               2235678999999999999999864     3799999877554

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.45  E-value=9.9e-15  Score=94.44  Aligned_cols=48  Identities=13%  Similarity=0.290  Sum_probs=42.1

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      .|+||++.+.+  +++...|||.||.+||.+||+++++||+||+++..++
T Consensus         2 ~C~Ic~~~~~~--Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRR--PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSS--EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHh--cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            69999999986  4444569999999999999999999999999987664

>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=99.37  E-value=1.3e-13  Score=96.74  Aligned_cols=49  Identities=24%  Similarity=0.444  Sum_probs=42.2

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      +...|+||++.+.+   .++++|||.||..||.+|++. ..+||+||.++...
T Consensus        22 ~~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            45689999999986   788999999999999999974 46899999987644

>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=6.1e-14  Score=90.56  Aligned_cols=47  Identities=23%  Similarity=0.444  Sum_probs=40.5

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      +..+|+||++.|.+   .++++|||.||..||.+|   +.+||+||+++....
T Consensus         5 ~~l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCC---CEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            34689999999986   678899999999999876   678999999987654

>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=99.35  E-value=2.2e-13  Score=98.64  Aligned_cols=48  Identities=27%  Similarity=0.713  Sum_probs=41.1

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC---CCCccCCCCcCc
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE---SCPICGKEMEFC  228 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~---~CPvCr~~~~~~  228 (231)
                      ...|+||++.|..   .++++|||.||..||..|+++..   .||+||+++...
T Consensus        21 ~l~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          21 ILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             HTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CcCCCccCchhCC---eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            4579999999976   56789999999999999997654   899999988654

>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=99.35  E-value=2.4e-13  Score=88.94  Aligned_cols=54  Identities=31%  Similarity=0.562  Sum_probs=40.9

Q ss_pred             CCCCCccccccCccCCCCCc--eecCCCCccCHHHHHHHHh--cCCCCCccCCCCcCc
Q 046929          175 TEDEDVCPTCLDEYTPENPK--ITTRCSHHFHLGCIYEWLE--RSESCPICGKEMEFC  228 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~--~~l~C~H~Fh~~CI~~Wl~--~s~~CPvCr~~~~~~  228 (231)
                      .++..+|.||++++......  ....|+|.||..||.+||+  ++.+||+||+++.++
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~k   60 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR   60 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeecC
Confidence            46778999999998753211  2233469999999999995  456899999998764

>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=99.25  E-value=9.7e-13  Score=94.17  Aligned_cols=48  Identities=21%  Similarity=0.522  Sum_probs=39.8

Q ss_pred             CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      ...|+||++.|.+  ++.+++|||.||..||.+|+.  ..||+||+++...+
T Consensus        22 ~l~C~IC~~~~~~--pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          22 LLRCSRCTNILRE--PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             TTSCSSSCSCCSS--CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             cCCCccCCchhhc--CceeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            5689999999975  455568999999999999985  46999999876543

>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=99.21  E-value=4.8e-12  Score=87.33  Aligned_cols=50  Identities=14%  Similarity=0.058  Sum_probs=43.8

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC  228 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~  228 (231)
                      .++..|+||++.|.+   .++++|||.|+..||.+||.+ +.+||+||+++..+
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            467899999999987   678999999999999999965 56899999988654

>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=99.19  E-value=8.7e-12  Score=85.54  Aligned_cols=51  Identities=16%  Similarity=0.415  Sum_probs=44.3

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcCc
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEFC  228 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~~  228 (231)
                      ..++..|+||++.|.+   .++++|||.|+..||.+|++.+ ..||+|+.++...
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CCccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            4568899999999987   6788999999999999999765 5799999988654

>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=98.98  E-value=2.7e-10  Score=81.40  Aligned_cols=51  Identities=14%  Similarity=0.077  Sum_probs=44.5

Q ss_pred             CCCCccccccCccCCCCCceecCCCC-ccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSH-HFHLGCIYEWLERSESCPICGKEMEFCE  229 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~  229 (231)
                      -++..|+||++.|.+   .++++|+| .|+..||..||+++.+||+||+++..++
T Consensus        20 P~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~   71 (98)
T d1wgma_          20 CDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             cHHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchh
Confidence            457899999999998   77888765 7999999999999999999999987543

>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=98.69  E-value=1.4e-09  Score=76.74  Aligned_cols=48  Identities=27%  Similarity=0.527  Sum_probs=38.8

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC--------CCCCccCC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS--------ESCPICGK  223 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s--------~~CPvCr~  223 (231)
                      .....|+||++++..++...+++|+|.||..||..|++.+        -.||.|+-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3567899999999876667778999999999999999632        15998643

>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=94.41  E-value=0.0091  Score=35.85  Aligned_cols=44  Identities=25%  Similarity=0.591  Sum_probs=31.9

Q ss_pred             ccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCC
Q 046929          180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE----SCPICGK  223 (231)
Q Consensus       180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~----~CPvCr~  223 (231)
                      .|.||...-..+.-+.--.|...||..|+..-+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5888876654444444556899999999988765432    6999975

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.55  E-value=0.025  Score=36.24  Aligned_cols=49  Identities=22%  Similarity=0.609  Sum_probs=34.6

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCCCCcC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE----SCPICGKEMEF  227 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~----~CPvCr~~~~~  227 (231)
                      +....|.||.+.   ++.+.--.|...||..|+...|....    .||.|+.....
T Consensus         5 d~c~~C~~C~~~---~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~~   57 (70)
T d1fp0a1           5 DSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDL   57 (70)
T ss_dssp             SSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSS
T ss_pred             CCCCCCCCCCCc---CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCcc
Confidence            345677777653   44455567999999999998875443    69999765443

>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=91.55  E-value=0.026  Score=35.12  Aligned_cols=48  Identities=21%  Similarity=0.484  Sum_probs=34.1

Q ss_pred             CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCccCCCC
Q 046929          175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPICGKEM  225 (231)
Q Consensus       175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvCr~~~  225 (231)
                      .+.++.|.||.+.   ++-+.--.|.-.||..||...+...    -.||.|+...
T Consensus         6 d~~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           6 DHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3456689999853   4445555688999999997666432    3799997654

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.92  E-value=0.11  Score=34.02  Aligned_cols=37  Identities=24%  Similarity=0.635  Sum_probs=27.1

Q ss_pred             CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHH
Q 046929          174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEW  211 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~W  211 (231)
                      ....+..|.|| +.|+.+...-.=-|+-+||..|+.+-
T Consensus        11 ~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            34567899999 88886443322337899999999885

>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=85.49  E-value=1  Score=29.51  Aligned_cols=53  Identities=21%  Similarity=0.419  Sum_probs=38.2

Q ss_pred             CCCCCCccccccCccCC---CCC-ceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 046929          174 STEDEDVCPTCLDEYTP---ENP-KITTRCSHHFHLGCIY-EWLERSESCPICGKEME  226 (231)
Q Consensus       174 ~~~~~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~-~Wl~~s~~CPvCr~~~~  226 (231)
                      ......+|.||-++.-.   ++. +..--|+--.|..|.. ++-+.++.||.|+....
T Consensus        12 ~~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Yk   69 (93)
T d1weoa_          12 KNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             hhcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhh
Confidence            33457899999998754   332 2334588889999995 55567889999988754

>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=84.47  E-value=0.2  Score=31.00  Aligned_cols=49  Identities=24%  Similarity=0.575  Sum_probs=34.8

Q ss_pred             CCCCccccccCccCCCCCce-ecCCCCccCHHHHHH---HHh--cCCCCCccCCC
Q 046929          176 EDEDVCPTCLDEYTPENPKI-TTRCSHHFHLGCIYE---WLE--RSESCPICGKE  224 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~---Wl~--~s~~CPvCr~~  224 (231)
                      .....|.||...+..++..+ --.|+..||..|+..   ...  ..-.||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            45678999998877655433 556999999999953   221  23489999764

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.04  E-value=0.44  Score=30.23  Aligned_cols=47  Identities=23%  Similarity=0.462  Sum_probs=29.8

Q ss_pred             CCCCccccccCccCCCCCceecCCCCccCHHHHH------HHH---hcCCCCCccCC
Q 046929          176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIY------EWL---ERSESCPICGK  223 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~------~Wl---~~s~~CPvCr~  223 (231)
                      .....| ||......+.-+..-.|.--||..|+.      ..+   ...-.||.|+.
T Consensus        14 ~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          14 PNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             TTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            344557 898776554433445578899999982      111   23468999954

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.04  E-value=0.88  Score=28.74  Aligned_cols=37  Identities=19%  Similarity=0.316  Sum_probs=27.0

Q ss_pred             CCccccccCccCCCCCceecC-CCCccCHHHHHHHHhc
Q 046929          178 EDVCPTCLDEYTPENPKITTR-CSHHFHLGCIYEWLER  214 (231)
Q Consensus       178 ~~~C~ICle~~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~  214 (231)
                      ...|.+|.|-+++..-+.... =+|.||..|-...+++
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            478999999998743222111 2699999999999875

>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=82.64  E-value=0.26  Score=30.14  Aligned_cols=45  Identities=24%  Similarity=0.518  Sum_probs=31.3

Q ss_pred             CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 046929          177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC  221 (231)
Q Consensus       177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvC  221 (231)
                      ....|--|+..+.+...-....|+++|+.+|=.--=+.-.+||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            356798999888764344567799999999932211444689987

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.47  E-value=0.75  Score=29.39  Aligned_cols=47  Identities=28%  Similarity=0.526  Sum_probs=30.5

Q ss_pred             CCCCccccccCccCCCCCceec---CCCCccCHHHHHH----H--Hh---cCCCCCccCCC
Q 046929          176 EDEDVCPTCLDEYTPENPKITT---RCSHHFHLGCIYE----W--LE---RSESCPICGKE  224 (231)
Q Consensus       176 ~~~~~C~ICle~~~~~~~~~~l---~C~H~Fh~~CI~~----W--l~---~s~~CPvCr~~  224 (231)
                      ++...| ||......+ ..+..   .|..-||..|+.-    .  ..   ..-.||.|+..
T Consensus        14 ~~~~~C-~C~~~~~~~-~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T d1wewa_          14 EIKVRC-VCGNSLETD-SMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             CCCCCC-SSCCCCCCS-CEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             CCccEe-ECCCccCCC-cEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCc
Confidence            334567 999877643 35555   4899999999831    1  11   12589999654