Citrus Sinensis ID: 016632

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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-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380------
Protein Sequence
MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKERLFSRNASMPGTGSENRSENVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNSENNTETRGENPVNNETPPSCAASSFSR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccHHHHcccccccccccHHHHHHccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHcccHHHHHcccccccccccccccHHccccccccEEcccccHHHHHHHHHHHHHcccccccccEEEcccccHHHHHHHHHHHHHccccccccccEEcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccHHHHHHHHHHHHHHHHHcccccccHHHHHHcccccHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mevlgmeegkkpedhmTSAAAFVeggiqdscDDACSICleefsesdpstvtsckheFHLQCVLEWCqrssqcpmcwqpislkdaTSQELLEAVEQERsiranpprnatifhhptfgdfelqhlpvgasdtdLEEHILQHLTAAAAMGrahhfgrreshrnrsaahgrphffvfsahpggappgavaqgggtepaplagaspsvplsssgndssqhmlqfhpiqtnqnsssasgSAVAQATRrgfsfnnrstssqtsspthdragpsdlqSFSESLKSRFNAVSMRYKESISKSTRGWKERLFsrnasmpgtgsenrsenvgiTSVSRLMEQlgtgestrgseasvsshmanplvteqnsenntetrgenpvnnetppscaassfsr
Flexible Loop (DISEMBL)
mevlgmeegkkpedHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQATRRGFsfnnrstssqtsspthdragpsdLQSFSESLKSRFNAVSMrykesiskstrgwkerlfsrnasmpgtgsenrsenvgITSVSRLMEQLGTGESTRGSEASVSSHMAnplvteqnsenntetrgenpvnnetppscaassfsr
Low Complexity Region (SEG)
MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHpggappgavaqgggTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNsssasgsavaqaTRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKERLFSRNASMPGTGSENRSENVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNSENNTETRGENPVNNETPPSCAASSFSR
Disordered region (IsUnstruct)
********************AFVEGGIQDSCDDACSICLEEFSE**PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD***********************ATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMG**********************FFVF*********************************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
*******************************DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS******************************************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
**************HMTSAAAFVEGGIQDSCDDACSICLEEF***********KHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMG****************AHGRPHFFVFSAHPGGAPPGAVAQGGGTE*********************QHMLQFHPIQ****************TRRGFSFN***********************FSESLKSRFNAVSMRYKESISKSTRGWKERLFSRNA************NVGITSVSRLMEQL*****************ANPLVTE******************************
Disordered Region (DISPRO)
*****************************SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAH*FG***********HGRPHFFVFSAH**************************************************************************************************************K**IS*STRGWKER**************************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKERLFSRNASMPGTGSENRSENVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNSENNTETRGENPVNNETPPSCAASSFSR
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	386	2.2.26 [Sep-21-2011]
Q9ZT42	375	E3 ubiquitin-protein liga	yes	no	0.943	0.970	0.562	1e-102
Q4TU14	371	E3 ubiquitin-protein liga	no	no	0.318	0.331	0.5	3e-26
Q8LE94	231	E3 ubiquitin-protein liga	no	no	0.113	0.190	0.5	9e-09
Q68DV7	783	E3 ubiquitin-protein liga	yes	no	0.155	0.076	0.483	1e-07
Q5NCP0	784	E3 ubiquitin-protein liga	yes	no	0.176	0.086	0.426	5e-07
Q9VE61	147	E3 ubiquitin-protein liga	yes	no	0.158	0.414	0.363	1e-06
Q7TMV1	668	E3 ubiquitin-protein liga	no	no	0.152	0.088	0.360	1e-06
Q9DBU5	667	E3 ubiquitin-protein liga	no	no	0.178	0.103	0.275	2e-06
Q9LQM2	332	RING-H2 finger protein AT	no	no	0.160	0.186	0.365	3e-06
Q9XF63	324	RING-H2 finger protein AT	no	no	0.124	0.148	0.450	4e-06

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

 Score =  371 bits (952), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 219/389 (56%), Positives = 255/389 (65%), Gaps = 25/389 (6%)

Query: 5   GMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLE 64
           G  E    E H+TSAAAFVEGGIQD+CDDACSICLE F ESDPST+TSCKHE+HLQC+LE
Sbjct: 3   GAGETTTSEGHLTSAAAFVEGGIQDACDDACSICLESFCESDPSTLTSCKHEYHLQCILE 62

Query: 65  WCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLP 124
           WCQRSSQCPMCWQ ISLKD TSQELLEAVEQER+ R NP RNATIF HPT GDFELQHLP
Sbjct: 63  WCQRSSQCPMCWQSISLKDPTSQELLEAVEQERNFRFNPTRNATIFRHPTLGDFELQHLP 122

Query: 125 VGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGA 184
           VG  + ++EE I+QHL AAAAMGRA H  RRE HR+RS++ G   F VFS+ P  + P  
Sbjct: 123 VGVDNAEIEERIIQHLAAAAAMGRARHGVRREGHRSRSSSQGHQQFMVFSSQPNASSPPP 182

Query: 185 VAQGGGTEPAPLAGASPS-VPLSSSGNDSSQHMLQ----FHPIQTNQNSSSASGSAVAQA 239
                 +        + S +P ++ G  S Q   Q     HP Q    S SAS S     
Sbjct: 183 HPPMPSSPSQRDESDTVSNLPHNALGEGSHQSNTQPPTSSHPRQV---SPSASDS----- 234

Query: 240 TRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKE 299
                   N    +Q+S    DRAGPS+LQSFSESLKSR NAVS RYKESISK+TR WK+
Sbjct: 235 --------NSRPLNQSSPSEQDRAGPSELQSFSESLKSRLNAVSTRYKESISKNTRNWKD 286

Query: 300 RLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQN 358
           RLFSRN SM   GSE + E + GI +VSR+ME+L T E++R S ASVS    N    E N
Sbjct: 287 RLFSRNTSMADLGSEVKREVSAGIATVSRMMERLETRENSRPSTASVSDVSENH-TPETN 345

Query: 359 SENNTETRGENPVNNE--TPPSCAASSFS 385
           +E+N    G+    NE     +CA  S S
Sbjct: 346 NEHNRAAAGDEHSVNERGVKETCATGSGS 374

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: 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 =  119 bits (299), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/126 (50%), Positives = 80/126 (63%), Gaps = 3/126 (2%)

Query: 20  AAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
           A  V     ++ DDACSICLE F+  DPSTVTSCKHE+HLQC++EW QRS +CP+CWQ  
Sbjct: 31  ALVVASDDDNNTDDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICWQLF 90

Query: 80  SLKDATSQELLEAVEQERSIRA-NPPRNATIFHHPTFGDFELQHLPVGASDTDLEEHILQ 138
            L+D  SQELL AVE+ER ++  N   ++ I  H +  DF  +      S  D  E  L+
Sbjct: 91  VLRDPASQELLAAVEKERLLKTRNISSSSPISIHHSHDDFHSEEEESQFSSFD--EQFLR 148

Query: 139 HLTAAA 144
           HLT AA
Sbjct: 149 HLTEAA 154

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

 Score = 61.6 bits (148), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 29/44 (65%)

Query: 32  DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
           +D C  CLEE++  +P  VT C H FHL C+ EW +RS  CP+C
Sbjct: 178 EDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVC 221

Mediates E2-dependent protein ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q68DV7|RNF43_HUMAN E3 ubiquitin-protein ligase RNF43 OS=Homo sapiens GN=RNF43 PE=1 SV=1

 Score = 57.8 bits (138), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/62 (48%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 30  SCDDA--CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQ 87
           SC  A  C+ICLEEFSE     V SC HEFH  CV  W  +   CP+C   I+  D+ SQ
Sbjct: 265 SCSSAPVCAICLEEFSEGQELRVISCLHEFHRNCVDPWLHQHRTCPLCMFNITEGDSFSQ 324

Query: 88  EL 89
            L
Sbjct: 325 SL 326

Probable E3 ubiquitin-protein ligase. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfer the ubiquitin to targeted substrates.

Homo sapiens (taxid: 9606)

>sp|Q5NCP0|RNF43_MOUSE E3 ubiquitin-protein ligase RNF43 OS=Mus musculus GN=Rnf43 PE=2 SV=1

 Score = 55.8 bits (133), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 35/68 (51%)

Query: 20  AAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
           A + + G   S    C+ICLEEFSE     V SC HEFH  CV  W  +   CP+C   I
Sbjct: 257 AEWPDSGSSCSSTPVCAICLEEFSEGQELRVISCLHEFHRTCVDPWLYQHRTCPLCMFNI 316

Query: 80  SLKDATSQ 87
              D+ SQ
Sbjct: 317 VEGDSFSQ 324

Probable E3 ubiquitin-protein ligase. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfer the ubiquitin to targeted substrates.

Mus musculus (taxid: 10090)

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

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 5/66 (7%)

Query: 24  EGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
           EGG     D  CS+C E   E     +  CKHEFH +C+L W ++++ CP+C   +   D
Sbjct: 64  EGG-----DLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDD 118

Query: 84  ATSQEL 89
              +EL
Sbjct: 119 PVYEEL 124

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

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 23  VEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK 82
           ++G      DD C+IC  EF+ S  + +T C H FH  C+ +W      CPMC Q + ++
Sbjct: 535 IKGSHLQEIDDVCAICYHEFTTS--ARITPCNHYFHALCLRKWLYIQDTCPMCHQKVYIE 592

Query: 83  D 83
           D
Sbjct: 593 D 593

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

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9DBU5|RNF6_MOUSE E3 ubiquitin-protein ligase RNF6 OS=Mus musculus GN=Rnf6 PE=1 SV=1

 Score = 54.3 bits (129), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 34/69 (49%)

Query: 18  SAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQ 77
           S  ++ + G+       CS+C+ ++   +      C HEFH+ C+  W   +  CP+C +
Sbjct: 597 STRSYEQDGVDSELGKVCSVCISDYVAGNKLRQLPCLHEFHIHCIDRWLSENCTCPVCRR 656

Query: 78  PISLKDATS 86
           P+    ATS
Sbjct: 657 PVLEFGATS 665

E3 ubiquitin-protein ligase mediating 'Lys-48'-linked polyubiquitination of LIMK1 and its subsequent targeting to the proteasome for degradation. Negatively regulates axonal outgrowth through regulation of the LIMK1 turnover. Mediates 'Lys-6' and 'Lys-27'-linked polyubiquitination of AR/androgen receptor thereby modulating its transcriptional activity. May also bind DNA and function as a transcriptional regulator.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LQM2|ATL81_ARATH RING-H2 finger protein ATL81 OS=Arabidopsis thaliana GN=ATL81 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 27  IQDSCDDACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDAT 85
           ++D   D CSICL EF + D    +++C H FH  C+  W +    CP+C + + ++D T
Sbjct: 146 VKDHGTDQCSICLTEFMDDDTIRLISTCNHSFHTICIDLWFEGHKTCPVCRRELDVEDRT 205

Query: 86  SQE 88
           S E
Sbjct: 206 SLE 208

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XF63|ATL3_ARATH RING-H2 finger protein ATL3 OS=Arabidopsis thaliana GN=ATL3 PE=2 SV=1

 Score = 53.1 bits (126), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 30/51 (58%), Gaps = 3/51 (5%)

Query: 28  QDSCDDA--CSICLEEFSESDPSTVT-SCKHEFHLQCVLEWCQRSSQCPMC 75
           QDSC D   CSICL E  + D + +   C H FH++C+  W Q  S CP+C
Sbjct: 118 QDSCKDGLECSICLSELVKGDKARLLPKCNHSFHVECIDMWFQSHSTCPIC 168

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	386
359481051	387	PREDICTED: E3 ubiquitin-protein ligase R	0.984	0.981	0.682	1e-142
224091469	389	predicted protein [Populus trichocarpa]	0.987	0.979	0.663	1e-139
224138254	387	predicted protein [Populus trichocarpa]	0.961	0.958	0.664	1e-139
296089345	391	unnamed protein product [Vitis vinifera]	0.888	0.877	0.693	1e-132
356500563	380	PREDICTED: E3 ubiquitin-protein ligase R	0.979	0.994	0.613	1e-125
255566215	378	protein binding protein, putative [Ricin	0.935	0.955	0.632	1e-125
255638511	380	unknown [Glycine max]	0.979	0.994	0.608	1e-124
225436087	393	PREDICTED: E3 ubiquitin-protein ligase R	0.992	0.974	0.610	1e-122
449437506	371	PREDICTED: E3 ubiquitin-protein ligase R	0.955	0.994	0.631	1e-122
356550038	398	PREDICTED: E3 ubiquitin-protein ligase R	0.987	0.957	0.613	1e-122

>gi|359481051|ref|XP_002270570.2| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Vitis vinifera]

 Score =  512 bits (1318), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 267/391 (68%), Positives = 309/391 (79%), Gaps = 11/391 (2%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           MEV GMEE K  E+HMTSAAAFVEGG+Q++CDDACSICLE F +SDPST+TSCKHEFHLQ
Sbjct: 1   MEVEGMEEVKNSENHMTSAAAFVEGGVQEACDDACSICLEAFCDSDPSTLTSCKHEFHLQ 60

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSSQCPMCWQ ISLKD TSQELLEAVE+ER+IR  PPR+A IFHHPT GDFEL
Sbjct: 61  CILEWCQRSSQCPMCWQSISLKDPTSQELLEAVERERNIRLTPPRSA-IFHHPTLGDFEL 119

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPG-- 178
           QHLPVG +D +LEE I+QHL AAAAMGRAHH  RRE  R+RS+AHGR HF VFS HP   
Sbjct: 120 QHLPVGTNDPELEERIIQHLAAAAAMGRAHHIARREGQRSRSSAHGRSHFLVFSTHPNAT 179

Query: 179 --GAPPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAV 236
             G  P ++ Q G  EPA +  ASPS+PL + G++ SQ + QF  +QT+  S+SAS SAV
Sbjct: 180 ASGPVPASLVQVGENEPAAITVASPSIPLPAGGDEPSQEIPQFPSVQTDHMSASASRSAV 239

Query: 237 AQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRG 296
              T R  SFNNRS++SQ+S P  DRAGPS+LQSFSESLKSR NAVSMRYKESISKSTRG
Sbjct: 240 ---TPRRISFNNRSSASQSSPPDQDRAGPSELQSFSESLKSRLNAVSMRYKESISKSTRG 296

Query: 297 WKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVT 355
           WKERLFSRN SM   GSE R E N GI SVSR+ME+L T E+    +ASVSSH+A+  VT
Sbjct: 297 WKERLFSRNNSMADLGSEVRREVNAGIASVSRMMERLDTRENNGAGQASVSSHLADS-VT 355

Query: 356 EQNSENNTETRGENPVNN-ETPPSCAASSFS 385
           EQ+++N  ETR ENP+N+  TP +CAASS S
Sbjct: 356 EQSNQNERETRAENPLNDSNTPAACAASSGS 386

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224091469|ref|XP_002309263.1| predicted protein [Populus trichocarpa] gi|222855239|gb|EEE92786.1| predicted protein [Populus trichocarpa]

 Score =  501 bits (1290), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 260/392 (66%), Positives = 303/392 (77%), Gaps = 11/392 (2%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           MEVL ++E KKPE HMTSAAAFVEGGIQ+SCDDACSICLE+F ESDPSTVT+CKHEFHLQ
Sbjct: 1   MEVLEVDEAKKPEVHMTSAAAFVEGGIQESCDDACSICLEDFCESDPSTVTNCKHEFHLQ 60

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSS+CPMC + ISLKD TSQEL EAVE+ER IRA P RNATIFHHPT GDFEL
Sbjct: 61  CILEWCQRSSECPMCLRSISLKDPTSQELFEAVERERKIRAAPSRNATIFHHPTLGDFEL 120

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGA 180
           QHLPVG SD++LEE I+QHL AAAAMGR  HFGR    RNRS+ HGRPHF VFS HPG  
Sbjct: 121 QHLPVGVSDSELEERIIQHLAAAAAMGRTGHFGRGGGQRNRSSPHGRPHFLVFSTHPGAQ 180

Query: 181 PPGAVAQ-----GGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSA 235
           P G V+      G   EPA  + ASPS PL+S  ++ SQ  LQ  PI T+Q SSSASGS 
Sbjct: 181 PSGHVSSSLSQLGRENEPAAGSVASPSTPLTSVEDEPSQQTLQLPPILTDQ-SSSASGST 239

Query: 236 VAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTR 295
           V    R+G SFNNRSTSSQ++ P  DRAGPS+ QSFS SLKSR NAVSMRYKESIS+STR
Sbjct: 240 V---MRQGLSFNNRSTSSQSAPPNQDRAGPSEFQSFSVSLKSRLNAVSMRYKESISRSTR 296

Query: 296 GWKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLV 354
           GWK+RLFSRN+S+   GSE R + N GI +VSR+ME+L T +++  ++ SVS+H  +   
Sbjct: 297 GWKDRLFSRNSSVSDLGSEVRRDVNAGIATVSRMMERLETRDNSGANQVSVSTHWTDRPA 356

Query: 355 TEQNSENNTETRGENPVNN-ETPPSCAASSFS 385
            E++++NN ET  E+PVN   TP SCAASS S
Sbjct: 357 AERSNQNNAETHIESPVNEGSTPVSCAASSAS 388

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138254|ref|XP_002322768.1| predicted protein [Populus trichocarpa] gi|222867398|gb|EEF04529.1| predicted protein [Populus trichocarpa]

 Score =  499 bits (1285), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 251/378 (66%), Positives = 292/378 (77%), Gaps = 7/378 (1%)

Query: 6   MEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEW 65
           M+E KKPE HMTSAAAFVEGGIQDSCDDACSICLEEF ESDPSTVT+CKHEFHLQC+LEW
Sbjct: 1   MDEAKKPEVHMTSAAAFVEGGIQDSCDDACSICLEEFCESDPSTVTNCKHEFHLQCILEW 60

Query: 66  CQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPV 125
           CQRSS+CPMC Q ISLKD TSQEL EAVE+ER IRA P RNATIFHHPT GDFELQHLPV
Sbjct: 61  CQRSSECPMCLQSISLKDPTSQELFEAVERERKIRAAPSRNATIFHHPTLGDFELQHLPV 120

Query: 126 GASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGAV 185
           G SD++LEE I+QHL AAAAMGR  HFGRRE  RNR+++HGRPHF VFS HPG  P G V
Sbjct: 121 GVSDSELEERIIQHLAAAAAMGRTRHFGRREGQRNRTSSHGRPHFLVFSTHPGAQPSGHV 180

Query: 186 AQ-----GGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQAT 240
           +      GG  EPAP++ ASPS  L+S G++  Q  LQ   + T+Q SSSASGS    A 
Sbjct: 181 SSSLTQLGGENEPAPVSVASPSTQLTSVGDEPPQQALQSPSVLTDQ-SSSASGSTAMPAN 239

Query: 241 RRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKER 300
            +G SFNNRS SSQ+S P  DRAGPS+LQSFSESLKSR NAVSMRYKESIS+STRGWKER
Sbjct: 240 NQGVSFNNRSASSQSSLPNQDRAGPSELQSFSESLKSRLNAVSMRYKESISRSTRGWKER 299

Query: 301 LFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNS 359
           LFSRN+SM    S+ R E N GI +VSR+ME+L T +    ++ SVS+H+ +    E+++
Sbjct: 300 LFSRNSSMSDISSDVRREVNAGIATVSRMMERLETRDDGGDNQVSVSNHLTDRSNVERSN 359

Query: 360 ENNTETRGENPVNNETPP 377
           +N   T  E+P+N  + P
Sbjct: 360 QNTAATHIESPLNEGSTP 377

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089345|emb|CBI39117.3| unnamed protein product [Vitis vinifera]

 Score =  477 bits (1228), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 244/352 (69%), Positives = 279/352 (79%), Gaps = 9/352 (2%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           MEV GMEE K  E+HMTSAAAFVEGG+Q++CDDACSICLE F +SDPST+TSCKHEFHLQ
Sbjct: 1   MEVEGMEEVKNSENHMTSAAAFVEGGVQEACDDACSICLEAFCDSDPSTLTSCKHEFHLQ 60

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSSQCPMCWQ ISLKD TSQELLEAVE+ER+IR  PPR+A IFHHPT GDFEL
Sbjct: 61  CILEWCQRSSQCPMCWQSISLKDPTSQELLEAVERERNIRLTPPRSA-IFHHPTLGDFEL 119

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPG-- 178
           QHLPVG +D +LEE I+QHL AAAAMGRAHH  RRE  R+RS+AHGR HF VFS HP   
Sbjct: 120 QHLPVGTNDPELEERIIQHLAAAAAMGRAHHIARREGQRSRSSAHGRSHFLVFSTHPNAT 179

Query: 179 --GAPPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAV 236
             G  P ++ Q G  EPA +  ASPS+PL + G++ SQ + QF  +QT+  S+SAS SAV
Sbjct: 180 ASGPVPASLVQVGENEPAAITVASPSIPLPAGGDEPSQEIPQFPSVQTDHMSASASRSAV 239

Query: 237 AQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRG 296
              T R  SFNNRS++SQ+S P  DRAGPS+LQSFSESLKSR NAVSMRYKESISKSTRG
Sbjct: 240 ---TPRRISFNNRSSASQSSPPDQDRAGPSELQSFSESLKSRLNAVSMRYKESISKSTRG 296

Query: 297 WKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSS 347
           WKERLFSRN SM   GSE R E N GI SVSR+ME+L T E+    +ASVS+
Sbjct: 297 WKERLFSRNNSMADLGSEVRREVNAGIASVSRMMERLDTRENNGAGQASVST 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356500563|ref|XP_003519101.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Glycine max]

 Score =  454 bits (1169), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 238/388 (61%), Positives = 289/388 (74%), Gaps = 10/388 (2%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           MEV  ME   K E HMTSAAAFVEGG+Q++CDDACSICLE+F +SDP+TVT+CKHEFHLQ
Sbjct: 1   MEVPEME--GKTESHMTSAAAFVEGGVQEACDDACSICLEDFCKSDPATVTNCKHEFHLQ 58

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSSQCPMCWQPISL+DATSQELLEAVE ERS+R  P RNA IFHHPT GDFEL
Sbjct: 59  CILEWCQRSSQCPMCWQPISLRDATSQELLEAVELERSLRDTPSRNAAIFHHPTLGDFEL 118

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGA 180
           QHLP+G ++ D+EE I+QHLTAAAAM R+HH  RRE HR R +AHGRPHF V+S  P  A
Sbjct: 119 QHLPMGVNEADIEERIIQHLTAAAAMRRSHHLSRREGHRTRPSAHGRPHFLVYSTQP-SA 177

Query: 181 PPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQAT 240
           PP A   GGG+EPA +   SPS PL+  GN+  Q  LQ  P    Q+SS  S S V+   
Sbjct: 178 PPSAA--GGGSEPAAIPVGSPSTPLTFDGNE--QSSLQQIPHVQTQSSSLTSASTVSTTN 233

Query: 241 RRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKER 300
            +G   ++RS +S +   + DRA PS+ QSFS+SL+SRFNAVSMRYK+SISK TRGWKER
Sbjct: 234 LQGVHSDDRSFASHSFPASQDRAQPSE-QSFSDSLRSRFNAVSMRYKDSISKGTRGWKER 292

Query: 301 LFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNS 359
           LFS N+SM   GSE R E N  I SVSRLME+L T E+   +  S+S+H+ N  + E ++
Sbjct: 293 LFSPNSSMSELGSEVRRELNAKIASVSRLMERLETRENNSAAGTSLSNHLVNRSIAETSN 352

Query: 360 ENNTETRGENPVN-NETPPSCAASSFSR 386
           ++N E RGEN ++ N TP + +ASS S+
Sbjct: 353 QSNVEARGENSLHGNNTPTTFSASSDSK 380

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255566215|ref|XP_002524095.1| protein binding protein, putative [Ricinus communis] gi|223536663|gb|EEF38305.1| protein binding protein, putative [Ricinus communis]

 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 243/384 (63%), Positives = 281/384 (73%), Gaps = 23/384 (5%)

Query: 1   MEVLGMEEGKKPED-HMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHL 59
           MEVLG+EE KKPE  HM SAAAFVEGGIQ+SCDDACSICLEEF ESDPSTVT+CKHE+HL
Sbjct: 1   MEVLGVEEAKKPETTHMASAAAFVEGGIQESCDDACSICLEEFCESDPSTVTNCKHEYHL 60

Query: 60  QCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFE 119
           QC+LEWCQRSS CPMC QPISLKD +SQEL EAVE+ER  RA P RNATIF HPT GDFE
Sbjct: 61  QCILEWCQRSSDCPMCLQPISLKDPSSQELFEAVERERKFRAAPSRNATIFRHPTLGDFE 120

Query: 120 LQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGG 179
           LQHLPVGASD+DLEE I+QHL AAAAMGR HHFGRRE HRNR ++HGRPHF VFS HP  
Sbjct: 121 LQHLPVGASDSDLEERIIQHLAAAAAMGRGHHFGRREGHRNRQSSHGRPHFLVFSTHPSA 180

Query: 180 APPGAVAQ-----GGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGS 234
              G V+      GG  E A     SPSVPL+  GN S         +  +Q SSSASGS
Sbjct: 181 PSSGHVSSSLAQVGGENEQASDTVTSPSVPLAYRGNVS---------VVMDQ-SSSASGS 230

Query: 235 AVAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKST 294
            V     +G    +RS+SS +     DRAGPS+ QSFS+SLKSR NA+SMRYKE IS+ST
Sbjct: 231 TVMPINNQG----DRSSSSHSPPSNQDRAGPSEFQSFSDSLKSRLNAMSMRYKE-ISRST 285

Query: 295 RGWKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPL 353
           RGWKERLFSRN+SM   GSE R E N GITSVSR+ME+L T +++  +  SVS+   +  
Sbjct: 286 RGWKERLFSRNSSMSDIGSEVRREVNAGITSVSRMMERLETRDNSTANHVSVSTQ-TDYS 344

Query: 354 VTEQNSENNTETRGENPVNNETPP 377
           V E++++NN  TR E+P+     P
Sbjct: 345 VAERSNQNNVNTRRESPLGESNTP 368

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638511|gb|ACU19564.1| unknown [Glycine max]

 Score =  451 bits (1161), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 236/388 (60%), Positives = 288/388 (74%), Gaps = 10/388 (2%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           MEV  ME   K E H+TS AAFVEGG+Q++CDDACSICLE+F +SDP+TVT+CKHEFHLQ
Sbjct: 1   MEVPEME--GKTESHLTSTAAFVEGGVQEACDDACSICLEDFCKSDPATVTNCKHEFHLQ 58

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSSQCPMCWQPISL+DATSQELLEAVE ERS+R  P RNA IFHHPT GDFEL
Sbjct: 59  CILEWCQRSSQCPMCWQPISLRDATSQELLEAVELERSLRDTPSRNAAIFHHPTLGDFEL 118

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGA 180
           QHLP+G ++ D+EE I+QHLTAAAAM R+HH  RRE HR R +AHGRPHF V+S  P  A
Sbjct: 119 QHLPMGVNEADIEERIIQHLTAAAAMRRSHHLSRREGHRTRPSAHGRPHFLVYSTQP-SA 177

Query: 181 PPGAVAQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQAT 240
           PP A   GGG+EPA +   SPS PL+  GN+  Q  LQ  P    Q+SS  S S V+   
Sbjct: 178 PPSAA--GGGSEPAAIPVGSPSTPLTFDGNE--QSSLQQIPHVQTQSSSLTSASTVSTTN 233

Query: 241 RRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKER 300
            +G   ++RS +S +   + DRA PS+ QSFS+SL+SRFNAVSMRYK+SISK TRGWKER
Sbjct: 234 LQGVHSDDRSFASHSFPASQDRAQPSE-QSFSDSLRSRFNAVSMRYKDSISKGTRGWKER 292

Query: 301 LFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNS 359
           LFS N+SM   GSE R E N  I SVSRLME+L T E+   +  S+S+H+ N  + E ++
Sbjct: 293 LFSPNSSMSELGSEVRRELNAKIASVSRLMERLETRENNSAAGTSLSNHLVNRSIAETSN 352

Query: 360 ENNTETRGENPVN-NETPPSCAASSFSR 386
           ++N E RGEN ++ N TP + +ASS S+
Sbjct: 353 QSNVEARGENSLHGNNTPTTFSASSDSK 380

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436087|ref|XP_002277399.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A [Vitis vinifera] gi|296084011|emb|CBI24399.3| unnamed protein product [Vitis vinifera]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 238/390 (61%), Positives = 277/390 (71%), Gaps = 7/390 (1%)

Query: 1   MEVLGMEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQ 60
           ME  GMEE  K E H+TSAAAFVEGGIQ++CDDACSICLE F +SDPSTVTSCKHEFHLQ
Sbjct: 1   MEAPGMEESNKSECHLTSAAAFVEGGIQEACDDACSICLEAFCDSDPSTVTSCKHEFHLQ 60

Query: 61  CVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFEL 120
           C+LEWCQRSSQCPMCWQPISLKD TSQELLEAVE+ER+ R NP RNATIFHHPT GDFEL
Sbjct: 61  CILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERTFRFNPSRNATIFHHPTLGDFEL 120

Query: 121 QHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHP--- 177
           QHLPVGA+D +LEE I+QHL AAAAMGRA H  RRE  R RS+A GRP F VFSAHP   
Sbjct: 121 QHLPVGANDAELEERIIQHLAAAAAMGRARHIARREGQRTRSSAQGRPQFLVFSAHPSTP 180

Query: 178 -GGAPPGAVAQGGGTEPAP-LAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSA 235
             G    + AQ G  EPAP +  A PS   ++ G +SS+        Q  + ++SASGS 
Sbjct: 181 QAGPASSSPAQRGEDEPAPAITAAMPSSLPTAVGEESSRLTTSQLSSQAEEITASASGSI 240

Query: 236 VAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTR 295
           +    + G S NNR +  Q+     D+AGPS+ QSFSE+LKSRFNAVSMRYKESISKSTR
Sbjct: 241 IHTTNQHGTSSNNRRSPGQSLPSGQDKAGPSEFQSFSETLKSRFNAVSMRYKESISKSTR 300

Query: 296 GWKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLV 354
           GWKERLFSRN SM   GS+ R E N GI +VSR+ME L T +++R + +SVS    +   
Sbjct: 301 GWKERLFSRNTSMADIGSDVRREVNAGIATVSRMMEHLETRDNSRTTPSSVSDSSEDTSS 360

Query: 355 TEQNSENNTETRGENPV-NNETPPSCAASS 383
                +   ET   NP+ +     SCAASS
Sbjct: 361 PSLGDQRMAETSAHNPLGDTNVQASCAASS 390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437506|ref|XP_004136533.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Cucumis sativus]

 Score =  444 bits (1142), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 242/383 (63%), Positives = 283/383 (73%), Gaps = 14/383 (3%)

Query: 6   MEEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEW 65
           MEE K  E+ +TSAAAFVEGGIQ++CDDACSICLE+F ESDPSTVT+CKHEFHLQC+LEW
Sbjct: 1   MEEEKDSENRLTSAAAFVEGGIQEACDDACSICLEDFCESDPSTVTACKHEFHLQCILEW 60

Query: 66  CQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPV 125
           CQRSSQCPMCWQ ISLKD TSQELLEAVE+ER+IRA P RN  +FHHP  G+FELQHLP+
Sbjct: 61  CQRSSQCPMCWQSISLKDPTSQELLEAVERERNIRATPVRNTAVFHHPALGNFELQHLPL 120

Query: 126 GASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFSAHPGGAPPGAV 185
           G ++ +LEE I+QHL AAAAMGR HH GRRE  R+RS++HGRPHF VFS HPGG P    
Sbjct: 121 GVNNAELEERIIQHLAAAAAMGRTHHIGRREG-RSRSSSHGRPHFLVFSTHPGGPPEHVS 179

Query: 186 AQGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSSSASGSAVAQATRRGFS 245
           A G  TEPA +  ASPS PL+  G++ SQH+ QF  IQT+  S SASGS  + A+RRG S
Sbjct: 180 ASGVHTEPAGITVASPSSPLTPRGDEPSQHIAQFPSIQTDHVSRSASGSNFS-ASRRGAS 238

Query: 246 FNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKESISKSTRGWKERLFSRN 305
              R ++S + SP  DRAGPS+ QSFSESLKSR NAVS RYKESISKSTRGWKERLFSRN
Sbjct: 239 SGIRISTSDSPSPNLDRAGPSEFQSFSESLKSRLNAVSTRYKESISKSTRGWKERLFSRN 298

Query: 306 ASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSHMANPLVTEQNSENNTE 364
            SM   GSE R E N GI SVSR+M++L T E    ++ S           EQ   N  E
Sbjct: 299 TSMSELGSEVRREVNAGIASVSRMMQRLETREDGVTNQGS----------NEQGGHNRRE 348

Query: 365 TRGENPVNNETPP-SCAASSFSR 386
           +  EN + + + P SCAA+S  R
Sbjct: 349 SNPENSLTDSSAPTSCAATSAER 371

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550038|ref|XP_003543397.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Glycine max]

 Score =  443 bits (1139), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 246/401 (61%), Positives = 282/401 (70%), Gaps = 20/401 (4%)

Query: 1   MEVLGMEEGK------KPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCK 54
           ME  GMEE        K E H+TSAAAFVEGGIQD+CDDACSICLE F +SDPSTVTSCK
Sbjct: 1   MEGAGMEENNIINDDNKSEAHLTSAAAFVEGGIQDACDDACSICLEAFCDSDPSTVTSCK 60

Query: 55  HEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRNATIFHHPT 114
           HEFHLQC+LEWCQRSSQCPMCWQPISLKD TSQELLEAVE+ER+ R NP RNATIFHHPT
Sbjct: 61  HEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERNFRFNPSRNATIFHHPT 120

Query: 115 FGDFELQHLPVGASDTDLEEHILQHLTAAAAMGRAHHFGRRESHRNRSAAHGRPHFFVFS 174
            GDFELQHLPVGASD DLEE I+QHL AAAAMGRA H  RRE  RNRS+A GR HF VFS
Sbjct: 121 LGDFELQHLPVGASDADLEERIIQHLAAAAAMGRARHVARREGQRNRSSAQGRQHFLVFS 180

Query: 175 AHPGGAPPGAVA-----QGGGTEPAPLAGASPSVPLSSSGNDSSQHMLQFHPIQTNQNSS 229
            HP  +PP A A     Q G  EP P    +   P  ++G +SSQ  L   P+Q  Q S+
Sbjct: 181 THP-NSPPMAPASSSPSQRGDDEPTPTIDVANLSPTPATGEESSQPTL-VSPVQAEQVSA 238

Query: 230 SASGSAVAQATRRGFSFNNRSTSSQTSSPTHDRAGPSDLQSFSESLKSRFNAVSMRYKES 289
           S SG+       +G S+NNR + +Q+S  + DRAGPS+LQSFSESLKS+ NAVS RYKES
Sbjct: 239 SGSGTTALATDHQGSSYNNRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKES 298

Query: 290 ISKSTRGWKERLFSRNASMPGTGSENRSE-NVGITSVSRLMEQLGTGESTRGSEASVSSH 348
           ISKSTRGWKER FSRN +M   GSE R E N GI +VSR+ME+L T ++ R +  S  S+
Sbjct: 299 ISKSTRGWKERWFSRNNTMSDLGSEVRREVNAGIATVSRMMERLETRDNNRSNSNSAPSN 358

Query: 349 MANPLVTEQNSENNTETRGEN----PVNNETPPSCAASSFS 385
           + +  V  Q S + T T G        +N T  SCAA S S
Sbjct: 359 IEDGSV--QGSNDQTLTAGNEGGSLVRDNNTKASCAAGSSS 397

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	386
TAIR|locus:2129525	371	RHF1A "RING-H2 group F1A" [Ara	0.326	0.339	0.496	4.1e-43
TAIR|locus:505006415	190	RHB1A "RING-H2 finger B1A" [Ar	0.142	0.289	0.436	3.5e-11
TAIR|locus:2035843	179	AT1G14200 [Arabidopsis thalian	0.261	0.564	0.298	7.3e-10
TAIR|locus:2177881	212	AT5G41350 [Arabidopsis thalian	0.165	0.301	0.426	1.3e-09
TAIR|locus:2076542	231	AT3G02290 [Arabidopsis thalian	0.113	0.190	0.5	1.8e-09
TAIR|locus:2143251	232	AT5G15790 [Arabidopsis thalian	0.113	0.189	0.5	4.9e-09
ZFIN|ZDB-GENE-041114-40	149	rnf24 "ring finger protein 24"	0.155	0.402	0.360	5.5e-09
MGI|MGI:1916117	155	Rnf122 "ring finger protein 12	0.142	0.354	0.4	1.9e-08
RGD|1561238	95	RGD1561238 "similar to ring fi	0.142	0.578	0.4	1.9e-08
ZFIN|ZDB-GENE-080303-32	155	zgc:175214 "zgc:175214" [Danio	0.116	0.290	0.488	1.9e-08

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

 Score = 314 (115.6 bits), Expect = 4.1e-43, Sum P(2) = 4.1e-43
 Identities = 64/129 (49%), Positives = 83/129 (64%)

Query:    17 TSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCW 76
             +S+A  V     ++ DDACSICLE F+  DPSTVTSCKHE+HLQC++EW QRS +CP+CW
Sbjct:    28 SSSALVVASDDDNNTDDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICW 87

Query:    77 QPISLKDATSQELLEAVEQERSIRA-NPPRNATIFHHPTFGDFELQHLPVGASDTDLEEH 135
             Q   L+D  SQELL AVE+ER ++  N   ++ I  H +  DF  +      S  D  E 
Sbjct:    88 QLFVLRDPASQELLAAVEKERLLKTRNISSSSPISIHHSHDDFHSEEEESQFSSFD--EQ 145

Query:   136 ILQHLTAAA 144
              L+HLT AA
Sbjct:   146 FLRHLTEAA 154

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009561 "megagametogenesis" evidence=IGI

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

GO:0055046 "microgametogenesis" evidence=IGI

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009617 "response to bacterium" evidence=RCA

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

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

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

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

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

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

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

 Score = 160 (61.4 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 24/55 (43%), Positives = 35/55 (63%)

Query:    29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
             D  +D C IC E++   +P   T C+HEFHL C+LEW +RS +CP+C + +   D
Sbjct:   133 DEEEDCCPICFEDYDVENPRLTTKCEHEFHLSCLLEWIERSDRCPICDKEVVFDD 187

GO:0005634 "nucleus" evidence=ISM

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

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2035843 AT1G14200 [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 7.3e-10, P = 7.3e-10
 Identities = 31/104 (29%), Positives = 56/104 (53%)

Query:     5 GMEEGKKP--EDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCV 62
             G ++G+ P  +  + +    V G  ++    +C+ICL+E+S+ D +    CKH+FH +CV
Sbjct:    77 GGKQGRSPALKSEVENMPRVVIGEDKEKYGGSCAICLDEWSKGDVAAEMPCKHKFHSKCV 136

Query:    63 LEWCQRSSQCPMCWQPISLKDATSQELLEAVEQERSIRANPPRN 106
              EW  R + CPMC   + +++   ++ +  +    SI A   RN
Sbjct:   137 EEWLGRHATCPMCRYEMPVEEVEEEKKI-GIWIGFSINAGDRRN 179

GO:0005634 "nucleus" evidence=ISM

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

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

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

GO:0042542 "response to hydrogen peroxide" evidence=RCA

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

 Score = 152 (58.6 bits), Expect = 1.3e-09, P = 1.3e-09
 Identities = 29/68 (42%), Positives = 38/68 (55%)

Query:     8 EGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ 67
             E  +  D   S A F+   I++  D  C ICLEE+   +P  V  C H FHL C+LEW +
Sbjct:   138 ESTEEIDPKLSKAVFIP--IEEEED--CPICLEEYDIENPKLVAKCDHHFHLACILEWME 193

Query:    68 RSSQCPMC 75
             RS  CP+C
Sbjct:   194 RSETCPVC 201

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:2076542 AT3G02290 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 22/44 (50%), Positives = 29/44 (65%)

Query:    32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
             +D C  CLEE++  +P  VT C H FHL C+ EW +RS  CP+C
Sbjct:   178 EDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVC 221

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 153 (58.9 bits), Expect = 4.9e-09, P = 4.9e-09
 Identities = 22/44 (50%), Positives = 28/44 (63%)

Query:    32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
             +D C  CLEE+   +P  VT C H FHL C+ EW +RS  CP+C
Sbjct:   179 EDVCPTCLEEYISENPKIVTKCSHHFHLSCIYEWMERSENCPVC 222

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

ZFIN|ZDB-GENE-041114-40 rnf24 "ring finger protein 24" [Danio rerio (taxid:7955)]

 Score = 140 (54.3 bits), Expect = 5.5e-09, P = 5.5e-09
 Identities = 22/61 (36%), Positives = 37/61 (60%)

Query:    33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEA 92
             + C++CLEEF + D   +  CKH FH +C+++W +    CP+C  P+ L+ A  Q + E 
Sbjct:    76 EICAVCLEEFKQKDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV-LQLAQQQSMSEP 134

Query:    93 V 93
             +
Sbjct:   135 I 135

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:1916117 Rnf122 "ring finger protein 122" [Mus musculus (taxid:10090)]

 Score = 135 (52.6 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 22/55 (40%), Positives = 34/55 (61%)

Query:    35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQEL 89
             C++CLE+F   D   V  C+H FH +C+++W +    CPMC +PI+    TSQ +
Sbjct:    93 CAVCLEDFKGKDELGVLPCQHAFHRKCLVKWLEVRCVCPMCNKPIAGPTETSQSI 147

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1561238 RGD1561238 "similar to ring finger protein 122 homolog" [Rattus norvegicus (taxid:10116)]

 Score = 135 (52.6 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 22/55 (40%), Positives = 34/55 (61%)

Query:    35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQEL 89
             C++CLE+F   D   V  C+H FH +C+++W +    CPMC +PI+    TSQ +
Sbjct:    33 CAVCLEDFKGKDELGVLPCQHAFHRKCLVKWLEVRCVCPMCNKPIAGPTETSQSI 87

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-080303-32 zgc:175214 "zgc:175214" [Danio rerio (taxid:7955)]

 Score = 135 (52.6 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 22/45 (48%), Positives = 29/45 (64%)

Query:    35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
             C++CLEEF   D   V  C H FH +C+L+W +  S CPMC +PI
Sbjct:    90 CAVCLEEFKTRDELGVCPCSHTFHKKCLLKWLEIRSVCPMCNKPI 134

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZT42	RHF2A_ARATH	6, ., 3, ., 2, ., -	0.5629	0.9430	0.9706	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	386
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	8e-14
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	7e-10
smart00184	40	smart00184, RING, Ring finger	9e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-08
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	1e-07
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	4e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	5e-04
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	8e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.001

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

 Score = 64.7 bits (158), Expect = 8e-14
 Identities = 17/41 (41%), Positives = 25/41 (60%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
          C ICL+EF   +   V  C H FH +C+ +W + S+ CP+C
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLC 43

Length = 46

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

 Score = 60.5 bits (147), Expect = 2e-12
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 3/46 (6%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPI 79
          C ICLEEF   +P  +  C H F   C+ +W +   + CP+C  PI
Sbjct: 2  CPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 57.1 bits (138), Expect = 1e-10
 Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 10/57 (17%)

Query: 29 DSCDDACSICLEEFSE--------SDPSTV--TSCKHEFHLQCVLEWCQRSSQCPMC 75
          D  DD C+IC   F           D   V    C H FHL C+  W +  + CP+C
Sbjct: 16 DIEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLC 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 53.7 bits (129), Expect = 7e-10
 Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
          +  C ICL+     DP  +T C H F  +C+L + ++ S+CP+C
Sbjct: 2  ELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 50.6 bits (121), Expect = 9e-09
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWC-QRSSQCPMC 75
          C ICLEE+ + DP  +  C H F   C+ +W    ++ CP+C
Sbjct: 1  CPICLEEYLK-DP-VILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 48.2 bits (115), Expect = 5e-08
 Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMC 75
          C ICLEE    DP T+  C H F  +C+L W +  +  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

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

 Score = 48.6 bits (116), Expect = 1e-07
 Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 13/65 (20%)

Query: 32 DDACSICLEEFSESDPS----------TVTSCKHEFHLQCVLEWCQRSS---QCPMCWQP 78
          DD C IC   F  + P               CKH FH+ C+L+W    +    CPMC Q 
Sbjct: 21 DDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQT 80

Query: 79 ISLKD 83
              +
Sbjct: 81 FVFAE 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|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 51.1 bits (122), Expect = 4e-07
 Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWC-QRSSQCPMCWQPI 79
           C+IC+  F ++D   V  C H FH+ CV +W    S++CP+C   I
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 49.6 bits (118), Expect = 1e-06
 Identities = 25/114 (21%), Positives = 38/114 (33%), Gaps = 13/114 (11%)

Query: 30  SCDDACSICLEEFSESDPSTVT----------SCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
           + D  C+IC++E    D   +            C H  HL C+  W +R   CP+C +P+
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344

Query: 80  --SLKDATSQELLEAVEQERSIRANPPRNATIFHHPTFGDFELQHLPVGASDTD 131
                  T         Q  +   NP    T    P   +         AS  +
Sbjct: 345 IFDQSSPTPASPNVRNTQIATQVPNPDNTPTTTAVPGITN-SSNQGDPQASTFN 397

Length = 491

>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 = 42.5 bits (100), Expect = 2e-05
 Identities = 16/66 (24%), Positives = 20/66 (30%), Gaps = 13/66 (19%)

Query: 33 DACSICLEEFSESDPSTVTS-------------CKHEFHLQCVLEWCQRSSQCPMCWQPI 79
          D C+IC      + P                  C H FH  C+  W      CP+  Q  
Sbjct: 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80

Query: 80 SLKDAT 85
           L D  
Sbjct: 81 VLADGG 86

Length = 88

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

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 5/52 (9%)

Query: 29  DSCDDACSICLEEFSESDPSTV-----TSCKHEFHLQCVLEWCQRSSQCPMC 75
            S D  C+IC+E+  + +   +     ++C H F ++C+  W +  + CP+C
Sbjct: 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVC 222

Length = 238

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 37.4 bits (87), Expect = 8e-04
 Identities = 18/66 (27%), Positives = 24/66 (36%), Gaps = 16/66 (24%)

Query: 35 CSICLEEFSESDPSTVTSCKHE-----FHLQCVLEW--CQRSS---------QCPMCWQP 78
          C IC     +       SC +      FH+ C+ EW    R S          CP C   
Sbjct: 5  CGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKAK 64

Query: 79 ISLKDA 84
          IS+K +
Sbjct: 65 ISVKFS 70

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

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

 Score = 40.8 bits (95), Expect = 0.001
 Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 6/47 (12%)

Query: 35   CSIC---LEEFSESDPS-TVTSCKHEFHLQCVLEWCQRS--SQCPMC 75
            C+IC   L+    S PS    +CK++FH +C+ +W   S  S CP+C
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLC 1518

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	386
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.29
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.07
PHA02929	238	N1R/p28-like protein; Provisional	99.04
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.02
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.01
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.98
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.98
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.95
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.9
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.87
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.84
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.82
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.8
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.77
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.75
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.75
PHA02926	242	zinc finger-like protein; Provisional	98.73
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.72
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.67
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.67
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.65
PF14634	44	zf-RING_5: zinc-RING finger domain	98.6
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.58
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.45
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.45
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.45
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.31
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.22
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.19
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.18
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.09
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.02
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.79
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.69
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.67
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.65
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.63
KOG2660	331	consensus Locus-specific chromosome binding protei	97.6
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.57
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.56
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.54
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.52
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.51
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.51
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.46
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.4
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.38
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.18
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.11
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.1
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.05
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.03
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
COG5152	259	Uncharacterized conserved protein, contains RING a	96.88
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.85
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.75
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.37
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.3
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.77
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.69
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.56
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.49
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.31
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.25
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.14
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.09
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.05
PF04641	260	Rtf2: Rtf2 RING-finger	94.75
KOG4739	233	consensus Uncharacterized protein involved in syna	94.68
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.66
PHA03096	284	p28-like protein; Provisional	94.33
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	94.22
KOG1940	276	consensus Zn-finger protein [General function pred	93.24
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	93.22
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	92.85
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	92.75
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.71
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.67
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	92.45
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.08
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	92.07
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.96
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.95
PHA02862	156	5L protein; Provisional	91.92
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.74
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.6
KOG4367	699	consensus Predicted Zn-finger protein [Function un	90.37
PHA02825	162	LAP/PHD finger-like protein; Provisional	90.05
KOG3002	299	consensus Zn finger protein [General function pred	88.96
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	88.77
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	87.5
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	86.76
KOG0825	1134	consensus PHD Zn-finger protein [General function	86.44
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	86.26
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	85.94
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	84.64
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.51
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	83.41
KOG3053	293	consensus Uncharacterized conserved protein [Funct	83.25
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	82.84
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	82.15
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	81.35
KOG3899	381	consensus Uncharacterized conserved protein [Funct	80.25
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	80.02

>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=99.29  E-value=1.4e-12  Score=93.13  Aligned_cols=44  Identities=43%  Similarity=1.099  Sum_probs=39.4

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCc
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCW   76 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR   76 (386)
                      ++|+||++.|...+.++.++|+|.||..||..|++.+..||+||
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            47999999997777888899999999999999999999999997

...

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

Probab=99.07  E-value=4.4e-11  Score=119.63  Aligned_cols=49  Identities=35%  Similarity=0.990  Sum_probs=44.5

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCC
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISL   81 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~   81 (386)
                      ++|.||+|.|..++.+++|||+|.||..||..|+... ..||+|+..+..
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            4999999999999999999999999999999999876 569999997654

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.04  E-value=1.6e-10  Score=110.68  Aligned_cols=54  Identities=28%  Similarity=0.810  Sum_probs=44.0

Q ss_pred             CCCCCCcccccccccccCCCC-----eeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           27 IQDSCDDACSICLEEFSESDP-----STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~~d~-----~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      .+...+.+|+||++.+.+...     ..+++|+|.||..||..|+..+.+||+||..+.
T Consensus       169 ~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        169 YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            344567899999998743221     345789999999999999999999999999875

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

Probab=99.02  E-value=1.2e-10  Score=110.02  Aligned_cols=55  Identities=31%  Similarity=0.695  Sum_probs=44.9

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC---CCCCCCcccCCCCCcch
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS---SQCPMCWQPISLKDATS   86 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~~i~~~d~~~   86 (386)
                      +.....|.||||.-   ..++++.|||.|||.||.+|++.+   +.||+|+..+..+.+.+
T Consensus        44 ~~~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP  101 (230)
T KOG0823|consen   44 DGGFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP  101 (230)
T ss_pred             CCCceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence            45578999999997   336777999999999999999853   57999999988765443

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.01  E-value=2.1e-10  Score=106.45  Aligned_cols=55  Identities=31%  Similarity=0.746  Sum_probs=43.9

Q ss_pred             CCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc----------------CCCCCCCcccCCCCCc
Q 016632           27 IQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR----------------SSQCPMCWQPISLKDA   84 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~----------------~~sCP~CR~~i~~~d~   84 (386)
                      ++...+.+|+||++.+.  + +++++|+|.||+.||..|+..                ...||+||..+...++
T Consensus        13 ~~~~~~~~CpICld~~~--d-PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L   83 (193)
T PLN03208         13 VDSGGDFDCNICLDQVR--D-PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL   83 (193)
T ss_pred             ccCCCccCCccCCCcCC--C-cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence            34445789999999983  3 566799999999999999852                2479999999986554

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

Probab=98.98  E-value=2.5e-10  Score=110.92  Aligned_cols=55  Identities=31%  Similarity=0.827  Sum_probs=47.2

Q ss_pred             CCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           26 GIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        26 ~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      ....+.+..|.|||+..   ..+..++|||.||+.||..|+..+..||+||..+.+..
T Consensus       233 ~~i~~a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  233 SSIPEATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             ccCCCCCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            33455678999999996   44788899999999999999999999999999987654

>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=98.98  E-value=3.9e-10  Score=89.46  Aligned_cols=45  Identities=36%  Similarity=1.006  Sum_probs=36.1

Q ss_pred             CcccccccccccC----------CCCeeecccCCcccHHHHHHHHhcCCCCCCCc
Q 016632           32 DDACSICLEEFSE----------SDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCW   76 (386)
Q Consensus        32 d~~C~ICle~f~~----------~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR   76 (386)
                      ++.|+||++.|.+          .-++.+.+|+|.||..||..|++.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            4559999999932          12345578999999999999999999999997

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 ....

>smart00504 Ubox Modified RING finger domain

Probab=98.95  E-value=1.1e-09  Score=82.83  Aligned_cols=58  Identities=19%  Similarity=0.389  Sum_probs=48.0

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEA   92 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~   92 (386)
                      +..|+||.+.+  .+ +.+++|||.||..||..|++.+..||+|+..+...++..+..+..
T Consensus         1 ~~~Cpi~~~~~--~~-Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~   58 (63)
T smart00504        1 EFLCPISLEVM--KD-PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKS   58 (63)
T ss_pred             CcCCcCCCCcC--CC-CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHH
Confidence            46899999998  34 566799999999999999998889999999998777666544443

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

>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=98.90  E-value=8.5e-10  Score=76.96  Aligned_cols=39  Identities=41%  Similarity=1.144  Sum_probs=33.4

Q ss_pred             cccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~C   75 (386)
                      |+||++.+  .+++++++|||.||..||..|++....||+|
T Consensus         1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998  4555789999999999999999998899998

>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=98.87  E-value=1.6e-09  Score=79.36  Aligned_cols=47  Identities=34%  Similarity=0.798  Sum_probs=39.7

Q ss_pred             CCcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ++..|.||++...   .+.+++|+|. ||..|+..|++....||+||++|.
T Consensus         1 ~~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CcCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            3678999999973   3778899999 999999999999999999999875

...

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

Probab=98.84  E-value=2.2e-09  Score=76.56  Aligned_cols=38  Identities=32%  Similarity=0.854  Sum_probs=28.8

Q ss_pred             cccccccccCCCCeeecccCCcccHHHHHHHHhcC----CCCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----SQCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~----~sCP~C   75 (386)
                      |+||+++|.+   ++.++|||.||..||..|++..    ..||.|
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            8999999933   6778999999999999999753    469988

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

Probab=98.82  E-value=1.6e-09  Score=99.04  Aligned_cols=53  Identities=34%  Similarity=0.709  Sum_probs=44.6

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      .-..|+|||+.+....+ .-+.|||+||..||...++....||+|++.|..+.+
T Consensus       130 ~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             cccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            34689999999955333 447999999999999999999999999998887654

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.80  E-value=4.2e-09  Score=107.60  Aligned_cols=59  Identities=25%  Similarity=0.537  Sum_probs=48.7

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      ++.|+||++.|.  + +++++|+|.||..||..|+.....||+|+..+....+..+..+..+
T Consensus        26 ~l~C~IC~d~~~--~-PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~i   84 (397)
T TIGR00599        26 SLRCHICKDFFD--V-PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEI   84 (397)
T ss_pred             ccCCCcCchhhh--C-ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHH
Confidence            789999999993  3 4578999999999999999988899999999887666555554443

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

>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=98.77  E-value=6.2e-09  Score=72.03  Aligned_cols=44  Identities=41%  Similarity=1.090  Sum_probs=37.6

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccC
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPI   79 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i   79 (386)
                      .|+||++.+  .+...+++|+|.||..|+..|+.. ...||+|+..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  455666779999999999999987 67899998754

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

Probab=98.75  E-value=4.5e-09  Score=102.87  Aligned_cols=50  Identities=36%  Similarity=0.878  Sum_probs=45.1

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~CR~~i~~   81 (386)
                      ..+|.||++.|...+...++||.|.||..|+..|+. .+..||+||..+++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            378999999998778889999999999999999998 57789999998864

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

Probab=98.75  E-value=4.3e-09  Score=105.29  Aligned_cols=53  Identities=30%  Similarity=0.877  Sum_probs=43.9

Q ss_pred             CCCCccccccccccc-CC---------CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFS-ES---------DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~-~~---------d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .+.|..|.||+|.+- .+         ..++.++|||.||.+|+.-|++++++||+||.++..
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            556899999999952 21         124678999999999999999999999999998643

>PHA02926 zinc finger-like protein; Provisional

Probab=98.73  E-value=6.6e-09  Score=98.11  Aligned_cols=60  Identities=25%  Similarity=0.541  Sum_probs=45.5

Q ss_pred             hhhcCCCCCCCcccccccccccCC------CCeeecccCCcccHHHHHHHHhcC------CCCCCCcccCCC
Q 016632           22 FVEGGIQDSCDDACSICLEEFSES------DPSTVTSCKHEFHLQCVLEWCQRS------SQCPMCWQPISL   81 (386)
Q Consensus        22 ~v~~~iqde~d~~C~ICle~f~~~------d~~~vlpCgH~FC~~CI~~Wlq~~------~sCP~CR~~i~~   81 (386)
                      .-+...+...|.+|+||+|.+..+      -...+.+|+|.||..||..|...+      ..||+||..+..
T Consensus       160 ~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        160 KYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             HHHHHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            344555667789999999986322      124567999999999999999753      359999998764

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

Probab=98.72  E-value=9.6e-09  Score=83.85  Aligned_cols=51  Identities=43%  Similarity=1.023  Sum_probs=40.2

Q ss_pred             Cccccccccccc--------CC--CCeeecccCCcccHHHHHHHHhc---CCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFS--------ES--DPSTVTSCKHEFHLQCVLEWCQR---SSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~--------~~--d~~~vlpCgH~FC~~CI~~Wlq~---~~sCP~CR~~i~~~   82 (386)
                      |+.|.||...|.        ++  -++..-.|+|.||.+||.+|+..   +..||+||+++..+
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            788999988884        11  23455689999999999999975   46899999987654

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

Probab=98.67  E-value=7.7e-09  Score=102.47  Aligned_cols=66  Identities=26%  Similarity=0.620  Sum_probs=55.4

Q ss_pred             cCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHH
Q 016632           25 GGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        25 ~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      .++++  -+.|.||.++|..   +.+++|+|.||.-||..+|..+..||.|+.++.+.++..+.+++.+.+
T Consensus        18 k~lD~--lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~   83 (442)
T KOG0287|consen   18 KTLDD--LLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVK   83 (442)
T ss_pred             hhhHH--HHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHH
Confidence            34444  6789999999933   677799999999999999999999999999999988888777666543

>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=98.67  E-value=1.5e-08  Score=70.88  Aligned_cols=39  Identities=44%  Similarity=1.162  Sum_probs=33.5

Q ss_pred             cccccccccCCCCeeecccCCcccHHHHHHHHh--cCCCCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ--RSSQCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq--~~~sCP~C   75 (386)
                      |+||++.+  .++..+++|+|.||..||..|++  ....||+|
T Consensus         1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccc--cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998  34445899999999999999998  45679998

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 ....

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

Probab=98.65  E-value=2.5e-09  Score=106.34  Aligned_cols=49  Identities=27%  Similarity=0.691  Sum_probs=42.0

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~   82 (386)
                      ++.|+|||+++  ...+++..|.|.||..||..-+.. .+.||.||+.+..+
T Consensus        43 ~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   43 QVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            78999999999  556778899999999999888764 67899999987653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.60  E-value=3.3e-08  Score=70.79  Aligned_cols=44  Identities=36%  Similarity=0.870  Sum_probs=38.5

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcc
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQ   77 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~   77 (386)
                      .|+||++.|.+...+.+++|+|.||..||..+......||+|++
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            49999999955567889999999999999999866778999985

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

Probab=98.59  E-value=2e-08  Score=104.04  Aligned_cols=54  Identities=37%  Similarity=0.704  Sum_probs=44.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-----CCCCCCcccCCCCCcchHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-----SQCPMCWQPISLKDATSQE   88 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-----~sCP~CR~~i~~~d~~~~~   88 (386)
                      +..|||||+..   ..+..+.|||+||+.||..+|...     ..||+||..|..+++.+..
T Consensus       186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~  244 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF  244 (513)
T ss_pred             CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence            78999999996   335566799999999999998653     4699999999998776543

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

Probab=98.58  E-value=6.1e-08  Score=76.68  Aligned_cols=62  Identities=18%  Similarity=0.344  Sum_probs=47.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcchHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      +++.|+||.+.|.+   +++++|||.|+..||..|+.. ...||+|+..+...++.++..+.....
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~   65 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIE   65 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHH
T ss_pred             cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHH
Confidence            47899999999933   667799999999999999998 789999999999988888776655443

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 ....

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

Probab=98.45  E-value=6.4e-08  Score=102.79  Aligned_cols=52  Identities=33%  Similarity=0.780  Sum_probs=43.7

Q ss_pred             CCCCcccccccccccCCCC--eeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           29 DSCDDACSICLEEFSESDP--STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~--~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ...+..|+||+|.+.....  ++.++|+|.||..|+..|+++..+||+||..+.
T Consensus       288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            3448899999999844322  677899999999999999999999999999544

>smart00184 RING Ring finger

Probab=98.45  E-value=1.8e-07  Score=62.39  Aligned_cols=38  Identities=39%  Similarity=1.095  Sum_probs=32.7

Q ss_pred             cccccccccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~C   75 (386)
                      |+||++..   ..+.+++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999994   4467789999999999999998 56679987

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

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

Probab=98.45  E-value=8.7e-08  Score=92.43  Aligned_cols=51  Identities=35%  Similarity=0.820  Sum_probs=43.4

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHH-HHhcCCC-CCCCcccCCCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLE-WCQRSSQ-CPMCWQPISLKD   83 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~-Wlq~~~s-CP~CR~~i~~~d   83 (386)
                      ..|..|.||++..   ..+..++|||.||+.||.. |..++.. ||+||+...++.
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            4578899999996   3467789999999999999 9887776 999999887664

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

Probab=98.31  E-value=4.2e-07  Score=65.37  Aligned_cols=38  Identities=42%  Similarity=0.960  Sum_probs=23.0

Q ss_pred             ccccccccc-CCCCeeecccCCcccHHHHHHHHhcC----CCCC
Q 016632           35 CSICLEEFS-ESDPSTVTSCKHEFHLQCVLEWCQRS----SQCP   73 (386)
Q Consensus        35 C~ICle~f~-~~d~~~vlpCgH~FC~~CI~~Wlq~~----~sCP   73 (386)
                      |+||++ |. +.+++++|+|||.||..||..|+...    ..||
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 63 44568889999999999999999853    3576

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

Probab=98.31  E-value=2.2e-07  Score=86.02  Aligned_cols=45  Identities=31%  Similarity=0.778  Sum_probs=38.9

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcc
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQ   77 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~   77 (386)
                      .++..|+||++.|.  ++ .+++|+|.||..||..|+.....||.||.
T Consensus        11 ~~~~~C~iC~~~~~--~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFR--EP-VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhh--cC-ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            34899999999993  44 88899999999999999985567999995

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.22  E-value=4.8e-07  Score=89.68  Aligned_cols=57  Identities=26%  Similarity=0.420  Sum_probs=41.0

Q ss_pred             CCccccccccc--ccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCCcccCCCCCcchH
Q 016632           31 CDDACSICLEE--FSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLKDATSQ   87 (386)
Q Consensus        31 ~d~~C~ICle~--f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~CR~~i~~~d~~~~   87 (386)
                      ++..||||...  +.+.-...+.+|||.||..||..++. ....||.|+..+....+..+
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q   61 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQ   61 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccc
Confidence            36789999995  32211123337999999999999664 45689999999887665443

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

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

Probab=98.19  E-value=5.5e-07  Score=69.88  Aligned_cols=58  Identities=28%  Similarity=0.693  Sum_probs=29.8

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      -+.|++|.+.|  ++++.+..|.|.||..||...+.  ..||+|..+...+|...+..+..+
T Consensus         7 lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~~   64 (65)
T PF14835_consen    7 LLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDSM   64 (65)
T ss_dssp             TTS-SSS-S----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHHH
T ss_pred             hcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhcc
Confidence            46799999999  66777889999999999977543  359999999988888877766543

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

Probab=98.18  E-value=8.4e-07  Score=86.75  Aligned_cols=47  Identities=26%  Similarity=0.476  Sum_probs=41.8

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      -+.|-||-+.|..   +..++|+|.||.-||..+|..+..||+||....+
T Consensus        25 ~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          25 MLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             HHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            5689999999844   5678999999999999999999999999998654

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

Probab=98.09  E-value=8.8e-07  Score=70.85  Aligned_cols=51  Identities=41%  Similarity=0.961  Sum_probs=38.4

Q ss_pred             Cccccccccccc--------CC-C-CeeecccCCcccHHHHHHHHhc---CCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFS--------ES-D-PSTVTSCKHEFHLQCVLEWCQR---SSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~--------~~-d-~~~vlpCgH~FC~~CI~~Wlq~---~~sCP~CR~~i~~~   82 (386)
                      +.+|.||.-.|.        ++ + |...-.|.|.||..||.+|+..   +..||+||+.+..+
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~   83 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK   83 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence            558999988873        11 2 2334579999999999999964   45799999987643

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

Probab=98.02  E-value=4.1e-06  Score=67.60  Aligned_cols=36  Identities=31%  Similarity=0.700  Sum_probs=31.5

Q ss_pred             eeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           48 STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        48 ~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      +..-.|.|.||..||.+||..+..||+||+++...+
T Consensus        49 v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~   84 (88)
T COG5194          49 VVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD   84 (88)
T ss_pred             EEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence            344679999999999999999999999999987654

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

Probab=97.79  E-value=0.00018  Score=73.32  Aligned_cols=48  Identities=25%  Similarity=0.666  Sum_probs=40.6

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhc--CCCCCCCcccCCCCCc
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR--SSQCPMCWQPISLKDA   84 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~--~~sCP~CR~~i~~~d~   84 (386)
                      -|.||-|.=   ..+.+-+|||..|..|+..|...  .+.||.||..|.....
T Consensus       371 LCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  371 LCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            599999984   44888899999999999999854  5789999999986553

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

Probab=97.77  E-value=1.5e-05  Score=80.54  Aligned_cols=58  Identities=34%  Similarity=0.823  Sum_probs=44.1

Q ss_pred             cCCCCCCCcccccccccccCCC-----CeeecccCCcccHHHHHHHHh--c-----CCCCCCCcccCCCC
Q 016632           25 GGIQDSCDDACSICLEEFSESD-----PSTVTSCKHEFHLQCVLEWCQ--R-----SSQCPMCWQPISLK   82 (386)
Q Consensus        25 ~~iqde~d~~C~ICle~f~~~d-----~~~vlpCgH~FC~~CI~~Wlq--~-----~~sCP~CR~~i~~~   82 (386)
                      ...+...|.+|.||++.+....     --.+++|.|.||..||..|-+  +     .+.||.||......
T Consensus       154 ~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v  223 (344)
T KOG1039|consen  154 FALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV  223 (344)
T ss_pred             cCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence            3445677999999999985433     123477999999999999984  3     36799999876644

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

Probab=97.69  E-value=5.8e-06  Score=65.22  Aligned_cols=50  Identities=36%  Similarity=0.809  Sum_probs=24.6

Q ss_pred             CcccccccccccCCC-Ce-ee---cccCCcccHHHHHHHHhc----C-------CCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESD-PS-TV---TSCKHEFHLQCVLEWCQR----S-------SQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d-~~-~v---lpCgH~FC~~CI~~Wlq~----~-------~sCP~CR~~i~~   81 (386)
                      +..|.||+..+.+.+ .+ .+   ..|+..||..||.+|+..    +       ..||.|+.+|..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            678999999875222 22 22   378999999999999963    1       149999998764

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

Probab=97.67  E-value=1e-05  Score=78.56  Aligned_cols=55  Identities=31%  Similarity=0.784  Sum_probs=42.7

Q ss_pred             CCCCCcccccccccccCCC-------CeeecccCCcccHHHHHHHHh--cCCCCCCCcccCCCC
Q 016632           28 QDSCDDACSICLEEFSESD-------PSTVTSCKHEFHLQCVLEWCQ--RSSQCPMCWQPISLK   82 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d-------~~~vlpCgH~FC~~CI~~Wlq--~~~sCP~CR~~i~~~   82 (386)
                      +..+|..|.||-..+....       ....+.|+|.||..||.-|+.  ++++||.|++.+..+
T Consensus       220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            3445889999988774322       346789999999999999985  567899999877543

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

Probab=97.65  E-value=2.3e-05  Score=81.43  Aligned_cols=50  Identities=32%  Similarity=0.835  Sum_probs=38.7

Q ss_pred             CcccccccccccCC---CC-----------eeecccCCcccHHHHHHHHhc-CCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSES---DP-----------STVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~---d~-----------~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~   81 (386)
                      ...|+||+..+...   .+           -.++||.|.||..|++.|... +-.||+||.+++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            56899999986311   11           124699999999999999995 5589999998864

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

Probab=97.63  E-value=2.1e-05  Score=66.35  Aligned_cols=51  Identities=25%  Similarity=0.676  Sum_probs=39.1

Q ss_pred             CCccccccccccc------------CCCC--eeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           31 CDDACSICLEEFS------------ESDP--STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        31 ~d~~C~ICle~f~------------~~d~--~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .-+.|.||..-+.            ..+.  +..-.|.|.||..||.+|++.+..||+|.+.+..
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            3568999987542            1111  3346899999999999999999999999887654

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

Probab=97.60  E-value=1.8e-05  Score=78.77  Aligned_cols=49  Identities=29%  Similarity=0.645  Sum_probs=43.2

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      -.+|.+|-.+|  .+..+++.|-|.||..||..++.....||+|...+...
T Consensus        15 ~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   15 HITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            56899999999  56677889999999999999999999999998877543

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

Probab=97.57  E-value=7e-05  Score=55.18  Aligned_cols=42  Identities=29%  Similarity=0.769  Sum_probs=32.4

Q ss_pred             ccccccccccCCCCeeecccC-----CcccHHHHHHHHhcC--CCCCCCc
Q 016632           34 ACSICLEEFSESDPSTVTSCK-----HEFHLQCVLEWCQRS--SQCPMCW   76 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCg-----H~FC~~CI~~Wlq~~--~sCP~CR   76 (386)
                      .|-||++... .+.+.+.||.     |.||..||..|+..+  ..||+|.
T Consensus         1 ~CrIC~~~~~-~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGD-EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCC-CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998432 3445677885     889999999999654  4899994

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

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

Probab=97.56  E-value=4e-05  Score=75.49  Aligned_cols=48  Identities=23%  Similarity=0.528  Sum_probs=40.2

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~   82 (386)
                      +.+|+||+...   ..++.+.|+|.||+-||.--.+.. ..|++||.+|...
T Consensus         7 ~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            57899999995   556788999999999999776654 5699999998754

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

Probab=97.54  E-value=2.5e-05  Score=84.64  Aligned_cols=51  Identities=25%  Similarity=0.620  Sum_probs=42.5

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDAT   85 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~   85 (386)
                      -+.|+.|-.-+++   .+++.|+|.||..|+...+.. ...||.|...|..-|+.
T Consensus       643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            5799999987744   677799999999999999875 56799999998876643

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

Probab=97.52  E-value=2.5e-05  Score=86.00  Aligned_cols=49  Identities=33%  Similarity=0.982  Sum_probs=38.4

Q ss_pred             Cccccccccccc--CCC-C-eeecccCCcccHHHHHHHHhcC--CCCCCCcccCC
Q 016632           32 DDACSICLEEFS--ESD-P-STVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPIS   80 (386)
Q Consensus        32 d~~C~ICle~f~--~~d-~-~~vlpCgH~FC~~CI~~Wlq~~--~sCP~CR~~i~   80 (386)
                      -.+|+||+..+.  +.. | -++..|+|.||..|+..|++..  ..||+||..+.
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            678999999873  111 1 2456799999999999999864  67999998765

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

Probab=97.51  E-value=5.3e-05  Score=77.89  Aligned_cols=56  Identities=25%  Similarity=0.644  Sum_probs=47.2

Q ss_pred             hhcCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           23 VEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        23 v~~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      ..++.+...+..|.||+..|   .++++++|||.||..||.+-+.....||.||..+..
T Consensus        75 ~s~~~~~~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   75 LSGPEEIRSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             hccCccccchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            44555556799999999998   346777999999999999988888899999999875

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

Probab=97.51  E-value=2.9e-05  Score=58.58  Aligned_cols=48  Identities=31%  Similarity=0.702  Sum_probs=37.7

Q ss_pred             CCCcccccccccccCCCCeeecccCC-cccHHHHHHHHh-cCCCCCCCcccCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKH-EFHLQCVLEWCQ-RSSQCPMCWQPIS   80 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH-~FC~~CI~~Wlq-~~~sCP~CR~~i~   80 (386)
                      +.+++|.||+|.-.+   .++.-||| -.|+.|-.+.++ .+..||+||.+|.
T Consensus         5 ~~~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    5 QWSDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            346899999998533   45567999 679999877666 6789999999864

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

Probab=97.46  E-value=2.6e-05  Score=84.55  Aligned_cols=54  Identities=20%  Similarity=0.476  Sum_probs=44.3

Q ss_pred             CCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +......|+||+..+.+.......+|+|.||..||..|.+-..+||+||..|..
T Consensus       119 ~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  119 QTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            334566899999988655445557899999999999999999999999998754

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

Probab=97.40  E-value=0.0001  Score=74.10  Aligned_cols=47  Identities=32%  Similarity=0.771  Sum_probs=39.5

Q ss_pred             CCcccccccccccCCCCeeecccCC-cccHHHHHHHHhcCCCCCCCcccCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKH-EFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH-~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      .-.+|.||+....+   ..++||.| -.|..|.+..--.++.||+||+++.
T Consensus       289 ~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            35689999999743   68889999 6799999887777889999999875

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

Probab=97.38  E-value=6e-05  Score=77.59  Aligned_cols=47  Identities=34%  Similarity=0.843  Sum_probs=37.1

Q ss_pred             CcccccccccccCCCC-eeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           32 DDACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        32 d~~C~ICle~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      -.+||||||-+..... +..+.|.|.||..|+..|+  ..+||+||....
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            5689999999843322 3456899999999999997  457999998665

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

Probab=97.18  E-value=0.0001  Score=72.75  Aligned_cols=51  Identities=33%  Similarity=0.816  Sum_probs=42.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-----------------------CCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-----------------------SSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-----------------------~~sCP~CR~~i~~~   82 (386)
                      ...|.|||.-|-.++..+++.|.|.||+.|+.++|..                       ...||+||..|...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            4689999999987777899999999999999987632                       12599999988754

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

Probab=97.11  E-value=0.00028  Score=71.73  Aligned_cols=48  Identities=25%  Similarity=0.787  Sum_probs=33.6

Q ss_pred             cccccccccccCCCCee-ecccCCcccHHHHHHHHhcC---CCCCCCcccCC
Q 016632           33 DACSICLEEFSESDPST-VTSCKHEFHLQCVLEWCQRS---SQCPMCWQPIS   80 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~-vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~~i~   80 (386)
                      ..|.||.+.+-...... +-.|||.||..|+..|+..-   ..||+|+-.+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            47999955542211222 23499999999999999864   46999994443

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

Probab=97.10  E-value=0.00042  Score=70.84  Aligned_cols=54  Identities=28%  Similarity=0.802  Sum_probs=40.4

Q ss_pred             CCcccccccccccCC-C-CeeecccCCcccHHHHHHHHhc--CCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSES-D-PSTVTSCKHEFHLQCVLEWCQR--SSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~-d-~~~vlpCgH~FC~~CI~~Wlq~--~~sCP~CR~~i~~~d~   84 (386)
                      +-.+||||++.+... + .+..+.|+|.|..+||..|+.+  ...||.|..+-...+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i   60 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI   60 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence            457899999987532 2 2455899999999999999953  3479999766544443

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

Probab=97.05  E-value=0.00026  Score=72.79  Aligned_cols=53  Identities=30%  Similarity=0.720  Sum_probs=44.1

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcc
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDAT   85 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~   85 (386)
                      ++..|+||...+  .+++..+.|+|.||..|+..|+..+..||.|+..+......
T Consensus        20 ~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   20 ENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL   72 (391)
T ss_pred             ccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence            378999999999  44544469999999999999999999999998887655433

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

Probab=97.03  E-value=0.00029  Score=53.62  Aligned_cols=41  Identities=37%  Similarity=0.829  Sum_probs=29.5

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc--CCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR--SSQCPM   74 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~--~~sCP~   74 (386)
                      ...|||.+..|  .+|++-..|+|.|....|..|++.  ...||+
T Consensus        11 ~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            68999999999  567777899999999999999944  456998

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

Probab=96.94  E-value=0.00047  Score=67.95  Aligned_cols=61  Identities=30%  Similarity=0.472  Sum_probs=48.1

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      .+.|-||...|..   ++++.|+|.||..|...-++....|++|-+.+........+|+..+..
T Consensus       241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~~  301 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLKL  301 (313)
T ss_pred             Ccccccccccccc---chhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHHh
Confidence            3469999999933   677899999999999999999999999988877655555555554443

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

Probab=96.88  E-value=0.00043  Score=64.90  Aligned_cols=46  Identities=26%  Similarity=0.656  Sum_probs=39.5

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      .+.|.||-..|..   ++++.|||.||..|...-.+....|-+|-+...
T Consensus       196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            5689999999933   677899999999999998889999999976544

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

Probab=96.85  E-value=0.00092  Score=76.53  Aligned_cols=72  Identities=31%  Similarity=0.551  Sum_probs=50.8

Q ss_pred             CCCCccchhhhHhhhhcCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC----------CCCCCCccc
Q 016632            9 GKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----------SQCPMCWQP   78 (386)
Q Consensus         9 ~~~~~~~l~s~aa~v~~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~----------~sCP~CR~~   78 (386)
                      ++.-+.|+...-...+...|| .|+.|-||+.+-....|...+.|+|.||++|....++..          -.||+|+.+
T Consensus      3464 vkNEE~CLPCl~Cdks~tkQD-~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~ 3542 (3738)
T KOG1428|consen 3464 VKNEEHCLPCLHCDKSATKQD-ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNK 3542 (3738)
T ss_pred             ccchhhcccccccChhhhhcc-cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccch
Confidence            344455555544333333343 478899999876555677789999999999998877653          269999998


Q ss_pred             CCC
Q 016632           79 ISL   81 (386)
Q Consensus        79 i~~   81 (386)
                      |..
T Consensus      3543 InH 3545 (3738)
T KOG1428|consen 3543 INH 3545 (3738)
T ss_pred             hhh
Confidence            864

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

Probab=96.82  E-value=0.0017  Score=62.08  Aligned_cols=54  Identities=28%  Similarity=0.567  Sum_probs=43.4

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc--------CCCCCCCcccCCCCCcch
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR--------SSQCPMCWQPISLKDATS   86 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~--------~~sCP~CR~~i~~~d~~~   86 (386)
                      +..|..|-..+..++.++ +.|-|.||++|+.+|...        ...||.|.++|.+.....
T Consensus        50 ~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlv  111 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLV  111 (299)
T ss_pred             CCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcccc
Confidence            668999999997777655 589999999999999754        357999999887654433

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

Probab=96.76  E-value=0.0011  Score=64.79  Aligned_cols=50  Identities=24%  Similarity=0.596  Sum_probs=40.1

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHh--cCCCCCCCcccCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ--RSSQCPMCWQPIS   80 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq--~~~sCP~CR~~i~   80 (386)
                      ...+.+|++|-+.-  ..|.+..+|+|.||..||..-+.  ...+||.|-....
T Consensus       236 ~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            44588999999985  45667778999999999988765  3578999977654

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

Probab=96.75  E-value=0.00076  Score=67.97  Aligned_cols=53  Identities=21%  Similarity=0.466  Sum_probs=44.4

Q ss_pred             CCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           26 GIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        26 ~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      ..-+.+|..|+||+.--   ...+..||+|.-|+.||.+.+-..+.|..|+..+..
T Consensus       416 ~lp~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  416 DLPDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCCCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            34567799999999863   234667999999999999999999999999988764

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

Probab=96.37  E-value=0.0018  Score=68.20  Aligned_cols=53  Identities=23%  Similarity=0.644  Sum_probs=42.0

Q ss_pred             CCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-----CCCCCCCcccCCCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-----SSQCPMCWQPISLKD   83 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-----~~sCP~CR~~i~~~d   83 (386)
                      ++..+.+|.+|-+.-   +......|.|.||..||.+++..     ..+||.|-..+....
T Consensus       532 enk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             cccCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            344478999999996   33567799999999999999864     357999988776553

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

Probab=96.30  E-value=0.0034  Score=62.24  Aligned_cols=52  Identities=23%  Similarity=0.524  Sum_probs=40.9

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCC-cccCCCCCcch
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMC-WQPISLKDATS   86 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~C-R~~i~~~d~~~   86 (386)
                      +.|+.|--++  .+++....|+|.||..||...|. .-+.||.| |+.+....+.+
T Consensus       275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~p  328 (427)
T COG5222         275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTP  328 (427)
T ss_pred             ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCc
Confidence            8999999998  66777778999999999997775 56789999 55555544443

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

Probab=95.98  E-value=0.0075  Score=62.00  Aligned_cols=47  Identities=23%  Similarity=0.399  Sum_probs=37.2

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC--------CCCCCCccc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--------SQCPMCWQP   78 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~--------~sCP~CR~~   78 (386)
                      -..|.||++...-......++|+|.||+.|+..++.-.        -.||-|...
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            34799999998655678889999999999999998531        258877554

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.77  E-value=0.0083  Score=58.11  Aligned_cols=54  Identities=15%  Similarity=0.338  Sum_probs=45.6

Q ss_pred             CCcccccccccccCCCCe-eecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSESDPS-TVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~-~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      ....||||.+.|....+. ++-+|||+||..|...++..-..||+|-.++...|.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence            356899999999765554 446899999999999999999999999998887764

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

Probab=95.69  E-value=0.0036  Score=63.96  Aligned_cols=50  Identities=26%  Similarity=0.642  Sum_probs=39.8

Q ss_pred             CCCCcccccccccccCCCC-eeecccCCcccHHHHHHHHhcC--CCCCCCccc
Q 016632           29 DSCDDACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQRS--SQCPMCWQP   78 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~~--~sCP~CR~~   78 (386)
                      .+-++.|..|-+.+..++. ...+||.|+||..|+.+++.++  .+||.||+-
T Consensus       362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            3447899999999854443 4558999999999999999765  479999843

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

Probab=95.56  E-value=0.011  Score=54.71  Aligned_cols=51  Identities=31%  Similarity=0.738  Sum_probs=36.8

Q ss_pred             CcccccccccccCCCCe----eecccCCcccHHHHHHHHhcC-----------CCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPS----TVTSCKHEFHLQCVLEWCQRS-----------SQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~----~vlpCgH~FC~~CI~~Wlq~~-----------~sCP~CR~~i~~~   82 (386)
                      -..|.||+.+-.++..+    --..|+..||.-|+..|++.-           ..||+|..++..+
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            45688888764333221    125799999999999999741           2599999888765

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

Probab=95.49  E-value=0.011  Score=43.61  Aligned_cols=45  Identities=27%  Similarity=0.677  Sum_probs=22.4

Q ss_pred             cccccccccCCCCeee-cccCCcccHHHHHHHHh-cCCCCCCCcccC
Q 016632           35 CSICLEEFSESDPSTV-TSCKHEFHLQCVLEWCQ-RSSQCPMCWQPI   79 (386)
Q Consensus        35 C~ICle~f~~~d~~~v-lpCgH~FC~~CI~~Wlq-~~~sCP~CR~~i   79 (386)
                      |++|.+.+...+.-.. =+|++.+|..|+...+. ....||-||.++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7999999843332222 36789999999988876 477899999864

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

Probab=95.31  E-value=0.014  Score=58.51  Aligned_cols=54  Identities=19%  Similarity=0.525  Sum_probs=41.3

Q ss_pred             cCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           25 GGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        25 ~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      +.....+...|+||+...  .++..+.--|-+||+.||-.++..++.||+--.++.
T Consensus       293 ~e~l~~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  293 SELLPPDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             cccCCCccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            334444577899999986  344445556999999999999999999998766554

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

Probab=95.25  E-value=0.017  Score=58.45  Aligned_cols=52  Identities=21%  Similarity=0.465  Sum_probs=41.9

Q ss_pred             cCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHH--HhcCCCCCCCcccC
Q 016632           25 GGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEW--CQRSSQCPMCWQPI   79 (386)
Q Consensus        25 ~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~W--lq~~~sCP~CR~~i   79 (386)
                      ...+|+++..|-||.+.+.   ...++||+|..|.-|..+.  |...+.||+||..+
T Consensus        54 addtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          54 ADDTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            4457778889999999873   3678999999999997764  45678999999765

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

Probab=95.14  E-value=0.011  Score=59.80  Aligned_cols=47  Identities=34%  Similarity=0.675  Sum_probs=34.3

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +...+-|.||++...+   ...++|||..|  |..-. ++-..||+||+.|..
T Consensus       302 ~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIRL  348 (355)
T ss_pred             cCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHHH
Confidence            3446789999999733   56679999877  76543 344569999998753

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

Probab=95.09  E-value=0.004  Score=61.50  Aligned_cols=42  Identities=29%  Similarity=0.672  Sum_probs=32.8

Q ss_pred             CcccccccccccCCCCeeecccCC-cccHHHHHHHHhcCCCCCCCcccCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKH-EFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH-~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      +.-|.||++..  .+ ...|+||| .-|.+|-..    -..||+||+.|.
T Consensus       300 ~~LC~ICmDaP--~D-CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAP--RD-CVFLECGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCC--cc-eEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence            66799999996  33 57789999 678888644    348999998754

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

Probab=95.05  E-value=0.027  Score=55.21  Aligned_cols=50  Identities=28%  Similarity=0.627  Sum_probs=39.7

Q ss_pred             CcccccccccccCCC---CeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESD---PSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d---~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~   81 (386)
                      -..|-||-++|...+   .++++.|||.||..|+...+... -.||.||..+..
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~   56 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEI   56 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccC
Confidence            367999999997543   36788999999999998877654 469999998643

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.75  E-value=0.029  Score=54.57  Aligned_cols=53  Identities=23%  Similarity=0.479  Sum_probs=41.4

Q ss_pred             CCCcccccccccccCCCC-eeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           30 SCDDACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      .....|||+...|..... +.+.+|||+|+..||.+.- ....||+|-.++...|
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence            446789999999944333 4557999999999999973 4567999999888655

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

Probab=94.68  E-value=0.011  Score=56.95  Aligned_cols=45  Identities=31%  Similarity=0.723  Sum_probs=33.8

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .|.-|..--. .++-.++.|.|+||..|...-.  ...||+|++.+..
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRI   49 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeee
Confidence            5777776643 5777899999999999964321  2289999998754

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.66  E-value=0.022  Score=57.48  Aligned_cols=53  Identities=21%  Similarity=0.516  Sum_probs=37.0

Q ss_pred             CCcccccccccccCCCCeee-cccCCcccHHHHHHHHhc-CCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTV-TSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~v-lpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d   83 (386)
                      +|+.||.|++.+...+.-.. -+||...|.-|+...-+. ...||-||..+...+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            35669999999854443222 378888888886654443 568999998776544

>PHA03096 p28-like protein; Provisional

Probab=94.33  E-value=0.024  Score=56.18  Aligned_cols=45  Identities=29%  Similarity=0.600  Sum_probs=32.5

Q ss_pred             cccccccccccCCC-----CeeecccCCcccHHHHHHHHhcC---CCCCCCcc
Q 016632           33 DACSICLEEFSESD-----PSTVTSCKHEFHLQCVLEWCQRS---SQCPMCWQ   77 (386)
Q Consensus        33 ~~C~ICle~f~~~d-----~~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~   77 (386)
                      ..|.||++......     -..+..|.|.||..||..|-...   ..||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            68999999875321     13456899999999999998643   34555544

>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=94.22  E-value=0.024  Score=50.33  Aligned_cols=46  Identities=20%  Similarity=0.523  Sum_probs=32.5

Q ss_pred             CCcccccccccccCCCCeeecccC------CcccHHHHHHHHhcCCCCCCCc
Q 016632           31 CDDACSICLEEFSESDPSTVTSCK------HEFHLQCVLEWCQRSSQCPMCW   76 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCg------H~FC~~CI~~Wlq~~~sCP~CR   76 (386)
                      ...+|.||++.+...+.++.+.|+      |.||..|+.+|-.....=|.=|
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR   76 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR   76 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence            367999999998653345555665      8999999999965444444443

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.

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

Probab=93.24  E-value=0.053  Score=53.54  Aligned_cols=53  Identities=28%  Similarity=0.479  Sum_probs=41.8

Q ss_pred             CCCCCcccccccccccCCC-CeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           28 QDSCDDACSICLEEFSESD-PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d-~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +...+..||||.+.+.... .+.+++|+|..|..|+.+.......||+|.+ +..
T Consensus       154 e~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d  207 (276)
T KOG1940|consen  154 ERSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGD  207 (276)
T ss_pred             hhcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHH
Confidence            3344666999999875443 3667899999999999999888899999977 443

>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=93.22  E-value=0.032  Score=41.12  Aligned_cols=44  Identities=30%  Similarity=0.705  Sum_probs=25.7

Q ss_pred             ccccccccccCCCCeeecccC-CcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           34 ACSICLEEFSESDPSTVTSCK-HEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCg-H~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      .|--|+-..     -.+..|. |..|..|+...+.....||+|+.+++.+
T Consensus         4 nCKsCWf~~-----k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFAN-----KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S-------SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcC-----CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            466677654     1233676 9999999999999999999999988753

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.

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

Probab=92.85  E-value=0.032  Score=51.11  Aligned_cols=29  Identities=28%  Similarity=0.591  Sum_probs=26.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHL   59 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~   59 (386)
                      +..+|.||||+|..++.+..|||..+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccceEEEeec
Confidence            35689999999999999999999999986

>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=92.75  E-value=0.044  Score=45.06  Aligned_cols=32  Identities=25%  Similarity=0.582  Sum_probs=26.2

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVL   63 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~   63 (386)
                      .+..|+||-..|.. ....+.||+|.||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            36779999999954 445678999999999974

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 [].

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

Probab=92.71  E-value=0.032  Score=64.19  Aligned_cols=45  Identities=31%  Similarity=0.700  Sum_probs=37.8

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCccc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQP   78 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~   78 (386)
                      -..|.||++.+..  .-.+..|+|.||..|+..|+..+..||+|+..
T Consensus      1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            3489999999943  23455799999999999999999999999753

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

Probab=92.67  E-value=0.044  Score=60.24  Aligned_cols=47  Identities=32%  Similarity=0.783  Sum_probs=38.0

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHhcC--CCCCCCcccCCCCC
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPISLKD   83 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~--~sCP~CR~~i~~~d   83 (386)
                      ..|.||++ .   +.+.++.|+|.||..|+...++..  ..||.||..+..+.
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            79999999 3   456778999999999999988653  36999998776543

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

Probab=92.45  E-value=0.077  Score=38.69  Aligned_cols=40  Identities=30%  Similarity=0.901  Sum_probs=26.2

Q ss_pred             cccccccccCCCCeeecccCC-----cccHHHHHHHHhc--CCCCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKH-----EFHLQCVLEWCQR--SSQCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH-----~FC~~CI~~Wlq~--~~sCP~C   75 (386)
                      |-||++...+.. +.+.||.-     ..|..||..|+..  ...|++|
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            679999864433 45567763     6799999999974  4579887

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

Probab=92.08  E-value=0.077  Score=58.96  Aligned_cols=42  Identities=26%  Similarity=0.685  Sum_probs=34.6

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCccc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQP   78 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~   78 (386)
                      ...|.+|--.+  .-|.+--.|+|.||.+|+.   .....||.|+..
T Consensus       840 ~skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            45899999998  4566667899999999998   556789999773

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

Probab=92.07  E-value=0.09  Score=58.45  Aligned_cols=47  Identities=36%  Similarity=0.893  Sum_probs=36.0

Q ss_pred             CcccccccccccCCCCe-eecccCCcccHHHHHHHHhcC-------CCCCCCccc
Q 016632           32 DDACSICLEEFSESDPS-TVTSCKHEFHLQCVLEWCQRS-------SQCPMCWQP   78 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~-~vlpCgH~FC~~CI~~Wlq~~-------~sCP~CR~~   78 (386)
                      -.+|.||++.+....++ ....|-|+||..||..|....       -.||.|...
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            56899999998654442 335689999999999998642       259999743

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

Probab=91.96  E-value=0.13  Score=52.95  Aligned_cols=46  Identities=20%  Similarity=0.418  Sum_probs=39.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC---CCCCCCcc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS---SQCPMCWQ   77 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~   77 (386)
                      -+.|||=.+--.+.+||..+.|||+.+++-|.+..+..   ..||+|-.
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            56899988887778899999999999999999988754   46999943

>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=91.95  E-value=0.077  Score=38.09  Aligned_cols=41  Identities=24%  Similarity=0.717  Sum_probs=22.5

Q ss_pred             cccccccccCCCCeeecccCCcccHHHHHHHHhcCC--CCCCC
Q 016632           35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS--QCPMC   75 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~--sCP~C   75 (386)
                      |.+|.+++..+..-....|.-.+|..|+..++....  .||.|
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            778888874432222236888999999999998755  79988

; PDB: 3NW0_A 2CT0_A.

>PHA02862 5L protein; Provisional

Probab=91.92  E-value=0.13  Score=46.31  Aligned_cols=46  Identities=24%  Similarity=0.659  Sum_probs=34.6

Q ss_pred             CcccccccccccCCCCeeecccC-----CcccHHHHHHHHhcC--CCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCK-----HEFHLQCVLEWCQRS--SQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCg-----H~FC~~CI~~Wlq~~--~sCP~CR~~i~~   81 (386)
                      ++.|=||++.-.  +.  .-||.     ...|..|+.+|+..+  ..|++|+.++..
T Consensus         2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            468999999852  22  34664     478999999999753  579999988754

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

Probab=91.74  E-value=0.069  Score=53.40  Aligned_cols=42  Identities=26%  Similarity=0.617  Sum_probs=28.9

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccC
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI   79 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i   79 (386)
                      .|--|--.+  ...-+..+|+|+||++|...  ..-+.||.|-..+
T Consensus        92 fCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            465665554  22346689999999999643  3457899996654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.60  E-value=0.11  Score=39.51  Aligned_cols=47  Identities=28%  Similarity=0.592  Sum_probs=33.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      +..|-.|...-   ....+++|+|..|..|+.-  .+-+-||+|-.++...+
T Consensus         7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            45676776663   3457789999999999643  34567999988876544

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

Probab=90.37  E-value=0.16  Score=52.98  Aligned_cols=34  Identities=15%  Similarity=0.471  Sum_probs=28.3

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHH
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWC   66 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wl   66 (386)
                      ++++.|+||...|.  + +++++|+|..|..|...-+
T Consensus         2 eeelkc~vc~~f~~--e-piil~c~h~lc~~ca~~~~   35 (699)
T KOG4367|consen    2 EEELKCPVCGSFYR--E-PIILPCSHNLCQACARNIL   35 (699)
T ss_pred             cccccCceehhhcc--C-ceEeecccHHHHHHHHhhc
Confidence            46899999999993  3 6778999999999987554

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=90.05  E-value=0.28  Score=44.84  Aligned_cols=47  Identities=30%  Similarity=0.739  Sum_probs=34.7

Q ss_pred             CCCcccccccccccCCCCeeecccCC-----cccHHHHHHHHhcC--CCCCCCcccCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKH-----EFHLQCVLEWCQRS--SQCPMCWQPIS   80 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH-----~FC~~CI~~Wlq~~--~sCP~CR~~i~   80 (386)
                      ..+..|=||.+...  +  -..||..     ..|..|+..|+..+  ..|++|..++.
T Consensus         6 ~~~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            34779999999852  2  2246654     55999999999754  57999988764

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

Probab=88.96  E-value=0.29  Score=48.93  Aligned_cols=56  Identities=25%  Similarity=0.495  Sum_probs=38.6

Q ss_pred             CCcccccccccccCCCCeeeccc--CCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSC--KHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQE   96 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpC--gH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~e   96 (386)
                      +=++||||.+.+.+   ++. .|  ||..|..|-.   +....||.||.++...   -...++.+...
T Consensus        47 ~lleCPvC~~~l~~---Pi~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~~---R~~amEkV~e~  104 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSP---PIF-QCDNGHLACSSCRT---KVSNKCPTCRLPIGNI---RCRAMEKVAEA  104 (299)
T ss_pred             hhccCchhhccCcc---cce-ecCCCcEehhhhhh---hhcccCCccccccccH---HHHHHHHHHHh
Confidence            35689999999833   332 56  6999999964   4567899999998832   33344554433

>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=88.77  E-value=0.44  Score=43.53  Aligned_cols=34  Identities=24%  Similarity=0.540  Sum_probs=21.2

Q ss_pred             CCcccccccccccCCCCeeeccc------------CC-cccHHHHHHHHh
Q 016632           31 CDDACSICLEEFSESDPSTVTSC------------KH-EFHLQCVLEWCQ   67 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpC------------gH-~FC~~CI~~Wlq   67 (386)
                      +|..|+||||.-  .+ .++|-|            +. .-|.-||.++.+
T Consensus         1 ed~~CpICme~P--HN-AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHP--HN-AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCC--Cc-eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            478999999984  23 233333            32 235678888764

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.

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

Probab=87.50  E-value=0.65  Score=46.18  Aligned_cols=52  Identities=21%  Similarity=0.441  Sum_probs=36.6

Q ss_pred             ccccccccc--cCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcc
Q 016632           34 ACSICLEEF--SESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDAT   85 (386)
Q Consensus        34 ~C~ICle~f--~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~   85 (386)
                      .||+|....  .+.-...+-+|+|..|..|+...+.. ...||.|-..+....+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr   56 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR   56 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence            599998753  12122344599999999999998865 56899997766544443

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

Probab=86.76  E-value=0.23  Score=54.50  Aligned_cols=48  Identities=29%  Similarity=0.634  Sum_probs=37.7

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc---CCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR---SSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~---~~sCP~CR~~i~~~   82 (386)
                      +.+|+||+..+..   +..+.|.|.||..|+..-+..   ...||+|+..+...
T Consensus        21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR   71 (684)
T ss_pred             hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence            7899999999843   366799999999998765543   45799998766543

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

Probab=86.44  E-value=0.49  Score=52.59  Aligned_cols=52  Identities=13%  Similarity=0.240  Sum_probs=35.0

Q ss_pred             CCCCCcccccccccccCCCC----eeecccCCcccHHHHHHHHhc------CCCCCCCcccC
Q 016632           28 QDSCDDACSICLEEFSESDP----STVTSCKHEFHLQCVLEWCQR------SSQCPMCWQPI   79 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~----~~vlpCgH~FC~~CI~~Wlq~------~~sCP~CR~~i   79 (386)
                      +-...+.|.||+-.+.+.+.    ..+-.|+|.||..||..|..+      +..|++|..-|
T Consensus        92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             ccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            34446789999888855211    122359999999999999864      23577775533

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

Probab=86.26  E-value=0.42  Score=48.94  Aligned_cols=31  Identities=26%  Similarity=0.815  Sum_probs=24.0

Q ss_pred             cCCcccHHHHHHHHhcC-------------CCCCCCcccCCCCC
Q 016632           53 CKHEFHLQCVLEWCQRS-------------SQCPMCWQPISLKD   83 (386)
Q Consensus        53 CgH~FC~~CI~~Wlq~~-------------~sCP~CR~~i~~~d   83 (386)
                      |....|..|+-+|+..+             ..||+||+.+..-|
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            45677999999998532             35999999987654

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

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

Probab=85.94  E-value=0.23  Score=48.27  Aligned_cols=51  Identities=24%  Similarity=0.507  Sum_probs=35.2

Q ss_pred             CCCCcccccccccccCCCCe--ee-cccCCcccHHHHHHHHhcC-CCCC--CCcccC
Q 016632           29 DSCDDACSICLEEFSESDPS--TV-TSCKHEFHLQCVLEWCQRS-SQCP--MCWQPI   79 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~--~v-lpCgH~FC~~CI~~Wlq~~-~sCP--~CR~~i   79 (386)
                      +..|..||||..+---...+  .+ +.|-|..|-.|+.+.+... ..||  -|-+-+
T Consensus         7 ~~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           7 EMEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hhhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            34577999998763211222  23 3499999999999988764 5799  785544

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

Probab=84.64  E-value=0.11  Score=53.46  Aligned_cols=52  Identities=21%  Similarity=0.494  Sum_probs=42.7

Q ss_pred             CCcccccccccccCC-CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           31 CDDACSICLEEFSES-DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        31 ~d~~C~ICle~f~~~-d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      -...|.||.+.|+.. +....+.|+|.+|..||..|+.....||.|+..+...
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            355799999998543 3355578999999999999999988999999887654

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

Probab=84.51  E-value=0.4  Score=49.48  Aligned_cols=37  Identities=27%  Similarity=0.602  Sum_probs=26.9

Q ss_pred             Ccccccccc-cccCCCCeeecccCCcccHHHHHHHHhc
Q 016632           32 DDACSICLE-EFSESDPSTVTSCKHEFHLQCVLEWCQR   68 (386)
Q Consensus        32 d~~C~ICle-~f~~~d~~~vlpCgH~FC~~CI~~Wlq~   68 (386)
                      ..+|.||+. ......--.+..|+|.||..|+.+.++.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            568999994 4322122236789999999999999874

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

Probab=83.41  E-value=0.91  Score=40.46  Aligned_cols=55  Identities=20%  Similarity=0.327  Sum_probs=38.6

Q ss_pred             CCCCCcccccccccccCCCCee-ecccCCcccHHHHHHHHhc---CCCCCCCcccCCCC
Q 016632           28 QDSCDDACSICLEEFSESDPST-VTSCKHEFHLQCVLEWCQR---SSQCPMCWQPISLK   82 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~-vlpCgH~FC~~CI~~Wlq~---~~sCP~CR~~i~~~   82 (386)
                      .|..--+|.||.|...+..-.. ---||-..|..|....|+.   ...||+|+..+...
T Consensus        76 ~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   76 LDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             cCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            4444458999999864321111 1259999999998887765   56899999887643

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.25  E-value=0.77  Score=45.04  Aligned_cols=52  Identities=21%  Similarity=0.592  Sum_probs=36.0

Q ss_pred             CCCcccccccccccCCCCe-eecccC-----CcccHHHHHHHHhcC--------CCCCCCcccCCC
Q 016632           30 SCDDACSICLEEFSESDPS-TVTSCK-----HEFHLQCVLEWCQRS--------SQCPMCWQPISL   81 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~-~vlpCg-----H~FC~~CI~~Wlq~~--------~sCP~CR~~i~~   81 (386)
                      +.|..|-||+..=++.... -+-||.     |..|..||..|+..+        ..||.|+..+..
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            3477899999985332111 234664     789999999999543        259999887543

>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=82.84  E-value=1.4  Score=32.53  Aligned_cols=43  Identities=23%  Similarity=0.607  Sum_probs=22.4

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHh---cC--CCCCCCccc
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ---RS--SQCPMCWQP   78 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq---~~--~sCP~CR~~   78 (386)
                      +.|+|....+  ..|++...|.|.-|++ +..|+.   ..  -.||+|.++
T Consensus         3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            5799999888  5678888999987754 334443   22  369999763

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.

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

Probab=82.15  E-value=0.88  Score=50.80  Aligned_cols=53  Identities=30%  Similarity=0.719  Sum_probs=39.1

Q ss_pred             CCCCcccccccccccCCCCeeecccCC-----cccHHHHHHHHhcC--CCCCCCcccCCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKH-----EFHLQCVLEWCQRS--SQCPMCWQPISLK   82 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH-----~FC~~CI~~Wlq~~--~sCP~CR~~i~~~   82 (386)
                      ++++..|-||..+-..++| ..-||++     ..|..|+.+|+..+  ..|-+|..++..+
T Consensus         9 N~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk   68 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK   68 (1175)
T ss_pred             CccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence            4457899999988655444 3347764     68999999999864  4699998877543

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

Probab=81.35  E-value=0.77  Score=51.61  Aligned_cols=35  Identities=29%  Similarity=0.604  Sum_probs=29.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWC   66 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wl   66 (386)
                      -++.|.||...+.. .+-.+-+|+|.||+.||.+..
T Consensus       816 p~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence            37799999998854 456778999999999998865

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.25  E-value=0.84  Score=45.59  Aligned_cols=31  Identities=26%  Similarity=0.701  Sum_probs=24.3

Q ss_pred             cCCcccHHHHHHHHhc-------------CCCCCCCcccCCCCC
Q 016632           53 CKHEFHLQCVLEWCQR-------------SSQCPMCWQPISLKD   83 (386)
Q Consensus        53 CgH~FC~~CI~~Wlq~-------------~~sCP~CR~~i~~~d   83 (386)
                      |....|..|+.+|+..             +.+||+||+.+...|
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            5667889999999743             347999999987654

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

Probab=80.02  E-value=0.78  Score=43.55  Aligned_cols=39  Identities=26%  Similarity=0.607  Sum_probs=28.7

Q ss_pred             cccccccccCCCCeeecccCC-cccHHHHHHHHhcCCCCCCCcccCC
Q 016632           35 CSICLEEFSESDPSTVTSCKH-EFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        35 C~ICle~f~~~d~~~vlpCgH-~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      |-+|-+.   ...+.++||.| .+|..|-..    -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence            8888887   34478899998 788888533    456999977543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	386
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-07
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		4e-05

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/47 (36%), Positives = 29/47 (61%)
Query: 33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
          + C++CLE+F   D   +  CKH FH +C+++W +    CP+C  P+
Sbjct: 16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 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 = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
          Q+ C   C IC  E+ + D +T   C H FH  CV  W Q+S  CP+C
Sbjct: 39 QEMC---CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	386
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-19
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	7e-16
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-14
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-14
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	9e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-13
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	5e-13
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	6e-13
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-12
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-11
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	6e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-10
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-10
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-09
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-08
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	8e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	3e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	3e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	7e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	8e-06
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	8e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	3e-05
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-05
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	5e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	5e-05
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	8e-05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	8e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	1e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	6e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	6e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	7e-04

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

 Score = 79.8 bits (197), Expect = 4e-19
 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS 80
           +  + C ICLE+ S  + S    C H F   C+  W +++  CP+C  P+ 
Sbjct: 2  ATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 70.6 bits (173), Expect = 7e-16
 Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 26 GIQDSCDDACSICLEEFSE----SDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL 81
          G++ S   +C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ 
Sbjct: 4  GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

Query: 82 KD 83
          K 
Sbjct: 64 KR 65

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

 Score = 69.0 bits (169), Expect = 2e-15
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 35 CSICLEEFSE----SDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ K 
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

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

 Score = 65.8 bits (161), Expect = 3e-14
 Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 30 SCDDACSICLEEFSESD-PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS 80
          S    C ICLE+   S   + V  C H  H  C  E  +   +CP+C  P S
Sbjct: 3  SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 65.9 bits (161), Expect = 4e-14
 Identities = 18/59 (30%), Positives = 32/59 (54%)

Query: 28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATS 86
          + +  + C++CLE+F   D   +  CKH FH +C+++W +    CP+C  P+      S
Sbjct: 11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS 69

>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 = 64.7 bits (158), Expect = 9e-14
 Identities = 18/63 (28%), Positives = 30/63 (47%)

Query: 24 EGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          E G ++  ++ C+ICL    E +      C H FH  CV +W   + +CP+C   I  + 
Sbjct: 6  EEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

Query: 84 ATS 86
           + 
Sbjct: 66 PSE 68

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

 Score = 64.5 bits (157), Expect = 2e-13
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 28 QDSCDDACSICLEEFSESD-PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK 82
          +    DAC  C  E  + D       C H FH  C+  W +++++CP+C Q   ++
Sbjct: 22 RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ 77

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

 Score = 63.4 bits (154), Expect = 3e-13
 Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 4/61 (6%)

Query: 26 GIQDSCDDACSICLEEFSE----SDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL 81
          G++ S   +C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ 
Sbjct: 9  GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

Query: 82 K 82
          K
Sbjct: 69 K 69

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

 Score = 62.9 bits (153), Expect = 5e-13
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 3/70 (4%)

Query: 29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQE 88
          +     C IC + F   +P  VT C+H F   C LE  + + +C +C QP       ++E
Sbjct: 12 EEIPFRCFICRQAFQ--NP-VVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKE 68

Query: 89 LLEAVEQERS 98
          L+  +++   
Sbjct: 69 LMAKLQKSGP 78

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

 Score = 62.4 bits (152), Expect = 6e-13
 Identities = 13/55 (23%), Positives = 28/55 (50%), Gaps = 4/55 (7%)

Query: 32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATS 86
          ++ C IC++  ++     +  C H F  +C+ +W  R   CP+C   ++  + +S
Sbjct: 15 EEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS 65

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

 Score = 62.4 bits (152), Expect = 1e-12
 Identities = 19/54 (35%), Positives = 25/54 (46%)

Query: 22 FVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMC 75
            E       +  C IC  E+ + D +T   C H FH  CV  W Q+S  CP+C
Sbjct: 30 VTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

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

 Score = 60.8 bits (148), Expect = 3e-12
 Identities = 15/49 (30%), Positives = 23/49 (46%)

Query: 32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS 80
             C +C+ +F       V  C HEFH +CV +W + +  CP+C     
Sbjct: 23 QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71

>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 = 59.9 bits (145), Expect = 1e-11
 Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 3/63 (4%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAV 93
          C IC+E+    D      C       C+  W     +QCP C  P+ L++  +    E V
Sbjct: 25 CFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEV 82

Query: 94 EQE 96
           Q+
Sbjct: 83 TQQ 85

>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 = 59.0 bits (143), Expect = 2e-11
 Identities = 12/61 (19%), Positives = 28/61 (45%)

Query: 28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQ 87
                 C +C E+++  +      C H FH  C++ W ++   CP+C + ++ ++  + 
Sbjct: 11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70

Query: 88 E 88
           
Sbjct: 71 P 71

>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 = 58.3 bits (140), Expect = 6e-11
 Identities = 15/69 (21%), Positives = 21/69 (30%), Gaps = 15/69 (21%)

Query: 29  DSCDDACSICLEEF---------------SESDPSTVTSCKHEFHLQCVLEWCQRSSQCP 73
           D   D C+IC                   SE        C H FH  C+  W +    CP
Sbjct: 45  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 104

Query: 74  MCWQPISLK 82
           +  +    +
Sbjct: 105 LDNREWEFQ 113

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

 Score = 56.8 bits (137), Expect = 6e-11
 Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 3/63 (4%)

Query: 18 SAAAFVEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQ 77
           ++              C+ICL+      P +   CKH F   CV        +C +C Q
Sbjct: 1  GSSGSSGNTAPSLTVPECAICLQTCV--HPVS-LPCKHVFCYLCVKGASWLGKRCALCRQ 57

Query: 78 PIS 80
           I 
Sbjct: 58 EIP 60

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

 Score = 55.9 bits (135), Expect = 1e-10
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS 80
          CSIC       D +T+T C H F   C++     S++CP C   + 
Sbjct: 18 CSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

>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 = 56.8 bits (136), Expect = 1e-10
 Identities = 15/69 (21%), Positives = 21/69 (30%), Gaps = 15/69 (21%)

Query: 29  DSCDDACSICLEEF---------------SESDPSTVTSCKHEFHLQCVLEWCQRSSQCP 73
           D   D C+IC                   SE        C H FH  C+  W +    CP
Sbjct: 34  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93

Query: 74  MCWQPISLK 82
           +  +    +
Sbjct: 94  LDNREWEFQ 102

>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 = 54.8 bits (132), Expect = 8e-10
 Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          C +C   F   D +T+  C H F   C++ + + S  CP+C   +    
Sbjct: 18 CVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64

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

 Score = 54.4 bits (131), Expect = 1e-09
 Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 6/68 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATS----QELL 90
          C IC E F+      +  C H +   C+ ++    +QCP C   ++  D  +     EL+
Sbjct: 25 CGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELV 82

Query: 91 EAVEQERS 98
          +++   R+
Sbjct: 83 KSLNFARN 90

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

 Score = 52.6 bits (127), Expect = 1e-09
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)

Query: 35 CSICLEEFSESDPSTV-TSCKHEFHLQCVLEWCQRSSQCPMC 75
          C++CL E  + + +     C H FH +CV  W    S CP+C
Sbjct: 8  CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

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

 Score = 52.5 bits (125), Expect = 1e-08
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 4/53 (7%)

Query: 35 CSICLEEFSESDPS----TVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          C IC++ +SE   +      T C H F  QC+ +  + ++ CP C + I+ K 
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 62

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

 Score = 42.5 bits (99), Expect = 3e-05
 Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 4/81 (4%)

Query: 7   EEGKKPEDHMTSAAAFVEGGIQDSCDDACSICLEEFSE----SDPSTVTSCKHEFHLQCV 62
                P                 S   +C IC++ +SE          T C H F  QC+
Sbjct: 47  NANTCPTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCL 106

Query: 63  LEWCQRSSQCPMCWQPISLKD 83
            +  + ++ CP C + I+ K 
Sbjct: 107 RDSLKNANTCPTCRKKINHKR 127

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

 Score = 51.6 bits (123), Expect = 3e-08
 Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 13/89 (14%)

Query: 32  DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD-------- 83
           +  C IC E F   +  T  +C H F   C+ EW +R  +CP+C + I  K         
Sbjct: 64  ELQCIICSEYFI--EAVT-LNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNC 120

Query: 84  --ATSQELLEAVEQERSIRANPPRNATIF 110
                  L   V++ R +     +   +F
Sbjct: 121 INKMVNNLSSEVKERRIVLIRERKAKRLF 149

>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 = 50.7 bits (121), Expect = 3e-08
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          CS C       +P  +  C+H F   CV +     + CP+C+ P  ++D
Sbjct: 25 CSRCTNILR--EPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQD 69

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

 Score = 52.1 bits (124), Expect = 1e-07
 Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 4/57 (7%)

Query: 28  QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLKD 83
             S    C IC E   +     +  C H     C+  W +     CP C   I   +
Sbjct: 328 MGSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

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

 Score = 51.8 bits (123), Expect = 2e-07
 Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 16/71 (22%)

Query: 28  QDSCDDACSICLEEFSESDPSTV-----TSCKHEFHLQCVLEWCQRSS-----------Q 71
           +D+ +  C+IC     +     +       C  + H  C+ EW +              Q
Sbjct: 304 EDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQ 363

Query: 72  CPMCWQPISLK 82
           CP C   +S  
Sbjct: 364 CPFCKAKLSTS 374

>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 = 48.3 bits (114), Expect = 2e-07
 Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 20/64 (31%)

Query: 32 DDACSICLEEFSESDPST---------------VTSCKHEFHLQCVLEWCQRSS-----Q 71
          ++ C IC+E+ + +   +               +T C H FHL C+L      +     Q
Sbjct: 25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 72 CPMC 75
          CP C
Sbjct: 85 CPSC 88

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

 Score = 45.2 bits (107), Expect = 8e-07
 Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 4/50 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCPMCWQPISLKD 83
          C  C        P   T C H F   C+      SS +C  C + I    
Sbjct: 18 CEKCHLVLC--SPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

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

 Score = 44.9 bits (106), Expect = 3e-06
 Identities = 19/50 (38%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKD 83
          C IC    +  DP   TSCKH F   C+L   +   S CP C  P    D
Sbjct: 26 CQICEHILA--DP-VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 43.4 bits (102), Expect = 3e-06
 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPI 79
          C+IC     +    +  +C    HL CV ++ Q +   +CP C    
Sbjct: 18 CNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>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 = 45.0 bits (106), Expect = 4e-06
 Identities = 17/93 (18%), Positives = 30/93 (32%), Gaps = 7/93 (7%)

Query: 7   EEGKKPEDHMTSAAAFVEGGIQDSCDD-ACSICLEEFSESDPSTVTSCKHEFHLQCVLE- 64
            E         ++ +  +  +    +   C  C E      P T T C+H     C+   
Sbjct: 26  NEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVF--RPIT-TVCQHNVCKDCLDRS 82

Query: 65  WCQRSSQCPMCWQPISLKDA--TSQELLEAVEQ 95
           +  +   CP C   +    A   +Q L   + Q
Sbjct: 83  FRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQ 115

>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} Length = 170

 Score = 45.1 bits (106), Expect = 7e-06
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 4/50 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ-CPMCWQPISLKD 83
          C ICL      +    T C H F   C+++  + +   CP+  + +    
Sbjct: 21 CPICLMALR--EA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 44.6 bits (105), Expect = 8e-06
 Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 8/70 (11%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLK-----DATSQE 88
           C ICL+     +  T   C H F   C++   +    +CP C + +  K     D     
Sbjct: 57  CPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDA 114

Query: 89  LLEAVEQERS 98
           L+  +   R 
Sbjct: 115 LISKIYPSRD 124

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

 Score = 42.9 bits (101), Expect = 8e-06
 Identities = 12/72 (16%), Positives = 28/72 (38%), Gaps = 15/72 (20%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ--------RSSQCPMC-------WQPI 79
          C +CL E+     +T+  C+  F   C+ ++ +         +  CP          Q  
Sbjct: 8  CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67

Query: 80 SLKDATSQELLE 91
           ++   + E+++
Sbjct: 68 EIECMVAAEIMQ 79

>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 = 1e-05
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 4/52 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ--CPMCWQPISLKDA 84
          C IC +  +  D   +  C + +  +C+      S +  CP C Q     DA
Sbjct: 18 CLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 67

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

 Score = 42.0 bits (98), Expect = 2e-05
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 2/60 (3%)

Query: 32 DDACSICLEEFSESDPS-TVTSCKHEFHLQCVLEW-CQRSSQCPMCWQPISLKDATSQEL 89
             C +C+E     D +    +C ++    C        +  CP C +P     A  + L
Sbjct: 11 PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPL 70

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

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 35 CSICLEEFSESD-PSTVTSCKHEFHLQCVLEWCQRSS---QCPMCWQPISLKDATS 86
          C IC+E F+E      +  C H    QC+ +    S    +CP C +   +   T 
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQ 73

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

 Score = 42.9 bits (101), Expect = 2e-05
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 4/50 (8%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ-CPMCWQPISLKD 83
          C ICL      +    T C H F   C+++  + +   CP+  + +    
Sbjct: 21 CPICLMALR--EA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 42.6 bits (100), Expect = 2e-05
 Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 10/67 (14%)

Query: 16 MTSAAAFVEGGIQDSCDD-ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCP 73
          M      +      S  +  C IC+E     +P T   C H     C     +++S  CP
Sbjct: 3  MALPKDAIP-----SLSECQCGICMEILV--EPVT-LPCNHTLCKPCFQSTVEKASLCCP 54

Query: 74 MCWQPIS 80
           C + +S
Sbjct: 55 FCRRRVS 61

>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 = 44.6 bits (104), Expect = 2e-05
 Identities = 14/78 (17%), Positives = 30/78 (38%), Gaps = 6/78 (7%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS--QCPM--CWQPISLKDATSQELL 90
           C I  + +    P     C H F    +  + Q  +   CP   C Q +S++D     ++
Sbjct: 184 CPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIM 241

Query: 91  EAVEQERSIRANPPRNAT 108
           E   +   ++ +  ++  
Sbjct: 242 ELRCKIAKMKESQEQDKR 259

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 15/47 (31%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL 81
          C  C  E     P  +  C H     C LE      QCP+C  P  L
Sbjct: 9  CQQCQAEA--KCP-KLLPCLHTLCSGC-LE--ASGMQCPICQAPWPL 49

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

 Score = 40.8 bits (96), Expect = 4e-05
 Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 6/52 (11%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWC---QRSSQCPMCWQPISLKD 83
          C ICL+      P T   C H F L+C+ +         +CP+C   +    
Sbjct: 23 CPICLDIL--QKPVT-IDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA 71

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

 Score = 40.0 bits (94), Expect = 5e-05
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 7/61 (11%)

Query: 19 AAAFVEGGIQDSCDDA-CSICLEEFSESDPSTVTSCKHEFHLQCVLEWC---QRSSQCPM 74
           ++   G +++   +A CS+CLE     +P     C H F   C+  W    +R   CP+
Sbjct: 1  GSSGSSGALENLQVEASCSVCLEYL--KEPVI-IECGHNFCKACITRWWEDLERDFPCPV 57

Query: 75 C 75
          C
Sbjct: 58 C 58

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

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 4/51 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPISLKD 83
          C IC +  +  D   +  C + +  +C+      S    CP C Q     D
Sbjct: 16 CLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

>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 = 39.9 bits (94), Expect = 8e-05
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 10/56 (17%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-------SQCPMCWQPISLKD 83
          C ICLE    ++P +   C H     C+    + +       S CP+C    S + 
Sbjct: 15 CPICLELL--TEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH 67

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

 Score = 39.9 bits (94), Expect = 8e-05
 Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 10/75 (13%)

Query: 16 MTSAAAFVEGGIQDSCDDA-CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----- 69
           + ++    G + +  ++  C ICLE    + P +   C H F   C+    ++S     
Sbjct: 2  SSGSSGMASGILVNVKEEVTCPICLELL--TQPLS-LDCGHSFCQACLTANHKKSMLDKG 58

Query: 70 -SQCPMCWQPISLKD 83
           S CP+C      ++
Sbjct: 59 ESSCPVCRISYQPEN 73

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

 Score = 41.3 bits (96), Expect = 1e-04
 Identities = 11/67 (16%), Positives = 18/67 (26%), Gaps = 4/67 (5%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDATSQELLEAV 93
           CS C        P     C H +   C+          C  C      ++  S     + 
Sbjct: 34  CSACRNVLR--RP-FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSA 90

Query: 94  EQERSIR 100
             + + R
Sbjct: 91  FPDNAAR 97

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWC---QRSSQCPMC 75
          C ICL+      P T   C H F L+C+ +         +CP+C
Sbjct: 23 CPICLDIL--QKPVT-IDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 = 40.0 bits (93), Expect = 3e-04
 Identities = 16/70 (22%), Positives = 20/70 (28%), Gaps = 9/70 (12%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCPMCWQPISLKDATS-----QE 88
           C  C E      P T T C H     C+    +     CP C   +            Q 
Sbjct: 81  CVCCQELVY--QPVT-TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQT 137

Query: 89  LLEAVEQERS 98
           LL+      S
Sbjct: 138 LLDLFFPGYS 147

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

 Score = 38.1 bits (89), Expect = 4e-04
 Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 16/82 (19%)

Query: 9  GKKPEDHMTSAAAFVEGGIQDSCDDA-CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ 67
          G      M S+       ++   ++  C ICLE     +P +   C H F   C+    +
Sbjct: 1  GSSGSSGMASSV------LEMIKEEVTCPICLELL--KEPVS-ADCNHSFCRACITLNYE 51

Query: 68 RS------SQCPMCWQPISLKD 83
           +        CP+C  P    +
Sbjct: 52 SNRNTDGKGNCPVCRVPYPFGN 73

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 37.2 bits (86), Expect = 6e-04
 Identities = 16/60 (26%), Positives = 20/60 (33%), Gaps = 5/60 (8%)

Query: 32 DDACSICLEEFSESDPST---VTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDATSQ 87
          D  C  C       +PS    V  C H     CV     R +  CP C  P+   +   Q
Sbjct: 3  DQGCPRCKTT-KYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

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

 Score = 36.7 bits (85), Expect = 6e-04
 Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 4/54 (7%)

Query: 28 QDSCDDACSICLEEFSESDPSTVTS-CKHEFH-LQCVLEWCQRSSQCPMCWQPI 79
            +    CS+C +     D + +     H      C     +  + CP+C + I
Sbjct: 3  CQNLLKPCSLCEKR--PRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI 54

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

 Score = 40.1 bits (93), Expect = 6e-04
 Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ--CPMC 75
           C+IC     +    +  +C    HL CV ++ Q +++  CP C
Sbjct: 183 CNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHC 223

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

 Score = 37.2 bits (86), Expect = 7e-04
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 8/63 (12%)

Query: 27 IQDSCDDACSICLEEFSESDPSTVTSCK-----HEFHLQCVLEWC--QRSSQCPMCWQPI 79
          I  S  D C IC  E  +  P  +T C      H  H  C+ +W     +  C +C    
Sbjct: 10 ITPSSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF 68

Query: 80 SLK 82
           ++
Sbjct: 69 IME 71

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	386
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.37
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.36
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.36
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.34
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.33
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.32
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.31
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.29
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.29
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.29
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.26
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.26
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.25
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.25
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.25
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.22
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.22
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.21
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.21
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.21
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.21
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.21
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.2
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.2
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.2
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.18
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.18
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.17
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.16
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.16
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.15
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.15
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.13
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.13
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.13
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.12
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.08
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.03
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.02
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.0
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.0
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.0
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.99
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.98
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.97
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.97
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.95
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.91
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.86
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.86
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.85
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.82
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.81
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.81
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.8
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.75
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.74
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.74
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.57
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.5
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.48
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.46
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.44
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.33
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.31
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.29
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.93
3nw0_A	238	Non-structural maintenance of chromosomes element	97.47
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.48
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.24
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	91.88
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	91.15
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	88.33
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	87.22
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	83.97
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	82.08
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	80.36

>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=99.37  E-value=5.2e-13  Score=101.55  Aligned_cols=55  Identities=29%  Similarity=0.765  Sum_probs=48.0

Q ss_pred             CCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      ....+..|+||++.|.....+.+++|+|.||..||..|+..+..||+||..|...
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            3445788999999997666788899999999999999999999999999998754

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

Probab=99.36  E-value=4.2e-13  Score=108.34  Aligned_cols=53  Identities=34%  Similarity=0.731  Sum_probs=46.6

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      ...+..|+||++.|..++.+..++|+|.||..||..|+..+..||+||..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34577899999999776667788999999999999999999999999998764

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

Probab=99.36  E-value=3.7e-13  Score=104.73  Aligned_cols=54  Identities=22%  Similarity=0.764  Sum_probs=47.5

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      ..+..|+||++.|.....+.+++|+|.||..||..|++.+..||+||..+...+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            347899999999966566677899999999999999999999999999988765

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

Probab=99.34  E-value=9.8e-13  Score=101.35  Aligned_cols=53  Identities=32%  Similarity=0.905  Sum_probs=46.5

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      ..+..|+||++.|.......+++|+|.||..||..|++.+..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            44789999999997666677789999999999999999999999999988653

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

Probab=99.33  E-value=6.2e-13  Score=96.66  Aligned_cols=50  Identities=30%  Similarity=0.802  Sum_probs=44.1

Q ss_pred             CCcccccccccccCCCCeeecc-cCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           31 CDDACSICLEEFSESDPSTVTS-CKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlp-CgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ++..|+||++.|..++.+..++ |+|.||..||..|++.+..||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4789999999997666667676 9999999999999999999999999874

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

Probab=99.32  E-value=6.5e-13  Score=102.90  Aligned_cols=53  Identities=30%  Similarity=0.767  Sum_probs=46.4

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      ..++..|+||++.|...+.+..++|+|.||..||..|++.+..||+||+.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            34578999999999766666778999999999999999999999999998865

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

Probab=99.31  E-value=1.4e-12  Score=100.44  Aligned_cols=52  Identities=29%  Similarity=0.562  Sum_probs=45.1

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      ++..|+||++.|  .+++.+++|+|.||..||..|++....||+||..+...++
T Consensus        14 ~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           14 PYILCSICKGYL--IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             GGGSCTTTSSCC--SSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCChHH--HCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            478999999999  4455556999999999999999999999999999887654

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

Probab=99.29  E-value=1.8e-12  Score=100.87  Aligned_cols=61  Identities=18%  Similarity=0.362  Sum_probs=49.3

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcchHHHHHHH
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      .++..|+||++.|.  + +++++|||.||..||..|+.. ...||+||..+...++..+..+..+
T Consensus         6 ~~~~~C~IC~~~~~--~-Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~   67 (78)
T 1t1h_A            6 PEYFRCPISLELMK--D-PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSL   67 (78)
T ss_dssp             SSSSSCTTTSCCCS--S-EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHH
T ss_pred             cccCCCCCcccccc--C-CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHH
Confidence            45889999999993  3 566799999999999999987 7789999999987766655444433

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

Probab=99.29  E-value=1.4e-12  Score=99.22  Aligned_cols=57  Identities=30%  Similarity=0.610  Sum_probs=47.9

Q ss_pred             CCCCCcccccccccccCC----CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           28 QDSCDDACSICLEEFSES----DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~----d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      ..+++..|+||++.|.+.    ..+.+++|+|.||..||..|+..+..||+||..+...+.
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            455688999999998541    334778999999999999999999999999999887654

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.29  E-value=8.2e-13  Score=108.39  Aligned_cols=61  Identities=26%  Similarity=0.648  Sum_probs=49.4

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCCCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      +..|+||++.|  .+++.+++|+|.||..||..|+... ..||+||..+...++.....+..+.
T Consensus        22 ~~~C~IC~~~~--~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~   83 (100)
T 3lrq_A           22 VFRCFICMEKL--RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVT   83 (100)
T ss_dssp             HTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHH
T ss_pred             CCCCccCCccc--cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHH
Confidence            78999999999  3444438999999999999999987 6999999999877766555544443

>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=99.26  E-value=3.3e-12  Score=92.65  Aligned_cols=51  Identities=35%  Similarity=0.706  Sum_probs=43.8

Q ss_pred             CCCcccccccccccCC-CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           30 SCDDACSICLEEFSES-DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        30 e~d~~C~ICle~f~~~-d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ..+..|+||++.|.+. ..+.+++|+|.||..||..|++....||+||..+.
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            3478999999998443 34778899999999999999999999999998874

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

Probab=99.26  E-value=2.3e-12  Score=104.83  Aligned_cols=61  Identities=23%  Similarity=0.592  Sum_probs=49.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      +..|+||++.|  .+++.+++|+|.||..||..|+.....||+||..+...++..+..+..+.
T Consensus        22 ~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i   82 (99)
T 2y43_A           22 LLRCGICFEYF--NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELV   82 (99)
T ss_dssp             HTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             CCCcccCChhh--CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHH
Confidence            78999999999  34444459999999999999999889999999999877666665555443

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

Probab=99.25  E-value=7.3e-12  Score=98.31  Aligned_cols=49  Identities=33%  Similarity=0.716  Sum_probs=43.0

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ...+..|+||++.|.  + +++++|+|.||..||..|+.....||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQ--N-PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCC--S-EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhc--C-eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            344779999999993  3 567899999999999999999999999999986

>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=99.25  E-value=5.2e-12  Score=105.00  Aligned_cols=54  Identities=33%  Similarity=0.679  Sum_probs=42.5

Q ss_pred             CCCCcccccccccccCCC---------------CeeecccCCcccHHHHHHHHh-----cCCCCCCCcccCCCC
Q 016632           29 DSCDDACSICLEEFSESD---------------PSTVTSCKHEFHLQCVLEWCQ-----RSSQCPMCWQPISLK   82 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d---------------~~~vlpCgH~FC~~CI~~Wlq-----~~~sCP~CR~~i~~~   82 (386)
                      ...+..|+||++.|....               .+.+++|+|.||..||..|+.     .+..||+||..+..+
T Consensus        22 ~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            344679999999985421               233789999999999999994     467899999988654

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

Probab=99.25  E-value=5e-12  Score=95.32  Aligned_cols=52  Identities=31%  Similarity=0.659  Sum_probs=43.9

Q ss_pred             CCCcccccccccccCC----CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           30 SCDDACSICLEEFSES----DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        30 e~d~~C~ICle~f~~~----d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .++..|+||++.|.+.    ..+.+++|+|.||..||..|+..+..||+||..|..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4478999999998542    224778999999999999999999999999998764

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

Probab=99.22  E-value=5.5e-12  Score=99.88  Aligned_cols=53  Identities=28%  Similarity=0.695  Sum_probs=42.1

Q ss_pred             CCCcccccccccccC-----------CCCe-eecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           30 SCDDACSICLEEFSE-----------SDPS-TVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        30 e~d~~C~ICle~f~~-----------~d~~-~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      .+++.|+||++.|.+           .+.+ .+++|+|.||..||..|+..+.+||+||+.+...
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            347789999988843           2223 4456999999999999999999999999988654

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

Probab=99.22  E-value=5.9e-12  Score=95.27  Aligned_cols=49  Identities=33%  Similarity=0.855  Sum_probs=43.6

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .+..|+||++.+  .+++.+++|+|.||..||..|+..+..||+||..+..
T Consensus         4 ~~~~C~IC~~~~--~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCC--CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccc--cCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            477899999998  4556888999999999999999999999999998763

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

Probab=99.21  E-value=5.9e-12  Score=96.59  Aligned_cols=50  Identities=28%  Similarity=0.547  Sum_probs=43.3

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      ..++..|+||++.|.+   +++++|+|.||..||..|+.....||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            3457899999999833   5667999999999999999999999999999864

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

Probab=99.21  E-value=5.5e-12  Score=93.73  Aligned_cols=54  Identities=30%  Similarity=0.623  Sum_probs=45.6

Q ss_pred             CCcccccccccccCC----CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSES----DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~----d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      ++..|+||++.|...    ..+.+++|+|.||..||..|+..+..||+||..+...+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            468999999998531    234778999999999999999999999999999887653

>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=99.21  E-value=8.2e-12  Score=103.26  Aligned_cols=50  Identities=26%  Similarity=0.628  Sum_probs=43.5

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      ++..|+||++.|  .+++.+++|+|.||..||..|+.....||+||..+...
T Consensus        14 ~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYF--IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBC--SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHH--hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            378999999999  44444459999999999999999999999999998865

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

Probab=99.21  E-value=1.1e-11  Score=99.23  Aligned_cols=61  Identities=23%  Similarity=0.457  Sum_probs=46.9

Q ss_pred             CCcccccccccccCCCCeeecc-cCCcccHHHHHHHHhcC--CCCCCCcccC-CCCCcchHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTS-CKHEFHLQCVLEWCQRS--SQCPMCWQPI-SLKDATSQELLEAVE   94 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlp-CgH~FC~~CI~~Wlq~~--~sCP~CR~~i-~~~d~~~~~lle~ve   94 (386)
                      ++..|+||++.|.  + +++++ |+|.||..||..|+...  ..||+||..+ ...++..+..+..+.
T Consensus        12 ~~~~C~IC~~~~~--~-p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i   76 (92)
T 3ztg_A           12 DELLCLICKDIMT--D-AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAV   76 (92)
T ss_dssp             TTTEETTTTEECS--S-CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHH
T ss_pred             cCCCCCCCChhhc--C-ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHH
Confidence            4789999999993  4 45668 99999999999999754  5899999997 455555555554433

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

Probab=99.21  E-value=3.9e-12  Score=110.00  Aligned_cols=49  Identities=35%  Similarity=0.833  Sum_probs=43.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      ++.|+||++.|.  + +++++|||.||..||..|+..+..||+||..+....
T Consensus        53 ~~~C~iC~~~~~--~-~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           53 ELQCIICSEYFI--E-AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT  101 (138)
T ss_dssp             HSBCTTTCSBCS--S-EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEE
T ss_pred             cCCCcccCcccC--C-ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCC
Confidence            678999999993  3 667899999999999999999999999999987654

>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=99.20  E-value=9.2e-12  Score=105.41  Aligned_cols=60  Identities=20%  Similarity=0.359  Sum_probs=48.4

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCC-CCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISL-KDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~-~d~~~~~lle~ve   94 (386)
                      +..|+||++.|.  + +++++|||.||..||..|+... ..||+||..+.. .++..+..+..+.
T Consensus        52 ~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i  113 (124)
T 3fl2_A           52 TFQCICCQELVF--R-PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVL  113 (124)
T ss_dssp             HTBCTTTSSBCS--S-EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHH
T ss_pred             CCCCCcCChHHc--C-cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHH
Confidence            679999999993  3 5667999999999999999854 489999999987 5566665555544

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

Probab=99.20  E-value=1.1e-11  Score=94.89  Aligned_cols=50  Identities=24%  Similarity=0.656  Sum_probs=42.5

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHh---cCCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ---RSSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq---~~~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|.  + +.+++|+|.||..||..|++   ....||+||..+...+
T Consensus        19 ~~~~C~IC~~~~~--~-~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           19 EEVICPICLDILQ--K-PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCBCTTTCSBCS--S-EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             cCCEeccCCcccC--C-eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            4789999999983  3 56679999999999999997   4568999999987654

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

Probab=99.20  E-value=1.3e-11  Score=97.40  Aligned_cols=53  Identities=26%  Similarity=0.595  Sum_probs=44.6

Q ss_pred             CCcccccccccccCCCC-eeecccCCcccHHHHHHHHhcC---CCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQRS---SQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|.+.+. +++++|+|.||..||..|+...   ..||+||..+...+
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            47899999999955432 6778999999999999999876   78999999887653

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

Probab=99.18  E-value=1.8e-11  Score=98.00  Aligned_cols=61  Identities=10%  Similarity=-0.047  Sum_probs=51.6

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      +++.|+||++.|.  + +++++|||.||..||..|+.....||+|+..+...++.++..+....
T Consensus        13 ~~~~CpI~~~~m~--d-PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i   73 (85)
T 2kr4_A           13 DEFRDPLMDTLMT--D-PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQI   73 (85)
T ss_dssp             TTTBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             hheECcccCchhc--C-CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHH
Confidence            3889999999993  3 66678999999999999999889999999999988877776655443

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

Probab=99.18  E-value=1.5e-11  Score=92.96  Aligned_cols=50  Identities=24%  Similarity=0.517  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.+.  ++ .+++|+|.||..||..|+. ....||+||..+...+
T Consensus        14 ~~~~C~IC~~~~~--~p-~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           14 DKYKCEKCHLVLC--SP-KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCEECTTTCCEES--SC-CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             cCCCCCCCChHhc--Ce-eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            3789999999993  44 4479999999999999995 5678999999987654

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

Probab=99.17  E-value=1.6e-11  Score=95.10  Aligned_cols=50  Identities=26%  Similarity=0.525  Sum_probs=41.6

Q ss_pred             CCcccccccccccCCCCeeecc-cCCcccHHHHHHHHhcC--CCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTS-CKHEFHLQCVLEWCQRS--SQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlp-CgH~FC~~CI~~Wlq~~--~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|  .+ +++++ |+|.||..||..|+...  ..||+||+.+...+
T Consensus        14 ~~~~C~IC~~~~--~~-p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           14 DELLCLICKDIM--TD-AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             GGGSCSSSCCCC--TT-CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCcCCChHH--hC-CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            478999999999  34 45567 99999999999999865  68999999866544

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

Probab=99.16  E-value=1.8e-11  Score=95.55  Aligned_cols=50  Identities=26%  Similarity=0.702  Sum_probs=42.7

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc------CCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR------SSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~------~~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|.  + +.+++|+|.||..||..|+..      ...||+||..+...+
T Consensus        18 ~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           18 EEVTCPICLELLK--E-PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             TTTSCTTTCSCCS--S-CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             cCCCCcCCChhhC--c-ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            3789999999983  3 456799999999999999987      668999999987654

>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=99.16  E-value=3.4e-11  Score=99.54  Aligned_cols=63  Identities=11%  Similarity=-0.022  Sum_probs=53.3

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQE   96 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~e   96 (386)
                      +++.|+||++.|.  + +++++|||.||..||..|+.....||+|+.++...++.++..+......
T Consensus        28 ~~~~CpI~~~~m~--d-PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~   90 (100)
T 2kre_A           28 DEFRDPLMDTLMT--D-PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQA   90 (100)
T ss_dssp             TTTBCTTTCSBCS--S-EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHH
T ss_pred             HhhCCcCccCccc--C-CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHH
Confidence            3789999999993  3 5666899999999999999988899999999998888887766655443

>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=99.15  E-value=3e-11  Score=99.52  Aligned_cols=63  Identities=11%  Similarity=0.073  Sum_probs=53.4

Q ss_pred             CCcccccccccccCCCCeeecccC-CcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCK-HEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQE   96 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCg-H~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~e   96 (386)
                      +++.|+||++.|.  + +++++|+ |.||..||..|+.....||+|+.++...++.++..+......
T Consensus        21 ~~~~CpI~~~~m~--d-PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~   84 (98)
T 1wgm_A           21 DEFLDPIMSTLMC--D-PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQR   84 (98)
T ss_dssp             TTTBCTTTCSBCS--S-EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHH
T ss_pred             HhcCCcCcccccc--C-CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHH
Confidence            4889999999993  3 6667999 999999999999988899999999998888877766655443

>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=99.15  E-value=2e-11  Score=102.19  Aligned_cols=52  Identities=23%  Similarity=0.611  Sum_probs=43.6

Q ss_pred             CCCcccccccccccCC---------------CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           30 SCDDACSICLEEFSES---------------DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        30 e~d~~C~ICle~f~~~---------------d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .+++.|+||++.|...               ..+.+++|+|.||..||..|+..+.+||+||+.+..
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            3578899999998532               125668999999999999999999999999998754

>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=99.14  E-value=4e-11  Score=105.69  Aligned_cols=62  Identities=19%  Similarity=0.410  Sum_probs=50.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCC-CCCCCcccCCCC-CcchHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCPMCWQPISLK-DATSQELLEAVEQ   95 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~-sCP~CR~~i~~~-d~~~~~lle~ve~   95 (386)
                      ++..|+||++.|.  + +++++|+|.||..||..|+.... .||+||..+... .+..+..+..+..
T Consensus        77 ~~~~C~IC~~~~~--~-pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~  140 (150)
T 1z6u_A           77 QSFMCVCCQELVY--Q-PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLD  140 (150)
T ss_dssp             HHTBCTTTSSBCS--S-EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHH
T ss_pred             cCCEeecCChhhc--C-CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHH
Confidence            3679999999983  3 56689999999999999998754 899999999877 5666666555543

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

Probab=99.13  E-value=9.4e-12  Score=94.79  Aligned_cols=50  Identities=24%  Similarity=0.820  Sum_probs=43.6

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      .++..|+||++.+.+    .+++|+|.||..||..|+.....||+||..+...+
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            347899999999833    67899999999999999999999999999987654

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

Probab=99.13  E-value=2.3e-11  Score=94.87  Aligned_cols=50  Identities=26%  Similarity=0.636  Sum_probs=42.8

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc------CCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR------SSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~------~~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|.  + +.+++|+|.||..||..|+..      ...||+||..+...+
T Consensus        18 ~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           18 EEVTCPICLELLT--Q-PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCTTTCSCCS--S-CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             CCCCCCCCCcccC--C-ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            3789999999983  3 456799999999999999987      678999999988654

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

Probab=99.13  E-value=7.9e-12  Score=96.95  Aligned_cols=50  Identities=26%  Similarity=0.604  Sum_probs=42.3

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-------CCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-------SSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-------~~sCP~CR~~i~~~d   83 (386)
                      ++..|+||++.|.  + +++++|+|.||..||..|+..       ...||+||..+...+
T Consensus        11 ~~~~C~IC~~~~~--~-p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           11 EEVTCPICLELLT--E-PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCEETTTTEECS--S-CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             cCCCCcCCCcccC--C-eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            3789999999983  3 455799999999999999976       568999999987654

>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=99.12  E-value=2.2e-11  Score=107.87  Aligned_cols=61  Identities=21%  Similarity=0.591  Sum_probs=46.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCC-CCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISL-KDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~-~d~~~~~lle~ve   94 (386)
                      +..|+||++.|  .+++.+++|+|.||..||..|+.. ...||+||..+.. ..+..+..+..+.
T Consensus        54 ~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i  116 (165)
T 2ckl_B           54 ELMCPICLDML--KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALI  116 (165)
T ss_dssp             HHBCTTTSSBC--SSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHH
T ss_pred             CCCCcccChHh--hCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHH
Confidence            66999999999  445555599999999999999987 7789999999854 3344444444433

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

Probab=99.08  E-value=8.1e-11  Score=87.91  Aligned_cols=42  Identities=29%  Similarity=0.794  Sum_probs=35.9

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHh---cCCCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ---RSSQCPMC   75 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq---~~~sCP~C   75 (386)
                      ++..|+||++.|.  + +++++|+|.||..||..|++   ....||+|
T Consensus        19 ~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQ--K-PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCS--S-CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhC--C-eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4789999999983  3 56669999999999999998   45689998

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

Probab=99.06  E-value=8e-11  Score=88.59  Aligned_cols=54  Identities=24%  Similarity=0.535  Sum_probs=42.5

Q ss_pred             CCcccccccc-cccCCCC-eeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLE-EFSESDP-STVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle-~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~   84 (386)
                      ++..|+||++ .|..... ..+++|||.||..||..|+.. ...||+||..+...+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            4788999999 7743221 246799999999999999765 4679999999887654

>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=99.05  E-value=3.3e-11  Score=99.40  Aligned_cols=50  Identities=34%  Similarity=0.701  Sum_probs=41.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC---CCCCCCcccCCCCCc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS---SQCPMCWQPISLKDA   84 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~~i~~~d~   84 (386)
                      +..|+||++.|.  + +.+++|+|.||..||..|+...   ..||+||..+...++
T Consensus        21 ~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           21 ILECPICLELIK--E-PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HTSCSSSCCCCS--S-CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCcccChhhc--C-eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            678999999983  3 4557999999999999999865   389999999876543

>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=99.05  E-value=9.1e-11  Score=98.65  Aligned_cols=62  Identities=18%  Similarity=0.428  Sum_probs=49.3

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCC-CCCCCcccCCCCCcchHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~-sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      ++..|+||++.|.  + ++.++|+|.||..||..|+.... .||+||..+...+......+.....
T Consensus        17 ~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~   79 (118)
T 3hct_A           17 SKYECPICLMALR--E-AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREIL   79 (118)
T ss_dssp             GGGBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             CCCCCCcCChhhc--C-eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHc
Confidence            3789999999983  3 56679999999999999998765 9999999998776555555444443

>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=99.03  E-value=5.6e-11  Score=99.83  Aligned_cols=58  Identities=26%  Similarity=0.637  Sum_probs=47.0

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      +..|+||++.|  .+++.+.+|||.||..||..|+.  ..||+||..+...++..+..+..+
T Consensus        22 ~~~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~n~~l~~l   79 (117)
T 1jm7_B           22 LLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSM   79 (117)
T ss_dssp             TTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHH
T ss_pred             CCCCCCCChHh--hCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccccccHHHHHH
Confidence            78999999999  44444449999999999999997  789999999987777665554443

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

Probab=99.02  E-value=1e-10  Score=98.20  Aligned_cols=55  Identities=31%  Similarity=0.628  Sum_probs=46.1

Q ss_pred             CCCcccccccccccCC----CCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           30 SCDDACSICLEEFSES----DPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        30 e~d~~C~ICle~f~~~----d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      .++..|+||++.|.+.    ..+++++|||.||..||..|++....||+||+.+...+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            4578999999998541    234778999999999999999999999999999876543

>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=99.00  E-value=4.8e-11  Score=99.53  Aligned_cols=49  Identities=24%  Similarity=0.622  Sum_probs=41.5

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISL   81 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~   81 (386)
                      .++..|+||++.|.  + +++++|+|.||..||..|+.. ...||+||..+..
T Consensus        13 ~~~~~C~iC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILV--E-PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCS--S-CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccC--c-eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            34789999999983  3 566699999999999999976 6689999999863

>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=99.00  E-value=4.5e-11  Score=101.89  Aligned_cols=53  Identities=23%  Similarity=0.646  Sum_probs=1.5

Q ss_pred             CCCcccccccccccCC-------------C--CeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           30 SCDDACSICLEEFSES-------------D--PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        30 e~d~~C~ICle~f~~~-------------d--~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      ..++.|+||++.|...             +  .+..++|+|.||..||..|+..+.+||+||+.+..+
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             CCC-----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            3468999999998431             1  233469999999999999999999999999987543

>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=99.00  E-value=2.5e-10  Score=92.83  Aligned_cols=63  Identities=21%  Similarity=0.430  Sum_probs=50.3

Q ss_pred             CCcccccccccccCCCCeeec-ccCCcccHHHHHHHHhcC------CCCCC--Cccc-CCCCCcchHHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVT-SCKHEFHLQCVLEWCQRS------SQCPM--CWQP-ISLKDATSQELLEAVEQE   96 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vl-pCgH~FC~~CI~~Wlq~~------~sCP~--CR~~-i~~~d~~~~~lle~ve~e   96 (386)
                      .++.|+||++.|  .+ ++++ .|||.||..||..|+...      ..||+  |+.. +...++.++..+..+...
T Consensus         6 ~~~~CPI~~~~~--~d-PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~   78 (94)
T 2yu4_A            6 SGFTCPITKEEM--KK-PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIEN   78 (94)
T ss_dssp             SCCBCTTTCSBC--SS-EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHH
T ss_pred             cEeECcCcCchh--cC-CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHH
Confidence            478999999999  34 5555 599999999999999753      48999  9887 877888777766655544

>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=98.99  E-value=2e-10  Score=107.75  Aligned_cols=64  Identities=14%  Similarity=0.129  Sum_probs=52.2

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCCCcchHHHHHHHHH
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      ...+..|+||++.|.  + |++++|||.||..||..|+... ..||+|+.++...++.++..+..+..
T Consensus       205 ~~~~~~c~i~~~~~~--d-Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~  269 (281)
T 2c2l_A          205 IPDYLCGKISFELMR--E-PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVID  269 (281)
T ss_dssp             CCSTTBCTTTCSBCS--S-EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHH
T ss_pred             CCcccCCcCcCCHhc--C-CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHH
Confidence            345889999999993  3 6667999999999999999864 45999999999888877776665544

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

Probab=98.98  E-value=2e-10  Score=83.81  Aligned_cols=42  Identities=33%  Similarity=1.017  Sum_probs=35.3

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHh---cCCCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ---RSSQCPMC   75 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq---~~~sCP~C   75 (386)
                      ++..|+||++.|.  + +++++|+|.||..||..|+.   ....||+|
T Consensus        14 ~~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLK--E-PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCS--S-CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccC--c-cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4789999999993  3 45679999999999999954   46789998

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

Probab=98.97  E-value=2.8e-10  Score=90.56  Aligned_cols=54  Identities=30%  Similarity=0.689  Sum_probs=44.3

Q ss_pred             CCCCCcccccccccccCCCCeeecccC-----CcccHHHHHHHHhcC--CCCCCCcccCCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCK-----HEFHLQCVLEWCQRS--SQCPMCWQPISLK   82 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCg-----H~FC~~CI~~Wlq~~--~sCP~CR~~i~~~   82 (386)
                      .+.++..|.||++.|.++++ .+++|.     |.||..||.+|+..+  ..||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            34557899999999866555 468996     999999999999865  4899999998754

>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=98.97  E-value=1.5e-10  Score=96.73  Aligned_cols=50  Identities=36%  Similarity=0.655  Sum_probs=43.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDA   84 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~   84 (386)
                      +..|+||++.|.  + ++.++|+|.||..||..|+.. ...||+||..+...++
T Consensus        23 ~~~C~IC~~~~~--~-p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           23 SISCQICEHILA--D-PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HTBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCcHhc--C-cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            789999999983  3 566899999999999999987 6789999999887654

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

Probab=98.95  E-value=5e-10  Score=88.62  Aligned_cols=53  Identities=19%  Similarity=0.434  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCCCCeeecc--cCCcccHHHHHHHHhc-CCCCCCCcccCCCCC
Q 016632           30 SCDDACSICLEEFSESDPSTVTS--CKHEFHLQCVLEWCQR-SSQCPMCWQPISLKD   83 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlp--CgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d   83 (386)
                      +++..|+||++.|...+ +.+++  |||.||..||..|+.. ...||+||+.+...+
T Consensus         9 ~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            34789999999984433 34444  9999999999999854 568999999987654

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

Probab=98.91  E-value=2.9e-10  Score=95.41  Aligned_cols=57  Identities=30%  Similarity=0.608  Sum_probs=47.4

Q ss_pred             CCCCCcccccccccccC----CCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           28 QDSCDDACSICLEEFSE----SDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        28 qde~d~~C~ICle~f~~----~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      .++++..|+||++.|..    ...+..++|+|.||..||..|++....||+||..+...+.
T Consensus        68 i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~  128 (133)
T 4ap4_A           68 IGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY  128 (133)
T ss_dssp             CSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGE
T ss_pred             cCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcc
Confidence            35568899999999853    1234778999999999999999999999999999887653

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

Probab=98.86  E-value=5.4e-10  Score=97.52  Aligned_cols=48  Identities=17%  Similarity=0.404  Sum_probs=40.8

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCC-CCCCCcccCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS-QCPMCWQPISL   81 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~-sCP~CR~~i~~   81 (386)
                      ++..|+||++.|.  + ++.++|||.||..||..|+.... .||+||..+..
T Consensus        30 ~~~~C~IC~~~~~--~-pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           30 AKYLCSACRNVLR--R-PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GGGBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCcCCCCCChhhc--C-cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            3789999999993  3 56679999999999999998664 89999998654

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

Probab=98.86  E-value=1.6e-09  Score=98.61  Aligned_cols=64  Identities=14%  Similarity=0.138  Sum_probs=52.4

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCCCcchHHHHHHHHHH
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAVEQE   96 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~d~~~~~lle~ve~e   96 (386)
                      ..++.||||++.|.  + |++++|||.||..||..|+... .+||+|+.++...++.++..+......
T Consensus       104 p~~f~CPI~~elm~--D-PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~  168 (179)
T 2f42_A          104 PDYLCGKISFELMR--E-PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDA  168 (179)
T ss_dssp             CGGGBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHH
T ss_pred             cHhhcccCccccCC--C-CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHH
Confidence            34889999999994  3 6667999999999999999864 469999999998888877766655443

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

Probab=98.85  E-value=5.8e-10  Score=82.18  Aligned_cols=49  Identities=24%  Similarity=0.467  Sum_probs=40.3

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      +.++..|+||++.|.  + +++++|+|.||..||..|   ...||+||+.+...+
T Consensus         3 e~~~~~C~IC~~~~~--~-p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            3 EFQFLRCQQCQAEAK--C-PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             SCCCSSCSSSCSSCB--C-CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cccCCCceEeCCccC--C-eEEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            456889999999994  3 567899999999999874   568999999987643

>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=98.82  E-value=2.1e-09  Score=81.48  Aligned_cols=48  Identities=25%  Similarity=0.594  Sum_probs=41.0

Q ss_pred             CCCcccccccccccCCCCeeec--ccCCc-ccHHHHHHHHhcCCCCCCCcccCC
Q 016632           30 SCDDACSICLEEFSESDPSTVT--SCKHE-FHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vl--pCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      +++..|.||++.+.  + +.++  +|||. ||..|+..|+.....||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~~--~-~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPK--N-GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCS--C-EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCC--C-EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            45789999999973  3 4544  99999 899999999998899999999875

>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=98.81  E-value=1.4e-09  Score=104.37  Aligned_cols=61  Identities=23%  Similarity=0.505  Sum_probs=51.2

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC--CCCCC--CcccCCCCCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--SQCPM--CWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~--~sCP~--CR~~i~~~d~~~~~lle~ve   94 (386)
                      +..||||++.|  .+|++.+.|||.||..||..|+...  ..||+  |++.+...++.++..+..+.
T Consensus       181 el~CPIcl~~f--~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lv  245 (267)
T 3htk_C          181 ELTCPITCKPY--EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRC  245 (267)
T ss_dssp             CSBCTTTSSBC--SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHH
T ss_pred             eeECcCccCcc--cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHH
Confidence            77999999999  5666667999999999999999764  47999  99999988888776665543

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

Probab=98.81  E-value=2.1e-09  Score=95.40  Aligned_cols=61  Identities=18%  Similarity=0.440  Sum_probs=48.4

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCCCcchHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      +++.|+||++.|.  + ++.++|||.||..||..|+... ..||+||..+...+......+....
T Consensus        17 ~~~~C~IC~~~~~--~-pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i   78 (170)
T 3hcs_A           17 SKYECPICLMALR--E-AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREI   78 (170)
T ss_dssp             GGGBCTTTCSBCS--S-EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             CCCCCCCCChhhc--C-cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHH
Confidence            3789999999993  3 5668999999999999999764 4899999999876655554444433

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

Probab=98.80  E-value=4.5e-09  Score=82.74  Aligned_cols=50  Identities=24%  Similarity=0.579  Sum_probs=41.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC--CCCCCCcccCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPISLKD   83 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~--~sCP~CR~~i~~~d   83 (386)
                      ...|.||++.|..+  .....|+|.||..||..|++.+  .+||+|+..|....
T Consensus        15 i~~C~IC~~~i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           15 VKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SCBCSSSCCBCSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCcCcchhhHcccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            56899999999543  3445899999999999999887  78999999987543

>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=98.75  E-value=4.8e-09  Score=105.70  Aligned_cols=48  Identities=25%  Similarity=0.619  Sum_probs=41.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHh-cCCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq-~~~sCP~CR~~i~~~   82 (386)
                      +..|+||++.+.   .++.++|+|.||..||..|+. ....||+||..+...
T Consensus       332 ~~~C~ICle~~~---~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBC---CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCC---CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            479999999983   367789999999999999998 678999999988754

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

Probab=98.74  E-value=1.8e-09  Score=83.82  Aligned_cols=43  Identities=28%  Similarity=0.716  Sum_probs=37.6

Q ss_pred             CcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +..|+||++.+.+   +..++|+|. ||..|+..|    ..||+||..+..
T Consensus        24 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            6799999999833   667799999 999999998    889999998764

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

Probab=98.74  E-value=4.8e-09  Score=79.25  Aligned_cols=48  Identities=21%  Similarity=0.500  Sum_probs=40.4

Q ss_pred             CCCcccccccccccCCCCeeec--ccCCc-ccHHHHHHHHhcCCCCCCCcccCC
Q 016632           30 SCDDACSICLEEFSESDPSTVT--SCKHE-FHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vl--pCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      +.+..|.||++.+.  + +.++  +|||. ||..|+..|++....||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~--~-~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPR--D-GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBS--C-EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCC--C-eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            34678999999873  2 3444  99998 999999999988889999999885

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

Probab=98.57  E-value=1.3e-08  Score=79.01  Aligned_cols=44  Identities=30%  Similarity=0.736  Sum_probs=36.5

Q ss_pred             CcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      +..|+||++.+.+   +.+++|+|. ||..|+..    ...||+||..+...
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            6789999999833   667899999 99999954    47899999988653

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

Probab=98.50  E-value=7e-08  Score=74.09  Aligned_cols=47  Identities=26%  Similarity=0.552  Sum_probs=38.7

Q ss_pred             CCCCCcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      .++++..|.||++.+.   .+.+++|+|. ||..|+..    ...||+||..|..
T Consensus        11 ~~~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            3445789999999973   3677899999 99999973    5789999998864

>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=98.48  E-value=4.5e-08  Score=73.85  Aligned_cols=51  Identities=12%  Similarity=0.281  Sum_probs=43.1

Q ss_pred             CcccccccccccCCCCeeec-ccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcc
Q 016632           32 DDACSICLEEFSESDPSTVT-SCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDAT   85 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vl-pCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~   85 (386)
                      ...|+||++.+.  + ++++ +|||.|+..||.+|+..+..||++++++...++.
T Consensus         3 ~~~CpIs~~~m~--d-PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Li   54 (61)
T 2bay_A            3 HMLCAISGKVPR--R-PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV   54 (61)
T ss_dssp             -CCCTTTCSCCS--S-EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCE
T ss_pred             eEEecCCCCCCC--C-CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcE
Confidence            468999999993  4 5555 8999999999999999888899999999877653

>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=98.46  E-value=5.8e-08  Score=78.25  Aligned_cols=48  Identities=23%  Similarity=0.654  Sum_probs=37.1

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc--------CCCCCC--Cccc
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR--------SSQCPM--CWQP   78 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~--------~~sCP~--CR~~   78 (386)
                      .+.+|+||++.+...+...+++|+|.||..||..|+..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            47889999999844222333579999999999999863        136999  9988

>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=98.44  E-value=3.8e-08  Score=77.67  Aligned_cols=43  Identities=28%  Similarity=0.624  Sum_probs=36.7

Q ss_pred             CcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +..|+||++.+.+   +..++|||. ||..|+..|    ..||+||..+..
T Consensus        18 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            6789999999733   677899999 999999877    399999998764

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

Probab=98.33  E-value=9.8e-08  Score=94.74  Aligned_cols=53  Identities=26%  Similarity=0.612  Sum_probs=40.4

Q ss_pred             CCCCcccccccccccCCCC-e----eecccCCcccHHHHHHHHhcC-----------CCCCCCcccCCC
Q 016632           29 DSCDDACSICLEEFSESDP-S----TVTSCKHEFHLQCVLEWCQRS-----------SQCPMCWQPISL   81 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~-~----~vlpCgH~FC~~CI~~Wlq~~-----------~sCP~CR~~i~~   81 (386)
                      ++...+|+||++.+.+... +    .-+.|+|.||..||.+|++..           ..||+||++|..
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            3456789999999865222 2    125899999999999999752           359999998764

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

Probab=98.31  E-value=4.8e-07  Score=68.05  Aligned_cols=51  Identities=24%  Similarity=0.570  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccccCCCCeeecccC--C---cccHHHHHHHHhc--CCCCCCCcccCCC
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCK--H---EFHLQCVLEWCQR--SSQCPMCWQPISL   81 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCg--H---~FC~~CI~~Wlq~--~~sCP~CR~~i~~   81 (386)
                      +++++..|.||++..  +++ .++||.  +   .||..||..|+..  +..||+|+..+..
T Consensus         2 e~~~~~~CrIC~~~~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            2 EDEDVPVCWICNEEL--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TTCSCCEETTTTEEC--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCEeEEeecCC--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456788999999985  333 357865  4   9999999999974  5689999998764

>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=98.29  E-value=1.2e-07  Score=94.26  Aligned_cols=43  Identities=21%  Similarity=0.623  Sum_probs=37.4

Q ss_pred             CcccccccccccCCCCeeecccCCc-ccHHHHHHHHhcCCCCCCCcccCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHE-FHLQCVLEWCQRSSQCPMCWQPISL   81 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~-FC~~CI~~Wlq~~~sCP~CR~~i~~   81 (386)
                      +..|+||++.+.+   ++.++|+|. ||..|+..|    ..||+||..+..
T Consensus       295 ~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            6899999999833   677799999 999999988    789999998864

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

Probab=97.93  E-value=4.8e-06  Score=68.91  Aligned_cols=46  Identities=24%  Similarity=0.569  Sum_probs=38.5

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCC
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISL   81 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~   81 (386)
                      .|++|--.+  ....++.||+|.||..|+..|.+. .+.||.|+.++..
T Consensus         3 fC~~C~~Pi--~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPI--KVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBC--SEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCe--EEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            488898887  344678899999999999999865 6789999998864

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

Probab=97.47  E-value=7.4e-05  Score=70.50  Aligned_cols=50  Identities=24%  Similarity=0.583  Sum_probs=41.1

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCC--CCCCCcccCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS--QCPMCWQPISLKD   83 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~--sCP~CR~~i~~~d   83 (386)
                      -..|.||.+.+..+  .....|+|.||..|+..|++.+.  .||.|+..|....
T Consensus       180 i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          180 VKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             CCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             CCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            56899999998543  45556999999999999998654  8999999887654

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

Probab=95.24  E-value=0.012  Score=47.32  Aligned_cols=35  Identities=17%  Similarity=0.418  Sum_probs=26.0

Q ss_pred             CCcccccccccccCCCCe-eecccCCcccHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPS-TVTSCKHEFHLQCVLEWC   66 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~-~vlpCgH~FC~~CI~~Wl   66 (386)
                      ++..|.||++.+.. +++ ..+.|+|.||..|+..|.
T Consensus         2 ee~~C~~C~~~~~~-~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQ-DAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCC-BCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCC-CceEECCcCChHHhHHHCHHHh
Confidence            47899999986421 222 238999999999999843

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

Probab=91.88  E-value=0.12  Score=39.27  Aligned_cols=54  Identities=22%  Similarity=0.485  Sum_probs=37.9

Q ss_pred             hhcCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC----CCCCCCcccC
Q 016632           23 VEGGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----SQCPMCWQPI   79 (386)
Q Consensus        23 v~~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~----~sCP~CR~~i   79 (386)
                      ++++.....+..|.||.+.   ++-+..-.|...||..|+...+...    -.||.|....
T Consensus         3 ~E~~~~~~~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            3 MEGQQNLAPGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTTTCCCTTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             cccccCCCCCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            3444445557789999865   3434446788999999998777553    3699997643

>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=91.15  E-value=0.18  Score=55.94  Aligned_cols=61  Identities=15%  Similarity=0.151  Sum_probs=50.2

Q ss_pred             CCCcccccccccccCCCCeeecccC-CcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHH
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCK-HEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCg-H~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      -++..|||-++.+.  | |++++.| +.|-..+|..|+..+.+||+=|.++...++.++..+...
T Consensus       889 P~~F~cPIs~~lM~--D-PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~Lk~~  950 (968)
T 3m62_A          889 PDEFLDPLMYTIMK--D-PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQK  950 (968)
T ss_dssp             CGGGBCTTTCSBCS--S-EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             cHHhCCcchhhHHh--C-CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHHHHH
Confidence            34778999999983  3 6667887 689999999999999999999999998887777655443

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=88.33  E-value=0.34  Score=48.39  Aligned_cols=61  Identities=25%  Similarity=0.447  Sum_probs=44.6

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHH--HHHHHhcC--CCCCCCcccCCCCCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQC--VLEWCQRS--SQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~C--I~~Wlq~~--~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      .+.|||-+..|  ..|++-..|.|.-|++-  ++.+..+.  -.||+|.+.+...++.....+..+.
T Consensus       249 SL~CPlS~~ri--~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~ID~~~~~IL  313 (371)
T 3i2d_A          249 SLQCPISYTRM--KYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLAISEFVDDIL  313 (371)
T ss_dssp             ESBCTTTSSBC--SSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEEEBHHHHHHH
T ss_pred             eecCCCccccc--cccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHeeEcHHHHHHH
Confidence            45799888887  56788889999866543  44443333  4699999999999888777766554

>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=87.22  E-value=0.48  Score=47.19  Aligned_cols=61  Identities=15%  Similarity=0.309  Sum_probs=44.4

Q ss_pred             CcccccccccccCCCCeeecccCCcccH--HHHHHHHhcC--CCCCCCcccCCCCCcchHHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHL--QCVLEWCQRS--SQCPMCWQPISLKDATSQELLEAVE   94 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~--~CI~~Wlq~~--~sCP~CR~~i~~~d~~~~~lle~ve   94 (386)
                      .+.|||-+..+  ..|++...|.|.-|+  .-+..+..+.  -.||+|.+.+...++.....+..+.
T Consensus       215 SL~CPlS~~ri--~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~ID~~~~~IL  279 (360)
T 4fo9_A          215 SLMCPLGKMRL--TIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEIL  279 (360)
T ss_dssp             ESBCTTTCSBC--SSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEEEBHHHHHHH
T ss_pred             eeeCCCcccee--ccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeEEcHHHHHHH
Confidence            34699888887  567888899998554  3444444433  3699999999999888777666654

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

Probab=83.97  E-value=0.46  Score=35.18  Aligned_cols=50  Identities=20%  Similarity=0.598  Sum_probs=34.8

Q ss_pred             cCCCCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc----CCCCCCCcc
Q 016632           25 GGIQDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR----SSQCPMCWQ   77 (386)
Q Consensus        25 ~~iqde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~----~~sCP~CR~   77 (386)
                      ....+..+..|.||...   ++-+..-.|...||..|+..-+..    .-.||.|..
T Consensus         4 ~~~~~~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            4 GSYETDHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCCSSCCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CcccCCCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            34566678899999874   222333568889999999875433    236999965

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=82.08  E-value=1.7  Score=34.64  Aligned_cols=40  Identities=25%  Similarity=0.444  Sum_probs=28.5

Q ss_pred             CCCCcccccccccccCCCCeeecc-cCCcccHHHHHHHHhc
Q 016632           29 DSCDDACSICLEEFSESDPSTVTS-CKHEFHLQCVLEWCQR   68 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlp-CgH~FC~~CI~~Wlq~   68 (386)
                      +...+.|.+|.+-|.+..-+.... =.|.||+.|-...++.
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            345789999999995533222211 2599999999999875

>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=80.36  E-value=2.8  Score=33.88  Aligned_cols=54  Identities=15%  Similarity=0.334  Sum_probs=37.7

Q ss_pred             CCCCCCcccccccccccCCC--C--eeecccCCcccHHHHHHHH-hcCCCCCCCcccCC
Q 016632           27 IQDSCDDACSICLEEFSESD--P--STVTSCKHEFHLQCVLEWC-QRSSQCPMCWQPIS   80 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~~d--~--~~vlpCgH~FC~~CI~~Wl-q~~~sCP~CR~~i~   80 (386)
                      +.......|.||-+.+....  .  +..-.|.--.|..|+.-=. ...+.||.|+..+.
T Consensus        11 ~~~~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           11 LKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             CSCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             ccccCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            34445678999999863221  1  3345788889999987443 45788999988765

---

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	386
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-14
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-14
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-13
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-12
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	9e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	5e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	9e-09
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	9e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-06
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.004

>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 = 66.1 bits (161), Expect = 1e-14
 Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 2/51 (3%)

Query: 30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS 80
          +  + C ICLE+ S  + S    C H F   C+  W +++  CP+C  P+ 
Sbjct: 3  TVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 65.3 bits (159), Expect = 2e-14
 Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 32 DDACSICLEEFSESD-PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPI 79
             C++CL E  + +    +  C H FH +CV  W    S CP+C   +
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 64.0 bits (155), Expect = 1e-13
 Identities = 13/69 (18%), Positives = 20/69 (28%), Gaps = 15/69 (21%)

Query: 29 DSCDDACSICLEEFSES---------------DPSTVTSCKHEFHLQCVLEWCQRSSQCP 73
          D   D C+IC     +                       C H FH  C+  W +    CP
Sbjct: 18 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 77

Query: 74 MCWQPISLK 82
          +  +    +
Sbjct: 78 LDNREWEFQ 86

>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 = 59.0 bits (142), Expect = 4e-12
 Identities = 13/59 (22%), Positives = 17/59 (28%), Gaps = 3/59 (5%)

Query: 32 DDACSICLEEFSESDPS--TVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLKDATSQ 87
          D  C  C      +      V  C H     CV       +  CP C  P+   +   Q
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

>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 = 58.9 bits (142), Expect = 5e-12
 Identities = 17/74 (22%), Positives = 25/74 (33%), Gaps = 5/74 (6%)

Query: 12 PEDHMTSAAAFVEGGIQ-DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RS 69
          P+DH+       E   +  S    C IC E   +     +  C H     C+  W +   
Sbjct: 2  PQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEG 58

Query: 70 SQCPMCWQPISLKD 83
            CP C   I   +
Sbjct: 59 QGCPFCRCEIKGTE 72

>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 = 51.6 bits (123), Expect = 9e-10
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 35 CSICLEEFSESDPS-TVTSCKHEFHLQCVLEW-CQRSSQCPMCWQPIS 80
          C +C+E     D +    +C ++    C        +  CP C +P  
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 51.0 bits (122), Expect = 2e-09
 Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 6/51 (11%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDAT 85
          C  C  E        +  C H     C+        QCP+C  P  L   T
Sbjct: 9  CQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGADT 53

>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 = 51.8 bits (124), Expect = 2e-09
 Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQ-RSSQCPMCWQPISLKDATS 86
          C IC    ++      TSCKH F   C+L   +   S CP C  P    D  S
Sbjct: 26 CQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES 75

>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 = 49.9 bits (118), Expect = 5e-09
 Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 4/60 (6%)

Query: 27 IQDSCDDACSICLEEFSESD--PSTVTSCKHEFHLQCVLEWCQRS--SQCPMCWQPISLK 82
          ++D     C IC EE           T      H  C+  W   S  + C +C    + +
Sbjct: 1  MEDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR 60

>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 = 50.5 bits (120), Expect = 9e-09
 Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 7/71 (9%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSS---QCPMCWQPISLKD-ATSQELL 90
           C ICLE   E      T C H F   C+L+   +     QCP+C   I+ +    S    
Sbjct: 24  CPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFS 80

Query: 91  EAVEQERSIRA 101
           + VE+   I  
Sbjct: 81  QLVEELLKIIC 91

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.8 bits (113), Expect = 2e-08
 Identities = 7/49 (14%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD 83
          C+I  +      P      +  F    + ++ + +   P+  +P+S+++
Sbjct: 3  CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 49

>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 = 47.5 bits (112), Expect = 9e-08
 Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 5/67 (7%)

Query: 35  CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELL-EAV 93
           CS C       +P  +  C+H F   CV +       CP+C+ P  ++D      L   +
Sbjct: 25  CSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWIQDLKINRQLDSMI 80

Query: 94  EQERSIR 100
           +    +R
Sbjct: 81  QLCSKLR 87

>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 = 44.3 bits (104), Expect = 1e-06
 Identities = 14/76 (18%), Positives = 31/76 (40%), Gaps = 10/76 (13%)

Query: 32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ--------CPM--CWQPISL 81
             C +CL E+     +T+  C+  F   C+ ++ +   +        CP   C +   L
Sbjct: 5  SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHL 64

Query: 82 KDATSQELLEAVEQER 97
          ++   + ++ A   +R
Sbjct: 65 QENEIECMVAAEIMQR 80

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.7 bits (99), Expect = 7e-06
 Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 20/80 (25%)

Query: 27 IQDSCDDACSICLEEF---------------SESDPSTVTSCKHEFHLQCVLEWCQRSS- 70
          ++ + ++ C IC+E+                       +T C H FHL C+L      + 
Sbjct: 20 LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK 79

Query: 71 ----QCPMCWQPISLKDATS 86
              QCP C      K  T 
Sbjct: 80 DGSLQCPSCKTIYGEKTGTQ 99

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 33.9 bits (77), Expect = 0.004
 Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 35 CSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQ-CPMCWQPISLKDATS-QELLEA 92
          C I LE     DP  + S    +    + +W     + CP   + +     T    L   
Sbjct: 11 CPISLELM--KDP-VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSL 67

Query: 93 VEQ 95
          +  
Sbjct: 68 IAL 70

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	386
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.41
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.32
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.25
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.23
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.22
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.19
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.18
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.18
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.17
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.17
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.14
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.14
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.05
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.99
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.92
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.25
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	84.66
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	84.41
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	81.65
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	80.87
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	80.78

>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=99.41  E-value=3.7e-14  Score=103.73  Aligned_cols=50  Identities=30%  Similarity=0.807  Sum_probs=43.6

Q ss_pred             CCcccccccccccCCCCeee-cccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           31 CDDACSICLEEFSESDPSTV-TSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~v-lpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      ++.+|+||++.|..++.+.. +.|+|.||..||..|++.+..||+||+.|.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            36789999999977666655 469999999999999999999999999874

>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=99.32  E-value=3.1e-13  Score=102.30  Aligned_cols=47  Identities=34%  Similarity=0.906  Sum_probs=42.0

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPIS   80 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~   80 (386)
                      -+.|+||++.|  .+++++++|+|.||..||..|++.+..||+||.++.
T Consensus         5 ~d~C~IC~~~~--~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCC--CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCc--cCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            35699999998  456778999999999999999999999999999875

>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=99.25  E-value=2.7e-12  Score=99.97  Aligned_cols=49  Identities=24%  Similarity=0.620  Sum_probs=41.8

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCC
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKD   83 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d   83 (386)
                      ...|+||++.+.   .+++++|||.||..||..|+.. ...||+||..|....
T Consensus        23 ~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            467999999983   3778899999999999999975 568999999987654

>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=99.23  E-value=3.3e-12  Score=95.87  Aligned_cols=54  Identities=24%  Similarity=0.448  Sum_probs=42.8

Q ss_pred             CCcccccccccccCC--CCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCc
Q 016632           31 CDDACSICLEEFSES--DPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDA   84 (386)
Q Consensus        31 ~d~~C~ICle~f~~~--d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~   84 (386)
                      +|..|+||++.+...  ....+++|+|.||..||..|+.. ...||+||+.|...++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            478999999975322  23466799999999999999965 5679999999876553

>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=99.22  E-value=1.7e-12  Score=94.87  Aligned_cols=50  Identities=14%  Similarity=0.288  Sum_probs=43.3

Q ss_pred             cccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCc
Q 016632           33 DACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDA   84 (386)
Q Consensus        33 ~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~   84 (386)
                      +.|+||++.|  .+++..+.|||.||..||.+|++.+..||+||+++...++
T Consensus         1 l~C~Ic~~~~--~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           1 MLCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCCTTTCSCC--SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCCccCCchH--HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            4799999999  4555555799999999999999999999999999987664

>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=99.19  E-value=7.1e-12  Score=102.99  Aligned_cols=56  Identities=30%  Similarity=0.643  Sum_probs=43.4

Q ss_pred             CCCCCCcccccccccccC---------------CCCeeecccCCcccHHHHHHHHhcC-----CCCCCCcccCCCC
Q 016632           27 IQDSCDDACSICLEEFSE---------------SDPSTVTSCKHEFHLQCVLEWCQRS-----SQCPMCWQPISLK   82 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~---------------~d~~~vlpCgH~FC~~CI~~Wlq~~-----~sCP~CR~~i~~~   82 (386)
                      ++...+..|+||++.|..               ...+.+++|+|.||..||..|++..     .+||+||..+..+
T Consensus        20 ~~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          20 LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             hcccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            344457789999998742               1234668999999999999999753     4799999988654

>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=99.18  E-value=4.2e-12  Score=100.85  Aligned_cols=51  Identities=33%  Similarity=0.628  Sum_probs=43.0

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDAT   85 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~   85 (386)
                      +..|+||++.|.+   +++++|||.||..||..|++. ...||+||.++...++.
T Consensus        23 ~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          23 SISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             CcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            5789999999833   677899999999999999975 45799999998866543

>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=99.18  E-value=1.6e-12  Score=105.61  Aligned_cols=50  Identities=34%  Similarity=0.701  Sum_probs=41.6

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC---CCCCCCcccCCCCCc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS---SQCPMCWQPISLKDA   84 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~---~sCP~CR~~i~~~d~   84 (386)
                      .+.|+||++.|  .+ ++.++|||.||..||..|+...   ..||+||..+...++
T Consensus        21 ~l~CpIC~~~~--~~-pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          21 ILECPICLELI--KE-PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HTSCSSSCCCC--SS-CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CcCCCccCchh--CC-eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            67899999999  34 4557999999999999999764   479999999876553

>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=99.17  E-value=4.4e-12  Score=91.31  Aligned_cols=49  Identities=20%  Similarity=0.459  Sum_probs=40.3

Q ss_pred             cccccccccccCCCC-eeecccCCcccHHHHHHHHhc-CCCCCCCcccCCC
Q 016632           33 DACSICLEEFSESDP-STVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISL   81 (386)
Q Consensus        33 ~~C~ICle~f~~~d~-~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~   81 (386)
                      ++|+||++.|...+. +.+++|+|.||..||..|++. +..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            479999999865443 455799999999999999986 4579999998864

>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=99.17  E-value=8.3e-12  Score=98.83  Aligned_cols=53  Identities=23%  Similarity=0.609  Sum_probs=43.1

Q ss_pred             CCCcccccccccccCCC---------------CeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCC
Q 016632           30 SCDDACSICLEEFSESD---------------PSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLK   82 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d---------------~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~   82 (386)
                      ..++.|+||++.+....               .+.+++|+|.||..||..|++.+.+||+||.++..+
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            34667999998874321               256689999999999999999999999999988643

>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=99.17  E-value=2.6e-12  Score=103.18  Aligned_cols=58  Identities=26%  Similarity=0.637  Sum_probs=47.9

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHH
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      ++.|+||++.|  .+++++++|+|.||..||..|+.  ..||.||..+...++..+..+..+
T Consensus        22 ~l~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~n~~l~~l   79 (97)
T d1jm7b_          22 LLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSM   79 (97)
T ss_dssp             TTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHH
T ss_pred             cCCCccCCchh--hcCceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCcccHHHHHH
Confidence            67999999999  56666679999999999999984  459999999988877766555543

>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=99.14  E-value=1.5e-11  Score=94.88  Aligned_cols=61  Identities=18%  Similarity=0.366  Sum_probs=49.1

Q ss_pred             CCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC-CCCCCCcccCCCCCcchHHHHHHH
Q 016632           30 SCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS-SQCPMCWQPISLKDATSQELLEAV   93 (386)
Q Consensus        30 e~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~-~sCP~CR~~i~~~d~~~~~lle~v   93 (386)
                      .+++.|+||++.|  .+ +++++|||.||..||..|+... ..||.|+..+...++.++..+..+
T Consensus         6 P~~l~CpIc~~~m--~d-PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~   67 (78)
T d1t1ha_           6 PEYFRCPISLELM--KD-PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSL   67 (78)
T ss_dssp             SSSSSCTTTSCCC--SS-EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHH
T ss_pred             CccCCCcCcCchh--hC-ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHH
Confidence            4589999999999  34 5567999999999999999764 579999999988776665444433

>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=99.14  E-value=1.5e-11  Score=95.35  Aligned_cols=62  Identities=15%  Similarity=0.159  Sum_probs=51.0

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhc-CCCCCCCcccCCCCCcchHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR-SSQCPMCWQPISLKDATSQELLEAVEQ   95 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~-~~sCP~CR~~i~~~d~~~~~lle~ve~   95 (386)
                      +++.|+||++.|  .+ +++++|||.||..||..|+.. ...||.|+..+...++.++..+.....
T Consensus         6 ~~l~CpIc~~l~--~d-Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~   68 (80)
T d2c2la2           6 DYLCGKISFELM--RE-PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVID   68 (80)
T ss_dssp             STTBCTTTCSBC--SS-EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHH
T ss_pred             ccccCcCcCchh--hh-hcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHH
Confidence            589999999999  34 567899999999999999975 567999999998877777666555443

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=9.6e-11  Score=94.61  Aligned_cols=63  Identities=11%  Similarity=0.073  Sum_probs=51.5

Q ss_pred             CCcccccccccccCCCCeeecccC-CcccHHHHHHHHhcCCCCCCCcccCCCCCcchHHHHHHHHHH
Q 016632           31 CDDACSICLEEFSESDPSTVTSCK-HEFHLQCVLEWCQRSSQCPMCWQPISLKDATSQELLEAVEQE   96 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCg-H~FC~~CI~~Wlq~~~sCP~CR~~i~~~d~~~~~lle~ve~e   96 (386)
                      +++.||||++.|  .+ +++++|+ |.||..||..|+..+..||+|+.++...++.++..+.....+
T Consensus        21 ~~f~CPI~~~lm--~d-PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~   84 (98)
T d1wgma_          21 DEFLDPIMSTLM--CD-PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQR   84 (98)
T ss_dssp             TTTBCTTTCSBC--SS-EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHH
T ss_pred             HHhCCcCchhHH--HH-HHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHH
Confidence            379999999999  44 5556665 589999999999999999999999999888877766554443

>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=98.99  E-value=3.1e-11  Score=88.35  Aligned_cols=47  Identities=26%  Similarity=0.489  Sum_probs=38.7

Q ss_pred             CCcccccccccccCCCCeeecccCCcccHHHHHHHHhcCCCCCCCcccCCCCC
Q 016632           31 CDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRSSQCPMCWQPISLKD   83 (386)
Q Consensus        31 ~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~~sCP~CR~~i~~~d   83 (386)
                      +.++|+||++.|.+   +++++|+|.||..||..|   ...||+||+.+....
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            35799999999833   567799999999999765   668999999987643

>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=98.92  E-value=3.3e-10  Score=83.20  Aligned_cols=55  Identities=22%  Similarity=0.440  Sum_probs=40.7

Q ss_pred             CCCCCCcccccccccccCCCC--eeecccCCcccHHHHHHHHhc--CCCCCCCcccCCC
Q 016632           27 IQDSCDDACSICLEEFSESDP--STVTSCKHEFHLQCVLEWCQR--SSQCPMCWQPISL   81 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~~d~--~~vlpCgH~FC~~CI~~Wlq~--~~sCP~CR~~i~~   81 (386)
                      ++|+++..|.||++.+.....  .....|+|.||..||..|+..  +.+||+||+++..
T Consensus         1 ~eded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           1 MEDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CTTCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            467788999999998743211  112334699999999999954  5689999998764

>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=98.25  E-value=1.5e-07  Score=74.00  Aligned_cols=46  Identities=22%  Similarity=0.577  Sum_probs=36.3

Q ss_pred             CcccccccccccCCCCeeecccCCcccHHHHHHHHhcC--------CCCCCCcc
Q 016632           32 DDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS--------SQCPMCWQ   77 (386)
Q Consensus        32 d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~--------~sCP~CR~   77 (386)
                      ...|+||++.+...+.+.+++|+|.||..||..|+...        -.||.|..
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            56899999998654556677999999999999999631        14998654

>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=84.66  E-value=0.17  Score=36.63  Aligned_cols=49  Identities=27%  Similarity=0.574  Sum_probs=33.5

Q ss_pred             CCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhcC----CCCCCCcccCC
Q 016632           29 DSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----SQCPMCWQPIS   80 (386)
Q Consensus        29 de~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~----~sCP~CR~~i~   80 (386)
                      |.....|.||.+.   ++-+.--.|...||..|+...+...    -.||.|+....
T Consensus         4 Dd~c~~C~~C~~~---~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           4 DDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCCCCc---CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            3456678888754   3334446789999999998766443    35999965543

>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=84.41  E-value=0.7  Score=34.03  Aligned_cols=41  Identities=24%  Similarity=0.432  Sum_probs=28.7

Q ss_pred             CCCCCcccccccccccCCCCeeecc-cCCcccHHHHHHHHhc
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTS-CKHEFHLQCVLEWCQR   68 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlp-CgH~FC~~CI~~Wlq~   68 (386)
                      .....+.|.||.+-+.+..-+.... =.|.||+.|-...++.
T Consensus         4 ~~~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           4 ANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CSCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCCCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            3445689999999995532222211 2599999999999875

>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=81.65  E-value=1.1  Score=33.99  Aligned_cols=54  Identities=15%  Similarity=0.350  Sum_probs=37.9

Q ss_pred             CCCCCCcccccccccccCCC--C--eeecccCCcccHHHHHH-HHhcCCCCCCCcccCC
Q 016632           27 IQDSCDDACSICLEEFSESD--P--STVTSCKHEFHLQCVLE-WCQRSSQCPMCWQPIS   80 (386)
Q Consensus        27 iqde~d~~C~ICle~f~~~d--~--~~vlpCgH~FC~~CI~~-Wlq~~~sCP~CR~~i~   80 (386)
                      ++......|.||-+.+....  .  +..-.|.--.|..|..- +...++.||.|+..+.
T Consensus        11 ~~~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Yk   69 (93)
T d1weoa_          11 LKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             CSCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             hhhcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhh
Confidence            34555678999999874221  1  33457888999999864 3345788999988765

>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=80.87  E-value=0.33  Score=32.66  Aligned_cols=44  Identities=25%  Similarity=0.578  Sum_probs=29.2

Q ss_pred             ccccccccccCCCCeeecccCCcccHHHHHHHHhcC----CCCCCCcc
Q 016632           34 ACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQRS----SQCPMCWQ   77 (386)
Q Consensus        34 ~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~~----~sCP~CR~   77 (386)
                      .|.||...-....-+.--.|...||..|+..-+...    -.||.|+.
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            478887654222223335788999999998765432    35999975

>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=80.78  E-value=0.13  Score=36.29  Aligned_cols=48  Identities=21%  Similarity=0.567  Sum_probs=32.8

Q ss_pred             CCCCCcccccccccccCCCCeeecccCCcccHHHHHHHHhc----CCCCCCCccc
Q 016632           28 QDSCDDACSICLEEFSESDPSTVTSCKHEFHLQCVLEWCQR----SSQCPMCWQP   78 (386)
Q Consensus        28 qde~d~~C~ICle~f~~~d~~~vlpCgH~FC~~CI~~Wlq~----~~sCP~CR~~   78 (386)
                      .|..+..|.||.+.   ++-+.--.|.-.||..|+...+..    .-.||.|+..
T Consensus         5 ~d~~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           5 SDHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             ccCCcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            34556789999874   333344578899999998755443    3469999654