Citrus Sinensis ID: 039647

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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
Protein Sequence
MGSKFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSEALRERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTSNFESSAAGTARAGTAAHIDEA
Secondary Structure (PSIPRED)
ccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHHHHHccccccccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHHccccccccccccHHHHHccccEEEcccccccEEccccccccEEEEcccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEccccccccEEEccccccccccccccccccccccccHHHHHHHcccccccccccccccccccEccccccccccHHHHHHHHHHccccccccccccccccccccccccHHHHcccccHHHHHHHHHHccccccccccccHHHHHcccEEEEcccccccccHccccccHHHcccccccccccccEHHHHHHccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mgskfpfcetgfveqmsssitedsinngihvgsDRALSLWVQILLRMMtglapsqaEQEREFESLLQRRRkrnssaplshMLQDicfgtasrpddsealrersghnaassldeylvgpgLDLLLQHLLendpnrygslSAQKEVVKALPMVAIDQDLQCAVWLEEFvmgneakqmpykhkfhgeclmpwlefhsscpicryqlpsdnlkvqgngpgnreesagnedvgnslrlangediigngrrnwipipwpfddlfsmsgsqeggtsnfessaagtaragtaahidea
Flexible Loop (DISEMBL)
MGSKFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAEQEREFESLLQRRRKrnssaplshmlqdICFGTASRPDDSEALRERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNreesagnedvgnslRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTSNFESSAAGTARAGTAAHIDEA
Low Complexity Region (SEG)
MGSKFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSEALRERSGHNAASSLDEYlvgpgldlllqhllENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTSNFESSaagtaragtaaHIDEA
Disordered region (IsUnstruct)
******FCETGFV**********SINNGIHVGSDRALSLWVQILLRMMTGL*********************************ICF************************DEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP****************************LANGEDIIGNGRRNWIPIPWPFDDLF********************************
Disordered Region (DISOPRED)
MGSKFPFCETGFVE**************************************************************************************************EYLVGPGLDLLLQ******************VVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL***************************************************************************************
Disordered Region (DISEMBL)
MGSKFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGL*************************PLSHMLQDICFGTASRPDDSEALRERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQ**************DVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSG****************************
Disordered Region (DISPRO)
*GSKFPFCETGFVEQMSS******************LSLWVQILLR****************ESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSEALRERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS*************************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGSKFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSEALRERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTSNFESSAAGTARAGTAAHIDEA
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	290	2.2.26 [Sep-21-2011]
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.513	0.440	0.433	4e-31
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.696	0.615	0.346	7e-29
Q8RXD3	310	E3 ubiquitin-protein liga	no	no	0.313	0.293	0.382	4e-15
Q91YL2	313	RING finger protein 126 O	yes	no	0.327	0.303	0.388	2e-14
Q6DIP3	311	RING finger protein 126 O	yes	no	0.327	0.305	0.368	7e-14
Q7T0Q3	312	RING finger protein 126-A	N/A	no	0.327	0.304	0.368	1e-13
Q9BV68	326	RING finger protein 126 O	yes	no	0.327	0.291	0.378	1e-13
Q6IRP0	312	RING finger protein 126-B	N/A	no	0.327	0.304	0.359	1e-13
Q0II22	313	RING finger protein 126 O	yes	no	0.327	0.303	0.366	3e-13
Q9Y4L5	304	E3 ubiquitin-protein liga	no	no	0.351	0.335	0.360	8e-13

>sp|P0CH30|RING1_GOSHI E3 ubiquitin-protein ligase RING1 OS=Gossypium hirsutum GN=RING1 PE=2 SV=1

 Score =  135 bits (339), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 68/157 (43%), Positives = 100/157 (63%), Gaps = 8/157 (5%)

Query: 104 GHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDL------ 157
           G    +++ +Y +GPGL+ L+Q L ENDPNRYG+  A K  ++ALP+V I +        
Sbjct: 163 GFRLPANIGDYFIGPGLEQLIQQLAENDPNRYGTPPASKSAIEALPLVNITKSNLNSEFN 222

Query: 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGN 217
           QCAV +++F  G EAKQMP KH +H +CL+PWLE H+SCP+CR++LP+D+   +    G 
Sbjct: 223 QCAVCMDDFEEGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCRHELPTDDPDYERRVRGA 282

Query: 218 REESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPF 254
           +  S GN D  NS + ++G++     R   I +PWPF
Sbjct: 283 QGTSGGN-DGDNSGQRSDGDNRTVE-RSFRISLPWPF 317

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. Promotes polyubiquitination of target proteins.
Gossypium hirsutum (taxid: 3635)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana GN=At3g19950 PE=2 SV=1

 Score =  127 bits (320), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 77/222 (34%), Positives = 111/222 (50%), Gaps = 20/222 (9%)

Query: 6   PFCETGFVEQMSSSITEDSIN-NGIHVGSDRALSLWVQILLRMMTG---LAPSQAEQERE 61
           P C  GF+E+        S+N N     S   ++     LL ++ G    APS  +    
Sbjct: 43  PICNQGFLEEYEDPNPNQSLNFNPNSSDSFFPMADPFSTLLPLIFGSSAAAPSGMDFMSL 102

Query: 62  FESLLQRRRKRNSSAPLSHMLQDICF------GTASRPDDSEALRER----SGHNAASSL 111
           F   +Q + +     P S       F         S     E + E      G+    + 
Sbjct: 103 FGPSMQPQARSTQQNPQSDAFDPFTFLQNHLQTLRSSGTHFEFVIENHPSDPGNRMPGNF 162

Query: 112 DEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDL------QCAVWLEE 165
            +Y  GPGL+ L+Q L ENDPNRYG+  A K  + ALP V + +D+      QCAV ++E
Sbjct: 163 GDYFFGPGLEQLIQQLAENDPNRYGTPPASKSAIDALPTVKVTKDMLKSEMNQCAVCMDE 222

Query: 166 FVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
           F  G++ KQMP KH FH +CL+PWLE H+SCP+CR++LP+D+
Sbjct: 223 FEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPVCRFELPTDD 264

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. Promotes polyubiquitination of target proteins.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8RXD3|AIP2_ARATH E3 ubiquitin-protein ligase AIP2 OS=Arabidopsis thaliana GN=AIP2 PE=1 SV=1

 Score = 82.0 bits (201), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 39/102 (38%), Positives = 66/102 (64%), Gaps = 11/102 (10%)

Query: 119 GLDLLLQHLLEND-PNRYGSLSAQKEVVKALPMVAIDQDL--------QCAVWLEEFVMG 169
           GLD+++  +L++  P R  +  A KEVV+ LP++   ++L        +C +  E  V+G
Sbjct: 183 GLDMIIPDILDDGGPPR--APPASKEVVEKLPVIIFTEELLKKFGAEAECCICKENLVIG 240

Query: 170 NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQ 211
           ++ +++P KH FH  CL PWL+ H+SCPICR++LP+D+ K +
Sbjct: 241 DKMQELPCKHTFHPPCLKPWLDEHNSCPICRHELPTDDQKYE 282

E3 ubiquitin-protein ligase that acts as a negative regulator of abscisic acid (ABA) signaling. Mediates ubiquitination and subsequent proteasomal degradation of the transcription factor ABI3.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q91YL2|RN126_MOUSE RING finger protein 126 OS=Mus musculus GN=Rnf126 PE=1 SV=1

 Score = 79.7 bits (195), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/103 (38%), Positives = 56/103 (54%), Gaps = 8/103 (7%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A KE ++ALP V + ++     L+C V  E++ +G   +
Sbjct: 187 GLDTIITQLL-NQFENTGPPPADKEKIQALPTVPVTEEHVGSGLECPVCKEDYALGESVR 245

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPG 216
           Q+P  H FH  C++PWLE H SCP+CR  L   N     N PG
Sbjct: 246 QLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT--NPPG 286

Mus musculus (taxid: 10090)

>sp|Q6DIP3|RN126_XENTR RING finger protein 126 OS=Xenopus tropicalis GN=rnf126 PE=2 SV=1

 Score = 78.2 bits (191), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 38/103 (36%), Positives = 56/103 (54%), Gaps = 8/103 (7%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A  E ++ALP + I ++     L+C V  E++ +G   +
Sbjct: 183 GLDTIITQLL-NQFENTGPPPADTEKIQALPTIQITEEHVGSGLECPVCKEDYTVGESVR 241

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPG 216
           Q+P  H FH +C++PWLE H +CP+CR  L   N     N PG
Sbjct: 242 QLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTAT--NPPG 282

Xenopus tropicalis (taxid: 8364)

>sp|Q7T0Q3|R126A_XENLA RING finger protein 126-A OS=Xenopus laevis GN=rnf126-a PE=2 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/103 (36%), Positives = 56/103 (54%), Gaps = 8/103 (7%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A  E ++ALP + I ++     L+C V  E++ +G   +
Sbjct: 184 GLDTIITQLL-NQFENTGPPPADNEKIQALPTIQITEEHVGSGLECPVCKEDYTVGECVR 242

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPG 216
           Q+P  H FH +C++PWLE H +CP+CR  L   N     N PG
Sbjct: 243 QLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTAT--NPPG 283

Xenopus laevis (taxid: 8355)

>sp|Q9BV68|RN126_HUMAN RING finger protein 126 OS=Homo sapiens GN=RNF126 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 39/103 (37%), Positives = 56/103 (54%), Gaps = 8/103 (7%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A KE ++ALP V + ++     L+C V  +++ +G   +
Sbjct: 185 GLDAIITQLL-NQFENTGPPPADKEKIQALPTVPVTEEHVGSGLECPVCKDDYALGERVR 243

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPG 216
           Q+P  H FH  C++PWLE H SCP+CR  L   N     N PG
Sbjct: 244 QLPCNHLFHDGCIVPWLEQHDSCPVCRKSLTGQNTAT--NPPG 284

Homo sapiens (taxid: 9606)

>sp|Q6IRP0|R126B_XENLA RING finger protein 126-B OS=Xenopus laevis GN=rnf126-b PE=2 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/103 (35%), Positives = 56/103 (54%), Gaps = 8/103 (7%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A  + ++ALP + I ++     L+C V  E++ +G   +
Sbjct: 184 GLDTIITQLL-NQFENTGPPPADTDKIQALPTIQITEEHVGFGLECPVCKEDYTVGESVR 242

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPG 216
           Q+P  H FH +C++PWLE H +CP+CR  L   N     N PG
Sbjct: 243 QLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTAT--NPPG 283

Xenopus laevis (taxid: 8355)

>sp|Q0II22|RN126_BOVIN RING finger protein 126 OS=Bos taurus GN=RNF126 PE=2 SV=1

 Score = 75.9 bits (185), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/101 (36%), Positives = 54/101 (53%), Gaps = 6/101 (5%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL N     G   A KE ++ALP V + ++     L+C V  +++ +G   +
Sbjct: 188 GLDAIITQLL-NQFENTGPPPADKEKIQALPTVPVTEEHVGSGLECPVCKDDYGLGEHVR 246

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNG 214
           Q+P  H FH  C++PWLE H SCP+CR  L   N      G
Sbjct: 247 QLPCNHLFHDGCIVPWLEQHDSCPVCRKSLTGQNTATDPPG 287

Bos taurus (taxid: 9913)

>sp|Q9Y4L5|RN115_HUMAN E3 ubiquitin-protein ligase RNF115 OS=Homo sapiens GN=RNF115 PE=1 SV=2

 Score = 74.7 bits (182), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 40/111 (36%), Positives = 59/111 (53%), Gaps = 9/111 (8%)

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAK 173
           GLD ++  LL    N  G   A KE + +LP V + Q+     L+C V  E++ +  E +
Sbjct: 184 GLDAIVTQLLGQLENT-GPPPADKEKITSLPTVTVTQEQVDMGLECPVCKEDYTVEEEVR 242

Query: 174 QMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGN 224
           Q+P  H FH  C++PWLE H +CP+CR  L  ++   Q     + E SA N
Sbjct: 243 QLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDSTRQSQ---STEASASN 290

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	290
255568972	348	zinc finger protein, putative [Ricinus c	0.951	0.793	0.429	1e-58
224125900	344	predicted protein [Populus trichocarpa]	0.937	0.790	0.411	1e-54
356567978	344	PREDICTED: E3 ubiquitin-protein ligase R	0.865	0.729	0.382	3e-46
297746512	349	unnamed protein product [Vitis vinifera]	0.893	0.742	0.414	1e-44
224073116	356	predicted protein [Populus trichocarpa]	0.868	0.707	0.381	2e-44
357462645	352	RING finger protein [Medicago truncatula	0.875	0.721	0.377	2e-42
449463838	362	PREDICTED: E3 ubiquitin-protein ligase R	0.9	0.720	0.375	2e-42
297793133	395	zinc finger family protein [Arabidopsis	0.937	0.688	0.355	2e-42
15241188	396	RING/U-box domain-containing protein [Ar	0.851	0.623	0.372	7e-42
297853254	346	zinc finger family protein [Arabidopsis	0.848	0.710	0.357	1e-38

>gi|255568972|ref|XP_002525456.1| zinc finger protein, putative [Ricinus communis] gi|223535269|gb|EEF36946.1| zinc finger protein, putative [Ricinus communis]

 Score =  232 bits (592), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 143/333 (42%), Positives = 189/333 (56%), Gaps = 57/333 (17%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAE---QER 60
           K P CE GFVE++ S  T D  NNGI   S+RA S+W  ILL +M GL P +A    QE 
Sbjct: 27  KCPLCENGFVEEIGS--TRDLNNNGIDFVSERAFSMWAPILLGLMGGLGPVRARITAQEH 84

Query: 61  EFESLLQ--------------RRRKRNSSAPLSHMLQDICFGTAS--------------- 91
           +  +  Q              RRR+RN ++ LS +     F                   
Sbjct: 85  DSSNNAQEEREELEREFESLFRRRRRNPASILSMLQGSENFENNGESNGNNNNNNNVILV 144

Query: 92  RPDDSEAL----------RERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQ 141
            P + EAL           E    N  SS  +YL+GPGLDLLLQHL ENDPNRYG+L AQ
Sbjct: 145 NPFNQEALILQGSFDASQPENPIRNMRSSFRDYLIGPGLDLLLQHLAENDPNRYGTLPAQ 204

Query: 142 KEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201
           K+ VKA+P +A++Q+ +C+V LEEF +G EAK+MP KHKFH  C++PWLE HSSCP+CR+
Sbjct: 205 KKAVKAMPTIAVEQNAECSVCLEEFEIGGEAKEMPCKHKFHSACILPWLELHSSCPVCRF 264

Query: 202 QLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIG----NGRRNWIPIPWPFDDL 257
           Q+P DN K++ N   +   + G     N+ R+ +    +G    NGRR W+P+PWPFD L
Sbjct: 265 QMPCDNSKIEAN---SLRSNDGRTIENNAARMNDSWGDVGEQTDNGRRFWVPVPWPFDGL 321

Query: 258 FSMSGSQEGGTSNFESSAAGTARAGTAAHIDEA 290
           FS+S SQ  G S   +SA  T   G+++H DE 
Sbjct: 322 FSLSASQSDGNS---TSATLT---GSSSHTDET 348

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125900|ref|XP_002319703.1| predicted protein [Populus trichocarpa] gi|222858079|gb|EEE95626.1| predicted protein [Populus trichocarpa]

 Score =  219 bits (558), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 137/333 (41%), Positives = 186/333 (55%), Gaps = 61/333 (18%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPS--------- 54
           K PFCE+GF+E+M S    +  NN   +GS+ A SLW   LL +M GL  S         
Sbjct: 27  KCPFCESGFLEEMGS--VREVNNNIFDLGSEHAFSLWDTFLLDLMGGLGTSGSRRIAQEH 84

Query: 55  -------QAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSEALR------- 100
                    + E +FESLL RRR R S++ +  +LQD+   + +  +D E+         
Sbjct: 85  ISSTSSQDEDDELDFESLL-RRRGRLSTSSVQRLLQDLHLRSENPENDRESSGGSSSSSS 143

Query: 101 -----------------------ERSGHNAASSLDEYLVGPGLDLLLQHLLENDPNRYGS 137
                                  E    N + S  +YL+GP +DLLL HL E+ PNRYG+
Sbjct: 144 VILVNPFNEEAIILHSPDNMNQPENPSQNVSISFQDYLIGPDVDLLLHHLAESGPNRYGT 203

Query: 138 LSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCP 197
             A+KE VKA+P V+I Q+LQC+V LEEF +G EAK+MP KHKFHGEC++PWLE HSSCP
Sbjct: 204 PPAEKEAVKAMPTVSITQNLQCSVCLEEFDIGCEAKEMPCKHKFHGECIVPWLELHSSCP 263

Query: 198 ICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDL 257
           +CR+ +PSD+     +   + EE   + D            II NGRR W+PIPWPFD L
Sbjct: 264 VCRFLMPSDDSTTGVSQSRSDEERTESNDAR----------IINNGRRYWVPIPWPFDGL 313

Query: 258 FSMSGSQEGGTSNFESSAAGTARAGTAAHIDEA 290
           F +SGSQ GG+S+  S+ + T   G+A++ DE 
Sbjct: 314 FPLSGSQNGGSSS--SAPSSTTMRGSASYSDET 344

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567978|ref|XP_003552191.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Glycine max]

 Score =  191 bits (486), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 124/324 (38%), Positives = 172/324 (53%), Gaps = 73/324 (22%)

Query: 1   MGSKFPFCETGFVEQMSSSITEDSINNGIH--VGSDRALSLWVQILLRMM---------- 48
           M  + PFC++GFVE+M ++ +  SI N       SDRALSLW  ILL MM          
Sbjct: 20  MEIRCPFCQSGFVEEMGNTPSSSSIPNTSESDFESDRALSLWAPILLGMMGNPRHPRRLR 79

Query: 49  ------------TGLAP--SQAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPD 94
                        G+A    + E ++EFES+L+RRR   +SA +  +LQ I  G AS   
Sbjct: 80  QIANDNGNRDYVDGVADHGRETEYDQEFESILRRRR---NSATILQLLQGIRTGLASESY 136

Query: 95  DS-----------------------------------EALRERS-GHNAASSLDEYLVGP 118
           ++                                   E+ R++S  H++  SL +Y  GP
Sbjct: 137 ENTDGHDHDREREREREREHMILINPLNQTIIVQGSYESNRDQSDNHSSVGSLGDYFTGP 196

Query: 119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYK 178
           G D+LLQHL ENDPNRYG+  AQKE ++ALP V I+++ QC+V L++F +G+EAK+MP K
Sbjct: 197 GFDILLQHLAENDPNRYGTPPAQKEAIEALPTVIINENSQCSVCLDDFEVGSEAKEMPCK 256

Query: 179 HKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGED 238
           H+FH  C++PWLE HSSCP+CR QLP D  K   +   +R+  +  ED   S+   N E+
Sbjct: 257 HRFHSGCILPWLELHSSCPVCRLQLPLDESKQDSD--LSRDSRSQRED--ESIEHDNDEE 312

Query: 239 IIGNGRR----NWIPIPWPFDDLF 258
             G GR          PWPF+ LF
Sbjct: 313 RDGEGRNASGGRRFSFPWPFNGLF 336

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297746512|emb|CBI16568.3| unnamed protein product [Vitis vinifera]

 Score =  186 bits (472), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 114/275 (41%), Positives = 158/275 (57%), Gaps = 16/275 (5%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMMTGLAPSQAEQEREFE 63
           K P C+ GF+E +  + + D  ++   + SDR LSLW  ILL MM G      E E + E
Sbjct: 27  KCPLCQDGFIEDIDGTASRDHNDSDSDLASDRTLSLWAPILLGMMDGEGRRGGETELDRE 86

Query: 64  SLLQRRRKRNSSAPLSHMLQDICFG---TASRPDDSEALRERS---------GHNAASSL 111
                RR+R SSA +  +LQ I  G       P +   + + S           N   SL
Sbjct: 87  LDSIIRRRRRSSATILQLLQGIRAGMRLILINPFNQTIIVQGSFDSNQAQNQNQNTIGSL 146

Query: 112 DEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNE 171
            +Y +GP LDLLLQHL ENDPNRYG+  AQK+ ++A+P V I ++LQC+V L++F +G E
Sbjct: 147 GDYFIGPSLDLLLQHLAENDPNRYGTPPAQKDAIEAMPTVKIKENLQCSVCLDDFEIGAE 206

Query: 172 AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGNG-PGNREESAGNEDVGN- 229
           A++MP KHKFH  C++PWLE HSSCP+CR+Q+ +D  K+  +  P     S+   + G+ 
Sbjct: 207 AREMPCKHKFHSGCILPWLELHSSCPVCRFQIAADESKLDSDASPNVSSNSSERSNNGHG 266

Query: 230 SLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQ 264
           S    +G+   GNGRR+     WPF  LFS  GSQ
Sbjct: 267 SSEEGDGDGRSGNGRRS--TFRWPFTSLFSSQGSQ 299

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073116|ref|XP_002303979.1| predicted protein [Populus trichocarpa] gi|222841411|gb|EEE78958.1| predicted protein [Populus trichocarpa]

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 124/325 (38%), Positives = 168/325 (51%), Gaps = 73/325 (22%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIHVGSDRALSLWVQILLRMM--------------- 48
           K PFC+ GF+E M  S  ++ + +    GSDRALSLW  ILL M+               
Sbjct: 23  KCPFCQNGFIEDMIDSTGDNQVPDS-EFGSDRALSLWAPILLGMVGNSHRRRRLRRVEYE 81

Query: 49  -------TGLA--PSQAEQEREFESLLQRRRKRN-SSAPLSHMLQDICFGT-ASRPDDSE 97
                   G A    + E ERE ES ++RRR+   +SA +  +LQ I  G   S  ++ E
Sbjct: 82  EDEDGNDDGEANHAGEPEFEREIESFMRRRRRSRRNSATILQLLQGIRAGILVSESENLE 141

Query: 98  AL------------RER------------------------SGHNAASSLDEYLVGPGLD 121
                         RER                           NA  SL +Y++GPGLD
Sbjct: 142 GDRDRDRVRDMNRERERVILINPFNQSIIVQGSYDSNNVQNQNQNAIGSLGDYVIGPGLD 201

Query: 122 LLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKF 181
           LLLQHL ENDPNRYG+  AQKE ++ALP V + + LQC+V L++F +G EA++MP KHKF
Sbjct: 202 LLLQHLAENDPNRYGTPPAQKEAIEALPTVTVKEPLQCSVCLDDFEIGAEAREMPCKHKF 261

Query: 182 HGECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDI-- 239
           H  C++PWLE HSSCP+CR+QLP+D  K+      N  +   +E   +   ++NG ++  
Sbjct: 262 HSGCILPWLELHSSCPVCRHQLPADESKLDSERSRNTFDQRDSESTNSESNISNGINVEE 321

Query: 240 ------IGNGRRNWIPIPWPFDDLF 258
                  GNGRR     PWPF+ LF
Sbjct: 322 GDGEGRSGNGRR--FSFPWPFNSLF 344

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462645|ref|XP_003601604.1| RING finger protein [Medicago truncatula] gi|355490652|gb|AES71855.1| RING finger protein [Medicago truncatula]

 Score =  179 bits (453), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 120/318 (37%), Positives = 161/318 (50%), Gaps = 64/318 (20%)

Query: 1   MGSKFPFCETGFVEQMSSSITEDSINNG--IHVGSDRALSLWVQILLRMMTGLAPSQ--- 55
           M  K P C++GF+E+MSS+     + N      G DR+ SLW  ILL MM      +   
Sbjct: 20  MEIKCPLCQSGFIEEMSSATGISDLQNTPETDFGVDRSPSLWAPILLGMMGNPRLRRRLR 79

Query: 56  --------------------AEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASR--- 92
                                  +RE ES+L+RRR+  SSA +  +LQ I  G  S    
Sbjct: 80  RIELEDDYESGNRDDDHGGVGHYDRELESILRRRRR--SSATIQQLLQGIRAGLTSESHE 137

Query: 93  -PDDSEALRER----------------------------SGHNAASSLDEYLVGPGLDLL 123
             D  + +RER                              HN   +L +Y VGPGLDLL
Sbjct: 138 NTDSDDRVREREREHVILINPFNQTIIVQGSYDSNRDQSDNHNPIGALGDYFVGPGLDLL 197

Query: 124 LQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHG 183
           LQHL ENDPNRYG+  A KE V++LP V I+++LQC+V L++F +G+EAK+MP KH+FH 
Sbjct: 198 LQHLSENDPNRYGTPPAPKEAVESLPTVKINENLQCSVCLDDFEVGSEAKEMPCKHRFHS 257

Query: 184 ECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGED---II 240
            C++PWLE HSSCP+CR QL  D  K   +   N      +E +G++   A G+      
Sbjct: 258 ACILPWLELHSSCPVCRSQLRVDEPKQDSDVSRNHRNQRDDEIIGHANANAEGDSEGRSP 317

Query: 241 GNGRRNWIPIPWPFDDLF 258
             GRR     PWPF+ LF
Sbjct: 318 SGGRR--FSFPWPFNGLF 333

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463838|ref|XP_004149638.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus] gi|449519040|ref|XP_004166543.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score =  178 bits (452), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 125/333 (37%), Positives = 167/333 (50%), Gaps = 72/333 (21%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIH----------VGSDRALSLWVQILLRMM----- 48
           K PFC +GFVE++ + I+ D+ +N  +           GS+RALSLW  ILL MM     
Sbjct: 27  KCPFCRSGFVEEIGNGISSDNNDNNNNNNNNNELESDFGSERALSLWAPILLGMMGNPRG 86

Query: 49  -------------------TGLAPSQAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGT 89
                               G     + +  E +S+++RRR   SSA +  +LQ I  G 
Sbjct: 87  RRRFRHLEFDDDDDDNEHEDGEGNRVSSETTELDSVIRRRR---SSATILQLLQGIRAGI 143

Query: 90  ASRPDDSEAL--------------------------RERSGHNAASSLDEYLVGPGLDLL 123
           A+   ++                              +    N+  SL +Y VGPGLDLL
Sbjct: 144 ATAESENSYEGERSRERERVILINPFNQTIVVQGGENQNQNQNSIGSLGDYFVGPGLDLL 203

Query: 124 LQHLLENDPNRYGSLSAQKEVVKALPMVAI----DQDLQCAVWLEEFVMGNEAKQMPYKH 179
           LQH+ ENDPNRYG+  AQKE V ALP V +    D  LQC+V L+EF +  EAK+MP KH
Sbjct: 204 LQHIAENDPNRYGTPPAQKEAVDALPTVRVELEEDSCLQCSVCLDEFEVDEEAKEMPCKH 263

Query: 180 KFHGECLMPWLEFHSSCPICRYQLPSDNLK--VQGNGPGNREESAGNEDVGNSLRLANGE 237
           KFH  C++PWLE HSSCP+CR+QLP D  K  V G G   R  S  N   GN      G 
Sbjct: 264 KFHTGCILPWLELHSSCPVCRHQLPGDESKRDVDG-GSAARFMSDLNNGNGNGSGEIEGR 322

Query: 238 DIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTSN 270
           +   +GRR     PWPF+ LF+  G+   G+++
Sbjct: 323 NSSESGRR--FSFPWPFNGLFTSQGNSSAGSAS 353

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297793133|ref|XP_002864451.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297310286|gb|EFH40710.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  178 bits (452), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 133/374 (35%), Positives = 182/374 (48%), Gaps = 102/374 (27%)

Query: 4   KFPFCETGFVEQMSSSI-------TEDSINNGIHVGSDRALSLWVQILLRMMTGLAPS-- 54
           K PFC++GF+E+MS +          D  ++    G+DRALSLW  ILL MM+       
Sbjct: 27  KCPFCQSGFIEEMSGNSGGGGGRGIRDVQDSETDFGTDRALSLWAPILLGMMSSPRRRRR 86

Query: 55  ------------------------------------------QAEQEREFESLLQRRRKR 72
                                                     + + +REFES+L+RRR+ 
Sbjct: 87  FRRSEFGEENDDNGDELSNADGNDNNNNSNVYYHHRARRHGGEIDLDREFESILRRRRRS 146

Query: 73  NSSAPLSHMLQDICFGTASR----PDDSEALRERS----------------------GHN 106
           + +  +  +LQ I  G AS      +D +  RER                        H 
Sbjct: 147 SGN--ILQLLQGIRAGIASEYESSDNDWDNSRERDRVIMINPYNQSLVVQGSSDQNPNHP 204

Query: 107 AASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEF 166
           + +SL +Y +GPGLDLLLQHL ENDPNR G+  A+KE V+ALP V I + LQC+V L++F
Sbjct: 205 SLTSLGDYFIGPGLDLLLQHLAENDPNRQGTPPARKEAVEALPTVKIMEPLQCSVCLDDF 264

Query: 167 VMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS-----DNLKVQGNGPGNREES 221
             G EAK++P KHKFH  C++PWLE HSSCP+CR++LPS     D  K+    P  R  +
Sbjct: 265 EKGTEAKELPCKHKFHIRCIVPWLELHSSCPVCRFELPSSADDDDETKIDSERPP-RTRN 323

Query: 222 AGN-------EDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLF--------SMSGSQEG 266
            G        E+VGN+ R    E   GNGRR     PWPF  LF        S S   + 
Sbjct: 324 VGESNNRNIVENVGNAERGRQDEARSGNGRR--FSFPWPFSGLFSSSSSSSSSSSSGSQS 381

Query: 267 GTSNFESSAAGTAR 280
             +NF S ++G++R
Sbjct: 382 AENNFYSRSSGSSR 395

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15241188|ref|NP_200445.1| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|10177832|dbj|BAB11261.1| unnamed protein product [Arabidopsis thaliana] gi|17380898|gb|AAL36261.1| unknown protein [Arabidopsis thaliana] gi|20259581|gb|AAM14133.1| unknown protein [Arabidopsis thaliana] gi|332009368|gb|AED96751.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  177 bits (448), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 127/341 (37%), Positives = 167/341 (48%), Gaps = 94/341 (27%)

Query: 4   KFPFCETGFVEQMSSSI-------TEDSINNGIHVGSDRALSLWVQILLRMMTGLAPS-- 54
           K PFC++GF+E+MS +          D  ++    G+DRALSLW  ILL MM+       
Sbjct: 27  KCPFCQSGFIEEMSGNGGGGGGRGIRDVQDSETDFGTDRALSLWAPILLGMMSSPRRRRR 86

Query: 55  ----------------------------------------------QAEQEREFESLLQR 68
                                                         + + +REFES+L+R
Sbjct: 87  FRRSEFGEENDDNGDDLTTNADGNGNDSNNSNNNVYRHHRARRHGGEIDLDREFESILRR 146

Query: 69  RRKRNSSAPLSHMLQDICFGTASRPDDSEA----LRERS--------------------G 104
           RR+ + +  +  +LQ I  G AS  + S+      RER                      
Sbjct: 147 RRRSSGN--ILQLLQGIRAGIASEYESSDNNWDNSRERDRVIMINPYNQSLVVPSDQNQN 204

Query: 105 HNAASSLDEYLVGPGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLE 164
           H + +SL +Y +GPGLDLLLQHL ENDPNR G+  A+KE V+ALP V I + LQC+V L+
Sbjct: 205 HPSLTSLGDYFIGPGLDLLLQHLAENDPNRQGTPPARKEAVEALPTVKIMEPLQCSVCLD 264

Query: 165 EFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS-----DNLKVQG----NGP 215
           +F  G EAK+MP KHKFH  C++PWLE HSSCP+CR++LPS     D  K          
Sbjct: 265 DFEKGTEAKEMPCKHKFHVRCIVPWLELHSSCPVCRFELPSSADDDDETKTDSERVLRTR 324

Query: 216 GNREESAGN--EDVGNSLRLANGEDIIGNGRRNWIPIPWPF 254
             RE S GN  E+VGN+ R    E   GNGRR     PWPF
Sbjct: 325 NVRETSNGNVVENVGNADRGREDEVRSGNGRR--FSFPWPF 363

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297853254|ref|XP_002894508.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297340350|gb|EFH70767.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  166 bits (419), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 115/322 (35%), Positives = 160/322 (49%), Gaps = 76/322 (23%)

Query: 4   KFPFCETGFVEQMSSSITEDSINNGIHVGSDRA-LSLWVQILLRMMTGLAPSQAEQEREF 62
           K PFC++GFVE+M     ED  ++       RA  SLW  IL+ +MT   P +  + +  
Sbjct: 27  KCPFCQSGFVEEM-----EDDDHDSSDPADVRANNSLWAPILMELMTD--PVRRRRNQSV 79

Query: 63  ESL---------------------------LQRRRKRNSSAPLSHMLQDICFGTASRPDD 95
           ES+                           + RRR+R+S+A L  +LQ I  G +   + 
Sbjct: 80  ESVEDNQNEAQTESNENNGEENDLDWQLQEILRRRRRHSAAVL-QLLQGIRAGLSVESES 138

Query: 96  S-----------------EALRERSGHN----AASSLDEYLVGPGLDLLLQHLLENDPNR 134
           +                 + +  +S  +     A SL +Y +GPG ++LLQ L ENDPNR
Sbjct: 139 TGNGDNNPGRVILINTSNQTITVQSSADMDSLPAGSLGDYFIGPGFEMLLQRLAENDPNR 198

Query: 135 YGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS 194
           YG+  A+KE V+AL  V I+  LQC+V L++F +G EAK MP +HKFHG+CL+PWLE HS
Sbjct: 199 YGTPPAKKEAVEALGTVKIEDTLQCSVCLDDFEIGTEAKLMPCEHKFHGDCLLPWLEIHS 258

Query: 195 SCPICRYQLPSDNLKVQG------NGPGNREESAGNEDVGNSLR---------LANGEDI 239
           SCP+CRYQLP+D  K         N  G+   +  +    NS R             ED 
Sbjct: 259 SCPVCRYQLPADEPKTDSVTTTSDNNGGSGAPATSSHGAENSRRQEEEEEEDAEEENEDN 318

Query: 240 IGNGRRNWIPIPWPFDDLFSMS 261
            G+G      IPWPF  LF+ S
Sbjct: 319 DGSG----FSIPWPFSTLFTSS 336

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	290
TAIR|locus:2161058	396	ATCRT1 [Arabidopsis thaliana (	0.589	0.431	0.451	4.4e-49
TAIR|locus:2131463	356	AT4G26400 [Arabidopsis thalian	0.710	0.578	0.392	1.1e-44
TAIR|locus:2193874	351	AT1G55530 [Arabidopsis thalian	0.558	0.461	0.411	4.4e-39
TAIR|locus:2092895	315	AT3G13430 [Arabidopsis thalian	0.441	0.406	0.454	6.2e-33
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.462	0.408	0.409	1.8e-25
TAIR|locus:2058465	328	RHC1A "RING-H2 finger C1A" [Ar	0.462	0.408	0.381	3.1e-19
TAIR|locus:2075175	395	RDUF1 "RING and Domain of Unkn	0.355	0.260	0.389	4e-18
ZFIN|ZDB-GENE-061215-82	310	rnf115 "ring finger protein 11	0.3	0.280	0.364	1.4e-16
TAIR|locus:2148318	407	RDUF2 "RING and Domain of Unkn	0.348	0.248	0.377	1.1e-15
TAIR|locus:2147152	310	AIP2 "ABI3-interacting protein	0.331	0.309	0.386	1.2e-15

TAIR|locus:2161058 ATCRT1 [Arabidopsis thaliana (taxid:3702)]

 Score = 367 (134.2 bits), Expect = 4.4e-49, Sum P(3) = 4.4e-49
 Identities = 83/184 (45%), Positives = 103/184 (55%)

Query:   101 ERSGHNAASSLDEYXXXXXXXXXXXXXXENDPNRYGSLSAQKEVVKALPMVAIDQDLQCA 160
             +   H + +SL +Y              ENDPNR G+  A+KE V+ALP V I + LQC+
Sbjct:   201 QNQNHPSLTSLGDYFIGPGLDLLLQHLAENDPNRQGTPPARKEAVEALPTVKIMEPLQCS 260

Query:   161 VWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS-----DNLKVQGNG- 214
             V L++F  G EAK+MP KHKFH  C++PWLE HSSCP+CR++LPS     D  K      
Sbjct:   261 VCLDDFEKGTEAKEMPCKHKFHVRCIVPWLELHSSCPVCRFELPSSADDDDETKTDSERV 320

Query:   215 --PGN-REESAGN--EDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTS 269
                 N RE S GN  E+VGN+ R    E   GNGRR     PWPF  LFS S S    TS
Sbjct:   321 LRTRNVRETSNGNVVENVGNADRGREDEVRSGNGRR--FSFPWPFSGLFSSSSSSSSSTS 378

Query:   270 NFES 273
               +S
Sbjct:   379 GSQS 382

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

TAIR|locus:2131463 AT4G26400 [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 1.1e-44, Sum P(2) = 1.1e-44
 Identities = 91/232 (39%), Positives = 128/232 (55%)

Query:    55 QAEQEREFESLLQRRRKRNSSAPLSHMLQDICFGTASRPDDSE--------------ALR 100
             + + +REFES+L+RRR+  SSA +  +LQ I  G AS  + S+              +L 
Sbjct:   125 EIDLDREFESILRRRRR--SSATILQLLQGIRAGIASEYESSDRDLLNQSAVVQGSTSLN 182

Query:   101 ERSGHNAASSLDEYXXXXXXXXXXXXXXENDPNRYGSLSAQKEVVKALPMVAIDQDLQCA 160
             +   + + S++ +Y              +ND  R+GSL A+KEVV  LP V I + LQC+
Sbjct:   183 QNRNNTSLSAIGDYFVGSSLDHLLEHLADNDSIRHGSLPARKEVVDNLPTVKISESLQCS 242

Query:   161 VWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN-LKVQGNGPGNR- 218
             + L++F  G+EAK+MP KHKFH  C++PWLE HSSCP+CRY+LP D+  KV    P  R 
Sbjct:   243 ICLDDFDKGSEAKEMPCKHKFHIRCIVPWLELHSSCPVCRYELPPDDETKVNPVRPRTRT 302

Query:   219 -EESAGNEDVGNSLRLANGEDIIGNGRRNWIPIPWPFDDLFSMSGSQEGGTS 269
              E +  NE+V +  R +N  +     RR     PWPF  LFS S S     S
Sbjct:   303 LEINVSNENVEDDARNSNVSE-----RR--FSFPWPFSGLFSSSSSSSASAS 347

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

GO:0010200 "response to chitin" evidence=IEP

GO:0000303 "response to superoxide" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0009743 "response to carbohydrate stimulus" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

TAIR|locus:2193874 AT1G55530 [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 4.4e-39, Sum P(3) = 4.4e-39
 Identities = 74/180 (41%), Positives = 93/180 (51%)

Query:   108 ASSLDEYXXXXXXXXXXXXXXENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFV 167
             A SL +Y              ENDPNRYG+  A+KE V+AL  V I++ LQC+V L++F 
Sbjct:   172 AGSLGDYFIGPGFEMLLQRLAENDPNRYGTPPAKKEAVEALATVKIEETLQCSVCLDDFE 231

Query:   168 MGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQG-------NGPGNREE 220
             +G EAK MP  HKFH +CL+PWLE HSSCP+CRYQLP+D  K          NG  +   
Sbjct:   232 IGTEAKLMPCTHKFHSDCLLPWLELHSSCPVCRYQLPADEAKTDSVTTTSDNNGSSSASA 291

Query:   221 S----AGNEDVGNSLRLANGEDIIGNGRRN------WIPIPWPFDDLFSMSGSQEGGTSN 270
             +    A N D GN  +    E+       N         IPWPF  LFS S      T +
Sbjct:   292 TTSHGAENSD-GNRRQEEEEEEEEEEEEENENNDGSGFSIPWPFSTLFSSSQDSNAPTDS 350

GO:0005737 "cytoplasm" evidence=ISM

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

TAIR|locus:2092895 AT3G13430 [Arabidopsis thaliana (taxid:3702)]

 Score = 292 (107.8 bits), Expect = 6.2e-33, Sum P(2) = 6.2e-33
 Identities = 60/132 (45%), Positives = 83/132 (62%)

Query:   108 ASSLDEYXXXXXXXXXXXXXXEND-PNRYGSLSAQKEVVKALPMVAIDQDL-QCAVWLEE 165
             + SL +Y              END  NRYG+  A KE V+AL MV I+  L QC+V L++
Sbjct:   172 SGSLGDYFIGPGFETLLQRLAENDLNNRYGTPPATKEAVEALAMVKIEDSLLQCSVCLDD 231

Query:   166 FVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS-DNLKVQGNGPGNREESAGN 224
             F +G EAK+MP KHKFH +CL+PWLE HSSCP+CRY LP+ D+ + + +   +R +   N
Sbjct:   232 FEIGMEAKEMPCKHKFHSDCLLPWLELHSSCPVCRYLLPTGDDDEPKTDAETSRNDD-NN 290

Query:   225 EDVGNSLRLANG 236
             ED+ N+   +NG
Sbjct:   291 EDISNASMASNG 302

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

TAIR|locus:2092231 AT3G19950 [Arabidopsis thaliana (taxid:3702)]

 Score = 289 (106.8 bits), Expect = 1.8e-25, P = 1.8e-25
 Identities = 63/154 (40%), Positives = 87/154 (56%)

Query:   129 ENDPNRYGSLSAQKEVVKALPMVAIDQDL------QCAVWLEEFVMGNEAKQMPYKHKFH 182
             ENDPNRYG+  A K  + ALP V + +D+      QCAV ++EF  G++ KQMP KH FH
Sbjct:   180 ENDPNRYGTPPASKSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFH 239

Query:   183 GECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGEDIIGN 242
              +CL+PWLE H+SCP+CR++LP+D+       P     S G++  G+      G+     
Sbjct:   240 QDCLLPWLELHNSCPVCRFELPTDD-------PDYENRSQGSQGSGDGQGSVEGQQT--- 289

Query:   243 GRRNWIPIPWPF---DDLFSMSGSQEGGTSNFES 273
               R  I +PWPF   D   S SG+   G  N E+
Sbjct:   290 -PRFSIQLPWPFRRQDGSGSGSGAPGTGGGNLET 322

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2058465 RHC1A "RING-H2 finger C1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 58/152 (38%), Positives = 78/152 (51%)

Query:   134 RYGSLSAQKEVVKALPMVAIDQ------DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLM 187
             R G   A +  + ALP + I Q      D  C V  +EF +G+EAKQMP  H +H +C++
Sbjct:   159 RRGPPPAPRSAIDALPTIKIAQRHLRSSDSNCPVCKDEFELGSEAKQMPCNHIYHSDCIV 218

Query:   188 PWLEFHSSCPICRYQLPSDNLKVQGNGPG---NREESAGNEDVGNSLRLANGEDIIGNGR 244
             PWL  H+SCP+CR +LPS       +GP    NR     N    +S   +N  +  GN R
Sbjct:   219 PWLVQHNSCPVCRQELPS------ASGPSSSQNRTTPTRNYRSSSSSSSSNSREN-GNER 271

Query:   245 RNWIPIPWPFDDLFSMSGSQE--GGTSNFESS 274
             RN     WPF    S S S +  GGT N ++S
Sbjct:   272 RNPFSSFWPFRSSGSSSSSTQNRGGTRNSDTS 303

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

GO:0005618 "cell wall" evidence=IDA

TAIR|locus:2075175 RDUF1 "RING and Domain of Unknown Function 1117 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 200 (75.5 bits), Expect = 4.0e-18, Sum P(2) = 4.0e-18
 Identities = 46/118 (38%), Positives = 65/118 (55%)

Query:   130 NDPNRYGSLSAQKEVVKALPMVAIDQ-----DLQCAVWLEEFVMGNEAKQMPYKHKFHGE 184
             N   R G+  A K  +++LP V I       +  CAV  E F  G E ++MP KH FHG+
Sbjct:   181 NGIGRSGNPPASKSAIESLPRVEISDCHTKAEANCAVCTEVFEAGIEGREMPCKHIFHGD 240

Query:   185 CLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSL-RLANGEDIIG 241
             C++PWL   +SCP+CR++LPSD ++       N EE A    VG ++ RL  G   +G
Sbjct:   241 CIVPWLSIRNSCPVCRFELPSDPIQ-----RSNEEEHA----VGMTIWRLPGGGFAVG 289

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

GO:0009414 "response to water deprivation" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009611 "response to wounding" evidence=RCA

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

ZFIN|ZDB-GENE-061215-82 rnf115 "ring finger protein 115" [Danio rerio (taxid:7955)]

 Score = 178 (67.7 bits), Expect = 1.4e-16, Sum P(2) = 1.4e-16
 Identities = 35/96 (36%), Positives = 53/96 (55%)

Query:   136 GSLSAQKEVVKALPMVAIDQD-----LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL 190
             G   A+KE + +LP V I Q+     ++C V  E++ +G   +Q+P  H FH +C++PWL
Sbjct:   210 GPPPAEKEKISSLPTVIITQEHTDCNMECPVCKEDYTVGEPVRQLPCNHFFHSDCIVPWL 269

Query:   191 EFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNED 226
             E H +CP+CR  L  D    Q +     E S+ N D
Sbjct:   270 ELHDTCPVCRKSLNGDESGTQSSS----EPSSLNTD 301

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2148318 RDUF2 "RING and Domain of Unknown Function 1117 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 1.1e-15, Sum P(2) = 1.1e-15
 Identities = 43/114 (37%), Positives = 64/114 (56%)

Query:   134 RYGSLSAQKEVVKALPMVAIDQ-----DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMP 188
             R G+  A K  +++LP V I       +  CAV  E F    EA++MP KH FH +C++P
Sbjct:   169 RSGNPPASKSAIESLPRVEISDCHIGSEANCAVCTEIFETETEAREMPCKHLFHDDCIVP 228

Query:   189 WLEFHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSL-RLANGEDIIG 241
             WL   +SCP+CR++LPS+  +   N   N E++A    VG ++ RL  G   +G
Sbjct:   229 WLSIRNSCPVCRFELPSEPNRRSNN---NEEDNA----VGMTIWRLPGGGFAVG 275

GO:0005634 "nucleus" evidence=ISM

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

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

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

GO:0009414 "response to water deprivation" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2147152 AIP2 "ABI3-interacting protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 1.2e-15, P = 1.2e-15
 Identities = 41/106 (38%), Positives = 63/106 (59%)

Query:   140 AQKEVVKALPMVAIDQDL--------QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE 191
             A KEVV+ LP++   ++L        +C +  E  V+G++ +++P KH FH  CL PWL+
Sbjct:   203 ASKEVVEKLPVIIFTEELLKKFGAEAECCICKENLVIGDKMQELPCKHTFHPPCLKPWLD 262

Query:   192 FHSSCPICRYQLPSDNLKVQGNGPGNREESAGNEDVGNSLRLANGE 237
              H+SCPICR++LP+D+ K + N    RE+ A  E  G    +  GE
Sbjct:   263 EHNSCPICRHELPTDDQKYE-NWK-EREKEAEEERKGAENAVRGGE 306

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009737 "response to abscisic acid stimulus" evidence=IEP

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=IMP

GO:0006865 "amino acid transport" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00130596 hypothetical protein (344 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	290
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-07
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-05
smart00184	40	smart00184, RING, Ring finger	2e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.001
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.003

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

 Score = 58.9 bits (143), Expect = 6e-12
 Identities = 19/43 (44%), Positives = 26/43 (60%)

Query: 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200
           +C + L+EF  G E   +P  H FH ECL  WL   ++CP+CR
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 51.5 bits (123), Expect = 2e-07
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 139 SAQKEVVKALPMVAI---DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS- 194
           +  K  +K L +      D+ ++CA+ +  F+  +  + +P  H+FH  C+  WL  +S 
Sbjct: 303 TTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSN 362

Query: 195 SCPICRYQLP 204
            CP+CR  +P
Sbjct: 363 KCPVCRTAIP 372

Length = 374

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

 Score = 44.0 bits (104), Expect = 1e-06
 Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 5/45 (11%)

Query: 158 QCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLE-FHSSCPICR 200
           +C + LEEF    E   +    H F   C+  WL+   ++CP+CR
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY 201
           ++L+C + L+     +     P  H F  EC++ +L+  S CPICR 
Sbjct: 1   EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 45.7 bits (108), Expect = 1e-05
 Identities = 26/106 (24%), Positives = 38/106 (35%), Gaps = 23/106 (21%)

Query: 138 LSAQKEVVKALPMVAIDQ----DLQCAVWLEE-FVMGNEA---------KQMPYKHKFHG 183
             A K++    P    +Q    D  C + ++E F   +E          K++P  H  H 
Sbjct: 265 RRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHL 324

Query: 184 ECLMPWLEFHSSCPICRYQLPSDNLKVQGNGPGNREES--AGNEDV 227
            CL  WLE   +CPICR         V  +       S    N  +
Sbjct: 325 HCLKNWLERQQTCPICR-------RPVIFDQSSPTPASPNVRNTQI 363

Length = 491

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

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 10/23 (43%), Positives = 15/23 (65%)

Query: 178 KHKFHGECLMPWLEFHSSCPICR 200
            H FH  C+  WL+  ++CP+CR
Sbjct: 51  GHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 37.9 bits (88), Expect = 2e-04
 Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPIC 199
           C + LEE++   +   +P  H F   C+  WLE  + +CPIC
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 35.9 bits (83), Expect = 0.001
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPIC 199
           C + LEE    +    +P  H F  +C++ WLE  + +CP+C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 38.9 bits (90), Expect = 0.003
 Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 2/30 (6%)

Query: 178  KHKFHGECLMPWLEF--HSSCPICRYQLPS 205
            K+KFH  CL  W      S+CP+CR ++  
Sbjct: 1495 KNKFHTRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	290
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.6
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.52
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.43
PHA02929	238	N1R/p28-like protein; Provisional	99.24
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.22
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.22
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.13
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.97
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.96
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.95
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.92
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.91
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.86
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.86
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.83
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.8
PF14634	44	zf-RING_5: zinc-RING finger domain	98.72
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.72
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.7
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.7
PHA02926	242	zinc finger-like protein; Provisional	98.69
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.67
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.42
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.42
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.41
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.35
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.33
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.3
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.27
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.26
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.23
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.22
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.16
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.12
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.03
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.03
PF14369	35	zf-RING_3: zinc-finger	97.95
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.91
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.84
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.82
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.79
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.7
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.64
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.61
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.61
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.59
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.46
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.34
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.14
KOG2660	331	consensus Locus-specific chromosome binding protei	96.95
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.84
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.74
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.69
COG5152	259	Uncharacterized conserved protein, contains RING a	96.61
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.55
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.41
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.41
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.23
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.17
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.07
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.0
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.97
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.95
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.95
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.89
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.88
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.83
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.79
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.67
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.46
PHA02862	156	5L protein; Provisional	95.42
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.38
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.18
PHA03096	284	p28-like protein; Provisional	94.82
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.72
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.68
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.3
PF04641	260	Rtf2: Rtf2 RING-finger	94.23
KOG4739	233	consensus Uncharacterized protein involved in syna	94.04
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.9
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	93.57
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.42
KOG1940	276	consensus Zn-finger protein [General function pred	93.39
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.35
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.19
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.14
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	92.92
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.68
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.08
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.21
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.13
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	89.67
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	89.54
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.81
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	88.74
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	88.35
KOG4367	699	consensus Predicted Zn-finger protein [Function un	88.23
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	88.2
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.75
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.31
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	86.28
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	84.8
KOG3002	299	consensus Zn finger protein [General function pred	84.64
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	83.59
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	82.31
KOG1609	323	consensus Protein involved in mRNA turnover and st	82.22
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	81.95
KOG3899	381	consensus Uncharacterized conserved protein [Funct	81.84
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	80.75

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

Probab=99.60  E-value=6.2e-16  Score=146.94  Aligned_cols=75  Identities=29%  Similarity=0.674  Sum_probs=64.5

Q ss_pred             CCCCcchHHHHHhCCccccCCc------ccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCCCC
Q 039647          135 YGSLSAQKEVVKALPMVAIDQD------LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSDN  207 (290)
Q Consensus       135 ~~~~pa~~~~i~~lp~~~~~~~------~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~~  207 (290)
                      +.-..+.|..++++|..++...      ..|+||+|+|+.|++++.|||+|.||..||++||.++. .||+||.++....
T Consensus       202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            3556788999999999988741      28999999999999999999999999999999997765 5999999887655


Q ss_pred             cc
Q 039647          208 LK  209 (290)
Q Consensus       208 ~~  209 (290)
                      ..
T Consensus       282 ~~  283 (348)
T KOG4628|consen  282 GS  283 (348)
T ss_pred             CC
Confidence            43

>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=99.52  E-value=4e-15  Score=101.31  Aligned_cols=44  Identities=41%  Similarity=0.985  Sum_probs=40.5

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR  200 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  200 (290)
                      ++|+||++.|..++.++.|+|+|.||..||..|++.+.+||+||
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            47999999999889999999999999999999999999999997

...

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

Probab=99.43  E-value=5.7e-13  Score=126.36  Aligned_cols=70  Identities=31%  Similarity=0.640  Sum_probs=56.4

Q ss_pred             chHHHHHhCCccccC----Ccccccccccc-cccC---------CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          140 AQKEVVKALPMVAID----QDLQCAVWLEE-FVMG---------NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       140 a~~~~i~~lp~~~~~----~~~~C~ICle~-f~~~---------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      +.|+.-+.+|++..+    ++-.|.||+|+ |+.+         .+++.|||||+||.+|++.|++++++||+||.++.-
T Consensus       267 ~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         267 ATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             HhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            456666667776654    47899999999 5544         257999999999999999999999999999999765


Q ss_pred             CCcc
Q 039647          206 DNLK  209 (290)
Q Consensus       206 ~~~~  209 (290)
                      +...
T Consensus       347 d~~~  350 (491)
T COG5243         347 DQSS  350 (491)
T ss_pred             ccCC
Confidence            5444

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=5.7e-12  Score=114.97  Aligned_cols=64  Identities=27%  Similarity=0.541  Sum_probs=52.1

Q ss_pred             hHHHHHhCCccccC--------CcccccccccccccCCc-----ceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          141 QKEVVKALPMVAID--------QDLQCAVWLEEFVMGNE-----AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       141 ~~~~i~~lp~~~~~--------~~~~C~ICle~f~~~~~-----~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      .+..++.+|.+..+        .+.+|+||++.+.....     ++.++|+|.||..||.+|++.+.+||+||..+.
T Consensus       151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            68888999987533        35799999999875431     234469999999999999999999999999775

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

Probab=99.22  E-value=4.9e-12  Score=117.37  Aligned_cols=50  Identities=30%  Similarity=0.941  Sum_probs=46.6

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPS  205 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  205 (290)
                      ..+|+|||+.|..+++.+.|||+|.||..||.+|+. -+..||+||.++++
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            479999999999999999999999999999999997 67789999999875

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.22  E-value=6.2e-12  Score=94.97  Aligned_cols=45  Identities=33%  Similarity=0.682  Sum_probs=36.0

Q ss_pred             cccccccccccccC----------CcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647          156 DLQCAVWLEEFVMG----------NEAKQMPYKHKFHGECLMPWLEFHSSCPICR  200 (290)
Q Consensus       156 ~~~C~ICle~f~~~----------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  200 (290)
                      +..|+||++.|...          -.+...+|+|.||..||.+||+.+.+||+||
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            45699999999322          2244557999999999999999999999997

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 ....

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.13  E-value=9.5e-11  Score=103.47  Aligned_cols=58  Identities=21%  Similarity=0.454  Sum_probs=45.9

Q ss_pred             cccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc----------------CCCCCcccccCCCCCcccC
Q 039647          151 VAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF----------------HSSCPICRYQLPSDNLKVQ  211 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~~~~~~~  211 (290)
                      +...++.+|+||++.+++   ++.++|||.||..||..|+..                +..||+||..+........
T Consensus        13 ~~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi   86 (193)
T PLN03208         13 VDSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI   86 (193)
T ss_pred             ccCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence            334457899999999865   677899999999999999852                2479999999977655443

>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=98.97  E-value=4.9e-10  Score=74.29  Aligned_cols=44  Identities=34%  Similarity=0.879  Sum_probs=36.3

Q ss_pred             cccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccC
Q 039647          158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQL  203 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l  203 (290)
                      +|+||++.+.  +....++|+|.||..|+..|++. ...||+|+..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983  33445559999999999999987 77899998754

>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=98.96  E-value=3.8e-10  Score=78.77  Aligned_cols=46  Identities=30%  Similarity=0.598  Sum_probs=40.0

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      +..|.||++.+..   +..+||+|. ||..|+..|++....||+||.++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            5789999998654   788999999 999999999999999999999874

...

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

Probab=98.95  E-value=8.2e-10  Score=99.42  Aligned_cols=52  Identities=23%  Similarity=0.507  Sum_probs=42.5

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhc---CCCCCcccccCCCCCccc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF---HSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~~~~~~  210 (290)
                      ..+|.||||.-++   +++..|||.||+.||.+||..   .+.||+||..+..+....
T Consensus        47 ~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP  101 (230)
T KOG0823|consen   47 FFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP  101 (230)
T ss_pred             ceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence            5799999998554   667779999999999999974   456999999887665443

>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=98.92  E-value=6.4e-10  Score=73.78  Aligned_cols=39  Identities=33%  Similarity=0.793  Sum_probs=33.3

Q ss_pred             ccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C  199 (290)
                      |+||++.+..  .++.++|||.||..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999875  34788999999999999999988899998

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

Probab=98.91  E-value=5.7e-10  Score=103.21  Aligned_cols=50  Identities=24%  Similarity=0.640  Sum_probs=44.3

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      .-.|.+||+....   +..+||||+||..||..|+..+..||+||..+...+.
T Consensus       239 ~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  239 TRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV  288 (293)
T ss_pred             CCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence            4799999998654   7789999999999999999999999999998876653

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

Probab=98.86  E-value=1.4e-09  Score=73.73  Aligned_cols=38  Identities=32%  Similarity=0.644  Sum_probs=30.0

Q ss_pred             ccccccccccCCcceecCCCCcccHhhHHHHHhcC----CCCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH----SSCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~----~~CP~C  199 (290)
                      |+||++.|..   ++.|+|||.|+..||..|++..    ..||+|
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            8999999986   8899999999999999999643    369988

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

Probab=98.86  E-value=1e-09  Score=111.18  Aligned_cols=49  Identities=41%  Similarity=0.874  Sum_probs=44.7

Q ss_pred             cccccccccccccCCc--ceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNE--AKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~--~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      +..|+||+|++..+.+  ++.|||+|+||..|+..|++++++||+||..+.
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            6899999999988765  889999999999999999999999999999443

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

Probab=98.83  E-value=2.2e-09  Score=83.11  Aligned_cols=51  Identities=27%  Similarity=0.599  Sum_probs=39.3

Q ss_pred             Ccccccccccccc--------cCC--cceecCCCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFV--------MGN--EAKQMPYKHKFHGECLMPWLEF---HSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~--------~~~--~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  205 (290)
                      +++.|.||+..|.        .|+  .++.-.|+|.||..||.+||..   +..||+||..+..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            4789999999997        222  1233359999999999999974   5689999997653

>smart00504 Ubox Modified RING finger domain

Probab=98.80  E-value=4.7e-09  Score=75.80  Aligned_cols=48  Identities=19%  Similarity=0.411  Sum_probs=42.3

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ..|+||++.+..   ++.++|||+|+..||.+|++.+..||+|+..+...+
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            579999999876   578899999999999999988899999998885544

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.72  E-value=7.1e-09  Score=70.62  Aligned_cols=44  Identities=25%  Similarity=0.573  Sum_probs=38.7

Q ss_pred             cccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647          158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY  201 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  201 (290)
                      .|.||++.|.....+..++|||+||..||..+......||+||+
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            59999999965567889999999999999999966778999985

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

Probab=98.72  E-value=5.2e-09  Score=90.92  Aligned_cols=51  Identities=20%  Similarity=0.482  Sum_probs=42.7

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ...|+|||+.|.... +....|||+||..||+.-++....||+|++.|..+.
T Consensus       131 ~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            379999999998532 345679999999999999999999999998776543

>smart00184 RING Ring finger

Probab=98.70  E-value=1.1e-08  Score=65.33  Aligned_cols=38  Identities=37%  Similarity=0.981  Sum_probs=33.0

Q ss_pred             ccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~C  199 (290)
                      |+||++..   ..+..++|+|.||..|+..|++ ....||+|
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            88999983   3478899999999999999998 66679987

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)

>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=98.70  E-value=9.5e-09  Score=68.39  Aligned_cols=39  Identities=38%  Similarity=0.874  Sum_probs=33.5

Q ss_pred             ccccccccccCCcceecCCCCcccHhhHHHHHh--cCCCCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE--FHSSCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~C  199 (290)
                      |+||++.+...  ...++|+|.||..||..|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998762  35889999999999999998  55679998

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 ....

>PHA02926 zinc finger-like protein; Provisional

Probab=98.69  E-value=9.8e-09  Score=92.23  Aligned_cols=50  Identities=22%  Similarity=0.529  Sum_probs=37.9

Q ss_pred             CcccccccccccccCC-----cceec-CCCCcccHhhHHHHHhcC------CCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGN-----EAKQM-PYKHKFHGECLMPWLEFH------SSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~-----~~~~l-pC~H~FH~~CI~~Wl~~~------~~CP~CR~~l~  204 (290)
                      .+.+|+||+|..-...     ....| +|+|.||..||..|.+.+      .+||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4689999999863321     12344 599999999999999753      45999998765

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.67  E-value=1.4e-08  Score=98.89  Aligned_cols=51  Identities=24%  Similarity=0.537  Sum_probs=43.9

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      +.....|+||++.|..   ++.++|+|.||..||..|+.....||+|+..+...
T Consensus        23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            4456899999999975   56789999999999999998888999999877643

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

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

Probab=98.42  E-value=1.5e-07  Score=71.72  Aligned_cols=32  Identities=28%  Similarity=0.714  Sum_probs=28.5

Q ss_pred             CCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          176 PYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       176 pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      -|.|.||..||.+||..+..||++|+++...+
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~   84 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD   84 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence            39999999999999999999999999775543

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

Probab=98.42  E-value=9.4e-08  Score=87.70  Aligned_cols=60  Identities=28%  Similarity=0.587  Sum_probs=46.7

Q ss_pred             HHHhCCccccCCcccccccccccccCCcceecCCCCcccHhhHHH-HHhcCCC-CCcccccCCCCC
Q 039647          144 VVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMP-WLEFHSS-CPICRYQLPSDN  207 (290)
Q Consensus       144 ~i~~lp~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~~  207 (290)
                      ..+.+|... ..+..|.||++..+.   +..++|||+||..||.. |-.++.. ||+||..+..++
T Consensus       204 ~kn~~pfip-~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         204 KKNGLPFIP-LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccCCccc-ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            334444444 457899999998664   78899999999999999 8876665 999998776544

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

Probab=98.41  E-value=1.1e-07  Score=94.03  Aligned_cols=62  Identities=27%  Similarity=0.526  Sum_probs=47.1

Q ss_pred             CCccccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-----CCCCCcccccCCCCCcccCC
Q 039647          148 LPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-----HSSCPICRYQLPSDNLKVQG  212 (290)
Q Consensus       148 lp~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~~~~~~~~  212 (290)
                      ++.+.+..+..|+||++....   +..+.|||+||..||.++|..     ...||+|+..+..++.....
T Consensus       178 i~qv~~~t~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~  244 (513)
T KOG2164|consen  178 IFQVYGSTDMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF  244 (513)
T ss_pred             hhhhhcCcCCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence            333444448899999998765   556669999999999998854     35799999988887655443

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

Probab=98.35  E-value=2.8e-07  Score=62.81  Aligned_cols=34  Identities=26%  Similarity=0.490  Sum_probs=21.9

Q ss_pred             cccccccccc-CCcceecCCCCcccHhhHHHHHhcC
Q 039647          159 CAVWLEEFVM-GNEAKQMPYKHKFHGECLMPWLEFH  193 (290)
Q Consensus       159 C~ICle~f~~-~~~~~~lpC~H~FH~~CI~~Wl~~~  193 (290)
                      |+||++ |.. ...++.|+|||+|+.+||.+|++..
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 754 4457899999999999999999743

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

Probab=98.33  E-value=1.4e-07  Score=89.13  Aligned_cols=51  Identities=25%  Similarity=0.662  Sum_probs=45.3

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      .-+.|.||.+.|.+   +..+||+|.||.-||..+|..+..||.|+.++.+...
T Consensus        22 ~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L   72 (442)
T KOG0287|consen   22 DLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL   72 (442)
T ss_pred             HHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence            34799999999997   7889999999999999999999999999988765543

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

Probab=98.30  E-value=1.8e-07  Score=97.59  Aligned_cols=54  Identities=30%  Similarity=0.684  Sum_probs=41.7

Q ss_pred             cccCCcccccccccccccCC---cceecC-CCCcccHhhHHHHHhc--CCCCCcccccCC
Q 039647          151 VAIDQDLQCAVWLEEFVMGN---EAKQMP-YKHKFHGECLMPWLEF--HSSCPICRYQLP  204 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~---~~~~lp-C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  204 (290)
                      .++++..+|+||+..+..-+   .-+.++ |+|.||..|+.+|++.  ..+||+||.+++
T Consensus      1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34556789999999887322   123444 9999999999999974  568999998775

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

Probab=98.27  E-value=1.9e-07  Score=85.96  Aligned_cols=61  Identities=23%  Similarity=0.522  Sum_probs=47.1

Q ss_pred             CCccccCCcccccccccccccCC-------cceecCCCCcccHhhHHHHH--hcCCCCCcccccCCCCCcc
Q 039647          148 LPMVAIDQDLQCAVWLEEFVMGN-------EAKQMPYKHKFHGECLMPWL--EFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       148 lp~~~~~~~~~C~ICle~f~~~~-------~~~~lpC~H~FH~~CI~~Wl--~~~~~CP~CR~~l~~~~~~  209 (290)
                      +|+.-+ ++..|+||-..+....       +.-+|.|+|+||..||+-|-  ..+++||.|+..+..+..-
T Consensus       217 lPtkhl-~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf  286 (328)
T KOG1734|consen  217 LPTKHL-SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF  286 (328)
T ss_pred             CCCCCC-CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence            444333 3679999998886554       56789999999999999997  4678999999877655433

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

Probab=98.26  E-value=6.2e-07  Score=62.70  Aligned_cols=42  Identities=24%  Similarity=0.595  Sum_probs=33.4

Q ss_pred             cccccccccccCCcceecCCC-----CcccHhhHHHHHhc--CCCCCccc
Q 039647          158 QCAVWLEEFVMGNEAKQMPYK-----HKFHGECLMPWLEF--HSSCPICR  200 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~Wl~~--~~~CP~CR  200 (290)
                      .|-||++ +..++.+..+||.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 4444556788985     88999999999954  45899995

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

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

Probab=98.23  E-value=5.7e-07  Score=67.72  Aligned_cols=51  Identities=22%  Similarity=0.409  Sum_probs=40.1

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~  208 (290)
                      +...|+||.+.|.+   ++.+||||.|.+.||..||+. +.+||+|+..+...+.
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l   54 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL   54 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred             cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence            35789999999986   789999999999999999988 8899999988876543

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 ....

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

Probab=98.22  E-value=2.4e-07  Score=70.07  Aligned_cols=50  Identities=28%  Similarity=0.650  Sum_probs=37.1

Q ss_pred             cccccccccccc--------cCC-cceecC-CCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647          156 DLQCAVWLEEFV--------MGN-EAKQMP-YKHKFHGECLMPWLEF---HSSCPICRYQLPS  205 (290)
Q Consensus       156 ~~~C~ICle~f~--------~~~-~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  205 (290)
                      ++.|-||.-.|.        .|+ -+.++- |.|.||..||.+|+..   +..||+||+++..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            468999998885        222 233333 9999999999999953   4579999987643

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

Probab=98.18  E-value=6.2e-07  Score=80.06  Aligned_cols=45  Identities=36%  Similarity=0.704  Sum_probs=39.9

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCccc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR  200 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  200 (290)
                      +.+...|+||++.|...   +.+||+|.||..||..++.....||.||
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            34568999999999874   8999999999999999998666899999

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

Probab=98.16  E-value=7.8e-07  Score=87.66  Aligned_cols=50  Identities=28%  Similarity=0.822  Sum_probs=39.6

Q ss_pred             cccccccccccccCCc--------------ceecCCCCcccHhhHHHHHh-cCCCCCcccccCCC
Q 039647          156 DLQCAVWLEEFVMGNE--------------AKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPS  205 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~--------------~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  205 (290)
                      ...|+||+..+..-..              -...||.|+||..|+.+|.. .+-.||+||..++.
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            4699999988752211              13458999999999999998 56699999999874

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

Probab=98.12  E-value=9.7e-07  Score=82.15  Aligned_cols=48  Identities=21%  Similarity=0.419  Sum_probs=42.7

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      .-+.|-||.+.|.+   +...+|||.||.-||...|..+..||+||.+...
T Consensus        24 s~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          24 SMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             hHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            34799999999987   6778899999999999999999999999986653

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

Probab=98.03  E-value=1.1e-06  Score=65.94  Aligned_cols=49  Identities=24%  Similarity=0.553  Sum_probs=22.9

Q ss_pred             cccccccccccc-cCCcc-eec---CCCCcccHhhHHHHHhc----C-------CCCCcccccCC
Q 039647          156 DLQCAVWLEEFV-MGNEA-KQM---PYKHKFHGECLMPWLEF----H-------SSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~-~~~~~-~~l---pC~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~  204 (290)
                      +.+|.||+..+. .++.+ +..   .|++.||..||..||..    +       ..||.|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999876 33222 233   49999999999999962    1       14999998774

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.03  E-value=3.3e-06  Score=79.74  Aligned_cols=53  Identities=19%  Similarity=0.250  Sum_probs=39.1

Q ss_pred             cccccccccc--cccCCcceecCCCCcccHhhHHHHH-hcCCCCCcccccCCCCCc
Q 039647          156 DLQCAVWLEE--FVMGNEAKQMPYKHKFHGECLMPWL-EFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~--f~~~~~~~~lpC~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~~~  208 (290)
                      +..|+||+..  +...-+..+.+|||.||..||...| .....||+|+..+.....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f   58 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF   58 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence            4689999995  3332223333799999999999976 455689999988876653

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).

>PF14369 zf-RING_3: zinc-finger

Probab=97.95  E-value=3.5e-06  Score=54.96  Aligned_cols=14  Identities=43%  Similarity=0.899  Sum_probs=12.8

Q ss_pred             cCCCCCCCCceeec
Q 039647            3 SKFPFCETGFVEQM   16 (290)
Q Consensus         3 ~~Cp~C~~GFvEe~   16 (290)
                      ++||+|++||||||
T Consensus        22 ~~CP~C~~gFvEei   35 (35)
T PF14369_consen   22 VACPRCHGGFVEEI   35 (35)
T ss_pred             cCCcCCCCcEeEeC
Confidence            45999999999998

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

Probab=97.91  E-value=5e-06  Score=66.42  Aligned_cols=29  Identities=28%  Similarity=0.668  Sum_probs=26.3

Q ss_pred             CCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          176 PYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       176 pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      -|.|.||..||.+||+.++.||+|.++..
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            49999999999999999999999977653

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

Probab=97.84  E-value=7.7e-06  Score=78.77  Aligned_cols=49  Identities=29%  Similarity=0.679  Sum_probs=36.6

Q ss_pred             ccccccccccccCCcceecC-CCCcccHhhHHHHHhc---CCCCCcccccCCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEF---HSSCPICRYQLPS  205 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  205 (290)
                      ..|.||.+-+-....+..+. |||+||..|+.+|++.   ...||+|+-.++.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~   57 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE   57 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence            58999965555444454454 9999999999999974   3579999844443

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

Probab=97.82  E-value=7.9e-06  Score=76.42  Aligned_cols=89  Identities=18%  Similarity=0.369  Sum_probs=63.7

Q ss_pred             ccHHHHHHHHHhcCCCCCCCCcchHHHHHhCCccccCC---cccccccccccccCCcceecCCCCcccHhhHHHHHhc--
Q 039647          118 PGLDLLLQHLLENDPNRYGSLSAQKEVVKALPMVAIDQ---DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--  192 (290)
Q Consensus       118 ~~l~~ll~~l~~~~~~~~~~~pa~~~~i~~lp~~~~~~---~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--  192 (290)
                      +-|.+|.+++.+.-....| -|.--+.|+......-..   .-.|.|||--|..++...+++|-|.||..|+..+|..  
T Consensus        75 ~~~~~i~~~~~~iikq~~g-~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~  153 (368)
T KOG4445|consen   75 PEFREIQRQIQEIIKQNSG-MPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL  153 (368)
T ss_pred             HHHHHHHHHHHHHHHhcCC-CchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence            4667777776554333445 455566666655443332   4799999999999998899999999999999887631  


Q ss_pred             ---------------------CCCCCcccccCCCCC
Q 039647          193 ---------------------HSSCPICRYQLPSDN  207 (290)
Q Consensus       193 ---------------------~~~CP~CR~~l~~~~  207 (290)
                                           ..+||+||..|..+.
T Consensus       154 ~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  154 TGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence                                 226999999876543

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

Probab=97.79  E-value=3.3e-06  Score=80.47  Aligned_cols=53  Identities=25%  Similarity=0.473  Sum_probs=42.3

Q ss_pred             cccCCcccccccccccccCCcceecC-CCCcccHhhHHHHHh-cCCCCCcccccCCCC
Q 039647          151 VAIDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE-FHSSCPICRYQLPSD  206 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~  206 (290)
                      ..+..+..|+|||+.++.   .+..+ |.|.||.+||..-++ ..+.||.||+.+..+
T Consensus        38 ~~~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   38 AMFDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             HHhhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            344557899999999875   33444 999999999999985 577999999987654

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

Probab=97.70  E-value=8.4e-06  Score=59.98  Aligned_cols=49  Identities=16%  Similarity=0.455  Sum_probs=25.3

Q ss_pred             cccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          156 DLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      -..|++|.+.++.   ++.| .|.|+||..||..-+..  .||+|+.+...++..
T Consensus         7 lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    7 LLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             TTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred             hcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence            4789999999875   4444 49999999999885543  499999887766643

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

Probab=97.64  E-value=2.2e-05  Score=73.47  Aligned_cols=48  Identities=19%  Similarity=0.382  Sum_probs=39.9

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSD  206 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~  206 (290)
                      ..+|+||+....   .++.|+|+|+||..||+--.+. +.+|++||.++...
T Consensus         7 ~~eC~IC~nt~n---~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGN---CPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCC---cCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            469999998754   4689999999999999987754 55699999998764

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

Probab=97.61  E-value=3.5e-05  Score=73.62  Aligned_cols=48  Identities=23%  Similarity=0.460  Sum_probs=41.3

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      ..+|.|||.+-.+   +..|||-|. .|..|.+..--+++.||+||..+..-
T Consensus       290 gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  290 GKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             CCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            5799999998665   889999998 79999988777889999999987543

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

Probab=97.61  E-value=2.4e-05  Score=76.68  Aligned_cols=54  Identities=35%  Similarity=0.746  Sum_probs=40.5

Q ss_pred             CccccCCcccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          149 PMVAIDQDLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       149 p~~~~~~~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      |...+.+-.+|+||||-+.... -++...|.|.||-.|+.+|..  .+||+||.-..
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            4444455679999999986533 234555999999999999974  46999998554

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

Probab=97.59  E-value=1.5e-05  Score=82.43  Aligned_cols=52  Identities=23%  Similarity=0.399  Sum_probs=45.4

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ...|++|+..|.++......+|+|.||..||..|-+..++||+||..+....
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            3689999999988776677789999999999999999999999999875543

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

Probab=97.48  E-value=7.6e-05  Score=71.80  Aligned_cols=62  Identities=19%  Similarity=0.458  Sum_probs=43.1

Q ss_pred             HHHHhCCccccCCcccccccccccccCC----cceecC-CCCcccHhhHHHHH--hc-----CCCCCcccccCC
Q 039647          143 EVVKALPMVAIDQDLQCAVWLEEFVMGN----EAKQMP-YKHKFHGECLMPWL--EF-----HSSCPICRYQLP  204 (290)
Q Consensus       143 ~~i~~lp~~~~~~~~~C~ICle~f~~~~----~~~~lp-C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l~  204 (290)
                      ..++..-...-..+.+|.||++......    .-..|| |.|.||..||..|-  .+     ...||.||....
T Consensus       148 ~~~e~~~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  148 SAMERSFALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             HhhhhccCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            3344433333466789999999865422    013445 99999999999999  44     468999987553

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

Probab=97.46  E-value=4.1e-05  Score=79.17  Aligned_cols=52  Identities=23%  Similarity=0.434  Sum_probs=42.6

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDN  207 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~  207 (290)
                      |.+-+.|++|-.-+++   ++...|+|+||..||..-+. ++..||.|...|-.-+
T Consensus       640 yK~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  640 YKELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HHhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3456899999977765   56667999999999999995 6778999998886654

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

Probab=97.34  E-value=0.00011  Score=71.32  Aligned_cols=47  Identities=21%  Similarity=0.658  Sum_probs=36.9

Q ss_pred             cccccccccccccCC--cceecCCCCcccHhhHHHHHh--cCCCCCccccc
Q 039647          156 DLQCAVWLEEFVMGN--EAKQMPYKHKFHGECLMPWLE--FHSSCPICRYQ  202 (290)
Q Consensus       156 ~~~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~CR~~  202 (290)
                      ..+|+||++.|+...  .+..+.|+|.|...||.+||.  ....||.|..+
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            368999999997433  345566999999999999995  24479999753

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

Probab=97.29  E-value=7.3e-05  Score=53.31  Aligned_cols=46  Identities=24%  Similarity=0.472  Sum_probs=35.4

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHh-cCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLE-FHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~-~~~~CP~CR~~l~  204 (290)
                      +++|.||+|.-.+   .+...|||. .|.+|-...++ .+..||+||.++.
T Consensus         7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            4799999987432   345569997 68888777665 7899999998764

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

Probab=97.18  E-value=0.00019  Score=70.38  Aligned_cols=49  Identities=29%  Similarity=0.578  Sum_probs=43.2

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ..+.+|.||+..|..   ++.+||||.||..||..-+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence            346899999998875   6778999999999999988888899999998875

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

Probab=97.14  E-value=0.00023  Score=69.76  Aligned_cols=55  Identities=25%  Similarity=0.581  Sum_probs=45.5

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      +++++.|++|...+.+..  ....|+|.||..|+..|+..+..||.|+..+...+..
T Consensus        18 ~~~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL   72 (391)
T ss_pred             CcccccCccccccccCCC--CCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence            566799999999988632  2257999999999999999999999998877665544

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

Probab=96.95  E-value=0.00024  Score=67.35  Aligned_cols=50  Identities=20%  Similarity=0.500  Sum_probs=41.4

Q ss_pred             CCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      ....+|.+|...|-+   +.... |-|.||+.||...|+....||+|...+-..
T Consensus        13 n~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   13 NPHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ccceehhhccceeec---chhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            346899999999976   33444 999999999999999999999998766544

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

Probab=96.84  E-value=0.00047  Score=49.72  Aligned_cols=41  Identities=24%  Similarity=0.596  Sum_probs=28.3

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPI  198 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~  198 (290)
                      ...|+|.+..|+.  .++...|+|.|-+..|..||+.  ...||+
T Consensus        11 ~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            5799999999885  4566679999999999999943  446998

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

Probab=96.74  E-value=0.00057  Score=66.40  Aligned_cols=50  Identities=24%  Similarity=0.599  Sum_probs=41.6

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCcccccCCCCCcc
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPICRYQLPSDNLK  209 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~  209 (290)
                      ..|.||-|.   +..+++=||||..|..|+..|-..  .++||.||.++...+..
T Consensus       370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            589999976   344888899999999999999943  67999999999876543

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

Probab=96.69  E-value=0.00056  Score=66.29  Aligned_cols=46  Identities=37%  Similarity=0.671  Sum_probs=38.0

Q ss_pred             cccccccccccccCC-cceecCCCCcccHhhHHHHHhc--CCCCCcccc
Q 039647          156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEF--HSSCPICRY  201 (290)
Q Consensus       156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~  201 (290)
                      .+-|..|-+.+-..+ ....|||.|+||..|+...|+.  ..+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            478999999886443 4677899999999999999975  458999984

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

Probab=96.61  E-value=0.00071  Score=60.30  Aligned_cols=46  Identities=13%  Similarity=0.321  Sum_probs=40.1

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ...|.||.++|+.   ++...|||.||..|...-++....|-+|-+...
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            3689999999986   677789999999999999999999999976543

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

Probab=96.55  E-value=0.00048  Score=59.52  Aligned_cols=28  Identities=21%  Similarity=0.532  Sum_probs=26.4

Q ss_pred             cccccccccccccCCcceecCCCCcccH
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHG  183 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~  183 (290)
                      .-+|.||||+++.|+++..|||-.+||+
T Consensus       177 kGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  177 KGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             CCcEEEEhhhccCCCceeccceEEEeec
Confidence            3699999999999999999999999997

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

Probab=96.41  E-value=0.00095  Score=52.59  Aligned_cols=36  Identities=22%  Similarity=0.356  Sum_probs=30.6

Q ss_pred             cccCCcccccccccccccCCcceecCCCCcccHhhHH
Q 039647          151 VAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLM  187 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~  187 (290)
                      +.+++...|+||...+.. ......||+|+||..|+.
T Consensus        73 v~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   73 VVITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EEECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            456778899999999876 557888999999999975

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 [].

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

Probab=96.41  E-value=0.0021  Score=70.59  Aligned_cols=50  Identities=32%  Similarity=0.562  Sum_probs=40.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcC----------CCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH----------SSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~  204 (290)
                      .++.|.||.-+--.....+.|-|+|+||..|...-|+..          -+||+|+.++.
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            468999999876665678899999999999998777642          26999998774

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

Probab=96.23  E-value=0.0032  Score=43.52  Aligned_cols=40  Identities=28%  Similarity=0.600  Sum_probs=27.2

Q ss_pred             ccccccccccCCcceecCCC--C---cccHhhHHHHHh--cCCCCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYK--H---KFHGECLMPWLE--FHSSCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~--H---~FH~~CI~~Wl~--~~~~CP~C  199 (290)
                      |-||++.-.... ....||.  -   .-|..|+..|+.  ....|++|
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            779999876544 5667854  3   679999999996  45679887

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

Probab=96.17  E-value=0.0017  Score=54.48  Aligned_cols=35  Identities=11%  Similarity=0.377  Sum_probs=29.8

Q ss_pred             cccccccccccccCCcceecCCC------CcccHhhHHHHH
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYK------HKFHGECLMPWL  190 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~------H~FH~~CI~~Wl  190 (290)
                      ..+|.||++.+...+-++.++|+      |.||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            47999999999874557777876      889999999994

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.

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

Probab=96.07  E-value=0.0033  Score=66.02  Aligned_cols=48  Identities=21%  Similarity=0.534  Sum_probs=35.9

Q ss_pred             CCcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCC-------CCCcccc
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHS-------SCPICRY  201 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~-------~CP~CR~  201 (290)
                      ....+|.||++.+.....+=.. .|-|+||..||..|.....       .||.|+.
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            3457999999998764433222 3899999999999996421       4999984

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

Probab=96.00  E-value=0.0047  Score=56.12  Aligned_cols=51  Identities=20%  Similarity=0.401  Sum_probs=41.3

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhc--------CCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--------HSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~~  207 (290)
                      ..-|..|.-.+..|+. +.|-|-|.||..|+..|-..        ...||.|..++....
T Consensus        50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            4689999999998875 56779999999999999853        336999998876543

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

Probab=95.97  E-value=0.0031  Score=63.33  Aligned_cols=51  Identities=22%  Similarity=0.486  Sum_probs=40.9

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhc-----CCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-----HSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~~~~  208 (290)
                      +..+|.+|.+.-++   .....|.|.||+.||..+...     ..+||+|...+..+..
T Consensus       535 ~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls  590 (791)
T KOG1002|consen  535 GEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS  590 (791)
T ss_pred             CceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence            45799999988554   677889999999999998852     4589999887766543

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

Probab=95.95  E-value=0.0034  Score=61.34  Aligned_cols=36  Identities=25%  Similarity=0.479  Sum_probs=31.8

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHh
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE  191 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~  191 (290)
                      ...|.||+++..-....+.+||+|+||+.|+..++.
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence            369999999976547789999999999999999996

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

Probab=95.95  E-value=0.0058  Score=57.61  Aligned_cols=42  Identities=26%  Similarity=0.510  Sum_probs=34.5

Q ss_pred             ccccccccccccCCcceecC-CCCcccHhhHHHHH-hcCCCCCcccc
Q 039647          157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWL-EFHSSCPICRY  201 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl-~~~~~CP~CR~  201 (290)
                      +.|+.|...+..   +...| |+|.||.+||..-| .....||.|..
T Consensus       275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            899999988765   44556 99999999999877 56778999944

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

Probab=95.89  E-value=0.0038  Score=60.04  Aligned_cols=44  Identities=30%  Similarity=0.496  Sum_probs=33.7

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ....|.||+++.+.   .+.+||||.-|  |+.--.. ..+||+||..+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence            35899999999775   88999999976  6655333 334999998764

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

Probab=95.88  E-value=0.0026  Score=59.71  Aligned_cols=46  Identities=17%  Similarity=0.314  Sum_probs=40.3

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ..|-||...|..   +++..|+|.||..|...-++....|.+|-+.+..
T Consensus       242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccccc
Confidence            579999999986   6778899999999999999998999999776543

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

Probab=95.83  E-value=0.006  Score=42.53  Aligned_cols=45  Identities=22%  Similarity=0.323  Sum_probs=22.1

Q ss_pred             ccccccccccCC-cceecCCCCcccHhhHHHHHh-cCCCCCcccccC
Q 039647          159 CAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQL  203 (290)
Q Consensus       159 C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l  203 (290)
                      |++|.+++...+ ...-.+|++..+..|...-++ ....||-||.+.
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            789999984322 333444899999999777775 577899999864

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

Probab=95.79  E-value=0.0098  Score=57.27  Aligned_cols=51  Identities=18%  Similarity=0.259  Sum_probs=42.5

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      .++..|+||+-.-   -.++..||+|.-|..||.+.|...+.|=.|+..+....
T Consensus       420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~  470 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVI  470 (489)
T ss_pred             cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeeehh
Confidence            3678999998652   23678899999999999999999999999998876543

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

Probab=95.67  E-value=0.009  Score=55.68  Aligned_cols=49  Identities=18%  Similarity=0.273  Sum_probs=37.8

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHh--cCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE--FHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~CR~~l~~  205 (290)
                      .+.+|++|.+.-...  -...+|+|+||.-||..-+.  ..-+||.|-..+..
T Consensus       238 ~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  238 SDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             CCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            468999999885542  34556999999999998765  34689999876653

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.46  E-value=0.011  Score=54.35  Aligned_cols=54  Identities=15%  Similarity=0.230  Sum_probs=46.6

Q ss_pred             ccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647          157 LQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~  210 (290)
                      ..|+||.+.+........| ||||+|+.+|+.+.+..-..||+|-.++...+...
T Consensus       222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence            6899999999876655555 59999999999999999999999999888877654

>PHA02862 5L protein; Provisional

Probab=95.42  E-value=0.01  Score=50.44  Aligned_cols=46  Identities=13%  Similarity=0.312  Sum_probs=34.6

Q ss_pred             cccccccccccccCCcceecCCC-----CcccHhhHHHHHh--cCCCCCcccccCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYK-----HKFHGECLMPWLE--FHSSCPICRYQLPS  205 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l~~  205 (290)
                      +..|=||+++-++  .  .-||.     ..-|..|+.+|+.  ++..|++|+.++.-
T Consensus         2 ~diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            3589999998432  2  35654     4689999999996  46689999987753

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

Probab=95.38  E-value=0.0074  Score=41.01  Aligned_cols=41  Identities=22%  Similarity=0.614  Sum_probs=24.4

Q ss_pred             ccccccccccCCcceecCCCCcccHhhHHHHHhcCC--CCCcc
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS--SCPIC  199 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~C  199 (290)
                      |.+|.+....|..-..-.|.=.+|..|+..+++...  .||.|
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            788999888765433334999999999999997655  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.18  E-value=0.0018  Score=62.73  Aligned_cols=49  Identities=22%  Similarity=0.444  Sum_probs=43.2

Q ss_pred             ccccccccccccC-CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          157 LQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       157 ~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ..|+||.+.|+.. ++...+-|||.+|.+||.+||.....||.|+.+++.
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            5899999998865 567778899999999999999988899999988764

>PHA03096 p28-like protein; Provisional

Probab=94.82  E-value=0.015  Score=54.86  Aligned_cols=45  Identities=22%  Similarity=0.358  Sum_probs=32.3

Q ss_pred             ccccccccccccCC----cceecC-CCCcccHhhHHHHHhc---CCCCCcccc
Q 039647          157 LQCAVWLEEFVMGN----EAKQMP-YKHKFHGECLMPWLEF---HSSCPICRY  201 (290)
Q Consensus       157 ~~C~ICle~f~~~~----~~~~lp-C~H~FH~~CI~~Wl~~---~~~CP~CR~  201 (290)
                      ..|.||++......    .-..|+ |.|.||..||..|-..   ..+||.||.
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            68999999876432    224566 9999999999999853   334555543

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.72  E-value=0.025  Score=48.87  Aligned_cols=48  Identities=25%  Similarity=0.464  Sum_probs=34.7

Q ss_pred             CcccccccccccccCCcceecCCC--C---cccHhhHHHHHhc--CCCCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYK--H---KFHGECLMPWLEF--HSSCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~--H---~FH~~CI~~Wl~~--~~~CP~CR~~l~~~  206 (290)
                      .+..|=||.++..  ..  .-||.  .   .-|.+|+..|+..  ...|++|+.++.-.
T Consensus         7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            3579999998843  22  34654  4   4599999999963  55799998877543

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

Probab=94.68  E-value=0.022  Score=50.19  Aligned_cols=51  Identities=22%  Similarity=0.483  Sum_probs=36.9

Q ss_pred             ccccccccccccCCcc----eecCCCCcccHhhHHHHHhc----C-------CCCCcccccCCCCC
Q 039647          157 LQCAVWLEEFVMGNEA----KQMPYKHKFHGECLMPWLEF----H-------SSCPICRYQLPSDN  207 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~----~~lpC~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~~~~  207 (290)
                      ..|-||+-.--.|..+    -...|+.-||.-|+..||+.    +       ..||.|..++..+.
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            5799998765554432    23459999999999999973    1       14999988876543

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

Probab=94.30  E-value=0.026  Score=52.69  Aligned_cols=47  Identities=19%  Similarity=0.444  Sum_probs=39.4

Q ss_pred             ccccccccccccCC---cceecCCCCcccHhhHHHHHh-cCCCCCcccccC
Q 039647          157 LQCAVWLEEFVMGN---EAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQL  203 (290)
Q Consensus       157 ~~C~ICle~f~~~~---~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l  203 (290)
                      ..|-||-++|..++   .++.|.|||.|+..|+.+-+. ....||-||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            58999999998763   367788999999999998885 455799999975

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.23  E-value=0.057  Score=50.06  Aligned_cols=88  Identities=19%  Similarity=0.343  Sum_probs=57.5

Q ss_pred             cHHHHHHHHHhcCCCCCCCCcchHHHHHhCCc---ccc-----------------CCcccccccccccccCCcceec-CC
Q 039647          119 GLDLLLQHLLENDPNRYGSLSAQKEVVKALPM---VAI-----------------DQDLQCAVWLEEFVMGNEAKQM-PY  177 (290)
Q Consensus       119 ~l~~ll~~l~~~~~~~~~~~pa~~~~i~~lp~---~~~-----------------~~~~~C~ICle~f~~~~~~~~l-pC  177 (290)
                      ..+.||+.|+.-...  ...+..-.-|..|..   +.+                 .....|+|+..+|......+.| ||
T Consensus        58 nKeaile~Ll~~~~~--~~~~~~~~hI~~LKDl~~l~~~~n~~~~~~~~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~c  135 (260)
T PF04641_consen   58 NKEAILEFLLDKKKN--KDLPKTFSHIKSLKDLVELKFTKNPSYKEEDKSSGDNSEGRFICPVTGKEFNGKHKFVYLRPC  135 (260)
T ss_pred             cHHHHHHHHHhcCcC--CCCccccccccCccceeeEEeEecCccccccccccccCCceeECCCCCcccCCceeEEEEcCC
Confidence            688999999875432  122222223333322   222                 1236999999999654455555 79


Q ss_pred             CCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          178 KHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       178 ~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      ||+|...+|..-- ....||+|-.++...+..
T Consensus       136 G~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  136 GCVFSEKALKELK-KSKKCPVCGKPFTEEDII  166 (260)
T ss_pred             CCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence            9999999999973 355799999888766544

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

Probab=94.04  E-value=0.017  Score=52.93  Aligned_cols=48  Identities=17%  Similarity=0.334  Sum_probs=34.5

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ..|..|..--. ++....+.|.|+||..|...-.  ...||+|++.+....
T Consensus         4 VhCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~   51 (233)
T KOG4739|consen    4 VHCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQ   51 (233)
T ss_pred             EEeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeeee
Confidence            46888876544 5556667799999999966522  238999999875543

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

Probab=93.90  E-value=0.064  Score=52.14  Aligned_cols=66  Identities=20%  Similarity=0.320  Sum_probs=41.4

Q ss_pred             HHHHHhCCccccC----CcccccccccccccCC-------------------cceecCCCCcccHhhHHHHHhc------
Q 039647          142 KEVVKALPMVAID----QDLQCAVWLEEFVMGN-------------------EAKQMPYKHKFHGECLMPWLEF------  192 (290)
Q Consensus       142 ~~~i~~lp~~~~~----~~~~C~ICle~f~~~~-------------------~~~~lpC~H~FH~~CI~~Wl~~------  192 (290)
                      ++.|+.-|...+.    +.+.|.-|+..-..=+                   .....-|.-.+|.+|+-+|+..      
T Consensus       253 ~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~  332 (358)
T PF10272_consen  253 KEQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQH  332 (358)
T ss_pred             HHHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCC
Confidence            5566666665554    3467888987532100                   0112225667899999999953      


Q ss_pred             -------CCCCCcccccCCCCC
Q 039647          193 -------HSSCPICRYQLPSDN  207 (290)
Q Consensus       193 -------~~~CP~CR~~l~~~~  207 (290)
                             +..||+||+.++.-|
T Consensus       333 ~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  333 PETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             hhhhhcCCCCCCCCcccceeee
Confidence                   226999999887543

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

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=93.57  E-value=0.055  Score=38.66  Aligned_cols=32  Identities=22%  Similarity=0.495  Sum_probs=28.5

Q ss_pred             cccccccccccccCCcceecC-CCCcccHhhHH
Q 039647          156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLM  187 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~  187 (290)
                      ...|.+|-+.|+.++.+++.| |+-.||+.|..
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~   37 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE   37 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence            468999999999888899999 99999999943

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

Probab=93.42  E-value=0.032  Score=52.99  Aligned_cols=43  Identities=23%  Similarity=0.478  Sum_probs=30.2

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL  203 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  203 (290)
                      ..|--|-..+.+  --+.+||+|+||.+|...  ...+.||.|-..+
T Consensus        91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            456667655443  346789999999999654  4466899996544

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

Probab=93.39  E-value=0.046  Score=51.32  Aligned_cols=46  Identities=22%  Similarity=0.523  Sum_probs=38.9

Q ss_pred             cccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647          156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRY  201 (290)
Q Consensus       156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  201 (290)
                      ...|+||.+.+-... .+..++|+|.-|..|+......+-+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            356999999886554 4678899999999999998877799999987

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

Probab=93.35  E-value=0.034  Score=58.72  Aligned_cols=44  Identities=20%  Similarity=0.450  Sum_probs=35.2

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ...|..|--.++.  ..+..-|+|.||..|+.   .....||.|+.++.
T Consensus       840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR  883 (933)
T ss_pred             eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence            4699999988775  35667799999999988   45568999987543

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

Probab=93.19  E-value=0.068  Score=51.53  Aligned_cols=47  Identities=19%  Similarity=0.578  Sum_probs=38.2

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHH--HhcCCCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPW--LEFHSSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W--l~~~~~CP~CR~~l~  204 (290)
                      +...|.||-+.+.-   ...+||+|..|..|....  |..++.||+||.+..
T Consensus        60 en~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          60 ENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            45799999987654   678999999999998764  457889999998653

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

Probab=93.14  E-value=0.019  Score=54.02  Aligned_cols=42  Identities=21%  Similarity=0.384  Sum_probs=32.0

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ...|.||++.-.+   ...|+|||. -|..|-..    -+.||+||+.+.
T Consensus       300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence            4689999998544   788999996 56777544    348999998664

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

Probab=92.92  E-value=0.12  Score=49.34  Aligned_cols=48  Identities=17%  Similarity=0.329  Sum_probs=37.3

Q ss_pred             CcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ....|+||+.....   +..|. =|.+||..||..++..++.||+--.+...
T Consensus       299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v  347 (357)
T KOG0826|consen  299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV  347 (357)
T ss_pred             ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence            35799999988654   22333 59999999999999999999997655443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.68  E-value=0.076  Score=51.07  Aligned_cols=53  Identities=17%  Similarity=0.404  Sum_probs=38.9

Q ss_pred             CcccccccccccccCCc-ceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~  207 (290)
                      +++-|+.|+|.+.+.++ -.-+|||...|.-|....-+ ....||.||..+..+.
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            45679999999987664 45677998888888554332 4668999998765544

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

Probab=92.08  E-value=0.079  Score=58.32  Aligned_cols=45  Identities=24%  Similarity=0.460  Sum_probs=37.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY  201 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  201 (290)
                      ....|.||++.+..-  -...-|+|.||..|+..|+..+..||+|+.
T Consensus      1152 ~~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            345999999998731  234559999999999999999999999974

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

Probab=91.21  E-value=0.078  Score=55.59  Aligned_cols=50  Identities=24%  Similarity=0.435  Sum_probs=39.8

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhc--CCCCCcccccCCCCCccc
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--HSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~~  210 (290)
                      ..|.||++    -+.+...+|+|.||.+|+..-++.  ...||+||..+..+....
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            89999999    244778889999999999998854  236999998877665443

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.13  E-value=0.13  Score=36.86  Aligned_cols=46  Identities=22%  Similarity=0.455  Sum_probs=33.6

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ..|..|...   +.+-..+||+|+-+..|..-  ++-+-||+|-+++...+
T Consensus         8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            456666644   44567899999999999654  55667999988776543

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

Probab=89.67  E-value=0.15  Score=54.30  Aligned_cols=38  Identities=18%  Similarity=0.427  Sum_probs=30.2

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHH
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL  190 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl  190 (290)
                      .++....|.+|...+... .-..-||||.||.+||.+-.
T Consensus       813 v~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  813 VLEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             EecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            344578999999988753 45677899999999998764

>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=89.54  E-value=0.33  Score=41.98  Aligned_cols=52  Identities=21%  Similarity=0.445  Sum_probs=35.1

Q ss_pred             CcccccccccccccCCcceecC------------CCCc-ccHhhHHHHHhc-----------------------------
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMP------------YKHK-FHGECLMPWLEF-----------------------------  192 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lp------------C~H~-FH~~CI~~Wl~~-----------------------------  192 (290)
                      ++..|+||||.-..   ++.|-            |+-. -|..|++++-+.                             
T Consensus         1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (162)
T PF07800_consen    1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE   77 (162)
T ss_pred             CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence            35789999997443   44433            4433 478899998652                             


Q ss_pred             --CCCCCcccccCCCCCcc
Q 039647          193 --HSSCPICRYQLPSDNLK  209 (290)
Q Consensus       193 --~~~CP~CR~~l~~~~~~  209 (290)
                        +-.||+||.++......
T Consensus        78 ~~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   78 QPELACPLCRGEVKGWTVV   96 (162)
T ss_pred             cccccCccccCceeceEEc
Confidence              12499999998776544

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.

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

Probab=88.81  E-value=0.46  Score=46.64  Aligned_cols=38  Identities=16%  Similarity=0.357  Sum_probs=28.0

Q ss_pred             cccccccccccccC-CcceecCCCCcccHhhHHHHHhcC
Q 039647          156 DLQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFH  193 (290)
Q Consensus       156 ~~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~  193 (290)
                      ..+|.||..++... .....+-|+|.||.+|+.+.++.+
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            57999999444333 333455699999999999999743

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

Probab=88.74  E-value=0.29  Score=41.25  Aligned_cols=53  Identities=15%  Similarity=0.286  Sum_probs=38.0

Q ss_pred             cccccccccccccCCcceecC-CCCcccHhhHHHHHh---cCCCCCcccccCCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE---FHSSCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~~~~  208 (290)
                      -.+|.||.|...+..-.+.=- ||-..|..|-...|+   .+..||+|+..+.....
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~  136 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS  136 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence            369999999865432111111 999999998887665   57789999998876543

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

Probab=88.35  E-value=0.36  Score=47.22  Aligned_cols=48  Identities=21%  Similarity=0.292  Sum_probs=40.4

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC---CCCccccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRYQ  202 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~  202 (290)
                      .-..|+|=.+.=.+...+..|.|||+..++-|.+..+...   .||.|-.+
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            3479999999888888899999999999999999886543   69999543

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

Probab=88.23  E-value=0.23  Score=49.36  Aligned_cols=36  Identities=19%  Similarity=0.353  Sum_probs=31.1

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhc
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF  192 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~  192 (290)
                      ++.+.|+||...|++   +++|||+|..|..|...-+.+
T Consensus         2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccC---ceEeecccHHHHHHHHhhccc
Confidence            467899999999986   899999999999998876643

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

Probab=88.20  E-value=0.3  Score=51.43  Aligned_cols=27  Identities=26%  Similarity=0.508  Sum_probs=23.6

Q ss_pred             ceecCCCCcccHhhHHHHHhcCCCCCc
Q 039647          172 AKQMPYKHKFHGECLMPWLEFHSSCPI  198 (290)
Q Consensus       172 ~~~lpC~H~FH~~CI~~Wl~~~~~CP~  198 (290)
                      .....|+|+-|..|...|++....||.
T Consensus      1043 ~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             hhhccccccccHHHHHHHHhcCCcCCC
Confidence            345679999999999999999999984

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

Probab=87.75  E-value=0.33  Score=51.48  Aligned_cols=52  Identities=29%  Similarity=0.606  Sum_probs=38.9

Q ss_pred             CcccccccccccccCCcceecCCCC-----cccHhhHHHHHh--cCCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKH-----KFHGECLMPWLE--FHSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H-----~FH~~CI~~Wl~--~~~~CP~CR~~l~~~~  207 (290)
                      ++..|-||..+=..+ .+..-||++     .-|.+|+..|+.  ....|-+|+.++.-++
T Consensus        11 d~~~CRICr~e~~~d-~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          11 DKRSCRICRTEDIRD-DPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             cchhceeecCCCCCC-CcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            457999999885443 355667875     489999999997  4557999998776544

>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=86.31  E-value=0.22  Score=34.72  Aligned_cols=32  Identities=31%  Similarity=0.627  Sum_probs=22.8

Q ss_pred             cCCC-CcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          175 MPYK-HKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       175 lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      +.|. |..|..|+...|.....||+|..++|..
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            3475 9999999999999999999999999864

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.

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

Probab=86.28  E-value=0.39  Score=43.34  Aligned_cols=40  Identities=30%  Similarity=0.530  Sum_probs=29.4

Q ss_pred             ccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCC
Q 039647          159 CAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       159 C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      |-+|.+.   ...+..+||.|. +|..|-..    ...||+|+.....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            8888875   345889999875 78888543    5569999875543

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

Probab=84.80  E-value=0.32  Score=50.35  Aligned_cols=43  Identities=28%  Similarity=0.579  Sum_probs=31.9

Q ss_pred             cccccccccccccCC-cceecCCCCcccHhhHHHHHhcCCCCCcccc
Q 039647          156 DLQCAVWLEEFVMGN-EAKQMPYKHKFHGECLMPWLEFHSSCPICRY  201 (290)
Q Consensus       156 ~~~C~ICle~f~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  201 (290)
                      -+.|.||+..|.... .++.|-|||..|..|+..-.  +.+|| |+.
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence            368999988876432 45677799999999988744  45688 544

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

Probab=84.64  E-value=0.72  Score=43.89  Aligned_cols=45  Identities=20%  Similarity=0.393  Sum_probs=34.4

Q ss_pred             cCCcccccccccccccCCcceecCC--CCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPY--KHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC--~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      +.+-++|+||.+.+...    .+.|  ||.-|..|-.   +..+.||.||.++.
T Consensus        45 ~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            33458999999998752    4446  6888888854   56788999999887

>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=83.59  E-value=0.83  Score=43.12  Aligned_cols=47  Identities=15%  Similarity=0.334  Sum_probs=33.6

Q ss_pred             cccccccccccCC--cceecCCCCcccHhhHHHHHhc-CCCCCcccccCC
Q 039647          158 QCAVWLEEFVMGN--EAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLP  204 (290)
Q Consensus       158 ~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  204 (290)
                      .|++|.-+.--..  +...-+|+|..|..|+...+.. ...||.|-..+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            5899986533222  2333379999999999998854 568999966554

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

Probab=82.31  E-value=0.62  Score=47.65  Aligned_cols=49  Identities=29%  Similarity=0.687  Sum_probs=41.0

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~  210 (290)
                      ....|.||+.+.    ..+..+|.   |..|+..|+..+.+||+|+..+..++...
T Consensus       478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~  526 (543)
T KOG0802|consen  478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS  526 (543)
T ss_pred             ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence            368999999997    36677788   99999999999999999998877665443

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

Probab=82.22  E-value=0.62  Score=43.31  Aligned_cols=52  Identities=23%  Similarity=0.384  Sum_probs=38.0

Q ss_pred             cccccccccccccCCc-ceecCCC-----CcccHhhHHHHHh--cCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNE-AKQMPYK-----HKFHGECLMPWLE--FHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~-~~~lpC~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l~~~~  207 (290)
                      ...|-||.++...... ....||.     +..|..|+..|+.  ....|.+|...+....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~  137 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVG  137 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecc
Confidence            3689999997654321 4566764     5579999999997  5668999988665543

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=81.95  E-value=0.54  Score=30.71  Aligned_cols=13  Identities=38%  Similarity=0.552  Sum_probs=10.5

Q ss_pred             CCcCCCCCCCCce
Q 039647            1 MGSKFPFCETGFV   13 (290)
Q Consensus         1 ~e~~Cp~C~~GFv   13 (290)
                      |.++||.|+..|-
T Consensus         1 M~i~CP~C~~~f~   13 (37)
T PF13719_consen    1 MIITCPNCQTRFR   13 (37)
T ss_pred             CEEECCCCCceEE
Confidence            7788999988773

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.84  E-value=0.61  Score=44.18  Aligned_cols=32  Identities=19%  Similarity=0.445  Sum_probs=25.2

Q ss_pred             CCCcccHhhHHHHHh-------------cCCCCCcccccCCCCCc
Q 039647          177 YKHKFHGECLMPWLE-------------FHSSCPICRYQLPSDNL  208 (290)
Q Consensus       177 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~l~~~~~  208 (290)
                      |...+|.+|+.+|+.             ++-+||+||+.++..+.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            667889999999984             23479999999876553

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

Probab=80.75  E-value=0.81  Score=41.43  Aligned_cols=46  Identities=17%  Similarity=0.426  Sum_probs=37.0

Q ss_pred             ccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ..|.+|.+..-.|  .+.-.|+-.||..|+...++....||.|-.-++
T Consensus       182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~  227 (235)
T KOG4718|consen  182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT  227 (235)
T ss_pred             HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence            5899999886543  345568899999999999999999999954333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	290
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-10
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-08
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-07
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-05
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		9e-04

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

Iteration: 1
 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQG 212
           +   L+C V  E++ +G   +Q+P  H FH  C++PWLE H SCP+CR  L   N     
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT-- 69
Query: 213 NGPG 216
           N PG
Sbjct: 70  NPPG 73

>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 = 57.4 bits (137), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 7/72 (9%)
Query: 140 AQKEVVKALPMV-------AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF 192
           A KE + ALP +       A+ Q++ C +   E+V G+ A ++P  H FH  C+  WL+ 
Sbjct: 17  ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76
Query: 193 HSSCPICRYQLP 204
             +CP+CR   P
Sbjct: 77  SGTCPVCRCMFP 88

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/50 (48%), Positives = 32/50 (64%), Gaps = 1/50 (2%)
Query: 152 AIDQDLQCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLEFHSSCPICR 200
           A+D  ++CAV L E   G EA+ +P   H FH EC+  WL  HS+CP+CR
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 25/41 (60%)
Query: 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPIC 199
           CAV LE+F   +E    P KH FH +CL+ WLE    CP+C
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRY----QLPSDN 207
           +C + L     G + +++P  H FH  C+  WL  +  CPICR     QLPS++
Sbjct: 16  KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 3/81 (3%)
Query: 138 LSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCP 197
           + AQKE V +     ++ +LQC +  E F+   EA  +   H F   C+  W++    CP
Sbjct: 35  MQAQKEEVLSHMNDVLENELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECP 91
Query: 198 ICRYQLPSDNLKVQGNGPGNR 218
           ICR  + S    +  +   N+
Sbjct: 92  ICRKDIKSKTYSLVLDNXINK 112

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	290
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-34
2ect_A	78	Ring finger protein 126; metal binding protein, st	6e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-18
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-18
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-17
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	7e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-11
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-06
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-06
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	3e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-04
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-04
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	4e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-04

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

 Score =  118 bits (298), Expect = 4e-34
 Identities = 25/88 (28%), Positives = 43/88 (48%), Gaps = 7/88 (7%)

Query: 124 LQHLLENDPNRYGSLSAQKEVVKALPMVAI-------DQDLQCAVWLEEFVMGNEAKQMP 176
           + H   +  +   +  A KE + ALP + +        Q++ C +   E+V G+ A ++P
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 177 YKHKFHGECLMPWLEFHSSCPICRYQLP 204
             H FH  C+  WL+   +CP+CR   P
Sbjct: 61  CHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

>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 = 89.0 bits (221), Expect = 6e-23
 Identities = 23/55 (41%), Positives = 33/55 (60%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
           +   L+C V  E++ +G   +Q+P  H FH  C++PWLE H SCP+CR  L   N
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

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

 Score = 76.3 bits (188), Expect = 3e-18
 Identities = 20/54 (37%), Positives = 27/54 (50%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
           +    CAV LE+F   +E    P KH FH +CL+ WLE    CP+C   +    
Sbjct: 13  NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66

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

 Score = 76.2 bits (188), Expect = 3e-18
 Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 6/70 (8%)

Query: 140 AQKEVVKALPMVAI------DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH 193
                   LP           +   C V + +F      + +P  H+FH +C+  WL+ +
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 194 SSCPICRYQL 203
            +CPICR   
Sbjct: 61  RTCPICRADS 70

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 73.6 bits (181), Expect = 3e-17
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD 206
           D + +C + L     G + +++P  H FH  C+  WL  +  CPICR  + + 
Sbjct: 12  DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

 Score = 68.8 bits (169), Expect = 1e-15
 Identities = 24/53 (45%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 152 AIDQDLQCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLEFHSSCPICRYQL 203
           A+D  ++CAV L E   G EA+ +P   H FH EC+  WL  HS+CP+CR  +
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 1e-14
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 1/44 (2%)

Query: 158 QCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLEFHSSCPICR 200
            C + LE+       A  +P  H  H  C    L+    CP+C 
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 61.6 bits (150), Expect = 7e-13
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
           +  + +C + ++          +P  H F  +C+  W + H +CPICR Q+   N
Sbjct: 12  LTDEEECCICMDGR----ADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62

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

 Score = 57.2 bits (138), Expect = 3e-11
 Identities = 10/54 (18%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPY----KHKFHGECLMPWLEFHSSCPICRYQL 203
              + C + ++ +    +  ++       H F  +CL   L+  ++CP CR ++
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 56.6 bits (137), Expect = 5e-11
 Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200
               +C + LE+    N +  +P  H F   C+  W+  + +CP+C+
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 55.5 bits (134), Expect = 1e-10
 Identities = 10/58 (17%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 155 QDLQCAVWLEEFVMGNEAKQMPYK----HKFHGECLMPWLEFHSSCPICRYQLPSDNL 208
             + C + ++ +    +  ++       H F  +CL   L+  ++CP CR ++     
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 59

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

 Score = 55.2 bits (133), Expect = 2e-10
 Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 4/59 (6%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPY----KHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208
              + C + ++ +    +  ++       H F  +CL   L+  ++CP CR ++     
Sbjct: 8   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 66

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

 Score = 48.7 bits (116), Expect = 4e-08
 Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 1/43 (2%)

Query: 159 CAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLEFHSSCPICR 200
           C     E    +         H FH  C+  W++ ++ CP+C+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 46.0 bits (109), Expect = 3e-07
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208
               +CA+ L+  V       +P KH F   C+         C +CR ++P D L
Sbjct: 13  LTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFL 64

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

 Score = 46.3 bits (110), Expect = 3e-07
 Identities = 7/55 (12%), Positives = 18/55 (32%), Gaps = 2/55 (3%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
           +   + C++     +  +        H F   C++    + + CP C   +    
Sbjct: 12  LTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ 64

>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 = 44.9 bits (106), Expect = 1e-06
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWL-EFHSSCPICRYQLPSDNLK 209
           I +  +C + +E+     +A+  P+        C+  WL E  + CP CR  L    L 
Sbjct: 19  IAEVFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV 74

>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 = 45.2 bits (106), Expect = 1e-06
 Identities = 8/37 (21%), Positives = 11/37 (29%), Gaps = 1/37 (2%)

Query: 165 EFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICR 200
                          H FH  C+  WL+    CP+  
Sbjct: 60  SATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 44.8 bits (105), Expect = 3e-06
 Identities = 8/26 (30%), Positives = 11/26 (42%)

Query: 175 MPYKHKFHGECLMPWLEFHSSCPICR 200
               H FH  C+  WL+    CP+  
Sbjct: 82  GVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 42.5 bits (100), Expect = 1e-05
 Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 6/67 (8%)

Query: 148 LPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQL---- 203
           + +  ++  L C +    F+  +    +   H F   C++ +LE    CPIC  Q+    
Sbjct: 7   IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64

Query: 204 PSDNLKV 210
           P  N++ 
Sbjct: 65  PLLNIRS 71

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

 Score = 42.5 bits (99), Expect = 2e-05
 Identities = 12/70 (17%), Positives = 26/70 (37%), Gaps = 4/70 (5%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYK----HKFHGECLMPWLEFHSSCPICRYQLPSDNLK 209
              + C + ++ +    +  ++       H F  +CL   L+  ++CP CR ++      
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 210 VQGNGPGNRE 219
               G G   
Sbjct: 65  PIYIGSGTVS 74

>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 = 44.4 bits (104), Expect = 2e-05
 Identities = 18/88 (20%), Positives = 28/88 (31%), Gaps = 7/88 (7%)

Query: 124 LQHLLENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHG 183
           L  L E  P  +  ++ ++  +             C +  E      + K  P  H    
Sbjct: 303 LTGLCEPTPQDHIKVTQEQYELYCEMG---STFQLCKICAENDK---DVKIEPCGHLMCT 356

Query: 184 ECLMPWLEFHS-SCPICRYQLPSDNLKV 210
            CL  W E     CP CR ++      V
Sbjct: 357 SCLTSWQESEGQGCPFCRCEIKGTEPIV 384

>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 = 40.7 bits (95), Expect = 3e-05
 Identities = 6/31 (19%), Positives = 12/31 (38%), Gaps = 2/31 (6%)

Query: 178 KHKFHGECLMPWLEFH--SSCPICRYQLPSD 206
             + H  C+  + + +    CP C    P +
Sbjct: 35  GIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 65

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

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 4/62 (6%)

Query: 149 PMVAIDQDLQCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLEFHSSCPICRYQLPSDN 207
            M  ID  L+C +  E F   N A  +P   H +   C+  +L + + CP C   +   +
Sbjct: 15  VMKTIDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD 71

Query: 208 LK 209
           LK
Sbjct: 72  LK 73

>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 = 39.1 bits (91), Expect = 2e-04
 Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSS-CPICRYQLPSDNLK 209
              + + C +         +  +   KH F   C++  L+   S CP CRY     +L+
Sbjct: 19  HFVKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

>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 = 38.7 bits (89), Expect = 3e-04
 Identities = 15/103 (14%), Positives = 33/103 (32%), Gaps = 27/103 (26%)

Query: 141 QKEVVKALPMVAIDQDLQCAVWLEEFVMGNEA---------------KQMPYKHKFHGEC 185
           ++ + K    + +  +  C + +E+  + +                 +     H FH  C
Sbjct: 10  EQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLC 69

Query: 186 LMPWLEFHS-----SCPICRY-------QLPSDNLKVQGNGPG 216
           L+      +      CP C+          P   ++V  +GP 
Sbjct: 70  LLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGKMEVFRSGPS 112

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

 Score = 37.9 bits (88), Expect = 3e-04
 Identities = 8/47 (17%), Positives = 14/47 (29%), Gaps = 3/47 (6%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200
           +   +C +  + F           +H F   C +        C IC 
Sbjct: 13  EIPFRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 39.3 bits (91), Expect = 3e-04
 Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 128 LENDPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLM 187
           LE        + AQKE V +     ++ +LQC +  E F    EA  +   H F   C+ 
Sbjct: 36  LEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCIN 92

Query: 188 PWLEFHSSCPICRYQLPSDN 207
            W++    CPICR  + S  
Sbjct: 93  EWMKRKIECPICRKDIKSKT 112

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

 Score = 40.6 bits (94), Expect = 4e-04
 Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 16/66 (24%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPY-----KHKFHGECLMPWLE-----------FHSSCP 197
           +++L+C +     + G E   +         K H  CL  W +               CP
Sbjct: 306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCP 365

Query: 198 ICRYQL 203
            C+ +L
Sbjct: 366 FCKAKL 371

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

 Score = 36.3 bits (84), Expect = 9e-04
 Identities = 11/57 (19%), Positives = 19/57 (33%), Gaps = 4/57 (7%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSDNL 208
           ++   +C             KQ    H+F   C+   L   S  C  C+  +  D +
Sbjct: 12  VEDKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	290
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.69
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.59
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.54
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.53
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.46
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.43
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.42
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.41
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.39
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.38
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.38
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.37
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.35
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.32
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.32
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.31
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.3
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.3
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.29
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.28
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.27
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.26
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.25
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.22
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.22
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.22
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.21
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.17
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.17
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.16
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.16
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.16
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.14
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.13
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.12
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.12
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.09
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.08
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.05
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.03
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.02
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.02
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.02
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.01
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.95
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.92
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.9
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.87
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.83
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.82
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.77
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.77
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.69
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.66
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.62
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.59
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.55
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.52
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.5
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.48
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.39
3nw0_A	238	Non-structural maintenance of chromosomes element	98.08
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.96
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.56
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.74
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	93.43
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.3
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.72
1we9_A	64	PHD finger family protein; structural genomics, PH	86.05
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	84.35
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	84.08
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	83.49
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	83.23
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	82.44
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	82.36
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	80.19

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

Probab=99.69  E-value=1.4e-17  Score=128.81  Aligned_cols=74  Identities=31%  Similarity=0.751  Sum_probs=66.0

Q ss_pred             CCCCCCCcchHHHHHhCCccccCC-------cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          132 PNRYGSLSAQKEVVKALPMVAIDQ-------DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       132 ~~~~~~~pa~~~~i~~lp~~~~~~-------~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      .......+++++.|++||.+.+.+       ...|+||++.|..++.++.|||+|.||..||..||+.+.+||+||..+.
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCCcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            345678899999999999987753       4689999999999888999999999999999999999999999999886


Q ss_pred             C
Q 039647          205 S  205 (290)
Q Consensus       205 ~  205 (290)
                      .
T Consensus        89 ~   89 (91)
T 2l0b_A           89 P   89 (91)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.59  E-value=1.5e-16  Score=118.23  Aligned_cols=63  Identities=27%  Similarity=0.647  Sum_probs=53.9

Q ss_pred             HHHhCCccccC------CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          144 VVKALPMVAID------QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       144 ~i~~lp~~~~~------~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      .|++||..++.      +...|+||++.|..++.++.|||+|.||..||.+||+.+.+||+||..+...
T Consensus         5 ~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            34566766553      3579999999999988889999999999999999999999999999988654

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

Probab=99.54  E-value=5.9e-15  Score=110.02  Aligned_cols=58  Identities=40%  Similarity=0.988  Sum_probs=51.3

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~  210 (290)
                      ..+...|+||++.|..+..++.|+|+|.||..||.+|++.+.+||+||..+...+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCC
Confidence            3456899999999998888888999999999999999999999999999988766543

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

Probab=99.53  E-value=2.8e-15  Score=104.43  Aligned_cols=52  Identities=44%  Similarity=0.944  Sum_probs=47.5

Q ss_pred             cCCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      +++..+|+||++.|..++.+..++ |+|.||..||.+|++.+.+||+||+.+.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            345789999999999988889998 9999999999999999999999999874

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

Probab=99.53  E-value=7.7e-15  Score=108.31  Aligned_cols=56  Identities=36%  Similarity=0.737  Sum_probs=49.6

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +.....|+||++.|..+..++.|+|+|.||..||.+|++.+.+||+||..+.....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            34578999999999988888889999999999999999999999999998876443

>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=99.51  E-value=1.2e-14  Score=105.89  Aligned_cols=54  Identities=30%  Similarity=0.754  Sum_probs=48.5

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      .....|+||++.|..++.++.++|+|.||..||.+|++.+.+||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            346799999999988888899999999999999999999999999999887654

>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=99.46  E-value=5.2e-14  Score=112.13  Aligned_cols=67  Identities=16%  Similarity=0.416  Sum_probs=49.0

Q ss_pred             chHHHHHhCC-ccccCCcccccccccccccCC---------------cceecCCCCcccHhhHHHHHh-----cCCCCCc
Q 039647          140 AQKEVVKALP-MVAIDQDLQCAVWLEEFVMGN---------------EAKQMPYKHKFHGECLMPWLE-----FHSSCPI  198 (290)
Q Consensus       140 a~~~~i~~lp-~~~~~~~~~C~ICle~f~~~~---------------~~~~lpC~H~FH~~CI~~Wl~-----~~~~CP~  198 (290)
                      ..++.|.++. .+....+..|+||++.|..+.               .++.++|+|.||..||..||.     .+.+||+
T Consensus         8 ~p~~~i~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~   87 (114)
T 1v87_A            8 EPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS   87 (114)
T ss_dssp             CHHHHHHHHEEECSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTT
T ss_pred             ChHHHHHHHHHhccCCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCC
Confidence            3445555432 233345679999999997643               234788999999999999994     5678999


Q ss_pred             ccccCCCC
Q 039647          199 CRYQLPSD  206 (290)
Q Consensus       199 CR~~l~~~  206 (290)
                      ||..+...
T Consensus        88 CR~~~~~~   95 (114)
T 1v87_A           88 CKTIYGEK   95 (114)
T ss_dssp             TCCBSSSC
T ss_pred             CCCccCCC
Confidence            99988654

>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=99.43  E-value=8.4e-14  Score=96.72  Aligned_cols=50  Identities=24%  Similarity=0.464  Sum_probs=43.6

Q ss_pred             CcccccccccccccC-CcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMG-NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ....|+||++.|..+ ..++.++|+|.||..||.+|++.+.+||+||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            357899999999654 35778899999999999999999999999998875

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

Probab=99.42  E-value=1.1e-13  Score=99.94  Aligned_cols=54  Identities=19%  Similarity=0.423  Sum_probs=45.6

Q ss_pred             ccCCcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          152 AIDQDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      .+.+...|+||++.|...    ..++.++|+|.||..||..|++.+..||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            345678999999999753    334788999999999999999999999999998754

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

Probab=99.41  E-value=9.5e-14  Score=101.20  Aligned_cols=55  Identities=18%  Similarity=0.440  Sum_probs=47.1

Q ss_pred             CCcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          154 DQDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      .+...|+||++.|...    ..++.++|+|.||..||.+|++.+.+||+||..+...+.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            4568999999999752    345788999999999999999999999999999876554

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

Probab=99.39  E-value=7e-14  Score=105.83  Aligned_cols=52  Identities=19%  Similarity=0.481  Sum_probs=42.2

Q ss_pred             Cccccccccccccc-----------CCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVM-----------GNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~-----------~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      ++..|+||++.|..           ++.++.++ |+|.||..||.+||+.+.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            35678888887753           45566776 999999999999999999999999987643

>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=99.38  E-value=1.8e-13  Score=109.35  Aligned_cols=50  Identities=20%  Similarity=0.356  Sum_probs=42.9

Q ss_pred             CcccccccccccccCC---------------cceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGN---------------EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~---------------~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ++..|+||++.|...-               .++.++|+|.||..||.+||+.+.+||+||.++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4689999999998541               2566889999999999999999999999999864

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

Probab=99.38  E-value=4.6e-13  Score=98.51  Aligned_cols=55  Identities=15%  Similarity=0.413  Sum_probs=46.8

Q ss_pred             ccCCcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      .+.+...|+||++.|..   ++.+ +|+|.||..||..|++.+..||+||..+...+..
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           11 ELTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             CCCGGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSC
T ss_pred             hcCCCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccccc
Confidence            34557899999999875   4555 8999999999999999999999999998776554

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

Probab=99.37  E-value=1.9e-13  Score=97.35  Aligned_cols=54  Identities=19%  Similarity=0.431  Sum_probs=46.1

Q ss_pred             CcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +...|+||++.|...    ..++.++|+|.||..||.+|++.+.+||+||..+...+.
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            357899999999753    344788999999999999999999999999999877653

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

Probab=99.35  E-value=7.1e-13  Score=100.31  Aligned_cols=57  Identities=23%  Similarity=0.433  Sum_probs=48.1

Q ss_pred             cccCCcccccccccccccCCc-ceecCCCCcccHhhHHHHHhcC---CCCCcccccCCCCC
Q 039647          151 VAIDQDLQCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLEFH---SSCPICRYQLPSDN  207 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~Wl~~~---~~CP~CR~~l~~~~  207 (290)
                      ..+.+...|+||++.|...+. ++.++|+|.||..||..|++.+   ..||+||..+...+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            445567899999999987654 7888999999999999999875   78999999876653

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

Probab=99.32  E-value=3e-13  Score=98.65  Aligned_cols=53  Identities=26%  Similarity=0.696  Sum_probs=46.2

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      +.+...|+||++.|..    +.++|+|.||..||..|++.+..||+||..+...+..
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   64 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES   64 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCC
T ss_pred             CCCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCcc
Confidence            3456899999999875    7889999999999999999999999999998866543

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

Probab=99.32  E-value=1.5e-12  Score=96.39  Aligned_cols=54  Identities=22%  Similarity=0.426  Sum_probs=45.0

Q ss_pred             ccCCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcC--CCCCcccccCCCCCc
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH--SSCPICRYQLPSDNL  208 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~~~~~  208 (290)
                      .+.+...|+||++.|..   ++.++ |+|.||..||..|++.+  ..||+||..+...+.
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2yur_A           11 PIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA   67 (74)
T ss_dssp             CSCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTT
T ss_pred             cCCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccc
Confidence            44567899999999975   67799 99999999999999865  689999997655443

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

Probab=99.31  E-value=5.9e-13  Score=97.69  Aligned_cols=50  Identities=28%  Similarity=0.517  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      .+...|+||++.|..   ++.++|+|.||..||..|+..+..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            346799999999865   67889999999999999999999999999988654

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

Probab=99.30  E-value=1.4e-12  Score=94.43  Aligned_cols=49  Identities=24%  Similarity=0.634  Sum_probs=43.2

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ....|+||++.|..  .++.++|+|.||..||..|++.+.+||+||..+..
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            46799999999864  35789999999999999999999999999998864

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

Probab=99.30  E-value=1.4e-12  Score=95.55  Aligned_cols=53  Identities=17%  Similarity=0.459  Sum_probs=44.8

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHh---cCCCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE---FHSSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~~~  207 (290)
                      .+.+...|+||++.|..   ++.++|+|.||..||..|++   ....||+||..+...+
T Consensus        16 ~~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           16 KLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             hCccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            34567899999999875   67789999999999999996   4568999999887654

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

Probab=99.29  E-value=2e-12  Score=93.41  Aligned_cols=52  Identities=19%  Similarity=0.460  Sum_probs=43.8

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHH-hcCCCCCcccccCCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL-EFHSSCPICRYQLPSDN  207 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~~  207 (290)
                      +.+...|+||++.|..   ++.++|||.||..||..|+ .....||+||..+..++
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCCEECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CCcCCCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            3457899999999875   4568999999999999999 45678999999887653

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

Probab=99.28  E-value=2.8e-12  Score=97.38  Aligned_cols=52  Identities=21%  Similarity=0.478  Sum_probs=44.1

Q ss_pred             CcccccccccccccCCcceecCCC-----CcccHhhHHHHHhcC--CCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYK-----HKFHGECLMPWLEFH--SSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~-----H~FH~~CI~~Wl~~~--~~CP~CR~~l~~~~  207 (290)
                      +...|.||+++|..++. ..+||+     |.||..||.+||..+  .+||+||+.+..+.
T Consensus        14 ~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           14 SQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            45799999999987665 468996     999999999999765  48999999987654

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

Probab=99.27  E-value=2.5e-12  Score=96.52  Aligned_cols=48  Identities=17%  Similarity=0.386  Sum_probs=43.0

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      .....|+||++.|..   ++.++|+|.||..||..|++....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            346799999999965   667999999999999999999999999999886

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

Probab=99.26  E-value=3.2e-12  Score=95.05  Aligned_cols=52  Identities=17%  Similarity=0.403  Sum_probs=45.3

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      +.+...|+||++.|..   ++.++|||.||..||..|++. +.+||+||..+...+
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            4567899999999975   677899999999999999986 789999999887654

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

Probab=99.26  E-value=5.6e-12  Score=94.29  Aligned_cols=53  Identities=26%  Similarity=0.578  Sum_probs=45.4

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc------CCCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF------HSSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~~~  207 (290)
                      .+.+...|+||++.|..   ++.++|+|.||..||..|++.      ...||+||..+...+
T Consensus        15 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CCCTTTSCTTTCSCCSS---CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             hCccCCCCcCCChhhCc---ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            34567899999999875   568899999999999999987      678999999887654

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

Probab=99.25  E-value=2.1e-12  Score=106.75  Aligned_cols=49  Identities=33%  Similarity=0.746  Sum_probs=43.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      ++..|+||++.|..   ++.+||||.||..||..|+..+.+||+||..+...
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            35689999999975   67899999999999999999999999999988643

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

Probab=99.25  E-value=6.4e-12  Score=93.94  Aligned_cols=53  Identities=26%  Similarity=0.604  Sum_probs=45.4

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc------CCCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF------HSSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~~~  207 (290)
                      .+.+...|+||++.|..   ++.++|+|.||..||..|+..      ...||+||..+...+
T Consensus        15 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCCCTTTCSCCSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             HccCCCCCCCCCcccCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            34567899999999875   567899999999999999987      779999999887644

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

Probab=99.22  E-value=2.2e-12  Score=95.78  Aligned_cols=53  Identities=19%  Similarity=0.472  Sum_probs=45.1

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-------CCCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-------HSSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-------~~~CP~CR~~l~~~~  207 (290)
                      .+.+...|+||++.|..   ++.++|||.||..||..|++.       ...||+||..+...+
T Consensus         8 ~~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            8 NVQEEVTCPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCCEETTTTEECSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             hcccCCCCcCCCcccCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            44567899999999975   567899999999999999976       668999999887643

>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=99.22  E-value=1.1e-12  Score=106.64  Aligned_cols=51  Identities=20%  Similarity=0.348  Sum_probs=0.9

Q ss_pred             CcccccccccccccC-------------C--cceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMG-------------N--EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~-------------~--~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      +++.|+||++.|...             +  .+..++|+|.||..||.+||+.+.+||+||.++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            358999999999752             2  23345899999999999999999999999998643

>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=99.22  E-value=2.3e-12  Score=100.98  Aligned_cols=51  Identities=22%  Similarity=0.460  Sum_probs=43.8

Q ss_pred             CCcccccccccccccCCccee-cCCCCcccHhhHHHHHhcC-CCCCcccccCCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQ-MPYKHKFHGECLMPWLEFH-SSCPICRYQLPSDN  207 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~-lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~~~  207 (290)
                      .+...|+||++.|..   ++. ++|||.||..||..|++.+ ..||+||..+...+
T Consensus        20 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            456899999999975   566 8999999999999999877 69999999986543

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

Probab=99.21  E-value=8.5e-12  Score=89.13  Aligned_cols=45  Identities=20%  Similarity=0.512  Sum_probs=38.9

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHh---cCCCCCcc
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE---FHSSCPIC  199 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~C  199 (290)
                      .+.+...|+||++.|..   ++.++|||.||..||..|++   ....||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSS---CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCC---eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34567899999999975   67789999999999999998   45689998

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

Probab=99.17  E-value=8.7e-12  Score=100.49  Aligned_cols=56  Identities=18%  Similarity=0.435  Sum_probs=47.6

Q ss_pred             CCcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          154 DQDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      .+...|+||++.|...    ..++.++|||.||..||.+||+.+.+||+||..+......
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~   64 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   64 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccc
Confidence            3468999999999753    3448899999999999999999999999999999776543

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

Probab=99.17  E-value=1.7e-11  Score=93.83  Aligned_cols=50  Identities=22%  Similarity=0.443  Sum_probs=42.8

Q ss_pred             ccCCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcC--CCCCcccccCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH--SSCPICRYQLP  204 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  204 (290)
                      .+.+...|+||++.|..   ++.++ |||.||..||..|+...  ..||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            34567899999999975   77899 99999999999999754  58999999874

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

Probab=99.16  E-value=1.8e-11  Score=91.80  Aligned_cols=52  Identities=17%  Similarity=0.392  Sum_probs=43.3

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcC--CCCCcccccCCCCCcc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH--SSCPICRYQLPSDNLK  209 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~CR~~l~~~~~~  209 (290)
                      ...|+||++.|..+.+  ...|+|.||..||.+||+.+  .+||+||.++..+...
T Consensus        15 i~~C~IC~~~i~~g~~--C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~~   68 (74)
T 2ct0_A           15 VKICNICHSLLIQGQS--CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPK   68 (74)
T ss_dssp             SCBCSSSCCBCSSSEE--CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCCC
T ss_pred             CCcCcchhhHcccCCc--cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCCC
Confidence            4799999999987643  33799999999999999877  8999999988755443

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

Probab=99.16  E-value=1.7e-11  Score=85.72  Aligned_cols=45  Identities=27%  Similarity=0.657  Sum_probs=37.9

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHh---cCCCCCcc
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE---FHSSCPIC  199 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~C  199 (290)
                      .+.+...|+||++.|..   ++.++|+|.||..||..|+.   .+..||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34567899999999976   56789999999999999954   56789998

>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=99.16  E-value=1.3e-11  Score=97.50  Aligned_cols=51  Identities=27%  Similarity=0.598  Sum_probs=44.5

Q ss_pred             cCCcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      +.+...|+||++.|..   ++.+ +|||.||..||..|+..+..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhC---cCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            3457899999999975   5565 9999999999999999999999999988764

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

Probab=99.14  E-value=1.9e-11  Score=95.07  Aligned_cols=49  Identities=22%  Similarity=0.621  Sum_probs=42.8

Q ss_pred             CcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      +...|+||++.|..   ++.+ +|||.||..||..|+..+..||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCC---cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            45799999999975   5555 8999999999999999989999999988653

>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=99.13  E-value=2.3e-11  Score=98.46  Aligned_cols=48  Identities=27%  Similarity=0.515  Sum_probs=42.1

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  205 (290)
                      +...|+||++.|..   ++.++|||.||..||..|+..+. .||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            45799999999985   67889999999999999998544 89999998865

>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=99.12  E-value=4.3e-11  Score=94.43  Aligned_cols=51  Identities=24%  Similarity=0.548  Sum_probs=43.0

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC---CCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~~~~  208 (290)
                      +...|+||++.|..   ++.++|||.||..||..|+..+.   .||+||..+...+.
T Consensus        20 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccChhhcC---eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            35799999999875   56789999999999999998654   89999998876543

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

Probab=99.12  E-value=4.1e-11  Score=86.16  Aligned_cols=54  Identities=17%  Similarity=0.276  Sum_probs=42.8

Q ss_pred             Cccccccccc-ccccCCcc-eecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLE-EFVMGNEA-KQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle-~f~~~~~~-~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~  208 (290)
                      ++..|+||++ .|...... ..++|||.||..||..|+.. ...||+||..+...+.
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            3578999999 77654322 45789999999999999864 4679999999876554

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

Probab=99.09  E-value=3.2e-11  Score=97.16  Aligned_cols=53  Identities=19%  Similarity=0.453  Sum_probs=45.6

Q ss_pred             CcccccccccccccC----CcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMG----NEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      +...|+||++.|...    ..++.++|+|.||..||.+||+.+.+||+||..+..++
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            468999999999752    33478899999999999999999999999999987654

>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=99.08  E-value=2.5e-11  Score=102.80  Aligned_cols=48  Identities=27%  Similarity=0.629  Sum_probs=41.4

Q ss_pred             CcccccccccccccCCcceec-CCCCcccHhhHHHHHhc-CCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEF-HSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  205 (290)
                      +...|+||++.|..   ++.+ +|||.||..||..|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC---cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            45799999999985   4555 99999999999999986 7789999998854

>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=5.1e-11  Score=95.78  Aligned_cols=51  Identities=22%  Similarity=0.484  Sum_probs=43.7

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSD  206 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~  206 (290)
                      +.+...|+||++.|..   ++.++|||.||..||..|++... .||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcC---eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            4456899999999975   57789999999999999997655 999999988654

>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=99.05  E-value=8.6e-11  Score=98.86  Aligned_cols=49  Identities=24%  Similarity=0.440  Sum_probs=43.0

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~  206 (290)
                      +...|+||++.|..   ++.++|+|.||..||..|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45799999999975   67799999999999999998654 899999998765

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

Probab=99.05  E-value=2e-11  Score=97.55  Aligned_cols=50  Identities=24%  Similarity=0.527  Sum_probs=43.4

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      +...|+||++.|..   ++.++|||.||..||..|+.. ...||+||..+...+
T Consensus        22 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            46799999999975   667899999999999999986 778999999887644

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

Probab=99.04  E-value=9.3e-11  Score=89.49  Aligned_cols=52  Identities=10%  Similarity=0.084  Sum_probs=45.9

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      +.+...|+||++.|.+   ++.++|||.|+..||..||..+.+||+|+..+...+
T Consensus        11 ~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTD---PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESM   62 (85)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CchheECcccCchhcC---CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHh
Confidence            3457899999999986   788999999999999999998899999999886543

>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=99.03  E-value=1.8e-11  Score=97.65  Aligned_cols=49  Identities=27%  Similarity=0.582  Sum_probs=42.4

Q ss_pred             CCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPS  205 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  205 (290)
                      .++..|+||++.|..   ++.++|||.||..||..|+.. +..||+||..+..
T Consensus        13 ~~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            346899999999875   778899999999999999965 6789999998864

>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=99.02  E-value=1.5e-10  Score=91.15  Aligned_cols=53  Identities=11%  Similarity=0.111  Sum_probs=46.6

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +.+...|+||++.|.+   ++.++|||.|+..||..||..+.+||+|+..+...+.
T Consensus        26 ~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L   78 (100)
T 2kre_A           26 APDEFRDPLMDTLMTD---PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESML   78 (100)
T ss_dssp             CSTTTBCTTTCSBCSS---EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSS
T ss_pred             CcHhhCCcCccCcccC---CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhc
Confidence            3456899999999986   7889999999999999999988999999998876543

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

Probab=99.02  E-value=9.6e-11  Score=112.55  Aligned_cols=49  Identities=27%  Similarity=0.518  Sum_probs=42.9

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~  207 (290)
                      ...|+||++.+..   ++.+||||.||..||..|+. .+..||+||..+....
T Consensus       332 ~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            3699999999864   78899999999999999998 6889999999886543

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

Probab=99.02  E-value=3.2e-10  Score=85.45  Aligned_cols=57  Identities=19%  Similarity=0.412  Sum_probs=44.7

Q ss_pred             ccCCcccccccccccccCCcceecC--CCCcccHhhHHHHHh-cCCCCCcccccCCCCCcc
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMP--YKHKFHGECLMPWLE-FHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lp--C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~~~  209 (290)
                      .+.++..|+||++.|...+ ++.+|  |||.||..||..|++ ....||+||+.+......
T Consensus         7 ~~~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             ccccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            3456789999999986533 34444  999999999999985 456899999998876554

>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=99.01  E-value=1.7e-10  Score=90.54  Aligned_cols=53  Identities=11%  Similarity=0.089  Sum_probs=46.7

Q ss_pred             cCCcccccccccccccCCcceecCCC-CcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYK-HKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +.+...|+||++.|++   ++.++|| |.|++.||..||..+.+||+|+..+...+.
T Consensus        19 ~p~~~~CpI~~~~m~d---PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L   72 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             CcHhcCCcCccccccC---CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhc
Confidence            3457899999999986   7889999 999999999999888899999999876543

>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=98.95  E-value=1.7e-10  Score=96.14  Aligned_cols=52  Identities=15%  Similarity=0.292  Sum_probs=43.7

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcCC-CCCcccccCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS-SCPICRYQLPSD  206 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~  206 (290)
                      .+.+...|+||++.|..   ++.++|||.||..||..|++... .||+||.++...
T Consensus        27 ~l~~~~~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             GCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             cCCcCcCCCCCChhhcC---cEECCCCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            34567899999999976   57789999999999999998664 899999987544

>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=98.92  E-value=1.5e-10  Score=92.79  Aligned_cols=47  Identities=17%  Similarity=0.379  Sum_probs=41.0

Q ss_pred             CcccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSD  206 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  206 (290)
                      +...|+||++.|..   ++.+ +|||.||..||..|+.  ..||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           21 KLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hCCCCCCCChHhhC---ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            46899999999975   6677 8999999999999998  7899999988543

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

Probab=98.90  E-value=4.3e-10  Score=78.99  Aligned_cols=47  Identities=30%  Similarity=0.511  Sum_probs=40.0

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      +...|+||++.|..   ++.|+|+|.||..||..|   ...||+||..+....
T Consensus         5 ~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            5 QFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cCCCceEeCCccCC---eEEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            45789999999985   678999999999999884   668999999887543

>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=98.88  E-value=6.8e-10  Score=80.26  Aligned_cols=47  Identities=15%  Similarity=0.215  Sum_probs=40.5

Q ss_pred             CcccccccccccccCCcceec--CCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQM--PYKHK-FHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~l--pC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ++..|.||++.+..   +..+  ||||. |+..|+..|++.+..||+||..+.
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            45799999998764   4444  99999 899999999998899999999874

>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=98.87  E-value=6.3e-10  Score=100.10  Aligned_cols=53  Identities=15%  Similarity=0.108  Sum_probs=44.5

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      .+.....|+||++.|.+   ++++||||.||..||..||.. +.+||+||.++...+
T Consensus       204 ~~~~~~~c~i~~~~~~d---Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          204 DIPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCCSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCCcccCCcCcCCHhcC---CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            34456899999999986   788999999999999999976 445999999886543

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

Probab=98.83  E-value=4.4e-10  Score=83.34  Aligned_cols=44  Identities=16%  Similarity=0.434  Sum_probs=38.8

Q ss_pred             CcccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      +...|+||++.+..   ++.+||||. ||..|+..|    ..||+||..+..
T Consensus        23 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            45799999999865   778899999 999999999    889999998764

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

Probab=98.82  E-value=1.1e-09  Score=84.84  Aligned_cols=51  Identities=16%  Similarity=0.422  Sum_probs=41.7

Q ss_pred             CCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcC------CCCCc--cccc-CCCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH------SSCPI--CRYQ-LPSDN  207 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~------~~CP~--CR~~-l~~~~  207 (290)
                      .+...|+||++.|.+   ++.++ |||.|++.||..||..+      .+||+  |+.. +...+
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~   65 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSD   65 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGG
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhh
Confidence            346899999999986   77886 99999999999999754      48999  9866 54433

>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=98.77  E-value=2.6e-09  Score=76.94  Aligned_cols=46  Identities=17%  Similarity=0.262  Sum_probs=39.3

Q ss_pred             cccccccccccccCCcceec--CCCCc-ccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQM--PYKHK-FHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~l--pC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ...|.||++.+..   +..+  ||||. ||..|+..|++....||+||..+.
T Consensus         7 ~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4689999998654   3444  99998 999999999988889999999874

>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=98.77  E-value=2.6e-09  Score=90.67  Aligned_cols=51  Identities=22%  Similarity=0.481  Sum_probs=43.5

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcC-CCCCcccccCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH-SSCPICRYQLPSD  206 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~~  206 (290)
                      +.+...|+||++.|..   ++.++|||.||..||..|+... ..||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           15 LESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCChhhcC---cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            4457899999999976   5778999999999999999754 4999999988654

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.69  E-value=8.8e-09  Score=89.28  Aligned_cols=53  Identities=17%  Similarity=0.110  Sum_probs=44.8

Q ss_pred             ccCCcccccccccccccCCcceecCCCCcccHhhHHHHHhcC-CCCCcccccCCCCC
Q 039647          152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH-SSCPICRYQLPSDN  207 (290)
Q Consensus       152 ~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~~~  207 (290)
                      .+.+...|+||++.|.+   ++.+||||.|+..||..||..+ .+||+|+..+...+
T Consensus       102 ~ip~~f~CPI~~elm~D---PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~  155 (179)
T 2f42_A          102 EIPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQ  155 (179)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCcHhhcccCccccCCC---CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhh
Confidence            34457899999999986   7888999999999999999764 47999999886543

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

Probab=98.66  E-value=1.1e-08  Score=75.67  Aligned_cols=45  Identities=16%  Similarity=0.426  Sum_probs=37.8

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ...|+||++.+..   ++.+||+|. ||..|+..    ...||+||..+....
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~~   70 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFKQ   70 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCCC
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecCcE
Confidence            4689999999865   778999999 99999964    478999999886643

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

Probab=98.62  E-value=7.2e-09  Score=97.90  Aligned_cols=51  Identities=25%  Similarity=0.641  Sum_probs=39.4

Q ss_pred             CcccccccccccccCCcc-----eecCCCCcccHhhHHHHHhcC-----------CCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEA-----KQMPYKHKFHGECLMPWLEFH-----------SSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~-----~~lpC~H~FH~~CI~~Wl~~~-----------~~CP~CR~~l~~  205 (290)
                      ...+|+||++.+..+..+     ...+|+|.||..||.+||+..           ..||.||.++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            346999999999873322     123699999999999999742           469999998754

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

Probab=98.59  E-value=3.6e-08  Score=70.61  Aligned_cols=48  Identities=29%  Similarity=0.605  Sum_probs=37.5

Q ss_pred             CcccccccccccccCCcceecCCC--C---cccHhhHHHHHhc--CCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYK--H---KFHGECLMPWLEF--HSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~--H---~FH~~CI~~Wl~~--~~~CP~CR~~l~~  205 (290)
                      +...|.||+++.  ++. ..+||.  |   .||..||.+|+..  +.+||+|++.+..
T Consensus         5 ~~~~CrIC~~~~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEEC--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCC--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            457999999973  333 468854  4   9999999999964  6789999998753

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

Probab=98.55  E-value=4.6e-08  Score=71.54  Aligned_cols=47  Identities=21%  Similarity=0.454  Sum_probs=39.2

Q ss_pred             CcccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +...|.||++.+..   ++.+||+|. ||..|+..    ...||+||..+.....
T Consensus        14 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~~~   61 (68)
T 2ea5_A           14 NSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQESFA   61 (68)
T ss_dssp             CSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCEEC
T ss_pred             CCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhceEE
Confidence            45799999998754   788999999 99999984    5789999998876433

>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=98.52  E-value=3.5e-08  Score=75.92  Aligned_cols=48  Identities=25%  Similarity=0.464  Sum_probs=38.0

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhc--------CCCCCc--cccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF--------HSSCPI--CRYQ  202 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~--------~~~CP~--CR~~  202 (290)
                      +..+|+||+++|...+.....+|+|.||..||..|++.        ...||.  |+..
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            35789999999876543333479999999999999963        136999  9987

>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=98.50  E-value=3.7e-08  Score=70.69  Aligned_cols=51  Identities=14%  Similarity=0.112  Sum_probs=44.4

Q ss_pred             ccccccccccccCCcceec-CCCCcccHhhHHHHHhcCCCCCcccccCCCCCccc
Q 039647          157 LQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKV  210 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~~  210 (290)
                      ..|+||++.+.+   ++.+ +|||.|.+.||.+||+.+.+||+++.++...+...
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip   55 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   55 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEE
Confidence            579999999985   6677 89999999999999988888999999987766543

>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=98.48  E-value=1.6e-08  Score=95.90  Aligned_cols=45  Identities=27%  Similarity=0.552  Sum_probs=39.4

Q ss_pred             CCcccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      .+...|+||++.+..   ++.+||||. ||..|+..|    ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            356899999999875   788899999 999999988    789999998754

>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=98.47  E-value=3e-08  Score=74.55  Aligned_cols=45  Identities=27%  Similarity=0.533  Sum_probs=38.5

Q ss_pred             cccccccccccccCCcceecCCCCc-ccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHK-FHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      ...|.||++.+..   ++.+||||. ||..|+..|    ..||+||..+....
T Consensus        18 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~~   63 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVEHVQ   63 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEEE
T ss_pred             CCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhhCeE
Confidence            5689999998765   788999999 999999887    48999999887643

>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=98.39  E-value=7.6e-08  Score=87.91  Aligned_cols=52  Identities=15%  Similarity=0.369  Sum_probs=41.8

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcC--CCCCc--ccccCCCCCc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH--SSCPI--CRYQLPSDNL  208 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~--CR~~l~~~~~  208 (290)
                      ....|+||++.|..  .++.+.|||.|++.||..|++.+  ..||+  |+..+...+.
T Consensus       180 ~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL  235 (267)
T 3htk_C          180 IELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDF  235 (267)
T ss_dssp             CCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGE
T ss_pred             eeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhC
Confidence            45899999999975  23345899999999999999764  47999  9998765543

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

Probab=98.08  E-value=3.5e-06  Score=75.92  Aligned_cols=50  Identities=16%  Similarity=0.410  Sum_probs=41.1

Q ss_pred             cccccccccccccCCcceecC-CCCcccHhhHHHHHhcCC--CCCcccccCCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHS--SCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~--~CP~CR~~l~~~~~  208 (290)
                      -..|.||.+.+..|.   ..+ |+|.||..|+..|++.+.  .||.|+..++...+
T Consensus       180 i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          180 VKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             CCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCC
T ss_pred             CCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC
Confidence            469999999988753   333 999999999999997654  89999998776644

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.96  E-value=3.9e-06  Score=65.84  Aligned_cols=47  Identities=19%  Similarity=0.304  Sum_probs=38.7

Q ss_pred             cccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCC
Q 039647          158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSD  206 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~  206 (290)
                      -|.+|--.+..  ..+.+||+|+||.+|+..|.+ ..++||.|+.++..-
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            47888777654  578899999999999999995 568999999887543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.74  E-value=0.011  Score=45.11  Aligned_cols=36  Identities=11%  Similarity=0.194  Sum_probs=26.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHH
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL  190 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl  190 (290)
                      ++..|.||++.|........+.|+|.||..|+..|.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHh
Confidence            357899999875433223338899999999999843

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=93.43  E-value=0.067  Score=40.55  Aligned_cols=38  Identities=18%  Similarity=0.136  Sum_probs=25.4

Q ss_pred             cccCCcccccccccccccCCcceecCCCCcccHhhHHHH
Q 039647          151 VAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPW  189 (290)
Q Consensus       151 ~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W  189 (290)
                      ..+..+..|.||.-. ..++....=-|+-+||..|+.+-
T Consensus        10 e~~~~D~~C~VC~~~-t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           10 EPVVNDEMCDVCEVW-TAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTTCCC-CSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCCCCCcccCccccc-cccceeccccccccccHhhcccc
Confidence            344568899999743 33222111128999999999996

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.30  E-value=0.088  Score=37.86  Aligned_cols=43  Identities=19%  Similarity=0.332  Sum_probs=31.6

Q ss_pred             cccccccccccccCCcceecC-CCCcccHhhHHHHHhcC----CCCCccccc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH----SSCPICRYQ  202 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~----~~CP~CR~~  202 (290)
                      ...|.||.+.   ++ ++..- |...||..|+.+.|...    =.||.|+..
T Consensus        12 ~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           12 GARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            4689999853   33 44443 99999999999988643    269999654

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=87.72  E-value=0.25  Score=34.73  Aligned_cols=45  Identities=29%  Similarity=0.499  Sum_probs=31.6

Q ss_pred             CCcccccccccccccCCcceec-CCCCcccHhhHHHHHhc----CCCCCccccc
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEF----HSSCPICRYQ  202 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~----~~~CP~CR~~  202 (290)
                      ..+..|.||.+.   ++ +... .|...||..|+.+-+..    .-.||.|+..
T Consensus         9 ~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            346799999973   33 3333 49999999999986532    2369999653

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.05  E-value=0.11  Score=36.68  Aligned_cols=47  Identities=21%  Similarity=0.320  Sum_probs=33.2

Q ss_pred             CcccccccccccccCCcceecC-CCCcccHhhHHHHHh-----cCCCCCcccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE-----FHSSCPICRY  201 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~-----~~~~CP~CR~  201 (290)
                      +...|+||...+..+...+..- |..-||..|+.--..     ..-.||.|+.
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            4578999999886544444444 999999999864332     2457999965

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.35  E-value=0.36  Score=36.76  Aligned_cols=45  Identities=27%  Similarity=0.479  Sum_probs=32.3

Q ss_pred             CCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcC----CCCCccccc
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH----SSCPICRYQ  202 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~----~~CP~CR~~  202 (290)
                      ..+..|.||.+.   ++ +.... |.-.||..|+.+=|...    -.||.|+..
T Consensus        23 ~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           23 DSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            346899999964   33 33443 99999999998866432    269999764

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=84.08  E-value=0.3  Score=34.30  Aligned_cols=45  Identities=24%  Similarity=0.334  Sum_probs=30.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhc----CCCCCccccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF----HSSCPICRYQ  202 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~----~~~CP~CR~~  202 (290)
                      .+..|.||.+.   ++-+.--.|...||..|+.+-|..    .=.||.|+..
T Consensus         8 ~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            8 HMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            45789999863   332222239999999999875543    2259999754

>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=83.49  E-value=0.57  Score=49.57  Aligned_cols=50  Identities=12%  Similarity=0.129  Sum_probs=43.5

Q ss_pred             cccccccccccccCCcceecCCC-CcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYK-HKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      ...|+|-++.+.+   ++.+|-| +.|-+.+|..||..+.+||+=|.++...+.
T Consensus       891 ~F~cPIs~~lM~D---PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~l  941 (968)
T 3m62_A          891 EFLDPLMYTIMKD---PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDV  941 (968)
T ss_dssp             GGBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGC
T ss_pred             HhCCcchhhHHhC---CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccc
Confidence            4689999999986   8899987 589999999999989999999998875543

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=83.23  E-value=0.36  Score=32.32  Aligned_cols=43  Identities=26%  Similarity=0.374  Sum_probs=28.4

Q ss_pred             cccccccccccCCcceec-CCCCcccHhhHHHHHhc----CCCCCcccc
Q 039647          158 QCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEF----HSSCPICRY  201 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~----~~~CP~CR~  201 (290)
                      .|.||...-.. +.++.. .|...||..|+.+=|..    .=.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            58999875332 233333 39999999999865532    225998864

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.44  E-value=1.2  Score=32.59  Aligned_cols=46  Identities=20%  Similarity=0.350  Sum_probs=31.1

Q ss_pred             ccccccccccccCCcceecC-CCCcccHhhHHHHHh-----cCCCCCcccccC
Q 039647          157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE-----FHSSCPICRYQL  203 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l  203 (290)
                      .-| ||...+..+...+..- |..-||..|+.--..     ..-.||.|+...
T Consensus        13 ~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             cEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            455 9998875444444444 999999999863221     345799997654

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=82.36  E-value=1.1  Score=42.42  Aligned_cols=85  Identities=19%  Similarity=0.250  Sum_probs=48.0

Q ss_pred             ccHHHHHHHHHhcCCCCCCCCcchHHHHHh-CC---cccc-----CCcccccccccccccCCcceecCCCCcccHh--hH
Q 039647          118 PGLDLLLQHLLENDPNRYGSLSAQKEVVKA-LP---MVAI-----DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGE--CL  186 (290)
Q Consensus       118 ~~l~~ll~~l~~~~~~~~~~~pa~~~~i~~-lp---~~~~-----~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~--CI  186 (290)
                      ...++|+++|..+..   .....+.+.|+. +.   ...+     .-.+.|++-+..+..  .++...|.|.-|.+  =+
T Consensus       205 ~s~e~Ll~~I~~~~~---i~~e~tl~~Ik~~ls~d~DdDIv~~s~~vSL~CPlS~~ri~~--PvRg~~C~HlQCFDl~sf  279 (371)
T 3i2d_A          205 ITPEQLLEKVLQHPK---IIKQATLLYLKKTLREDEEMGLTTTSTIMSLQCPISYTRMKY--PSKSINCKHLQCFDALWF  279 (371)
T ss_dssp             CCHHHHHHHHHTSCC---BCHHHHHHHHHHHHHSCC------CEEEEESBCTTTSSBCSS--EEEETTCCSSCCEEHHHH
T ss_pred             cCHHHHHHHHHhcCC---CCHHHHHHHHHHHhccCCCCceeeeeeEEeecCCCccccccc--cCcCCcCCCcceECHHHH
Confidence            489999999875321   112222233322 11   1111     114799998888765  46777899994443  34


Q ss_pred             HHHHhc--CCCCCcccccCCCCC
Q 039647          187 MPWLEF--HSSCPICRYQLPSDN  207 (290)
Q Consensus       187 ~~Wl~~--~~~CP~CR~~l~~~~  207 (290)
                      ....++  .-.||+|.+.+...+
T Consensus       280 L~~~~~~~~W~CPIC~k~~~~~d  302 (371)
T 3i2d_A          280 LHSQLQIPTWQCPVCQIDIALEN  302 (371)
T ss_dssp             HHHHHHSCCCBCTTTCCBCCGGG
T ss_pred             HHHhhcCCceeCCCCCcccCHHH
Confidence            333333  336999998775544

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=80.19  E-value=0.55  Score=40.26  Aligned_cols=48  Identities=17%  Similarity=0.218  Sum_probs=34.7

Q ss_pred             ccccccccccccCCc---ceecC-CCCcccHhhHHH------HHh-----cCCCCCcccccCC
Q 039647          157 LQCAVWLEEFVMGNE---AKQMP-YKHKFHGECLMP------WLE-----FHSSCPICRYQLP  204 (290)
Q Consensus       157 ~~C~ICle~f~~~~~---~~~lp-C~H~FH~~CI~~------Wl~-----~~~~CP~CR~~l~  204 (290)
                      ..|+||...|..++.   .+..- |..-||..|+.-      -+.     ..-.||.|+..-+
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~   65 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHP   65 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCC
Confidence            469999999987763   44554 999999999853      111     1568999987543

---

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	290
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-17
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-09
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	7e-09
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	9e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	7e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 71.1 bits (174), Expect = 5e-17
 Identities = 24/53 (45%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 152 AIDQDLQCAVWLEEFVMGNEAKQMPY-KHKFHGECLMPWLEFHSSCPICRYQL 203
           A+D  ++CAV L E   G EA+ +P   H FH EC+  WL  HS+CP+CR  +
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 56.5 bits (136), Expect = 2e-11
 Identities = 13/56 (23%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 158 QCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNLKVQGN 213
           +C + LE+    N +  +P  H F   C+  W+  + +CP+C+  + S    ++ +
Sbjct: 7   RCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESD 60

>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 = 52.9 bits (126), Expect = 4e-10
 Identities = 13/59 (22%), Positives = 16/59 (27%), Gaps = 3/59 (5%)

Query: 156 DLQCAVWLEEFVMGNEAKQM--PYKHKFHGECLMPWLEF-HSSCPICRYQLPSDNLKVQ 211
           D  C             K M     H     C+         +CP C   L   N +VQ
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

>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 = 50.3 bits (120), Expect = 2e-09
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 6/52 (11%)

Query: 155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSD 206
           Q L+C     E       K +P  H     CL         CPIC+   P  
Sbjct: 5   QFLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG 50

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 7e-09
 Identities = 13/56 (23%), Positives = 17/56 (30%), Gaps = 4/56 (7%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSS-CPICRYQLPSDNL 208
                C +  E      + K  P  H     CL  W E     CP CR ++     
Sbjct: 21  STFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP 73

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 9e-09
 Identities = 9/42 (21%), Positives = 12/42 (28%)

Query: 159 CAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICR 200
            A                  H FH  C+  WL+    CP+  
Sbjct: 39  QANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.9 bits (108), Expect = 8e-08
 Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 157 LQCAVWLEEFVMGNEA-KQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSD 206
           ++C + +E   + +         ++    C        +  CP CR   P D
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 45.9 bits (108), Expect = 2e-07
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 9/80 (11%)

Query: 131 DPNRYGSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWL 190
           +P+  G+ +  +  +  L     ++ L+C+                 +H F   C+   +
Sbjct: 2   EPDGRGAWAHSRAALDRL-----EKLLRCSRCTNILREPV--CLGGCEHIFCSNCVSDCI 54

Query: 191 EFHSSCPICRYQLPSDNLKV 210
                CP+C       +LK+
Sbjct: 55  GTG--CPVCYTPAWIQDLKI 72

>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 = 45.8 bits (108), Expect = 3e-07
 Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 6/61 (9%)

Query: 152 AIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRYQLPSDNL 208
           A+ + L+C + LE      E       H F   C++  L        CP+C+  +   +L
Sbjct: 17  AMQKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

Query: 209 K 209
           +
Sbjct: 74  Q 74

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 42.2 bits (98), Expect = 2e-06
 Identities = 11/53 (20%), Positives = 16/53 (30%), Gaps = 4/53 (7%)

Query: 154 DQDLQCAVWLEEFVMGNEAKQMP--YKHKFHGECLMPWLE--FHSSCPICRYQ 202
           +    C +  EE                  H  CL  WL    +++C IC   
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 38.7 bits (90), Expect = 6e-05
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSS-CPICRYQLPSDNLK 209
             + + C +         +  +   KH F   C++  L+   S CP CRY     +L+
Sbjct: 20  FVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

>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 = 38.9 bits (89), Expect = 1e-04
 Identities = 18/108 (16%), Positives = 34/108 (31%), Gaps = 28/108 (25%)

Query: 136 GSLSAQKEVV-KALPMVAIDQDLQCAVWLEEFVMGNEAKQ---------------MPYKH 179
           GS    ++V+ K    + +  +  C + +E+  + +                       H
Sbjct: 4   GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 180 KFHGECLMPWLE-----FHSSCPICRYQL-------PSDNLKVQGNGP 215
            FH  CL+             CP C+          P   ++V  +GP
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGKMEVFRSGP 111

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.7 bits (79), Expect = 7e-04
 Identities = 8/52 (15%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 157 LQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDNL 208
           + CA+  +  V          +  F    L  +++   + PI    L  + +
Sbjct: 1   MLCAISGK--VPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI 50

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	290
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.44
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.43
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.43
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.37
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.34
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.34
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.26
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.22
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.18
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.16
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.05
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.05
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.03
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.02
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.78
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.45
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.56
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.21
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	89.98
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.79
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	87.92
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	86.85
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	81.77
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	81.65
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	81.03

>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=99.64  E-value=3e-17  Score=114.78  Aligned_cols=52  Identities=44%  Similarity=0.944  Sum_probs=47.4

Q ss_pred             cCCcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      ++++.+|+||+++|..++.++.++ |+|.||..||.+||+.+.+||+||+++.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            356789999999999999998886 9999999999999999999999999874

>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=99.44  E-value=2.5e-14  Score=103.41  Aligned_cols=49  Identities=24%  Similarity=0.634  Sum_probs=42.8

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCC
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPS  205 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  205 (290)
                      ..++|+||++.|..  .++.+||+|.||..||..||+.+.+||+||.++..
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            35789999999864  46778999999999999999999999999998753

>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=99.43  E-value=4.8e-14  Score=111.13  Aligned_cols=71  Identities=18%  Similarity=0.413  Sum_probs=50.1

Q ss_pred             CCCcchHHHHHhC-CccccCCcccccccccccccC---------------CcceecCCCCcccHhhHHHHHhcC-----C
Q 039647          136 GSLSAQKEVVKAL-PMVAIDQDLQCAVWLEEFVMG---------------NEAKQMPYKHKFHGECLMPWLEFH-----S  194 (290)
Q Consensus       136 ~~~pa~~~~i~~l-p~~~~~~~~~C~ICle~f~~~---------------~~~~~lpC~H~FH~~CI~~Wl~~~-----~  194 (290)
                      +.....+++++++ ..+....+..|+||++.|...               ..++.++|+|+||..||..||+.+     .
T Consensus         4 ~ss~~pe~v~~~~~e~~~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~   83 (114)
T d1v87a_           4 GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSL   83 (114)
T ss_dssp             CSSCCHHHHHHHHEEECSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCC
T ss_pred             CCCCCCHHHHHHHHHHhcccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCC
Confidence            3444555555553 233444567899999998542               234567899999999999999743     4


Q ss_pred             CCCcccccCCCC
Q 039647          195 SCPICRYQLPSD  206 (290)
Q Consensus       195 ~CP~CR~~l~~~  206 (290)
                      +||+||..+..+
T Consensus        84 ~CP~CR~~~~~~   95 (114)
T d1v87a_          84 QCPSCKTIYGEK   95 (114)
T ss_dssp             BCTTTCCBSSSC
T ss_pred             ccccccchhccC
Confidence            799999877554

>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=99.43  E-value=2.7e-14  Score=98.26  Aligned_cols=50  Identities=18%  Similarity=0.363  Sum_probs=41.7

Q ss_pred             ccccccccccccCCc-ceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCC
Q 039647          157 LQCAVWLEEFVMGNE-AKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSD  206 (290)
Q Consensus       157 ~~C~ICle~f~~~~~-~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~  206 (290)
                      .+|+||+++|..++. ++.++|+|.||..||.+|++. +..||+||+++..+
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            479999999987654 455689999999999999975 45799999988653

>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=99.37  E-value=1.1e-13  Score=104.80  Aligned_cols=49  Identities=20%  Similarity=0.373  Sum_probs=41.6

Q ss_pred             cccccccccccccCC---------------cceecCCCCcccHhhHHHHHhcCCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMGN---------------EAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~~---------------~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  204 (290)
                      +..|+||++.+....               .+..++|+|+||..||.+||+.+.+||+||+++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            567999999886432               2466789999999999999999999999999875

>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=99.34  E-value=3.4e-13  Score=100.29  Aligned_cols=50  Identities=26%  Similarity=0.493  Sum_probs=42.8

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHh-cCCCCCcccccCCCCCc
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLE-FHSSCPICRYQLPSDNL  208 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~~  208 (290)
                      ...|+||++.+..   ++.+||||.||..||..||+ .+..||+||..+...+.
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            3579999999864   78899999999999999997 45789999999976543

>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=99.34  E-value=3e-13  Score=96.94  Aligned_cols=53  Identities=17%  Similarity=0.238  Sum_probs=42.0

Q ss_pred             CcccccccccccccCC--cceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          155 QDLQCAVWLEEFVMGN--EAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~--~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      ++..|+||++.+....  .+..++|+|.||..||..||+. +..||+||+.+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            4679999999865432  3456689999999999999964 568999999886544

>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=99.26  E-value=6.1e-13  Score=92.60  Aligned_cols=49  Identities=16%  Similarity=0.196  Sum_probs=42.9

Q ss_pred             ccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccccCCCCCc
Q 039647          157 LQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRYQLPSDNL  208 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~  208 (290)
                      +.|+||++.|+.   ++.++ |||.||..||.+||+.+.+||+||.++..++.
T Consensus         1 l~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           1 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            469999999975   66665 99999999999999999999999999877654

>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=99.22  E-value=3.1e-12  Score=99.11  Aligned_cols=49  Identities=22%  Similarity=0.533  Sum_probs=42.0

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCC---CCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHS---SCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~~~  207 (290)
                      .+.|+||++.|..   ++.++|||.||..||..|++...   .||+||..+...+
T Consensus        21 ~l~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCC---eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            4789999999975   67789999999999999997653   7999999886554

>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=3.9e-12  Score=96.12  Aligned_cols=49  Identities=24%  Similarity=0.527  Sum_probs=42.1

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      ...|+||++.|..   ++.++|||.||..||..|++. ...||+||.++...+
T Consensus        23 ~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          23 SISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            4689999999875   788999999999999999974 458999999886544

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=2.5e-12  Score=89.65  Aligned_cols=46  Identities=28%  Similarity=0.502  Sum_probs=39.6

Q ss_pred             cccccccccccccCCcceecCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          156 DLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      .++|+||++.|..   ++.+||||.||..||..|   +..||+||.++....
T Consensus         6 ~l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCcccCcccCC---CEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            4699999999975   678999999999999876   668999999987554

>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=99.05  E-value=4.4e-11  Score=88.45  Aligned_cols=52  Identities=15%  Similarity=0.112  Sum_probs=44.2

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCC
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDN  207 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~  207 (290)
                      +-++..|+||++.|.+   ++.++|||.|+..||..||.. +..||+|+..+...+
T Consensus         4 iP~~l~CpIc~~l~~d---Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           4 IPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CCSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCccccCcCcCchhhh---hcccCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            4467899999999986   678999999999999999964 568999999876543

>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=99.05  E-value=1.9e-11  Score=93.52  Aligned_cols=62  Identities=16%  Similarity=0.349  Sum_probs=45.0

Q ss_pred             CCCcchHHHHHhCCccccCCcccccccccccccCCccee-cCCCCcccHhhHHHHHhcCCCCCcccccCCCCC
Q 039647          136 GSLSAQKEVVKALPMVAIDQDLQCAVWLEEFVMGNEAKQ-MPYKHKFHGECLMPWLEFHSSCPICRYQLPSDN  207 (290)
Q Consensus       136 ~~~pa~~~~i~~lp~~~~~~~~~C~ICle~f~~~~~~~~-lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~  207 (290)
                      |...-+++.++.+.     +...|+||++.|..   ++. .+|||.||..||..|+.  ..||+||..+...+
T Consensus         7 ~~~~~~~~~l~~l~-----~~l~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_           7 GAWAHSRAALDRLE-----KLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             CCCHHHHHHHHHHH-----HTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             cccHhHHHHHHhhh-----hcCCCccCCchhhc---CceeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            33333444444442     35799999999975   444 47999999999999985  45999998876544

>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=99.03  E-value=7.8e-11  Score=86.56  Aligned_cols=53  Identities=19%  Similarity=0.421  Sum_probs=45.2

Q ss_pred             cCCcccccccccccccCCcceecCCCCcccHhhHHHHHhc-CCCCCcccccCCCCCc
Q 039647          153 IDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEF-HSSCPICRYQLPSDNL  208 (290)
Q Consensus       153 ~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~  208 (290)
                      +-++..|+||++.|.+   ++.++|||.||+.||..|++. ...||+|+..+...+.
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l   58 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             CCccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccc
Confidence            3467899999999986   678999999999999999976 4579999998876554

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.02  E-value=9.3e-11  Score=82.12  Aligned_cols=49  Identities=22%  Similarity=0.436  Sum_probs=37.9

Q ss_pred             CCcccccccccccccCCcceecC-----CCCcccHhhHHHHHh--cCCCCCcccccCCC
Q 039647          154 DQDLQCAVWLEEFVMGNEAKQMP-----YKHKFHGECLMPWLE--FHSSCPICRYQLPS  205 (290)
Q Consensus       154 ~~~~~C~ICle~f~~~~~~~~lp-----C~H~FH~~CI~~Wl~--~~~~CP~CR~~l~~  205 (290)
                      ++...|.||++++...   ...|     |+|.||..||..|+.  .+.+||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            3457999999988643   2333     469999999999995  45689999998754

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=1.8e-09  Score=82.87  Aligned_cols=52  Identities=12%  Similarity=0.134  Sum_probs=45.2

Q ss_pred             CcccccccccccccCCcceecCCC-CcccHhhHHHHHhcCCCCCcccccCCCCCcc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYK-HKFHGECLMPWLEFHSSCPICRYQLPSDNLK  209 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~  209 (290)
                      ++..|+||++.|.+   +++++|+ |.|++.||..||+.+..||+|+.++...+..
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~   73 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSE
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchhhc
Confidence            46899999999987   7899866 5799999999999999999999998766543

>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=98.45  E-value=3e-08  Score=74.57  Aligned_cols=46  Identities=22%  Similarity=0.395  Sum_probs=36.6

Q ss_pred             CcccccccccccccCCcceecCCCCcccHhhHHHHHhcC--------CCCCccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPWLEFH--------SSCPICR  200 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~Wl~~~--------~~CP~CR  200 (290)
                      ....|+||++++...+.+..++|+|.||..||..|++.+        -.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            357999999999776656666899999999999999621        1599864

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.56  E-value=0.045  Score=39.49  Aligned_cols=40  Identities=23%  Similarity=0.297  Sum_probs=28.3

Q ss_pred             CccccCCcccccccccccccCCcceecCCCCcccHhhHHHH
Q 039647          149 PMVAIDQDLQCAVWLEEFVMGNEAKQMPYKHKFHGECLMPW  189 (290)
Q Consensus       149 p~~~~~~~~~C~ICle~f~~~~~~~~lpC~H~FH~~CI~~W  189 (290)
                      |...+..+..|.|| +.|......-.--|+-+||..|+.+.
T Consensus         8 ~re~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_           8 PREPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cccCCCcCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            34455678999999 77776443211128999999999986

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.21  E-value=0.028  Score=36.38  Aligned_cols=43  Identities=26%  Similarity=0.354  Sum_probs=29.6

Q ss_pred             cccccccccccCCcceecC-CCCcccHhhHHHHHhcC----CCCCcccc
Q 039647          158 QCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFH----SSCPICRY  201 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~----~~CP~CR~  201 (290)
                      .|.||...-.. +.++... |...||..|+.+-+...    =.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58899866433 2333333 99999999999876432    25999874

>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=89.98  E-value=0.058  Score=37.25  Aligned_cols=44  Identities=25%  Similarity=0.466  Sum_probs=29.9

Q ss_pred             ccccccccccccCCcceec-CCCCcccHhhHHHHHhcCC----CCCcccccCC
Q 039647          157 LQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEFHS----SCPICRYQLP  204 (290)
Q Consensus       157 ~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~----~CP~CR~~l~  204 (290)
                      ..|.||.+.   ++ ++.. .|...||..|+.+.+....    .||.|+....
T Consensus         8 ~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           8 TICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            467777643   33 3333 3999999999998875332    5999965443

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.79  E-value=0.026  Score=40.62  Aligned_cols=49  Identities=22%  Similarity=0.405  Sum_probs=32.2

Q ss_pred             cccccccccccccC-CcceecC-CCCcccHhhHHHHH-----hc---CCCCCcccccCC
Q 039647          156 DLQCAVWLEEFVMG-NEAKQMP-YKHKFHGECLMPWL-----EF---HSSCPICRYQLP  204 (290)
Q Consensus       156 ~~~C~ICle~f~~~-~~~~~lp-C~H~FH~~CI~~Wl-----~~---~~~CP~CR~~l~  204 (290)
                      ...|.||....... ..++..- |...||..|+.+.+     ..   .-.||.|.....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            46899998754322 2344444 99999999987543     11   336999976443

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.92  E-value=0.45  Score=33.16  Aligned_cols=46  Identities=15%  Similarity=0.214  Sum_probs=31.5

Q ss_pred             cccccccccccCCcceecC-CCCcccHhhHHH--HH-h--cCCCCCcccccC
Q 039647          158 QCAVWLEEFVMGNEAKQMP-YKHKFHGECLMP--WL-E--FHSSCPICRYQL  203 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~--Wl-~--~~~~CP~CR~~l  203 (290)
                      .|.||...+..+...+..- |.--||..|+..  .. .  .+-.||.|+...
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            4459998876655455554 999999999852  22 1  235799997644

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.85  E-value=0.12  Score=34.78  Aligned_cols=47  Identities=21%  Similarity=0.320  Sum_probs=34.0

Q ss_pred             CcccccccccccccCCcceecC-CCCcccHhhHHHHHh-----cCCCCCcccc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLE-----FHSSCPICRY  201 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~-----~~~~CP~CR~  201 (290)
                      ....|.||.+.+..++..+... |+..||..|+..-..     .+-.||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            3578999999887766555554 999999999863221     2347999964

>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=81.77  E-value=0.15  Score=34.05  Aligned_cols=43  Identities=26%  Similarity=0.383  Sum_probs=29.8

Q ss_pred             cccccccccccccCCcceec-CCCCcccHhhHHHHHhc----CCCCCccccc
Q 039647          156 DLQCAVWLEEFVMGNEAKQM-PYKHKFHGECLMPWLEF----HSSCPICRYQ  202 (290)
Q Consensus       156 ~~~C~ICle~f~~~~~~~~l-pC~H~FH~~CI~~Wl~~----~~~CP~CR~~  202 (290)
                      ...|.||.+.   ++ ++.. .|.-.||..|+...+..    .-.||.|+..
T Consensus         9 ~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           9 MEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            4679999853   33 3333 39999999999866643    2369999654

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.65  E-value=0.15  Score=34.35  Aligned_cols=44  Identities=18%  Similarity=0.221  Sum_probs=31.0

Q ss_pred             CcccccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcc
Q 039647          155 QDLQCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPIC  199 (290)
Q Consensus       155 ~~~~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~C  199 (290)
                      ....|.-|+..+.... ....+ |++.||.+|=.---+.-..||-|
T Consensus        14 ~~~~C~gC~~~l~~~~-~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQH-VYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSE-EECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCc-eEECcCCCCccccccchhhhhhhcCCCCC
Confidence            3578999999886533 33344 99999999954333455579887

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.03  E-value=0.053  Score=35.50  Aligned_cols=44  Identities=16%  Similarity=0.226  Sum_probs=30.0

Q ss_pred             cccccccccccCCcceecC-CCCcccHhhHHHHHhcCCCCCcccc
Q 039647          158 QCAVWLEEFVMGNEAKQMP-YKHKFHGECLMPWLEFHSSCPICRY  201 (290)
Q Consensus       158 ~C~ICle~f~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~  201 (290)
                      .|.+|...|..-..-.... ||.+|+..|..........|..|..
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhh
Confidence            5889999998654433444 9999999998766566667777743