Citrus Sinensis ID: 047298

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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--
Protein Sequence
MLREILYSTDSSSLDEDDHKKMAIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN
Secondary Structure (PSIPRED)
cHHHHcccccccccccccccccccccccccccccccccEEcccccccEEccccccEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHcccccEEEccccccccccccEEEccccccccEEcccccccccccHHHHHcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHccccccccccccccEEccccccHEEHHHHHHHcccccEEEEEEEccccccccccccHHHHHHHHHHHHHHcccHHHHHHcccEEEEEEEEEEcccccccccHHHHHHHcccccEEEEccccccccccEEEEEccccccEEEccccccccHHHHHHHHHHccccccEEEccccHHHHccccccccc
Coil and Loop (DISEMBL)
MLREIlystdsssldeddhkkmaipikgnrvnindlfhffefpkassryddlRGLIlnvkrlpadtyHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQsqpivvdceeeEEEEERCAIClgsgtgsviQMDCLHQFHEKCIACwfdnrnyscplcrFDMATAVIESMFSKPLN
Flexible Loop (DISEMBL)
mlreilystdsssldeddhKKMAIPIKGNRVNINDLFHFFEfpkassrydDLRGLILNVkrlpadtyHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRnnvnvtkkdvVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN
Low Complexity Region (SEG)
MLREILYSTDSSSLDEDDHKKMAIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDvtvefvvvvviyrnnvnvtkkdvvkYLQSQPIVVDCeeeeeeeeRCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN
Disordered region (IsUnstruct)
**********************AIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVV***********CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIES*******
Disordered Region (DISOPRED)
********************************INDLFHFFEFPKASSRYDDLRGLILNVK*****TYHELVDDILISMTDEIDTIIEHDVTVEFVV********************************EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFD***************
Disordered Region (DISEMBL)
MLREILYSTDSSSLDEDDHKKMAIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVVD**********CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN
Disordered Region (DISPRO)
*********DSSSLDEDDHKKMAIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLREILYSTDSSSLDEDDHKKMAIPIKGNRVNINDLFHFFEFPKASSRYDDLRGLILNVKRLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN
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	192	2.2.26 [Sep-21-2011]
Q7ZW78	156	E3 ubiquitin-protein liga	yes	no	0.333	0.410	0.388	6e-06
Q95QN6	590	Uncharacterized RING fing	yes	no	0.239	0.077	0.387	0.0001
Q9P0P0	153	E3 ubiquitin-protein liga	yes	no	0.260	0.326	0.396	0.0001
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.25	0.146	0.403	0.0002
Q8L9T5	304	RING-H2 finger protein AT	no	no	0.302	0.190	0.375	0.0002
Q6AXU4	165	E3 ubiquitin-protein liga	yes	no	0.25	0.290	0.431	0.0003
Q9ZU51	147	Probable E3 ubiquitin-pro	no	no	0.213	0.278	0.441	0.0003
Q8RX29	217	RING-H2 finger protein AT	no	no	0.369	0.327	0.375	0.0003
Q5XHH7	595	E3 ubiquitin-protein liga	N/A	no	0.333	0.107	0.307	0.0003
Q5M974	156	E3 ubiquitin-protein liga	no	no	0.343	0.423	0.362	0.0003

>sp|Q7ZW78|RN181_DANRE E3 ubiquitin-protein ligase RNF181 OS=Danio rerio GN=rnf181 PE=2 SV=2

 Score = 50.4 bits (119), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/67 (38%), Positives = 38/67 (56%), Gaps = 3/67 (4%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPL 173
           +QS P+V+   E+ ++  +C +CL       SV +M C H FH  CI  W  N+  SCPL
Sbjct: 60  VQSLPVVIISPEQADKGVKCPVCLLEFEEQESVREMPCKHLFHTGCILPWL-NKTNSCPL 118

Query: 174 CRFDMAT 180
           CR ++ T
Sbjct: 119 CRLELPT 125

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.
Danio rerio (taxid: 7955)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q95QN6|YQOE_CAEEL Uncharacterized RING finger protein EEED8.16 OS=Caenorhabditis elegans GN=EEED8.16 PE=4 SV=1

 Score = 46.6 bits (109), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 3/49 (6%)

Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI 183
           CA+CL     SV+ + C H FH +C+  W DN   +CP+CR+  +  V+
Sbjct: 260 CAVCLERMDDSVLAILCNHSFHARCLEQWADN---TCPVCRYVQSPEVV 305

Caenorhabditis elegans (taxid: 6239)

>sp|Q9P0P0|RN181_HUMAN E3 ubiquitin-protein ligase RNF181 OS=Homo sapiens GN=RNF181 PE=1 SV=1

 Score = 46.2 bits (108), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 3/53 (5%)

Query: 130 EEEERCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           + E +C +CL       + I+M C H FH  CI  W    N SCPLCR+++ T
Sbjct: 71  QAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTN-SCPLCRYELPT 122

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.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 45.8 bits (107), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 33/57 (57%), Gaps = 9/57 (15%)

Query: 129 EEEEERCAICL-----GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           + E  +CA+C+     GS    V QM C H FH+ C+  W +  N SCP+CRF++ T
Sbjct: 210 KSEMNQCAVCMDEFEDGS---DVKQMPCKHVFHQDCLLPWLELHN-SCPVCRFELPT 262

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

 Score = 45.4 bits (106), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/64 (37%), Positives = 36/64 (56%), Gaps = 6/64 (9%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICLG----SGTGSVIQMDCLHQFHEKCIACWFDNRNYSC 171
           ++S P+    +E  ++   CA+CL     S TG V+  +C H FH  CI  WF + + +C
Sbjct: 100 IKSLPVFTFSDETHKDPIECAVCLSEFEESETGRVLP-NCQHTFHVDCIDMWFHSHS-TC 157

Query: 172 PLCR 175
           PLCR
Sbjct: 158 PLCR 161

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 45.4 bits (106), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 28/51 (54%), Gaps = 3/51 (5%)

Query: 132 EERCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           E +C +CL       +VI+M C H FH  CI  W    N SCPLCR ++ T
Sbjct: 85  ELKCPVCLLEFEEEETVIEMPCHHLFHSNCILPWLSKTN-SCPLCRHELPT 134

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

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9ZU51|RHA2B_ARATH Probable E3 ubiquitin-protein ligase RHA2B OS=Arabidopsis thaliana GN=RHA2B PE=1 SV=2

 Score = 45.1 bits (105), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 2/43 (4%)

Query: 135 CAICLGS-GTGS-VIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           C +CL    TG  V ++DC H FH++C+  W  + N++CPLCR
Sbjct: 74  CIVCLSKLKTGEEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCR 116

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score = 45.1 bits (105), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 41/80 (51%), Gaps = 9/80 (11%)

Query: 116 LQSQPIVVDCEEEEEEEERC-AICLGSGTGSVI--QM-DCLHQFHEKCIACWFDNRNYSC 171
           +QS P ++  E +      C AICLG   G  +  Q+ DC H FH KCI  W    N +C
Sbjct: 127 IQSYPKILYSEAKGPTTASCCAICLGDYKGKHLLRQLPDCNHLFHLKCIDTWL-RLNPTC 185

Query: 172 PLCRFDMATAVIESMFSKPL 191
           P+CR    T+ + +  S PL
Sbjct: 186 PVCR----TSPLPTPLSTPL 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q5XHH7|SYVNB_XENLA E3 ubiquitin-protein ligase synoviolin B OS=Xenopus laevis GN=syvn1-b PE=2 SV=1

 Score = 45.1 bits (105), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 1/65 (1%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIES 185
           EE +  +  C IC         ++ C H FH  C+  WF  R  +CP CR D+  A + +
Sbjct: 276 EELQAMDNVCIICREEMVSGAKRLPCNHIFHTSCLRSWF-QRQQTCPTCRMDVLRASLPT 334

Query: 186 MFSKP 190
               P
Sbjct: 335 QPQTP 339

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5M974|RN181_XENTR E3 ubiquitin-protein ligase RNF181 OS=Xenopus tropicalis GN=rnf181 PE=2 SV=1

 Score = 44.7 bits (104), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 114 KYLQSQPIVVDCEEEEEEEERCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSC 171
           K ++S P V    E+ +   +C +CL       +V Q+ C H FH  CI  W    N SC
Sbjct: 58  KVVESLPKVTVTPEQADAALKCPVCLLEFEEGETVRQLPCEHLFHSSCILPWLGKTN-SC 116

Query: 172 PLCRFDMAT 180
           PLCR ++ T
Sbjct: 117 PLCRHELPT 125

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.

Xenopus tropicalis (taxid: 8364)

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	192
219123835	403	predicted protein [Phaeodactylum tricorn	0.317	0.151	0.380	2e-06
255582034	573	zinc finger protein, putative [Ricinus c	0.348	0.116	0.438	4e-06
198431560	141	PREDICTED: similar to ring finger protei	0.270	0.368	0.433	4e-06
115477010	271	Os08g0487500 [Oryza sativa Japonica Grou	0.333	0.236	0.432	5e-06
125603819	271	hypothetical protein OsJ_27734 [Oryza sa	0.333	0.236	0.432	6e-06
156096633	1159	hypothetical protein [Plasmodium vivax S	0.661	0.109	0.310	1e-05
225439084	587	PREDICTED: uncharacterized protein LOC10	0.343	0.112	0.444	2e-05
147816583	648	hypothetical protein VITISV_040928 [Viti	0.343	0.101	0.444	2e-05
389583240	1046	hypothetical protein PCYB_081360 [Plasmo	0.661	0.121	0.303	3e-05
218186326	230	hypothetical protein OsI_37274 [Oryza sa	0.5	0.417	0.304	5e-05

>gi|219123835|ref|XP_002182222.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406183|gb|EEC46123.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]

 Score = 57.8 bits (138), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 2/63 (3%)

Query: 123 VDCEEEEEEEERCAICLGS--GTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           V  EE E+E  +CA+C+    G   +I + C H++H  CI  W   R  SCPLC++D+  
Sbjct: 268 VSLEEGEQEHSQCAVCIDDLIGESDIITLPCHHRYHADCIIAWLTERQSSCPLCKYDVME 327

Query: 181 AVI 183
            V+
Sbjct: 328 YVL 330

Source: Phaeodactylum tricornutum CCAP 1055/1

Species: Phaeodactylum tricornutum

Genus: Phaeodactylum

Family: Phaeodactylaceae

Order: Naviculales

Class: Bacillariophyceae

Phylum: Bacillariophyta

Superkingdom: Eukaryota

>gi|255582034|ref|XP_002531814.1| zinc finger protein, putative [Ricinus communis] gi|223528548|gb|EEF30571.1| zinc finger protein, putative [Ricinus communis]

 Score = 57.0 bits (136), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 42/73 (57%), Gaps = 6/73 (8%)

Query: 112 VVKYLQSQPIVVDCEEEEEEEE-RCAIC---LGSGTGSVIQMDCLHQFHEKCIACWFDNR 167
            V ++ S P+V+  EE E+ +   CAIC   L  GT  V Q+ C H +H  CI  W   R
Sbjct: 364 AVSFVNSLPLVIVNEEHEKHDGLACAICKDVLSIGT-EVNQLPCFHLYHPSCILPWLSAR 422

Query: 168 NYSCPLCRFDMAT 180
           N SCPLCRF++ T
Sbjct: 423 N-SCPLCRFELPT 434

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|198431560|ref|XP_002127501.1| PREDICTED: similar to ring finger protein 181 [Ciona intestinalis]

 Score = 56.6 bits (135), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/53 (43%), Positives = 35/53 (66%), Gaps = 1/53 (1%)

Query: 128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           E +  E+C +CL   +G+VI+M C H FH+ C+  W  N+  SCP+CRF++ T
Sbjct: 59  ELDPSEKCPVCLVPYSGTVIEMPCNHSFHKDCLHPWL-NKTNSCPVCRFELLT 110

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

Superkingdom: Eukaryota

>gi|115477010|ref|NP_001062101.1| Os08g0487500 [Oryza sativa Japonica Group] gi|42408194|dbj|BAD09331.1| zinc finger protein family-like [Oryza sativa Japonica Group] gi|42408255|dbj|BAD09411.1| zinc finger protein family-like [Oryza sativa Japonica Group] gi|113624070|dbj|BAF24015.1| Os08g0487500 [Oryza sativa Japonica Group] gi|125561976|gb|EAZ07424.1| hypothetical protein OsI_29676 [Oryza sativa Indica Group] gi|215694722|dbj|BAG89913.1| unnamed protein product [Oryza sativa Japonica Group] gi|347737069|gb|AEP20517.1| zinc finger protein [Oryza sativa Japonica Group]

 Score = 56.6 bits (135), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 3/67 (4%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICL-GSGTGS-VIQMDCLHQFHEKCIACWFDNRNYSCPL 173
           +++ P  V    E+ E E CA+C  G   G  V ++ C H +HE+CI  W D RN SCPL
Sbjct: 190 VEALPSAVVAAGEDGEGEECAVCRDGVAAGERVKRLPCSHGYHEECIMPWLDVRN-SCPL 248

Query: 174 CRFDMAT 180
           CRF++ T
Sbjct: 249 CRFELPT 255

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125603819|gb|EAZ43144.1| hypothetical protein OsJ_27734 [Oryza sativa Japonica Group]

 Score = 56.2 bits (134), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 3/67 (4%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICL-GSGTGS-VIQMDCLHQFHEKCIACWFDNRNYSCPL 173
           +++ P  V    E+ E E CA+C  G   G  V ++ C H +HE+CI  W D RN SCPL
Sbjct: 190 VEALPSAVVAAGEDGEWEECAVCRDGVAAGERVKRLPCSHGYHEECIMPWLDVRN-SCPL 248

Query: 174 CRFDMAT 180
           CRF++ T
Sbjct: 249 CRFELPT 255

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|156096633|ref|XP_001614350.1| hypothetical protein [Plasmodium vivax Sal-1] gi|148803224|gb|EDL44623.1| hypothetical protein, conserved [Plasmodium vivax]

 Score = 55.5 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 45/145 (31%), Positives = 66/145 (45%), Gaps = 18/145 (12%)

Query: 43  PKASSRYDDLRGLILNVK-RLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIY 101
           P+  +R  D+  + LN   RL    +H+L+D+IL +  D I      D  +  ++     
Sbjct: 286 PRIITRAIDITNIPLNSPIRL---NFHDLIDNILTNSFDNISL----DQVLTIIMESDPS 338

Query: 102 RNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICL-----GSGTGSVIQMD-CLHQF 155
           RN      + ++K L+ +   V  +E  EE E CAIC            V   + C H F
Sbjct: 339 RNGPPPASEAIIKNLKVE---VLTKERAEELESCAICREEYKENDEVHRVTDNERCRHVF 395

Query: 156 HEKCIACWFDNRNYSCPLCRFDMAT 180
           H  CI  W   RN SCP CRF++ T
Sbjct: 396 HCSCIIPWLKERN-SCPTCRFELPT 419

Source: Plasmodium vivax Sal-1

Species: Plasmodium vivax

Genus: Plasmodium

Order: Haemosporida

Class: Aconoidasida

Phylum: Apicomplexa

Superkingdom: Eukaryota

>gi|225439084|ref|XP_002265092.1| PREDICTED: uncharacterized protein LOC100255416 [Vitis vinifera]

 Score = 54.7 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/72 (44%), Positives = 41/72 (56%), Gaps = 6/72 (8%)

Query: 113 VKYLQSQPIVVDCEEEEEEEER-CAIC---LGSGTGSVIQMDCLHQFHEKCIACWFDNRN 168
           V ++ S P VV  EE E+ +   CAIC   L  GT  V Q+ C H +H  CI  W   RN
Sbjct: 386 VSFVNSLPRVVINEEHEKRDGLVCAICKDVLSVGT-EVNQLPCFHLYHPYCILPWLTARN 444

Query: 169 YSCPLCRFDMAT 180
            SCPLCR+++ T
Sbjct: 445 -SCPLCRYELPT 455

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147816583|emb|CAN75069.1| hypothetical protein VITISV_040928 [Vitis vinifera]

 Score = 54.3 bits (129), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/72 (44%), Positives = 41/72 (56%), Gaps = 6/72 (8%)

Query: 113 VKYLQSQPIVVDCEEEEEEEER-CAIC---LGSGTGSVIQMDCLHQFHEKCIACWFDNRN 168
           V ++ S P VV  EE E+ +   CAIC   L  GT  V Q+ C H +H  CI  W   RN
Sbjct: 447 VSFVNSLPRVVINEEHEKRDGLVCAICKDVLSVGT-EVNQLPCFHLYHPYCILPWLTARN 505

Query: 169 YSCPLCRFDMAT 180
            SCPLCR+++ T
Sbjct: 506 -SCPLCRYELPT 516

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|389583240|dbj|GAB65975.1| hypothetical protein PCYB_081360 [Plasmodium cynomolgi strain B]

 Score = 53.9 bits (128), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 44/145 (30%), Positives = 65/145 (44%), Gaps = 18/145 (12%)

Query: 43  PKASSRYDDLRGLILNVK-RLPADTYHELVDDILISMTDEIDTIIEHDVTVEFVVVVVIY 101
           P+  +R  D+  + LN   RL    +H+L+D+IL +  D I      D  +  ++     
Sbjct: 272 PRIITRAIDITNIPLNSPIRL---NFHDLIDNILTNSFDNISL----DQVLTIIMESDPS 324

Query: 102 RNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGS------VIQMDCLHQF 155
           RN      + ++K L+ +   V  +E  EE E CAIC      +           C H F
Sbjct: 325 RNGPPPASEAIIKNLKVE---VLTKERAEELESCAICREEYKENDEVHRITDNERCRHVF 381

Query: 156 HEKCIACWFDNRNYSCPLCRFDMAT 180
           H  CI  W   RN SCP CRF++ T
Sbjct: 382 HCSCIIPWLKERN-SCPTCRFELPT 405

Source: Plasmodium cynomolgi strain B

Species: Plasmodium cynomolgi

Genus: Plasmodium

Order: Haemosporida

Class: Aconoidasida

Phylum: Apicomplexa

Superkingdom: Eukaryota

>gi|218186326|gb|EEC68753.1| hypothetical protein OsI_37274 [Oryza sativa Indica Group]

 Score = 53.1 bits (126), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 35/115 (30%), Positives = 57/115 (49%), Gaps = 19/115 (16%)

Query: 90  VTVEFVVVVVIYRNNVNVTKKD-VVKYLQSQPIVVDCEEEEEEEERCAICL--------- 139
           +T+  VV ++  RN+    K D +++ L  +P      +++++ E+C ICL         
Sbjct: 121 LTIATVVGLIRRRNDDANNKYDMLIERLLLRP------KDDQDNEQCVICLSESEDDVDD 174

Query: 140 GSGTGSVIQM--DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN 192
           G G     +M   C H FH+ C+  W  NR  +CPLCR D+A A  + + S   N
Sbjct: 175 GGGERGRWRMLPGCAHAFHKDCVVKWLRNRT-TCPLCRSDVAVAAADDIISTADN 228

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	192
TAIR|locus:2035843	179	AT1G14200 [Arabidopsis thalian	0.354	0.379	0.352	1.1e-07
ZFIN|ZDB-GENE-040426-1024	156	rnf181 "ring finger protein 18	0.333	0.410	0.373	2.3e-07
TAIR|locus:2038766	147	RHA2B "RING-H2 finger protein	0.213	0.278	0.418	4.8e-07
TAIR|locus:2034939	224	AT1G18760 [Arabidopsis thalian	0.223	0.191	0.437	5.7e-07
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.239	0.140	0.448	1.5e-06
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.239	0.330	0.408	2.1e-06
TAIR|locus:2185108	493	AT5G01980 [Arabidopsis thalian	0.234	0.091	0.479	2.3e-06
TAIR|locus:2034934	106	AT1G18770 [Arabidopsis thalian	0.223	0.405	0.434	2.6e-06
TAIR|locus:1006230202	90	AT3G51325 "AT3G51325" [Arabido	0.255	0.544	0.384	3.4e-06
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.239	0.300	0.408	3.4e-06

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

 Score = 121 (47.7 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 25/71 (35%), Positives = 38/71 (53%)

Query:   116 LQSQPIVVDCXXXXXXXXRCAICLGSGT-GSVI-QMDCLHQFHEKCIACWFDNRNYSCPL 173
             +++ P VV           CAICL   + G V  +M C H+FH KC+  W   R+ +CP+
Sbjct:    90 VENMPRVVIGEDKEKYGGSCAICLDEWSKGDVAAEMPCKHKFHSKCVEEWL-GRHATCPM 148

Query:   174 CRFDMATAVIE 184
             CR++M    +E
Sbjct:   149 CRYEMPVEEVE 159

GO:0005634 "nucleus" evidence=ISM

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

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

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

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

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

ZFIN|ZDB-GENE-040426-1024 rnf181 "ring finger protein 181" [Danio rerio (taxid:7955)]

 Score = 118 (46.6 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 25/67 (37%), Positives = 34/67 (50%)

Query:   116 LQSQPIVVDCXXXXXXXXRCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPL 173
             +QS P+V+          +C +CL       SV +M C H FH  CI  W +  N SCPL
Sbjct:    60 VQSLPVVIISPEQADKGVKCPVCLLEFEEQESVREMPCKHLFHTGCILPWLNKTN-SCPL 118

Query:   174 CRFDMAT 180
             CR ++ T
Sbjct:   119 CRLELPT 125

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2038766 RHA2B "RING-H2 finger protein 2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 18/43 (41%), Positives = 28/43 (65%)

Query:   135 CAICLGS-GTGSVIQ-MDCLHQFHEKCIACWFDNRNYSCPLCR 175
             C +CL    TG  ++ +DC H FH++C+  W  + N++CPLCR
Sbjct:    74 CIVCLSKLKTGEEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCR 116

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

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2034939 AT1G18760 [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 5.7e-07, P = 5.7e-07
 Identities = 21/48 (43%), Positives = 30/48 (62%)

Query:   134 RCAICL---GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM 178
             RC ICL     GT  V+ + C H+F ++C+  WF+  N+ CPLCRF +
Sbjct:   174 RCTICLEEFNDGT-KVMTLPCGHEFDDECVLTWFET-NHDCPLCRFKL 219

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 117 (46.2 bits), Expect = 1.5e-06, P = 1.5e-06
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query:   134 RCAICLGS-GTGS-VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
             +CA+C+     GS V QM C H FH+ C+  W +  N SCP+CRF++ T
Sbjct:   215 QCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHN-SCPVCRFELPT 262

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

GO:0010200 "response to chitin" evidence=RCA

UNIPROTKB|C9J1C6 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 20/49 (40%), Positives = 27/49 (55%)

Query:   134 RCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
             +C +CL       + I+M C H FH  CI  W    N SCPLCR+++ T
Sbjct:    75 KCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTN-SCPLCRYELPT 122

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2185108 AT5G01980 [Arabidopsis thaliana (taxid:3702)]

 Score = 118 (46.6 bits), Expect = 2.3e-06, P = 2.3e-06
 Identities = 23/48 (47%), Positives = 28/48 (58%)

Query:   135 CAIC--LGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
             CAIC  L S      Q+ CLH +H  CI  W   RN SCPLCR+++ T
Sbjct:   350 CAICKELFSLRNETTQLPCLHLYHAHCIVPWLSARN-SCPLCRYELPT 396

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

TAIR|locus:2034934 AT1G18770 [Arabidopsis thaliana (taxid:3702)]

 Score = 108 (43.1 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 20/46 (43%), Positives = 28/46 (60%)

Query:   135 CAICLGS-GTGS-VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM 178
             C ICL     G  V+ + C H F ++C+  WF+  N+SCPLCRF +
Sbjct:    59 CIICLEEFSEGRRVVTLPCGHDFDDECVLKWFET-NHSCPLCRFKL 103

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:1006230202 AT3G51325 "AT3G51325" [Arabidopsis thaliana (taxid:3702)]

 Score = 107 (42.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 20/52 (38%), Positives = 30/52 (57%)

Query:   135 CAICL-GSGTGSVIQ-MDCLHQFHEKCIACWFD-NRNYSCPLCRFDMATAVI 183
             C++CL       VI+ + C H+FH  C+  WF+ +R   CPLCRF   T ++
Sbjct:    26 CSVCLMRMEAKDVIKSLPCSHEFHSLCVDTWFNVSRKICCPLCRFSPTTILL 77

GO:0003676 "nucleic acid binding" evidence=ISS

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9P0P0 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 109 (43.4 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 20/49 (40%), Positives = 27/49 (55%)

Query:   134 RCAICL--GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
             +C +CL       + I+M C H FH  CI  W    N SCPLCR+++ T
Sbjct:    75 KCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTN-SCPLCRYELPT 122

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	192
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-08
smart00184	40	smart00184, RING, Ring finger	2e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	7e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	4e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-04
COG5236	493	COG5236, COG5236, Uncharacterized conserved protei	5e-04
pfam14445	57	pfam14445, Prok-RING_2, Prokaryotic RING finger fa	0.002

>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 = 50.9 bits (122), Expect = 2e-09
 Identities = 16/43 (37%), Positives = 20/43 (46%)

Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFD 177
           C ICL      V+ + C H F   CI  W  +   +CPLCR  
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

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

 Score = 48.2 bits (115), Expect = 2e-08
 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 3/45 (6%)

Query: 135 CAICLGS--GTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFD 177
           C ICL        V+ + C H FH++C+  W    + +CPLCR  
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLR-SSNTCPLCRAP 46

Length = 46

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

 Score = 45.6 bits (108), Expect = 2e-07
 Identities = 14/40 (35%), Positives = 20/40 (50%)

Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
           C ICL       + + C H F   CI  W ++ N +CP+C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 44.0 bits (104), Expect = 7e-07
 Identities = 17/40 (42%), Positives = 21/40 (52%)

Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
           C ICL      V  + C H F  KCI  W ++ N +CPLC
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 40.2 bits (94), Expect = 2e-05
 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           EE  C ICL      V+   C H F  +CI  +   ++  CP+CR
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSK-CPICR 44

Length = 45

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

 Score = 40.1 bits (94), Expect = 4e-05
 Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 13/57 (22%)

Query: 131 EEERCAICL------------GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           E++ CAIC                   V+  +C H FH  CI+ W   RN +CPLCR
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRN-TCPLCR 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|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 135 CAICLGSGT--GSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           CAIC+ +      +  + C H+FH  C+  W    +  CP+CR
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 39.6 bits (92), Expect = 5e-04
 Identities = 24/74 (32%), Positives = 31/74 (41%), Gaps = 10/74 (13%)

Query: 116 LQSQPIVVDC--EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR----NY 169
           L ++P +     ++ +EE   C IC GS T S     C HQ    C AC    R      
Sbjct: 43  LSAEPNLTTSSADDTDEENMNCQICAGSTTYSAR-YPCGHQI---CHACAVRLRALYMQK 98

Query: 170 SCPLCRFDMATAVI 183
            CPLCR +    V 
Sbjct: 99  GCPLCRTETEAVVF 112

Length = 493

>gnl|CDD|206611 pfam14445, Prok-RING_2, Prokaryotic RING finger family 2

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
           RC +CL S    V    C+H    +C ACW DN N  C  C
Sbjct: 9   RCDLCLTSA-EQVDLRQCVHCGRWQCRACWDDN-NGECQRC 47

RING finger family found sporadically in bacteria and archaea, and associated with other components of the ubiquitin-based signaling and degradation system, including ubiquitin and the E1 and E2 proteins. The bacterial versions contain transmembrane helices. Length = 57

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.52
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.5
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.4
PHA02929	238	N1R/p28-like protein; Provisional	99.38
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	99.35
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.33
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.28
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.28
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.26
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.23
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.21
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.2
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.12
PHA02926	242	zinc finger-like protein; Provisional	99.08
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.08
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.0
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.95
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.94
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.88
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.85
PF14634	44	zf-RING_5: zinc-RING finger domain	98.84
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.83
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.59
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.55
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.55
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.5
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.49
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.49
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.48
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.35
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.35
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.31
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.3
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.28
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.28
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.25
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.22
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.1
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.08
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.89
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.68
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.66
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.66
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.65
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.64
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.62
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.36
KOG2660	331	consensus Locus-specific chromosome binding protei	97.3
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	97.27
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.15
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.07
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.97
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.85
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.82
KOG4739	233	consensus Uncharacterized protein involved in syna	96.7
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.65
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.63
PHA02862	156	5L protein; Provisional	96.62
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.62
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.61
COG5152	259	Uncharacterized conserved protein, contains RING a	96.55
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.51
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.44
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.4
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.3
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.28
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	96.27
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.26
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.24
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.17
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.16
PHA03096	284	p28-like protein; Provisional	96.04
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.93
PF04641	260	Rtf2: Rtf2 RING-finger	95.89
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.61
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.53
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.17
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.1
KOG1940	276	consensus Zn-finger protein [General function pred	94.85
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.7
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.65
KOG0298	1394	consensus DEAD box-containing helicase-like transc	94.6
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.34
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.16
KOG3002	299	consensus Zn finger protein [General function pred	93.97
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.76
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	93.69
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	93.52
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.36
KOG3899	381	consensus Uncharacterized conserved protein [Funct	93.04
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.7
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.22
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	91.25
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.05
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.8
KOG3053	293	consensus Uncharacterized conserved protein [Funct	90.58
KOG4367	699	consensus Predicted Zn-finger protein [Function un	89.14
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	88.32
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	88.3
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.22
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	88.05
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	87.05
KOG1609	323	consensus Protein involved in mRNA turnover and st	84.75
KOG3113	293	consensus Uncharacterized conserved protein [Funct	82.39
KOG0825	1134	consensus PHD Zn-finger protein [General function	82.3
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	81.89
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	81.12
KOG1829	580	consensus Uncharacterized conserved protein, conta	80.92

>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=3.7e-15  Score=90.94  Aligned_cols=42  Identities=45%  Similarity=1.130  Sum_probs=35.9

Q ss_pred             cccccccc--cCCCceEEecCCCccChHhHHHHHhCCCCCCcccC
Q 047298          133 ERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR  175 (192)
Q Consensus       133 ~~C~ICl~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR  175 (192)
                      ++|+||++  ...+.++.++|+|+||.+||..|++ .+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~-~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLK-RNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHH-HSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHH-hCCcCCccC
Confidence            47999999  3466778889999999999999999 788999997

...

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

Probab=99.50  E-value=1.3e-14  Score=123.16  Aligned_cols=74  Identities=28%  Similarity=0.615  Sum_probs=55.5

Q ss_pred             hHHHHHhhccceeeeccCcccccccccccccc--cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhh
Q 047298          109 KKDVVKYLQSQPIVVDCEEEEEEEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       109 ~~~~~~~l~~~~~~~~~~~~~~~~~~C~ICl~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~  184 (192)
                      .+..+++++...+....  ......+|+||+|  ..++.++.|||+|.||..||++||...+..||+||+++.+....
T Consensus       208 ~k~~l~~~p~~~f~~~~--~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~  283 (348)
T KOG4628|consen  208 IKRLLKKLPVRTFTKGD--DEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS  283 (348)
T ss_pred             HHHHHhhCCcEEecccc--ccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence            45666667777766222  1222259999999  66778899999999999999999994446699999998775543

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

Probab=99.40  E-value=1.2e-13  Score=110.44  Aligned_cols=61  Identities=21%  Similarity=0.612  Sum_probs=53.1

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhC--CCCCCcccCcccchhhhhhccCCC
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLCRFDMATAVIESMFSKP  190 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~~l~~~~~~~~~~~~  190 (192)
                      +....+|.||||.+.++|+ +.|||+||+.||.+||..  .+..||+||..|..+.+.++|.+.
T Consensus        44 ~~~~FdCNICLd~akdPVv-TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVV-TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCceeeeeeccccCCCEE-eecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence            5678999999999999988 669999999999999984  345699999999999998888654

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.38  E-value=3.5e-13  Score=109.80  Aligned_cols=71  Identities=25%  Similarity=0.514  Sum_probs=49.6

Q ss_pred             hHHHHHhhccceeeeccCcccccccccccccccCCC-c------eEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          109 KKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTG-S------VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       109 ~~~~~~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~-~------~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+.++.++|..............+.+|+||++...+ +      .+.++|+|.||..||..|++ .+.+||+||..+..
T Consensus       151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~~  228 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFIS  228 (238)
T ss_pred             hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEeeE
Confidence            344555566554332111234457899999994332 2      13348999999999999999 89999999998874

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

Probab=99.35  E-value=9.5e-14  Score=119.78  Aligned_cols=136  Identities=22%  Similarity=0.346  Sum_probs=82.8

Q ss_pred             cccccccccCCeeeeccccccccCCCCC----------CchhhhhhhhhhccCCCcc-cHHHHHHHHHHhhhhhhhhccc
Q 047298           19 HKKMAIPIKGNRVNINDLFHFFEFPKAS----------SRYDDLRGLILNVKRLPAD-TYHELVDDILISMTDEIDTIIE   87 (192)
Q Consensus        19 ~~~~~~~~~~~~v~~~~l~~~~~~~~~s----------~~~~~~~~~~~~~~~l~~~-~f~~~~~~i~~~~~~~~~~~~~   87 (192)
                      ..|++|++.|+++.-.+|+++.. +...          +.-++|..++..-...-.+ +|.++-.+-+..++..++    
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~-~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~C----  148 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCA-SFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPEVC----  148 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHH-HHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCccce----
Confidence            89999999999999999999987 2222          1112222222111111112 222444455544555555    


Q ss_pred             CceEEEEEEEEEeeecCCCCChHHHHHhhccceeeeccCcccccccccccccccCCCc---eEEecCCCccChHhHHHHH
Q 047298           88 HDVTVEFVVVVVIYRNNVNVTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGS---VIQMDCLHQFHEKCIACWF  164 (192)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~---~~~l~C~H~Fh~~CI~~Wl  164 (192)
                       ++..+..+.+.........+                 .....+.++|||||+.++..   ++...|.|.||..|+.+| 
T Consensus       149 -hll~V~~ve~~~s~d~as~~-----------------~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w-  209 (493)
T KOG0804|consen  149 -HLLYVDRVEVTESEDGASEP-----------------PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW-  209 (493)
T ss_pred             -eEEEEEEEEEEecccCCCCC-----------------CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhc-
Confidence             44444444444222222111                 12344688999999944443   365699999999999999 


Q ss_pred             hCCCCCCcccCcccch
Q 047298          165 DNRNYSCPLCRFDMAT  180 (192)
Q Consensus       165 ~~~~~~CP~CR~~l~~  180 (192)
                        ...+||+||.....
T Consensus       210 --~~~scpvcR~~q~p  223 (493)
T KOG0804|consen  210 --WDSSCPVCRYCQSP  223 (493)
T ss_pred             --ccCcChhhhhhcCc
Confidence              77999999987664

>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=99.33  E-value=1.1e-12  Score=88.60  Aligned_cols=46  Identities=37%  Similarity=0.885  Sum_probs=35.2

Q ss_pred             cccccccccccccC------------CCceEEecCCCccChHhHHHHHhCCCCCCcccC
Q 047298          129 EEEEERCAICLGSG------------TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR  175 (192)
Q Consensus       129 ~~~~~~C~ICl~~~------------~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR  175 (192)
                      +..++.|+||++..            .-.+...+|+|.||..||.+|++ .+.+||+||
T Consensus        16 ~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~-~~~~CP~CR   73 (73)
T PF12678_consen   16 DIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK-QNNTCPLCR   73 (73)
T ss_dssp             SSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT-TSSB-TTSS
T ss_pred             cCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh-cCCcCCCCC
Confidence            33455699999943            12334459999999999999999 888999998

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=99.28  E-value=2.7e-12  Score=100.90  Aligned_cols=60  Identities=27%  Similarity=0.615  Sum_probs=49.5

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhC---------------CCCCCcccCcccchhhhhhccCC
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN---------------RNYSCPLCRFDMATAVIESMFSK  189 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---------------~~~~CP~CR~~l~~~~~~~~~~~  189 (192)
                      ..++.+|+||++...++++ ++|||.||+.||..|+..               ....||+||..+......++|.+
T Consensus        15 ~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr   89 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR   89 (193)
T ss_pred             CCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence            4467899999998777766 799999999999999852               23579999999988877777754

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

Probab=99.28  E-value=1.9e-12  Score=106.99  Aligned_cols=52  Identities=27%  Similarity=0.744  Sum_probs=44.3

Q ss_pred             cccccccccccc--cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ....-+|+|||+  ...+.++.+||.|.||..|+.+|+...+..||+||.++|+
T Consensus       320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            345589999999  4456678889999999999999998667889999999875

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

Probab=99.26  E-value=2.3e-12  Score=105.98  Aligned_cols=55  Identities=27%  Similarity=0.648  Sum_probs=47.1

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~  184 (192)
                      .......|.+||+...++.. +||||+||+.||..|.. .+..||+||.++.++.+.
T Consensus       235 i~~a~~kC~LCLe~~~~pSa-TpCGHiFCWsCI~~w~~-ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNPSA-TPCGHIFCWSCILEWCS-EKAECPLCREKFQPSKVI  289 (293)
T ss_pred             CCCCCCceEEEecCCCCCCc-CcCcchHHHHHHHHHHc-cccCCCcccccCCCccee
Confidence            34566899999998777666 89999999999999999 888899999998876543

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

Probab=99.23  E-value=3.5e-12  Score=108.01  Aligned_cols=53  Identities=25%  Similarity=0.715  Sum_probs=43.8

Q ss_pred             cccccccccccccccCCC------------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          127 EEEEEEERCAICLGSGTG------------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~------------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ....+|..|.||+++...            ...+|||||+||..|++.|+. ++.+||+||.++.-
T Consensus       282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E-RqQTCPICr~p~if  346 (491)
T COG5243         282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE-RQQTCPICRRPVIF  346 (491)
T ss_pred             hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH-hccCCCcccCcccc
Confidence            446678999999994211            235699999999999999999 99999999999644

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=99.21  E-value=8.6e-12  Score=74.01  Aligned_cols=39  Identities=36%  Similarity=0.939  Sum_probs=34.1

Q ss_pred             cccccccCCCceEEecCCCccChHhHHHHHhCCCCCCccc
Q 047298          135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC  174 (192)
Q Consensus       135 C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~C  174 (192)
                      |+||++...++++.++|||+||.+|+.+|++ .+..||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~-~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLE-KNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHH-CTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHH-CcCCCcCC
Confidence            8999998888877789999999999999999 68899998

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=99.20  E-value=1.1e-11  Score=77.46  Aligned_cols=47  Identities=34%  Similarity=0.837  Sum_probs=38.9

Q ss_pred             cccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccc
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ++..|.||++...+ +..+||||. ||..|+..|++ ....||+||+++.
T Consensus         1 ~~~~C~iC~~~~~~-~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRD-VVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSS-EEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred             CcCCCccCCccCCc-eEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence            36789999997655 455899999 99999999999 9999999999875

...

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

Probab=99.14  E-value=2.3e-11  Score=93.73  Aligned_cols=59  Identities=27%  Similarity=0.634  Sum_probs=48.2

Q ss_pred             ccccccccccccccCCCce-EEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          128 EEEEEERCAICLGSGTGSV-IQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ..++-+.|+|||+...+.+ ....|||+||..||...++ ....||+||+.|.....+.+|
T Consensus       127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk-~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK-NTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             ccccccCCCceecchhhccccccccchhHHHHHHHHHHH-hCCCCCCcccccchhhheecc
Confidence            4556699999999554444 4479999999999999999 899999999988776666555

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

Probab=99.12  E-value=5.9e-11  Score=71.32  Aligned_cols=45  Identities=36%  Similarity=0.880  Sum_probs=37.3

Q ss_pred             ccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       134 ~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      .|+||++.....+...+|+|.||..|+..|+...+..||+||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999966566665579999999999999983377899999764

>PHA02926 zinc finger-like protein; Provisional

Probab=99.08  E-value=5.6e-11  Score=94.77  Aligned_cols=60  Identities=25%  Similarity=0.638  Sum_probs=42.9

Q ss_pred             cccccccccccccCCCc--------eEEecCCCccChHhHHHHHhCC-----CCCCcccCcccchhhhhhccC
Q 047298          129 EEEEERCAICLGSGTGS--------VIQMDCLHQFHEKCIACWFDNR-----NYSCPLCRFDMATAVIESMFS  188 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~--------~~~l~C~H~Fh~~CI~~Wl~~~-----~~~CP~CR~~l~~~~~~~~~~  188 (192)
                      ...+.+|+||+|...++        ....+|+|.||..||..|.+.+     ..+||+||..+..-.+...|.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~~  239 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFYK  239 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccccee
Confidence            44578999999942211        1223999999999999999732     345999999987655554444

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

Probab=99.08  E-value=9.8e-11  Score=70.60  Aligned_cols=39  Identities=33%  Similarity=0.849  Sum_probs=30.3

Q ss_pred             cccccccCCCceEEecCCCccChHhHHHHHhCCC---CCCccc
Q 047298          135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN---YSCPLC  174 (192)
Q Consensus       135 C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~---~~CP~C  174 (192)
                      |+||++.+.+++. |+|||.||..||..|.+...   ..||.|
T Consensus         1 CpiC~~~~~~Pv~-l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVS-LPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccc-cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999887 99999999999999998432   369988

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

Probab=99.00  E-value=2.7e-10  Score=68.04  Aligned_cols=40  Identities=38%  Similarity=0.983  Sum_probs=35.5

Q ss_pred             cccccccCCCceEEecCCCccChHhHHHHHh-CCCCCCccc
Q 047298          135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFD-NRNYSCPLC  174 (192)
Q Consensus       135 C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~~~CP~C  174 (192)
                      |+||++....++..++|+|.||..|+.+|++ .....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999998888776689999999999999998 566779998

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

>smart00504 Ubox Modified RING finger domain

Probab=99.00  E-value=4e-10  Score=73.36  Aligned_cols=49  Identities=16%  Similarity=0.280  Sum_probs=42.8

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ..|+||.+.+.+++. ++|||+|+.+||..|++ .+.+||+|+..+...+.
T Consensus         2 ~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~-~~~~cP~~~~~~~~~~l   50 (63)
T smart00504        2 FLCPISLEVMKDPVI-LPSGQTYERRAIEKWLL-SHGTDPVTGQPLTHEDL   50 (63)
T ss_pred             cCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHH-HCCCCCCCcCCCChhhc
Confidence            479999998888876 89999999999999999 68899999999865443

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

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

Probab=98.95  E-value=2.4e-10  Score=103.91  Aligned_cols=52  Identities=33%  Similarity=0.791  Sum_probs=43.1

Q ss_pred             ccccccccccccccCCCc----eEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGS----VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~----~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ....+..|+||+|.....    ..+|+|+|+||..|+..|++ ++.+||+||..+..
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e-r~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE-RQQTCPTCRTVLYD  342 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHH-HhCcCCcchhhhhc
Confidence            445689999999944442    56699999999999999999 99999999995543

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

Probab=98.94  E-value=3.5e-10  Score=92.17  Aligned_cols=52  Identities=27%  Similarity=0.688  Sum_probs=45.0

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHH-HHhCCCCC-CcccCcccchhhh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIAC-WFDNRNYS-CPLCRFDMATAVI  183 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~-Wl~~~~~~-CP~CR~~l~~~~~  183 (192)
                      ..++.|+||++....+.. ++|||+||..||.. |-. ++.. ||+||+.+.+..+
T Consensus       213 ~~d~kC~lC~e~~~~ps~-t~CgHlFC~~Cl~~~~t~-~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVPSC-TPCGHLFCLSCLLISWTK-KKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCccc-ccccchhhHHHHHHHHHh-hccccCchhhhhccchhh
Confidence            568999999998888776 89999999999999 988 5555 9999999877655

>smart00184 RING Ring finger

Probab=98.88  E-value=1.7e-09  Score=62.67  Aligned_cols=39  Identities=36%  Similarity=0.974  Sum_probs=32.4

Q ss_pred             cccccccCCCceEEecCCCccChHhHHHHHhCCCCCCccc
Q 047298          135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC  174 (192)
Q Consensus       135 C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~C  174 (192)
                      |+||++... ....++|+|.||..|+..|+...+..||+|
T Consensus         1 C~iC~~~~~-~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK-DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC-CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999744 455589999999999999998556679987

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)

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

Probab=98.85  E-value=2.4e-09  Score=73.50  Aligned_cols=49  Identities=29%  Similarity=0.725  Sum_probs=36.1

Q ss_pred             cccccccccccC----------C-C-ceEEecCCCccChHhHHHHHhC--CCCCCcccCcccc
Q 047298          131 EEERCAICLGSG----------T-G-SVIQMDCLHQFHEKCIACWFDN--RNYSCPLCRFDMA  179 (192)
Q Consensus       131 ~~~~C~ICl~~~----------~-~-~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~~l~  179 (192)
                      +++.|.||...+          + + +++.-.|+|.||..||.+|+..  .+..||+||++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            367777777621          1 1 3343489999999999999984  2568999998764

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.84  E-value=2.7e-09  Score=64.86  Aligned_cols=42  Identities=31%  Similarity=0.680  Sum_probs=35.3

Q ss_pred             ccccccccC--CCceEEecCCCccChHhHHHHHhCCCCCCcccCc
Q 047298          134 RCAICLGSG--TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF  176 (192)
Q Consensus       134 ~C~ICl~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~  176 (192)
                      .|+||++..  ......++|||+||..|+..+.. ....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~-~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG-KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence            489999944  44566679999999999999985 7889999985

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.83  E-value=2e-09  Score=93.75  Aligned_cols=51  Identities=29%  Similarity=0.590  Sum_probs=44.3

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .+....|+||++....++. ++|+|.||..||..|+. ....||+||..+...
T Consensus        23 Le~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~-~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLS-NQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHh-CCCCCCCCCCccccc
Confidence            4567899999998777765 89999999999999999 777899999988654

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

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

Probab=98.73  E-value=4.6e-09  Score=92.57  Aligned_cols=56  Identities=29%  Similarity=0.651  Sum_probs=45.5

Q ss_pred             ccccccccccCCCceEEecCCCccChHhHHHHHhC----CCCCCcccCcccchhhhhhccC
Q 047298          132 EERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN----RNYSCPLCRFDMATAVIESMFS  188 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----~~~~CP~CR~~l~~~~~~~~~~  188 (192)
                      +..|||||+...-+++ +.|||+||..||..++..    +-..||+||..|...+..+++.
T Consensus       186 ~~~CPICL~~~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~  245 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI  245 (513)
T ss_pred             CCcCCcccCCCCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence            8899999997777776 569999999999988762    3457999999998876666554

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

Probab=98.59  E-value=3.5e-08  Score=66.50  Aligned_cols=54  Identities=19%  Similarity=0.323  Sum_probs=42.2

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIES  185 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~  185 (192)
                      +...|+|+.+.+.++++ +++||.|...||..|+.....+||+|+..+......+
T Consensus         3 ~~f~CpIt~~lM~dPVi-~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p   56 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVI-LPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP   56 (73)
T ss_dssp             GGGB-TTTSSB-SSEEE-ETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred             cccCCcCcCcHhhCcee-CCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence            46789999999999887 8999999999999999944889999999988765443

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 ....

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

Probab=98.55  E-value=5.1e-08  Score=65.61  Aligned_cols=32  Identities=41%  Similarity=0.777  Sum_probs=28.9

Q ss_pred             cCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          150 DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       150 ~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      .|.|.||..||.+||. .+..||++|++...+.
T Consensus        53 ~CnHaFH~HCI~rWL~-Tk~~CPld~q~w~~~~   84 (88)
T COG5194          53 VCNHAFHDHCIYRWLD-TKGVCPLDRQTWVLAD   84 (88)
T ss_pred             ecchHHHHHHHHHHHh-hCCCCCCCCceeEEec
Confidence            8999999999999999 8999999999876543

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

Probab=98.55  E-value=3.3e-08  Score=59.71  Aligned_cols=37  Identities=24%  Similarity=0.665  Sum_probs=20.8

Q ss_pred             cccccccCCC---ceEEecCCCccChHhHHHHHhCC---CCCCc
Q 047298          135 CAICLGSGTG---SVIQMDCLHQFHEKCIACWFDNR---NYSCP  172 (192)
Q Consensus       135 C~ICl~~~~~---~~~~l~C~H~Fh~~CI~~Wl~~~---~~~CP  172 (192)
                      |+||.+ +.+   +...|+|||+||.+||.+|++++   ...||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 333   34458999999999999999832   34576

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

Probab=98.50  E-value=3.4e-08  Score=86.67  Aligned_cols=51  Identities=27%  Similarity=0.788  Sum_probs=38.4

Q ss_pred             ccccccccccccC-----CCc-----------eEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSG-----TGS-----------VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~-----~~~-----------~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .....|+|||...     ..+           -..+||.|+||..|+..|....+-.||+||.+++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3457899999921     111           11249999999999999999555589999999875

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.49  E-value=1.1e-07  Score=80.11  Aligned_cols=52  Identities=25%  Similarity=0.501  Sum_probs=38.8

Q ss_pred             cccccccccc--cCCCceEEe--cCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          131 EEERCAICLG--SGTGSVIQM--DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~--~~~~~~~~l--~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      +++.||||.+  ........+  +|||.||..|+...+......||.|+..+....
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4679999999  233332222  799999999999966546778999998876543

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).

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

Probab=98.49  E-value=4.6e-08  Score=82.44  Aligned_cols=55  Identities=24%  Similarity=0.541  Sum_probs=47.7

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIES  185 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~  185 (192)
                      .+....|-||.+++..+++ +||+|.||.-||...|. .+..||.|+.++.+....+
T Consensus        20 lD~lLRC~IC~eyf~ip~i-tpCsHtfCSlCIR~~L~-~~p~CP~C~~~~~Es~Lr~   74 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMI-TPCSHTFCSLCIRKFLS-YKPQCPTCCVTVTESDLRN   74 (442)
T ss_pred             hHHHHHHhHHHHHhcCcee-ccccchHHHHHHHHHhc-cCCCCCceecccchhhhhh
Confidence            3456789999998888877 79999999999999999 9999999999987766544

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

Probab=98.48  E-value=4.5e-08  Score=91.45  Aligned_cols=51  Identities=31%  Similarity=0.742  Sum_probs=38.6

Q ss_pred             cccccccccccccCC-----Cce-EEecCCCccChHhHHHHHhC-CCCCCcccCcccc
Q 047298          129 EEEEERCAICLGSGT-----GSV-IQMDCLHQFHEKCIACWFDN-RNYSCPLCRFDMA  179 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~-----~~~-~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~  179 (192)
                      -.+-++|+||+....     -|- +.-.|.|.||.+|+.+|+++ .+++||+||.+++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            456789999999211     121 22379999999999999984 6778999998775

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

Probab=98.35  E-value=3.4e-07  Score=77.83  Aligned_cols=55  Identities=24%  Similarity=0.587  Sum_probs=45.3

Q ss_pred             ccccccccccccCCCceEEecCCC-ccChHhHHHHHhCCCCCCcccCcccchhhhhhc
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLH-QFHEKCIACWFDNRNYSCPLCRFDMATAVIESM  186 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~  186 (192)
                      ++..+|.||++...+.++ |||.| --|..|.+...- +.+.||+||+.+........
T Consensus       288 ~~gkeCVIClse~rdt~v-LPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~~ll~i~~  343 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVV-LPCRHLCLCSGCAKSLRY-QTNNCPICRQPIEELLEIYV  343 (349)
T ss_pred             cCCCeeEEEecCCcceEE-ecchhhehhHhHHHHHHH-hhcCCCccccchHhhheecc
Confidence            457899999998777555 99999 789999998876 78999999999987654433

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

Probab=98.35  E-value=1.8e-07  Score=77.70  Aligned_cols=51  Identities=29%  Similarity=0.799  Sum_probs=43.8

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ...+|+||+....-++. |+|+|.||.-||+--..+.+.+|++||.+++.+.
T Consensus         6 ~~~eC~IC~nt~n~Pv~-l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    6 KKKECLICYNTGNCPVN-LYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             cCCcceeeeccCCcCcc-ccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            46799999997777755 9999999999999888767788999999998754

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

Probab=98.31  E-value=1.8e-07  Score=76.63  Aligned_cols=55  Identities=25%  Similarity=0.624  Sum_probs=42.3

Q ss_pred             ccccccccccccccCC---------CceEEecCCCccChHhHHHHHh-CCCCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGT---------GSVIQMDCLHQFHEKCIACWFD-NRNYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~---------~~~~~l~C~H~Fh~~CI~~Wl~-~~~~~CP~CR~~l~~~~  182 (192)
                      ...++..|+||-....         +.+.+|.|+|+||..||.-|-. .++.+||.|+..+..+.
T Consensus       220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r  284 (328)
T KOG1734|consen  220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR  284 (328)
T ss_pred             CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence            3556889999988211         2456789999999999999964 26678999999886543

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

Probab=98.30  E-value=1.3e-07  Score=63.11  Aligned_cols=30  Identities=40%  Similarity=1.038  Sum_probs=25.7

Q ss_pred             cCCCccChHhHHHHHhC--CCCCCcccCcccc
Q 047298          150 DCLHQFHEKCIACWFDN--RNYSCPLCRFDMA  179 (192)
Q Consensus       150 ~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~~l~  179 (192)
                      -|.|.||..||.+|+..  .+..||+||++..
T Consensus        50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             HHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            89999999999999974  4457999998753

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

Probab=98.28  E-value=3.7e-07  Score=75.68  Aligned_cols=50  Identities=28%  Similarity=0.476  Sum_probs=43.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+.-..|-||-+....++. ++|||.||.-||...|. .+..||+||.+.-.
T Consensus        22 LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~-~qp~CP~Cr~~~~e   71 (391)
T COG5432          22 LDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLG-TQPFCPVCREDPCE   71 (391)
T ss_pred             chhHHHhhhhhheeeccee-cccccchhHHHHHHHhc-CCCCCccccccHHh
Confidence            4456789999997777666 79999999999999999 99999999997644

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

Probab=98.28  E-value=6.7e-07  Score=55.58  Aligned_cols=42  Identities=26%  Similarity=0.832  Sum_probs=31.9

Q ss_pred             ccccccc-cCCCceEEecCC-----CccChHhHHHHHhC-CCCCCcccC
Q 047298          134 RCAICLG-SGTGSVIQMDCL-----HQFHEKCIACWFDN-RNYSCPLCR  175 (192)
Q Consensus       134 ~C~ICl~-~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~-~~~~CP~CR  175 (192)
                      .|.||++ ...+.....||.     |.+|..|+.+|+.. ++.+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 333344557885     89999999999963 355899995

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

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

Probab=98.26  E-value=7e-08  Score=81.70  Aligned_cols=52  Identities=29%  Similarity=0.591  Sum_probs=44.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ...+..|+|||+..........|.|.||.+||.+-+...++.||.||+.+..
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            3457899999996666666579999999999999999889999999998865

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

Probab=98.26  E-value=2.4e-07  Score=57.97  Aligned_cols=51  Identities=24%  Similarity=0.479  Sum_probs=39.6

Q ss_pred             cccccccccccccCCCceEEecCCC-ccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLH-QFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ++-+++|.||++-..+.+. ..||| -.|..|-.+..+..+..||+||+++..
T Consensus         4 ~~~~dECTICye~pvdsVl-YtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    4 GQWSDECTICYEHPVDSVL-YTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cccccceeeeccCcchHHH-HHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            3445899999997666554 58999 689999666555478899999998754

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

Probab=98.25  E-value=2.5e-07  Score=61.82  Aligned_cols=50  Identities=30%  Similarity=0.735  Sum_probs=24.2

Q ss_pred             ccccccccccC--CCceEEe-----cCCCccChHhHHHHHhC----C------CCCCcccCcccchh
Q 047298          132 EERCAICLGSG--TGSVIQM-----DCLHQFHEKCIACWFDN----R------NYSCPLCRFDMATA  181 (192)
Q Consensus       132 ~~~C~ICl~~~--~~~~~~l-----~C~H~Fh~~CI~~Wl~~----~------~~~CP~CR~~l~~~  181 (192)
                      +..|.||++..  .+.+..+     .|+..||..|+..||..    +      ...||.|+.+|...
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            46899999942  2222212     78899999999999973    1      13699999988653

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

Probab=98.22  E-value=2.9e-07  Score=84.72  Aligned_cols=56  Identities=21%  Similarity=0.589  Sum_probs=48.0

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      +-..|++|-+-..+ ++...|+|+||..|+.+-+..++..||.|-..++..+.+.+|
T Consensus       642 ~~LkCs~Cn~R~Kd-~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD-AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             hceeCCCccCchhh-HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            45689999964444 444799999999999999998889999999999999988876

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

Probab=98.20  E-value=5.2e-07  Score=74.10  Aligned_cols=46  Identities=33%  Similarity=0.712  Sum_probs=40.0

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCc
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF  176 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~  176 (192)
                      ..+...|+||++.+..+ ..++|+|.||..|+..+.. ....||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcC-ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            45678999999977777 5589999999999999988 7789999993

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

Probab=98.10  E-value=1.8e-06  Score=60.95  Aligned_cols=50  Identities=28%  Similarity=0.578  Sum_probs=37.2

Q ss_pred             cccccccccccc-c-------------CCCceE--EecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          129 EEEEERCAICLG-S-------------GTGSVI--QMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       129 ~~~~~~C~ICl~-~-------------~~~~~~--~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      +...+.|+||.. .             ..+...  -=.|.|.||..||.+|++ .++.||+|.++-.
T Consensus        43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlk-tr~vCPLdn~eW~  108 (114)
T KOG2930|consen   43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLK-TRNVCPLDNKEWV  108 (114)
T ss_pred             eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHh-hcCcCCCcCccee
Confidence            456778999875 1             111222  128999999999999999 9999999987643

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

Probab=98.08  E-value=7.8e-07  Score=57.77  Aligned_cols=49  Identities=29%  Similarity=0.509  Sum_probs=26.4

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      +...|++|.+....++....|.|+||..||..-+.   +.||+|+.+.-.++
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQD   54 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHH
Confidence            45689999999888887569999999999988544   56999987765443

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

Probab=97.89  E-value=5.4e-06  Score=71.13  Aligned_cols=58  Identities=28%  Similarity=0.646  Sum_probs=41.6

Q ss_pred             ccccccccccccCCCce------EEe-cCCCccChHhHHHHHhC-C-----CCCCcccCcccchhhhhhcc
Q 047298          130 EEEERCAICLGSGTGSV------IQM-DCLHQFHEKCIACWFDN-R-----NYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~------~~l-~C~H~Fh~~CI~~Wl~~-~-----~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ..+..|.||++...+..      .++ +|.|.||..||.+|-.. +     ...||.||....--.+...|
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~W  229 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFW  229 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccccee
Confidence            45889999999333322      223 79999999999999843 3     47899999876554444434

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

Probab=97.85  E-value=7e-06  Score=70.52  Aligned_cols=49  Identities=27%  Similarity=0.846  Sum_probs=34.5

Q ss_pred             ccccccccccC--CCceEEe-cCCCccChHhHHHHHhCC-C-CCCcccCcccch
Q 047298          132 EERCAICLGSG--TGSVIQM-DCLHQFHEKCIACWFDNR-N-YSCPLCRFDMAT  180 (192)
Q Consensus       132 ~~~C~ICl~~~--~~~~~~l-~C~H~Fh~~CI~~Wl~~~-~-~~CP~CR~~l~~  180 (192)
                      -..|.||-+..  ...+.-+ .|||+||..|+..|+... . ..||.||-.++.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~   57 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE   57 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence            45899997622  2223223 599999999999999842 2 479999955543

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

Probab=97.77  E-value=1.3e-05  Score=70.15  Aligned_cols=51  Identities=29%  Similarity=0.638  Sum_probs=45.6

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ....++.|.||+.....++. +||||.||..||.+-+. +...||.||.+++.
T Consensus        80 ~~~sef~c~vc~~~l~~pv~-tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYPPVV-TPCGHSFCLECLDRSLD-QETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCCCcc-ccccccccHHHHHHHhc-cCCCCccccccccc
Confidence            34678999999998888887 69999999999999888 89999999999985

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

Probab=97.68  E-value=1.7e-05  Score=69.53  Aligned_cols=52  Identities=27%  Similarity=0.623  Sum_probs=45.1

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .+++..|++|.....+++....|||.||..|+..|+. .+..||.|+..+...
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~-~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLS-NHQKCPVCRQELTQA   69 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhc-cCcCCcccccccchh
Confidence            4578999999998888777569999999999999999 788999998877543

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

Probab=97.66  E-value=2.9e-05  Score=49.74  Aligned_cols=45  Identities=24%  Similarity=0.468  Sum_probs=32.1

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHh-CCCCCCcc
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFD-NRNYSCPL  173 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~~~CP~  173 (192)
                      ..-...|||.+....++++...|+|+|-.+.|..|++ +....||+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4457899999999999999889999999999999994 24567998

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

Probab=97.66  E-value=3e-05  Score=67.13  Aligned_cols=54  Identities=28%  Similarity=0.718  Sum_probs=39.2

Q ss_pred             cccccccccc--cC-C-CceEEecCCCccChHhHHHHHhC-CCCCCcccCcccchhhhh
Q 047298          131 EEERCAICLG--SG-T-GSVIQMDCLHQFHEKCIACWFDN-RNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       131 ~~~~C~ICl~--~~-~-~~~~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~~~~~  184 (192)
                      ...+||||++  .. + ..+..+.|+|.|..+||.+|+.. ....||.|..+-......
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~   61 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIR   61 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHH
Confidence            3568999999  22 2 24555699999999999999962 345799998765444433

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

Probab=97.65  E-value=1.7e-05  Score=68.53  Aligned_cols=47  Identities=32%  Similarity=0.792  Sum_probs=38.1

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhC-CCCCCcccCcccch
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN-RNYSCPLCRFDMAT  180 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~  180 (192)
                      ..|-||-+... ++.+-||||..|..|+..|... ...+||.||.++.-
T Consensus       370 eLCKICaendK-dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDK-DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCC-CcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            67999998443 3665699999999999999863 36789999998853

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

Probab=97.64  E-value=7.7e-06  Score=75.63  Aligned_cols=57  Identities=23%  Similarity=0.484  Sum_probs=43.1

Q ss_pred             ccccccccccccCCCceE--EecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          130 EEEERCAICLGSGTGSVI--QMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~--~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      .....|++|+....+..+  ..+|+|.||..||..|-+ .-.+||+||.++....+.-.+
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~~v~V~eS~  179 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR-CAQTCPVDRGEFGEVKVLEST  179 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh-hcccCchhhhhhheeeeeccc
Confidence            445789999983322222  248999999999999999 899999999998776554433

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

Probab=97.62  E-value=1.4e-05  Score=66.56  Aligned_cols=55  Identities=25%  Similarity=0.593  Sum_probs=42.3

Q ss_pred             cccccccccccccc-cCCCc-eEEecCCCccChHhHHHHHhC----------------------CCCCCcccCcccchh
Q 047298          127 EEEEEEERCAICLG-SGTGS-VIQMDCLHQFHEKCIACWFDN----------------------RNYSCPLCRFDMATA  181 (192)
Q Consensus       127 ~~~~~~~~C~ICl~-~~~~~-~~~l~C~H~Fh~~CI~~Wl~~----------------------~~~~CP~CR~~l~~~  181 (192)
                      +.+...-.|+|||- .+.++ ..+++|.|.||..|+...|..                      ....||+||..|..+
T Consensus       110 ~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  110 ENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             cCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            34556789999999 55555 677899999999999876642                      345799999988643

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

Probab=97.38  E-value=0.0002  Score=59.12  Aligned_cols=54  Identities=22%  Similarity=0.439  Sum_probs=44.1

Q ss_pred             cccccccccccccccCCCceEEecCCCccChHhHHHHHhC-CCCCCcccCcccch
Q 047298          127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN-RNYSCPLCRFDMAT  180 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~  180 (192)
                      .....+.+|++|-+....|-...+|+|+||.-||..-... ...+||.|-.+++.
T Consensus       234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            4456788999999988888776799999999999986551 34689999888773

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

Probab=97.36  E-value=0.00015  Score=58.34  Aligned_cols=53  Identities=26%  Similarity=0.679  Sum_probs=42.5

Q ss_pred             ccccccccccccc-cCCCceEEecCCCccChHhHHHHHhC-------CCCCCcccCcccch
Q 047298          128 EEEEEERCAICLG-SGTGSVIQMDCLHQFHEKCIACWFDN-------RNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~-------~~~~CP~CR~~l~~  180 (192)
                      +.+.+..|..|-. ...++.++|.|-|+||+.|+..|..+       ....||.|-.+|..
T Consensus        46 DsDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   46 DSDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             hcCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            3556778999988 55566677999999999999999863       35589999988754

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

Probab=97.30  E-value=4.3e-05  Score=64.54  Aligned_cols=50  Identities=24%  Similarity=0.635  Sum_probs=43.6

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ...+|.+|-....+.+.+.-|-|.||..||.+.+. ....||+|...+...
T Consensus        14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~-~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLE-ESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecchhHHHHHHHHHHHHHHHHHH-HhccCCccceeccCc
Confidence            46789999997777777789999999999999999 799999998877554

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

Probab=97.27  E-value=3.6e-05  Score=63.98  Aligned_cols=43  Identities=30%  Similarity=0.689  Sum_probs=35.5

Q ss_pred             ccccccccccCCCceEEecCCC-ccChHhHHHHHhCCCCCCcccCcccch
Q 047298          132 EERCAICLGSGTGSVIQMDCLH-QFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+.|.||++...+-+. |+||| +-|.+|-..+     +.||+||+.+..
T Consensus       300 ~~LC~ICmDaP~DCvf-LeCGHmVtCt~CGkrm-----~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVF-LECGHMVTCTKCGKRM-----NECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcceEE-eecCcEEeehhhcccc-----ccCchHHHHHHH
Confidence            7899999997777555 99999 8899997654     489999997764

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

Probab=97.15  E-value=0.00025  Score=69.68  Aligned_cols=54  Identities=30%  Similarity=0.753  Sum_probs=42.5

Q ss_pred             cccccccccccccc--cCCCceEEecCCCccChHhHHHHHhC---------CCCCCcccCcccch
Q 047298          127 EEEEEEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDN---------RNYSCPLCRFDMAT  180 (192)
Q Consensus       127 ~~~~~~~~C~ICl~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~---------~~~~CP~CR~~l~~  180 (192)
                      ..++.++.|.||+.  ....+.++|.|+|+||..|...-|.+         +--.||+|+.++..
T Consensus      3481 tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             hhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            35778899999999  34457778999999999999876653         23479999998743

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

Probab=97.07  E-value=0.00018  Score=62.20  Aligned_cols=47  Identities=34%  Similarity=0.721  Sum_probs=36.0

Q ss_pred             cccccccccccc---cCCCceEEecCCCccChHhHHHHHhC-CCCCCcccC
Q 047298          129 EEEEERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDN-RNYSCPLCR  175 (192)
Q Consensus       129 ~~~~~~C~ICl~---~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~CR  175 (192)
                      ++.+.-|..|=+   ...+..--|||.|+||.+|+...|.+ ...+||.||
T Consensus       362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Cr  412 (518)
T KOG1941|consen  362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCR  412 (518)
T ss_pred             HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHH
Confidence            345678999999   33344455799999999999999872 345799999

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.97  E-value=0.00034  Score=44.06  Aligned_cols=48  Identities=25%  Similarity=0.552  Sum_probs=37.2

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ....|..|.......++ +||+|+.+..|-.-+   +.+-||.|-..+....
T Consensus         6 ~~~~~~~~~~~~~~~~~-~pCgH~I~~~~f~~~---rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTV-LPCGHLICDNCFPGE---RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEcccccccccc-ccccceeeccccChh---hccCCCCCCCcccCCC
Confidence            45567777775555554 899999999998776   7789999988887654

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

Probab=96.85  E-value=0.00078  Score=58.60  Aligned_cols=49  Identities=20%  Similarity=0.414  Sum_probs=37.1

Q ss_pred             ccccccccccccc-cCC-CceEEecCCCccChHhHHHHHhC-------CCCCCcccCc
Q 047298          128 EEEEEERCAICLG-SGT-GSVIQMDCLHQFHEKCIACWFDN-------RNYSCPLCRF  176 (192)
Q Consensus       128 ~~~~~~~C~ICl~-~~~-~~~~~l~C~H~Fh~~CI~~Wl~~-------~~~~CP~CR~  176 (192)
                      -......|.||++ ..+ .....+||+|+||..|+...+..       +.-.||-+..
T Consensus       180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  180 FVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             HHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3556789999999 333 55667899999999999998853       3446877654

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

Probab=96.82  E-value=0.00041  Score=62.13  Aligned_cols=57  Identities=25%  Similarity=0.695  Sum_probs=44.7

Q ss_pred             cccccccccccccccCCCceEEecCCCccChHhHHHHHhC----CCCCCcccCcccchhhhh
Q 047298          127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN----RNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----~~~~CP~CR~~l~~~~~~  184 (192)
                      ..+.+...|-+|-+...+.+. ..|.|.||.-||..+...    .+-+||+|-..+.-++..
T Consensus       531 ~enk~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse  591 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE  591 (791)
T ss_pred             ccccCceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence            345667899999998777665 789999999999888753    456899998877655443

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

Probab=96.70  E-value=0.00077  Score=54.81  Aligned_cols=44  Identities=25%  Similarity=0.637  Sum_probs=33.1

Q ss_pred             ccccccc-cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          134 RCAICLG-SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       134 ~C~ICl~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .|.-|.- ....+...+.|+|+||..|...-.   ...||+||..+..
T Consensus         5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~---~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS---PDVCPLCKKSIRI   49 (233)
T ss_pred             EeccccccCCCCceeeeechhhhhhhhcccCC---ccccccccceeee
Confidence            5888888 335566767999999999977632   2389999998643

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

Probab=96.65  E-value=0.0011  Score=56.83  Aligned_cols=51  Identities=22%  Similarity=0.507  Sum_probs=43.0

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ...++..|+||+......+. .||+|.-|..||.+-+- +...|=.|+..+.+
T Consensus       418 p~sEd~lCpICyA~pi~Avf-~PC~H~SC~~CI~qHlm-N~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINAVF-APCSHRSCYGCITQHLM-NCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecccchhhc-cCCCCchHHHHHHHHHh-cCCeeeEecceeee
Confidence            35688999999996555444 79999999999999999 88999999987763

>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=96.63  E-value=0.002  Score=49.22  Aligned_cols=34  Identities=24%  Similarity=0.586  Sum_probs=24.9

Q ss_pred             cccccccccccCCCceEEecC------------C-CccChHhHHHHHh
Q 047298          131 EEERCAICLGSGTGSVIQMDC------------L-HQFHEKCIACWFD  165 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C------------~-H~Fh~~CI~~Wl~  165 (192)
                      ++..|+||||..-+.|. |-|            + -.-|..|+++.-+
T Consensus         1 ed~~CpICme~PHNAVL-LlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVL-LLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCceEE-EEeccccCCccccccCCccchhHHHHHHHH
Confidence            46789999997777666 434            2 2568999998765

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.

>PHA02862 5L protein; Provisional

Probab=96.62  E-value=0.0015  Score=49.12  Aligned_cols=47  Identities=23%  Similarity=0.545  Sum_probs=36.2

Q ss_pred             ccccccccccCCCceEEecCC-----CccChHhHHHHHhC-CCCCCcccCcccch
Q 047298          132 EERCAICLGSGTGSVIQMDCL-----HQFHEKCIACWFDN-RNYSCPLCRFDMAT  180 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~  180 (192)
                      ++.|-||.+...+.+  -||.     -.-|.+|+.+|++. ++..||+|+.++..
T Consensus         2 ~diCWIC~~~~~e~~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDERN--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCCCc--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            568999999655443  4665     38899999999983 55679999998743

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.62  E-value=0.0021  Score=49.23  Aligned_cols=52  Identities=21%  Similarity=0.457  Sum_probs=38.0

Q ss_pred             ccccccccccccccCCCceEEecCCC-----ccChHhHHHHHhC-CCCCCcccCcccchh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLH-----QFHEKCIACWFDN-RNYSCPLCRFDMATA  181 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H-----~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~~  181 (192)
                      ....+..|-||.+..+...  -||..     .-|.+|+..|+.. +...|+.|++++...
T Consensus         4 ~s~~~~~CRIC~~~~~~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          4 VSLMDKCCWICKDEYDVVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             cCCCCCeeEecCCCCCCcc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            3456889999999644322  46654     6699999999984 455799999887543

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

Probab=96.61  E-value=0.0015  Score=40.10  Aligned_cols=40  Identities=28%  Similarity=0.780  Sum_probs=25.8

Q ss_pred             ccccccc-CCCceEEecCCC-----ccChHhHHHHHhC-CCCCCccc
Q 047298          135 CAICLGS-GTGSVIQMDCLH-----QFHEKCIACWFDN-RNYSCPLC  174 (192)
Q Consensus       135 C~ICl~~-~~~~~~~l~C~H-----~Fh~~CI~~Wl~~-~~~~CP~C  174 (192)
                      |-||++. ..+.....||.-     ..|..|+..|+.. ++.+|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            7799993 333334467753     7899999999973 45679987

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

Probab=96.55  E-value=0.0011  Score=52.40  Aligned_cols=48  Identities=23%  Similarity=0.497  Sum_probs=39.8

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      +.-...|.||-.....+++ ..|||.||..|...-++ ....|-+|-+..
T Consensus       193 e~IPF~C~iCKkdy~spvv-t~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t  240 (259)
T COG5152         193 EKIPFLCGICKKDYESPVV-TECGHSFCSLCAIRKYQ-KGDECGVCGKAT  240 (259)
T ss_pred             CCCceeehhchhhccchhh-hhcchhHHHHHHHHHhc-cCCcceecchhh
Confidence            3344689999998778777 78999999999888888 788999996643

>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=96.51  E-value=0.001  Score=47.21  Aligned_cols=32  Identities=28%  Similarity=0.705  Sum_probs=25.2

Q ss_pred             cccccccccccc-CCCceEEecCCCccChHhHH
Q 047298          130 EEEERCAICLGS-GTGSVIQMDCLHQFHEKCIA  161 (192)
Q Consensus       130 ~~~~~C~ICl~~-~~~~~~~l~C~H~Fh~~CI~  161 (192)
                      .++..|++|-.. ........||||+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            357789999994 44555666999999999974

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 [].

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

Probab=96.44  E-value=0.0014  Score=61.57  Aligned_cols=49  Identities=27%  Similarity=0.672  Sum_probs=34.7

Q ss_pred             cccccccccccccCC-CceEEe--cCCCccChHhHHHHHhCC------CCCCcccCcc
Q 047298          129 EEEEERCAICLGSGT-GSVIQM--DCLHQFHEKCIACWFDNR------NYSCPLCRFD  177 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~-~~~~~l--~C~H~Fh~~CI~~Wl~~~------~~~CP~CR~~  177 (192)
                      ....++|.||++... ...+.-  .|-|+||..||.+|-.+.      .-.||.|+..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            456799999999332 222211  678999999999998641      2269999843

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

Probab=96.40  E-value=0.0011  Score=55.35  Aligned_cols=45  Identities=24%  Similarity=0.465  Sum_probs=39.3

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ..|-||...+..+|+ ..|+|.||..|-..=++ ....|++|-+..-
T Consensus       242 f~c~icr~~f~~pVv-t~c~h~fc~~ca~~~~q-k~~~c~vC~~~t~  286 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVV-TKCGHYFCEVCALKPYQ-KGEKCYVCSQQTH  286 (313)
T ss_pred             ccccccccccccchh-hcCCceeehhhhccccc-cCCcceecccccc
Confidence            459999998888887 89999999999888888 7889999977653

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.30  E-value=0.0034  Score=51.29  Aligned_cols=52  Identities=12%  Similarity=0.202  Sum_probs=42.0

Q ss_pred             cccccccccccCCC--ceEEe-cCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          131 EEERCAICLGSGTG--SVIQM-DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       131 ~~~~C~ICl~~~~~--~~~~l-~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ..+.||||.+....  +...| ||||+|+.+|+.+... ....||+|-.++...+.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir-~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR-KDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc-ccccccCCCCcCcccce
Confidence            56899999994433  33345 9999999999999998 89999999888866543

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

Probab=96.28  E-value=0.0037  Score=38.45  Aligned_cols=44  Identities=23%  Similarity=0.409  Sum_probs=21.7

Q ss_pred             cccccccCCC-ceEEe--cCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          135 CAICLGSGTG-SVIQM--DCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       135 C~ICl~~~~~-~~~~l--~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      |++|.+.... .....  +|++..|..|...-+.+....||-||.+.
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            7899994322 12223  77899999998888865688999999864

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

Probab=96.27  E-value=0.0056  Score=53.06  Aligned_cols=32  Identities=25%  Similarity=0.736  Sum_probs=24.4

Q ss_pred             CCCccChHhHHHHHhC------------CCCCCcccCcccchhh
Q 047298          151 CLHQFHEKCIACWFDN------------RNYSCPLCRFDMATAV  182 (192)
Q Consensus       151 C~H~Fh~~CI~~Wl~~------------~~~~CP~CR~~l~~~~  182 (192)
                      |.-.+|.+|+-+|+-.            ++..||+||+.+--.+
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            3457899999999864            4668999999875433

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

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

Probab=96.26  E-value=0.0024  Score=54.75  Aligned_cols=47  Identities=23%  Similarity=0.588  Sum_probs=34.9

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ....+.|.||++...+ ...+||||+=|  |..--.  ...+||+||+.+..
T Consensus       302 ~~~p~lcVVcl~e~~~-~~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS-AVFVPCGHVCC--CTLCSK--HLPQCPVCRQRIRL  348 (355)
T ss_pred             cCCCCceEEecCCccc-eeeecCCcEEE--chHHHh--hCCCCchhHHHHHH
Confidence            4456789999998777 55589999855  766543  34569999987754

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

Probab=96.24  E-value=0.002  Score=54.00  Aligned_cols=48  Identities=25%  Similarity=0.590  Sum_probs=38.8

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCccc-Ccccch
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC-RFDMAT  180 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~C-R~~l~~  180 (192)
                      ..|+.|-.....++..-.|+|.||.+||..-|......||.| |+++.-
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll  323 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL  323 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence            789999997777777557899999999998887567789999 445543

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

Probab=96.17  E-value=0.0057  Score=51.91  Aligned_cols=60  Identities=17%  Similarity=0.351  Sum_probs=47.2

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhccC
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFS  188 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~~  188 (192)
                      .......|+||+.....+.+...=|-+||..||...+. ....||+=-.+..-+.....+.
T Consensus       296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~v~~l~rl~~  355 (357)
T KOG0826|consen  296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPASVDHLIRLFN  355 (357)
T ss_pred             CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcchHHHHHHHhc
Confidence            35567789999996666666345689999999999999 9999999877777666555543

>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=96.16  E-value=0.0029  Score=47.22  Aligned_cols=34  Identities=21%  Similarity=0.462  Sum_probs=27.1

Q ss_pred             ccccccccc-cCC-CceEEecCC------CccChHhHHHHHh
Q 047298          132 EERCAICLG-SGT-GSVIQMDCL------HQFHEKCIACWFD  165 (192)
Q Consensus       132 ~~~C~ICl~-~~~-~~~~~l~C~------H~Fh~~CI~~Wl~  165 (192)
                      .-+|.||++ ... +.++.++|+      |.||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            568999999 222 467767886      7999999999954

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.

>PHA03096 p28-like protein; Provisional

Probab=96.04  E-value=0.0035  Score=52.77  Aligned_cols=44  Identities=25%  Similarity=0.468  Sum_probs=29.8

Q ss_pred             ccccccccc-CCC-----ceEEe-cCCCccChHhHHHHHhC--CCCCCcccCc
Q 047298          133 ERCAICLGS-GTG-----SVIQM-DCLHQFHEKCIACWFDN--RNYSCPLCRF  176 (192)
Q Consensus       133 ~~C~ICl~~-~~~-----~~~~l-~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~  176 (192)
                      ..|.||++. ...     ....| .|.|.||..||..|-..  ...+||.||.
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            789999992 111     12223 99999999999999863  2234555544

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

Probab=95.93  E-value=0.0035  Score=38.25  Aligned_cols=44  Identities=25%  Similarity=0.702  Sum_probs=25.5

Q ss_pred             ccccccccCCCceEEecCC-CccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          134 RCAICLGSGTGSVIQMDCL-HQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       134 ~C~ICl~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .|--|+-...+  . ..|+ |..|-.|+..++. .+..||+|..++|+.
T Consensus         4 nCKsCWf~~k~--L-i~C~dHYLCl~CLt~ml~-~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFANKG--L-IKCSDHYLCLNCLTLMLS-RSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S--SS--E-EE-SS-EEEHHHHHHT-S-SSSEETTTTEE----
T ss_pred             cChhhhhcCCC--e-eeecchhHHHHHHHHHhc-cccCCCcccCcCccc
Confidence            45555544333  2 4685 9999999999999 999999999999874

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.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.89  E-value=0.0079  Score=50.00  Aligned_cols=57  Identities=19%  Similarity=0.370  Sum_probs=43.3

Q ss_pred             ccccccccccccccCCCc--eEEe-cCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhc
Q 047298          128 EEEEEERCAICLGSGTGS--VIQM-DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESM  186 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~--~~~l-~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~  186 (192)
                      .....+.|||....+.+.  .+.+ +|||+|...++... . ....||+|-.++...++..+
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k-~~~~Cp~c~~~f~~~DiI~L  168 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-K-KSKKCPVCGKPFTEEDIIPL  168 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-c-ccccccccCCccccCCEEEe
Confidence            356788999999966543  3334 99999999999997 2 36789999999877665443

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

Probab=95.61  E-value=0.0051  Score=57.57  Aligned_cols=51  Identities=27%  Similarity=0.574  Sum_probs=40.5

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhCCCC-CCcccCcccchhhhhh
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNY-SCPLCRFDMATAVIES  185 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~-~CP~CR~~l~~~~~~~  185 (192)
                      ..|.||++  .+.....+|+|.||..|+..-+...+. .||.||..+......+
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  444555799999999999988774333 5999999887766554

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

Probab=95.53  E-value=0.01  Score=49.90  Aligned_cols=47  Identities=23%  Similarity=0.495  Sum_probs=36.8

Q ss_pred             ccccccccccC-----CCceEEecCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          132 EERCAICLGSG-----TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       132 ~~~C~ICl~~~-----~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      -+.|-||-+..     ..-.+.|.|||.||..|+.+.+.+....||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            46899998822     112355799999999999999986677899999984

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.17  E-value=0.011  Score=50.48  Aligned_cols=53  Identities=26%  Similarity=0.510  Sum_probs=34.3

Q ss_pred             cccccccccccccCC---CceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGT---GSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~---~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      +++++-|+.|++.++   ....--+||-..|.-|...--++-+..||-||+....+
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            444555999999332   22333378877777775555444668999999876543

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

Probab=95.10  E-value=0.02  Score=49.11  Aligned_cols=51  Identities=33%  Similarity=0.663  Sum_probs=38.2

Q ss_pred             cccccccccccccccCCCceEEecCCCccChHhHHHH--HhCCCCCCcccCcccc
Q 047298          127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACW--FDNRNYSCPLCRFDMA  179 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~W--l~~~~~~CP~CR~~l~  179 (192)
                      +.+++...|.||-+...- +.++||+|..|--|....  |- ....||+||.+-.
T Consensus        56 dtDEen~~C~ICA~~~TY-s~~~PC~H~~CH~Ca~RlRALY-~~K~C~~CrTE~e  108 (493)
T COG5236          56 DTDEENMNCQICAGSTTY-SARYPCGHQICHACAVRLRALY-MQKGCPLCRTETE  108 (493)
T ss_pred             ccccccceeEEecCCceE-EEeccCCchHHHHHHHHHHHHH-hccCCCccccccc
Confidence            456677889999984433 334899999999997654  34 6788999998653

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

Probab=94.85  E-value=0.015  Score=48.62  Aligned_cols=45  Identities=27%  Similarity=0.637  Sum_probs=35.8

Q ss_pred             cccccccccc---cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCc
Q 047298          131 EEERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF  176 (192)
Q Consensus       131 ~~~~C~ICl~---~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~  176 (192)
                      ....||||.+   .....+..++|||.-|.+|...... ...+||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~-~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMIC-EGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhc-cCCCCCcccc
Confidence            3445999999   2333455589999999999999988 5599999988

>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=94.70  E-value=0.035  Score=33.32  Aligned_cols=40  Identities=30%  Similarity=0.713  Sum_probs=22.3

Q ss_pred             cccccccCCCceEEe--cCCCccChHhHHHHHhCCCC-CCccc
Q 047298          135 CAICLGSGTGSVIQM--DCLHQFHEKCIACWFDNRNY-SCPLC  174 (192)
Q Consensus       135 C~ICl~~~~~~~~~l--~C~H~Fh~~CI~~Wl~~~~~-~CP~C  174 (192)
                      |.+|.+.....++--  .|+=.+|..|+..++..+.. .||.|
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            678888544444423  58889999999999984333 69988

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.65  E-value=0.018  Score=54.43  Aligned_cols=44  Identities=25%  Similarity=0.736  Sum_probs=37.0

Q ss_pred             ccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          132 EERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ...|..|--...-|++.-.|+|.||.+|+.   . +...||-|+.++.
T Consensus       840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~-~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE---D-KEDKCPKCLPELR  883 (933)
T ss_pred             eeeecccCCccccceeeeecccHHHHHhhc---c-CcccCCccchhhh
Confidence            358999988777788878999999999988   3 7789999998553

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

Probab=94.60  E-value=0.0074  Score=59.16  Aligned_cols=45  Identities=24%  Similarity=0.513  Sum_probs=36.5

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCc
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF  176 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~  176 (192)
                      ....|.||++.....-.+..|+|.+|.+|...|+. .+..||+|+.
T Consensus      1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~-~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLY-ASSRCPICKS 1196 (1394)
T ss_pred             cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHH-HhccCcchhh
Confidence            34589999995442223367999999999999999 9999999984

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

Probab=94.34  E-value=0.021  Score=46.64  Aligned_cols=48  Identities=27%  Similarity=0.633  Sum_probs=37.5

Q ss_pred             cccccccccccc--cCCCceEEe--c-CCCccChHhHHHHHhCCCCCCc--ccCc
Q 047298          129 EEEEERCAICLG--SGTGSVIQM--D-CLHQFHEKCIACWFDNRNYSCP--LCRF  176 (192)
Q Consensus       129 ~~~~~~C~ICl~--~~~~~~~~l--~-C~H~Fh~~CI~~Wl~~~~~~CP--~CR~  176 (192)
                      ...+..||||..  .....+..|  | |-|..|.+|++.-+..+...||  -|-.
T Consensus         7 ~~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           7 EMEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hhhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            345779999999  344445544  5 9999999999999987888999  7754

>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=94.16  E-value=0.04  Score=46.15  Aligned_cols=45  Identities=24%  Similarity=0.524  Sum_probs=35.2

Q ss_pred             ccccccc--cCCCceEEe--cCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          134 RCAICLG--SGTGSVIQM--DCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       134 ~C~ICl~--~~~~~~~~l--~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      .||+|..  .....+..+  +|+|.-|.+|.+..+..+...||.|-..+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            5999999  333333333  99999999999999987888999996654

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

Probab=93.97  E-value=0.04  Score=46.78  Aligned_cols=48  Identities=21%  Similarity=0.468  Sum_probs=37.4

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ...+-.+||||.+....++..-+=||+-|..|=.+    ..+.||.||.+++
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK----VSNKCPTCRLPIG   91 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhh----hcccCCccccccc
Confidence            34567899999997777764323379999999764    6779999999987

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

Probab=93.76  E-value=0.043  Score=42.91  Aligned_cols=53  Identities=26%  Similarity=0.686  Sum_probs=36.7

Q ss_pred             ccccccccccccccCCCce------EEecCCCccChHhHHHHHhC----CC------CCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSV------IQMDCLHQFHEKCIACWFDN----RN------YSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~------~~l~C~H~Fh~~CI~~Wl~~----~~------~~CP~CR~~l~~  180 (192)
                      ..++.-.|-||+...-+.+      -...|+.-||.-|+..||+.    ++      ..||.|-.++..
T Consensus       161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            3455567999998322111      12389999999999999973    11      379999887754

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

Probab=93.69  E-value=0.059  Score=46.93  Aligned_cols=47  Identities=17%  Similarity=0.409  Sum_probs=37.7

Q ss_pred             cccccccccc--cCCCceEEecCCCccChHhHHHHHhCCC--CCCcccCcc
Q 047298          131 EEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCRFD  177 (192)
Q Consensus       131 ~~~~C~ICl~--~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--~~CP~CR~~  177 (192)
                      +.-.|||=.+  ...++...|.|||+...+-+.+..+++.  ..||.|=.+
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            3467999988  4556667799999999999999998655  689999433

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

Probab=93.52  E-value=0.027  Score=43.37  Aligned_cols=29  Identities=24%  Similarity=0.798  Sum_probs=24.8

Q ss_pred             cccccccccccc--cCCCceEEecCCCccCh
Q 047298          129 EEEEERCAICLG--SGTGSVIQMDCLHQFHE  157 (192)
Q Consensus       129 ~~~~~~C~ICl~--~~~~~~~~l~C~H~Fh~  157 (192)
                      .++.-+|.||||  ...+.+.+|||-.+||.
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            455679999999  67888889999999996

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

Probab=93.36  E-value=0.0043  Score=53.72  Aligned_cols=53  Identities=17%  Similarity=0.407  Sum_probs=42.3

Q ss_pred             cccccccccccc---cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~---~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      +.-...|+||..   ...+.+..+-|||.+|..||.+|+. ....||.||.+++...
T Consensus       193 ~slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~-~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  193 SSLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLA-TKRKLPSCRRELPKNG  248 (465)
T ss_pred             HHHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHH-HHHHhHHHHhhhhhhh
Confidence            334578999998   3334455578999999999999999 7889999999987543

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.04  E-value=0.038  Score=46.40  Aligned_cols=34  Identities=24%  Similarity=0.567  Sum_probs=26.4

Q ss_pred             CCCccChHhHHHHHhC------------CCCCCcccCcccchhhhh
Q 047298          151 CLHQFHEKCIACWFDN------------RNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       151 C~H~Fh~~CI~~Wl~~------------~~~~CP~CR~~l~~~~~~  184 (192)
                      |.-.+|.+|+-+|+..            ++.+||+||+.+--.+++
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~  370 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH  370 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence            5568999999998853            677899999987654443

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

Probab=92.70  E-value=0.055  Score=51.46  Aligned_cols=37  Identities=22%  Similarity=0.378  Sum_probs=29.0

Q ss_pred             cccccccccccc-cCCCceEEecCCCccChHhHHHHHh
Q 047298          129 EEEEERCAICLG-SGTGSVIQMDCLHQFHEKCIACWFD  165 (192)
Q Consensus       129 ~~~~~~C~ICl~-~~~~~~~~l~C~H~Fh~~CI~~Wl~  165 (192)
                      .+.++.|.+|.- ....+...-||||.||.+||.+-..
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            345889999999 4555666569999999999987653

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

Probab=92.22  E-value=0.085  Score=42.46  Aligned_cols=40  Identities=25%  Similarity=0.563  Sum_probs=29.0

Q ss_pred             cccccccCCCceEEecCCC-ccChHhHHHHHhCCCCCCcccCcccch
Q 047298          135 CAICLGSGTGSVIQMDCLH-QFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       135 C~ICl~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      |-.|-+.... +..+||.| .+|..|-..     -..||+|+.....
T Consensus       161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGEREAT-VLLLPCRHLCLCGICDES-----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCCce-EEeecccceEeccccccc-----CccCCCCcChhhc
Confidence            8888774433 66679998 889999543     3469999876544

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

Probab=91.25  E-value=0.14  Score=48.52  Aligned_cols=53  Identities=19%  Similarity=0.629  Sum_probs=37.8

Q ss_pred             ccccccccccccccC-CCceEEecCCC-----ccChHhHHHHHh-CCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSG-TGSVIQMDCLH-----QFHEKCIACWFD-NRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~-~~~~~~l~C~H-----~Fh~~CI~~Wl~-~~~~~CP~CR~~l~~  180 (192)
                      -++++..|-||..+. .+....=||..     ..|.+|+..|+. ++...|-+|..++.-
T Consensus         8 mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F   67 (1175)
T COG5183           8 MNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF   67 (1175)
T ss_pred             CCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence            355679999999932 23232247764     789999999998 244569999987743

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

Probab=91.05  E-value=0.093  Score=44.46  Aligned_cols=43  Identities=23%  Similarity=0.356  Sum_probs=27.0

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCccc
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM  178 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l  178 (192)
                      -.|.-|=--....-+-+||.|+||.+|...-   .-+.||.|-..|
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~---~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSD---SDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhcC---ccccCcCcccHH
Confidence            3455554311111233499999999997642   456899997655

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

Probab=90.80  E-value=0.14  Score=48.23  Aligned_cols=40  Identities=33%  Similarity=0.585  Sum_probs=30.4

Q ss_pred             cccccccc-cCCCceEEecCCCccChHhHHHHHhCCCCCCcc
Q 047298          133 ERCAICLG-SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPL  173 (192)
Q Consensus       133 ~~C~ICl~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~  173 (192)
                      ..|+||-- +.+.......|+|+-|..|...|+. ....||.
T Consensus      1029 ~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~-~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFR-TGDVCPS 1069 (1081)
T ss_pred             eeeeeEeeEeeccchhhccccccccHHHHHHHHh-cCCcCCC
Confidence            34676655 4444455568999999999999999 7778984

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.58  E-value=0.1  Score=43.06  Aligned_cols=53  Identities=26%  Similarity=0.716  Sum_probs=36.7

Q ss_pred             ccccccccccccccCCCceEE---ecCC-----CccChHhHHHHHhC-------CCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVIQ---MDCL-----HQFHEKCIACWFDN-------RNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~---l~C~-----H~Fh~~CI~~Wl~~-------~~~~CP~CR~~l~~  180 (192)
                      ..+.+..|=||+.-..+.-+.   -||.     |-.|-.|+..|...       +.-.||-|+.+...
T Consensus        16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            456678899999933332221   2773     68999999999973       22369999987643

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

Probab=89.14  E-value=0.18  Score=44.74  Aligned_cols=35  Identities=26%  Similarity=0.559  Sum_probs=30.4

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFD  165 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~  165 (192)
                      +++..|+||-.+..++++ |+|+|..|.-|...-+.
T Consensus         2 eeelkc~vc~~f~~epii-l~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPII-LPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCceE-eecccHHHHHHHHhhcc
Confidence            467899999998888877 99999999999887664

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

Probab=88.32  E-value=0.55  Score=35.06  Aligned_cols=53  Identities=19%  Similarity=0.458  Sum_probs=36.5

Q ss_pred             ccccccccccccCCC-ceEEe--cCCCccChHhH-HHHHh-CCCCCCcccCcccchhh
Q 047298          130 EEEERCAICLGSGTG-SVIQM--DCLHQFHEKCI-ACWFD-NRNYSCPLCRFDMATAV  182 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~-~~~~l--~C~H~Fh~~CI-~~Wl~-~~~~~CP~CR~~l~~~~  182 (192)
                      ..-++|.||.|...+ ....-  -||-..|.-|- .-|.. +....||+|+..+.+..
T Consensus        78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            378999999993332 22111  58988898884 55654 25678999999887643

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

Probab=88.30  E-value=0.45  Score=29.38  Aligned_cols=44  Identities=18%  Similarity=0.466  Sum_probs=22.2

Q ss_pred             cccccccccCCCceEEecCCCccChHhHHHHHh----CCCCCCcccCcc
Q 047298          133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFD----NRNYSCPLCRFD  177 (192)
Q Consensus       133 ~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~----~~~~~CP~CR~~  177 (192)
                      ..|+|.......+++...|.|.-|.+ +..|+.    +..-.||+|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            47999999888899988999986533 333433    234479999763

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

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

Probab=88.22  E-value=0.2  Score=46.36  Aligned_cols=41  Identities=29%  Similarity=0.571  Sum_probs=30.1

Q ss_pred             cccccccccc----cCCCceEEecCCCccChHhHHHHHhCCCCCCcccCc
Q 047298          131 EEERCAICLG----SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF  176 (192)
Q Consensus       131 ~~~~C~ICl~----~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~  176 (192)
                      +-..|+||+.    ....++ .+.|||..|..|+...   .+.+|| |++
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pv-sl~cghtic~~c~~~l---yn~scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPV-SLQCGHTICGHCVQLL---YNASCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcc-cccccchHHHHHHHhH---hhccCC-CCc
Confidence            3467999987    222333 4899999999999987   457899 544

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

Probab=88.05  E-value=0.11  Score=48.39  Aligned_cols=49  Identities=27%  Similarity=0.642  Sum_probs=37.0

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhC--CCCCCcccCcccch
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLCRFDMAT  180 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~~l~~  180 (192)
                      -..+|+||++-...++. +.|.|.|+..|+..-+..  ....||+|+..+..
T Consensus        20 k~lEc~ic~~~~~~p~~-~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSL-LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hhccCCceeEEeeccch-hhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            36799999995555544 799999999998876652  34579999966543

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

Probab=87.05  E-value=0.32  Score=39.10  Aligned_cols=45  Identities=24%  Similarity=0.607  Sum_probs=36.2

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccC
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR  175 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR  175 (192)
                      +.-..|.+|....-..++.=.|+=.+|..|+.+.++ ....||.|-
T Consensus       179 dnlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q-~~~~cphc~  223 (235)
T KOG4718|consen  179 DNLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQ-RRDICPHCG  223 (235)
T ss_pred             HHHHHHhHhHHHhheeeccCcccchhhhHHHHHHhc-ccCcCCchh
Confidence            346799999995444455447888999999999999 799999994

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

Probab=84.75  E-value=0.63  Score=39.07  Aligned_cols=48  Identities=25%  Similarity=0.634  Sum_probs=34.8

Q ss_pred             ccccccccccCCCc---eEEecCC-----CccChHhHHHHHhC-CCCCCcccCcccc
Q 047298          132 EERCAICLGSGTGS---VIQMDCL-----HQFHEKCIACWFDN-RNYSCPLCRFDMA  179 (192)
Q Consensus       132 ~~~C~ICl~~~~~~---~~~l~C~-----H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~  179 (192)
                      +..|-||.+.....   ....||.     +..|..|+..|+.. ++..|.+|.....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            57899999943321   2335775     47899999999973 4567999987553

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.39  E-value=1.2  Score=36.81  Aligned_cols=54  Identities=13%  Similarity=0.194  Sum_probs=39.3

Q ss_pred             ccccccccccccCCCceEE--e-cCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhc
Q 047298          130 EEEERCAICLGSGTGSVIQ--M-DCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESM  186 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~--l-~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~  186 (192)
                      .....|||=--.+.+.-+.  + +|||+|-.+-+.+-   ..++|++|.+.+...++.-+
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei---kas~C~~C~a~y~~~dvIvl  165 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI---KASVCHVCGAAYQEDDVIVL  165 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHh---hhccccccCCcccccCeEee
Confidence            4557788765555443332  2 99999999998886   67899999998877665543

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

Probab=82.30  E-value=0.7  Score=43.88  Aligned_cols=52  Identities=12%  Similarity=0.220  Sum_probs=33.8

Q ss_pred             cccccccccccccCCC---ceEEe---cCCCccChHhHHHHHhC-----CCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTG---SVIQM---DCLHQFHEKCIACWFDN-----RNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~---~~~~l---~C~H~Fh~~CI~~Wl~~-----~~~~CP~CR~~l~~  180 (192)
                      ..+..+|.||.-....   ..-.+   .|+|.||..||..|...     ....|++|..-|..
T Consensus        93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s  155 (1134)
T KOG0825|consen   93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS  155 (1134)
T ss_pred             cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence            3445566666653222   22223   49999999999999863     34568999776643

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

Probab=81.89  E-value=0.55  Score=43.10  Aligned_cols=54  Identities=30%  Similarity=0.545  Sum_probs=42.7

Q ss_pred             cccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhc
Q 047298          127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESM  186 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~  186 (192)
                      ...+....|.||+...  ..+..+|.   |..|+.+|+. .+..||+|+..+..++..+.
T Consensus       474 ~l~~~~~~~~~~~~~~--~~~~~~~~---~~~~l~~~~~-~~~~~pl~~~~~~~~~~~~~  527 (543)
T KOG0802|consen  474 QLREPNDVCAICYQEM--SARITPCS---HALCLRKWLY-VQEVCPLCHTYMKEDDFLSK  527 (543)
T ss_pred             hhhcccCcchHHHHHH--Hhcccccc---chhHHHhhhh-hccccCCCchhhhcccccCc
Confidence            4466778999999965  34446788   9999999999 89999999988876665443

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

Probab=81.12  E-value=0.75  Score=40.46  Aligned_cols=36  Identities=22%  Similarity=0.592  Sum_probs=25.8

Q ss_pred             ccccccccccc-c-CC-CceEEecCCCccChHhHHHHHh
Q 047298          130 EEEERCAICLG-S-GT-GSVIQMDCLHQFHEKCIACWFD  165 (192)
Q Consensus       130 ~~~~~C~ICl~-~-~~-~~~~~l~C~H~Fh~~CI~~Wl~  165 (192)
                      ....+|.||+. . .. .......|+|.||..|...-+.
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            34679999994 2 11 2222358999999999998776

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

Probab=80.92  E-value=0.62  Score=42.94  Aligned_cols=42  Identities=29%  Similarity=0.605  Sum_probs=27.4

Q ss_pred             cccccccccccc----c-C-CCce-EEecCCCccChHhHHHHHhCCCCCCccc
Q 047298          129 EEEEERCAICLG----S-G-TGSV-IQMDCLHQFHEKCIACWFDNRNYSCPLC  174 (192)
Q Consensus       129 ~~~~~~C~ICl~----~-~-~~~~-~~l~C~H~Fh~~CI~~Wl~~~~~~CP~C  174 (192)
                      ......|.+|..    + + .+.+ +...|+++||..|...    .+..||-|
T Consensus       508 ~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s~~CPrC  556 (580)
T KOG1829|consen  508 TGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KSPCCPRC  556 (580)
T ss_pred             ccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cCCCCCch
Confidence            444567778844    1 1 2222 2348999999999664    55569999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-13
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-12
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	9e-12
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-11
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-11
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-10
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-10
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-09
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-08
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-08
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-08
1z6u_A	150	NP95-like ring finger protein isoform B; structura	8e-08
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-07
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-07
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-06
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	5e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	8e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-04
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-04
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	5e-04

>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 = 60.1 bits (146), Expect = 8e-13
 Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 126 EEEEEEEERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
           EE       C +C      G  SV Q+ C H FH+ CI  W +  + SCP+CR  +  
Sbjct: 9   EEHVGSGLECPVCKEDYALGE-SVRQLPCNHLFHDSCIVPWLEQHD-SCPVCRKSLTG 64

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

 Score = 57.8 bits (140), Expect = 5e-12
 Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 3/56 (5%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA 181
            ++  +EE C IC+  G  + + + C H F +KCI  W D R+ +CP+CR  M  A
Sbjct: 9   VKQLTDEEECCICM-DGR-ADLILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGA 61

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

 Score = 57.7 bits (140), Expect = 9e-12
 Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 4/72 (5%)

Query: 109 KKDVVKYLQSQPIVVDCEEEEEEEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDN 166
            K+ +  L    +  D     +E   C IC           ++ C H FH+ C++ W   
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMC-CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76

Query: 167 RNYSCPLCRFDM 178
              +CP+CR   
Sbjct: 77  SG-TCPVCRCMF 87

>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 = 55.3 bits (134), Expect = 3e-11
 Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 4/51 (7%)

Query: 132 EERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA 179
              C ICL    +       + C H  H  C         Y CPLC    +
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML-KEGYRCPLCSGPSS 54

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

 Score = 55.9 bits (135), Expect = 3e-11
 Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 9/58 (15%)

Query: 126 EEEEEEEERCAICL-----GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM 178
            +E    E CA+CL           +    C H FH KC+  W + R   CPLC   +
Sbjct: 9   VKELNLHELCAVCLEDFKPRD---ELGICPCKHAFHRKCLIKWLEVRK-VCPLCNMPV 62

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

 Score = 55.1 bits (133), Expect = 5e-11
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
              ERC ICL   +   + + CLH F   CI  W      +CPLC+  + +
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-TCPLCKVPVES 52

>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 = 53.4 bits (128), Expect = 6e-10
 Identities = 14/59 (23%), Positives = 19/59 (32%)

Query: 117 QSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
               +     E   E  RC IC+     + +   C       CI  W   +   CP CR
Sbjct: 7   HHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCR 65

>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 = 52.0 bits (125), Expect = 7e-10
 Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 3/59 (5%)

Query: 126 EEEEEEEERCAICLGS-GTGSVI-QMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV 182
             EE+ EE+C ICL     G  + ++ C+H FH+ C+  W       CP+CR D+   +
Sbjct: 8   GTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK-KCPICRVDIEAQL 65

>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 = 50.3 bits (120), Expect = 4e-09
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 1/51 (1%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR-NYSCPLCR 175
           E   +  + C IC            C  + H  C+A +F +     CP C 
Sbjct: 9   ETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 50.0 bits (120), Expect = 5e-09
 Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 3/58 (5%)

Query: 126 EEEEEEEERCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA 181
              + E+  C +C+        +  + C H+FH KC+  W    N +CP+CR D   +
Sbjct: 17  NNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWL-KANRTCPICRADSGPS 73

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

 Score = 49.8 bits (119), Expect = 7e-09
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
            E      C+IC G    +    +CLH F + CI   F   N  CP C 
Sbjct: 10  SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNR-CPKCN 57

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 50.0 bits (119), Expect = 2e-08
 Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 1/59 (1%)

Query: 117 QSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
            S         + EE  +C  C       +    C H   + C+   F  + +SCP CR
Sbjct: 37  ASGSPFQLFLSKVEETFQCICCQELVFRPIT-TVCQHNVCKDCLDRSFRAQVFSCPACR 94

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

 Score = 48.4 bits (115), Expect = 2e-08
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 7/56 (12%)

Query: 126 EEEEEEEERCAICL------GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
                    C IC+            ++  +C H F  +C+     N N +CP CR
Sbjct: 9   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCR 63

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

 Score = 52.1 bits (124), Expect = 2e-08
 Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
            E     + C IC  +     I   C H     C+  W ++    CP CR
Sbjct: 326 CEMGSTFQLCKICAENDKDVKI-EPCGHLMCTSCLTSWQESEGQGCPFCR 374

>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 = 47.9 bits (114), Expect = 6e-08
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
            E      C +C G    +   ++CLH F + CI  + +   Y CP+C 
Sbjct: 10  TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKY-CPICD 57

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

 Score = 47.2 bits (112), Expect = 6e-08
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 130 EEEERCAICLGSGTGS---VIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           +  + C  C          V+  +C H FH  C++ W    N  CPLC+
Sbjct: 24  QVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN-RCPLCQ 71

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

 Score = 48.5 bits (115), Expect = 8e-08
 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 1/63 (1%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           L       +  ++ E+   C  C       V   +C H   + C+   F  + +SCP CR
Sbjct: 62  LSHLVEGPNFLKKLEQSFMCVCCQELVYQPVT-TECFHNVCKDCLQRSFKAQVFSCPACR 120

Query: 176 FDM 178
            D+
Sbjct: 121 HDL 123

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

 Score = 46.0 bits (110), Expect = 1e-07
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 130 EEEERCAICLGS-GTGSVIQM--DCLHQFHEKCIACWFDNRNYSCPLCRFD 177
           ++   CA+CL     G   +    C H FH +C+  W    + +CPLCR  
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWL-GSHSTCPLCRLT 52

>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 = 46.4 bits (110), Expect = 1e-07
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 7/56 (12%)

Query: 126 EEEEEEEERCAICLG------SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
                    C IC+            ++  +C H F  +C+     N N +CP CR
Sbjct: 4   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCR 58

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

 Score = 48.0 bits (114), Expect = 2e-07
 Identities = 16/46 (34%), Positives = 21/46 (45%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
             E  C ICL     ++   +CLH+F   CI     + N  CP CR
Sbjct: 52  HSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCR 97

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

 Score = 45.6 bits (108), Expect = 2e-07
 Identities = 14/50 (28%), Positives = 17/50 (34%), Gaps = 2/50 (4%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
                    CAICL +    V  + C H F   C+          C LCR
Sbjct: 9   TAPSLTVPECAICLQTCVHPVS-LPCKHVFCYLCVKGASW-LGKRCALCR 56

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

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 17/52 (32%), Positives = 20/52 (38%), Gaps = 2/52 (3%)

Query: 124 DCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
              EEEE   RC IC  +    V+   C H F E C    F      C +C 
Sbjct: 7   GGSEEEEIPFRCFICRQAFQNPVV-TKCRHYFCESCALEHF-RATPRCYICD 56

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

 Score = 43.2 bits (102), Expect = 1e-06
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 7/47 (14%)

Query: 135 CAICLGSGTGSVIQMD------CLHQFHEKCIACWFDNRNYSCPLCR 175
           C IC+   +  V          C H F  +C+     N N +CP CR
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCR 51

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 42.4 bits (100), Expect = 3e-06
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCI-ACWFDNRNYSCPLCR 175
           ++   +E  C IC    T +V+   C + + ++CI     ++  ++CP C 
Sbjct: 9   DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

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

 Score = 43.9 bits (103), Expect = 4e-06
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 2/59 (3%)

Query: 117 QSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           Q + ++    +  E E +C IC      +V  ++C H F   CI  W   R   CP+CR
Sbjct: 49  QKEEVLSHMNDVLENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICR 105

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

 Score = 43.0 bits (101), Expect = 5e-06
 Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 1/48 (2%)

Query: 128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
               E +C IC+      V  + C H   + C     +  +  CP CR
Sbjct: 11  PSLSECQCGICMEILVEPVT-LPCNHTLCKPCFQSTVEKASLCCPFCR 57

>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 = 42.9 bits (100), Expect = 5e-06
 Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 21/71 (29%)

Query: 126 EEEEEEEERCAICL----------------GSGTGSVIQMD-CLHQFHEKCIACWFDNRN 168
           E +   EE C IC+                  G   V ++  C H FH  C+   + N N
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 169 ----YSCPLCR 175
                 CP C+
Sbjct: 79  KDGSLQCPSCK 89

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

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           ++  RC IC      ++I   C H +   CI  +   +   CP C 
Sbjct: 20  DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT-QCPTCC 64

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

 Score = 43.7 bits (102), Expect = 1e-05
 Identities = 17/74 (22%), Positives = 26/74 (35%), Gaps = 17/74 (22%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMD-------CLHQFHEKCIACWFDNRNYS-------- 170
           +EE+ EE RC IC                   C+ + H  C+  WF              
Sbjct: 302 DEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSF 361

Query: 171 --CPLCRFDMATAV 182
             CP C+  ++T+ 
Sbjct: 362 GQCPFCKAKLSTSF 375

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCI-ACWFDNRNYSCPLCR 175
           ++   +E  C IC    T +V+   C + + ++CI     ++  ++CP C 
Sbjct: 7   DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

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

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           E+  RC+ C       V    C H F   C++         CP+C 
Sbjct: 20  EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT---GCPVCY 62

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

 Score = 42.8 bits (100), Expect = 2e-05
 Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 1/52 (1%)

Query: 125 CEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR-NYSCPLCR 175
            E   +  + C IC            C  + H  C+A +F +     CP C 
Sbjct: 173 RETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 224

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

 Score = 38.5 bits (90), Expect = 5e-05
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           EEE +  RC  C        + + CLH     C+    +     CP+C+
Sbjct: 1   EEEFQFLRCQQCQAEAKCPKL-LPCLHTLCSGCL----EASGMQCPICQ 44

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

 Score = 38.7 bits (90), Expect = 8e-05
 Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 7/58 (12%)

Query: 126 EEEEEEEERCAICLGSGT-GSVIQMDC-----LHQFHEKCIACWFDNRNY-SCPLCRF 176
                 ++ C IC   G   S +   C     LH  H+ C+  W  + +   C LC++
Sbjct: 9   SITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKY 66

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

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 3/53 (5%)

Query: 126 EEEEEEEERCAICLGS---GTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
            + +E+   C +C+        +     C +Q    C      + N  CP CR
Sbjct: 5   PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           E++ +C  C         Q +C H+F E C+A    + +  C  C+
Sbjct: 13  EDKYKCEKCHLVLCSPK-QTECGHRFCESCMAALLSSSSPKCTACQ 57

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

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCR 175
           +EE  C ICL      V  +DC H F  KCI    +     + CPLC+
Sbjct: 18  QEEVICPICLDILQKPVT-IDCGHNFCLKCITQIGETSCGFFKCPLCK 64

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

 Score = 38.7 bits (89), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 18/53 (33%), Gaps = 1/53 (1%)

Query: 123 VDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
               +   E +       S   +V    C H FH  CI+ W   R   CPL  
Sbjct: 56  NHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDN 107

>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 = 37.9 bits (87), Expect = 3e-04
 Identities = 14/53 (26%), Positives = 18/53 (33%), Gaps = 1/53 (1%)

Query: 123 VDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
               +   E +       S   +V    C H FH  CI+ W   R   CPL  
Sbjct: 45  NHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDN 96

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

 Score = 38.2 bits (88), Expect = 3e-04
 Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 7/54 (12%)

Query: 128 EEEEEERCAICL------GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
                  C IC+            ++  +C H F  +C+     N N +CP CR
Sbjct: 3   MGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCR 55

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 6/51 (11%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN-----YSCPLCR 175
           +EE  C ICL      V   DC H F   CI   +++        +CP+CR
Sbjct: 17  KEEVTCPICLELLKEPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

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

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 3/48 (6%)

Query: 130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCR 175
           ++   C ICL      V    C H F + C+    + +     CPLC+
Sbjct: 19  QKILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

>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 = 37.6 bits (87), Expect = 5e-04
 Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 1/60 (1%)

Query: 116 LQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           L ++ + VD      +   C IC       V +  C H F   CI          CP CR
Sbjct: 7   LSTKLLAVDFPAHFVKSISCQICEHILADPV-ETSCKHLFCRICILRCLKVMGSYCPSCR 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.61
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.57
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.53
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.52
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.51
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.5
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.5
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.5
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.48
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.47
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.47
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.47
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.47
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.43
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.42
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.42
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.41
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.41
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.4
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.39
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.39
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.39
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.38
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.35
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.35
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.35
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.35
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.34
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.34
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.33
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.31
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.29
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.28
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.28
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.28
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.28
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.27
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.25
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.25
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.24
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.24
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.24
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.23
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.23
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.21
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.2
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.19
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.17
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.17
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.16
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.14
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.1
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.04
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.01
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.0
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.96
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.87
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.85
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.83
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.79
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.78
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.78
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.75
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.62
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.56
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.47
3nw0_A	238	Non-structural maintenance of chromosomes element	97.98
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.05
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.04
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.47
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	89.9
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	88.32
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	87.46
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	85.49
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	85.42
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	84.24
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	81.88
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	81.31
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	81.14
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	80.97
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	80.54

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

Probab=99.61  E-value=6.5e-16  Score=107.49  Aligned_cols=72  Identities=24%  Similarity=0.600  Sum_probs=56.4

Q ss_pred             CChHHHHHhhccceeeeccCccccccccccccccc--CCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          107 VTKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGS--GTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       107 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~C~ICl~~--~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ..+++.++.|+...+.... ....++..|+||++.  ....++.++|+|.||..||..|++ .+.+||+||..+..
T Consensus        16 ~~s~~~i~~lp~~~~~~~~-~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           16 PASKESIDALPEILVTEDH-GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ-KSGTCPVCRCMFPP   89 (91)
T ss_dssp             CCCHHHHHTSCEEECCTTC-SSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHT-TTCBCTTTCCBSSC
T ss_pred             CCCHHHHHhCCCeeecccc-cccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHH-cCCcCcCcCccCCC
Confidence            3456788888877766222 345567899999993  344566689999999999999999 88999999998865

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

Probab=99.57  E-value=7.8e-16  Score=103.08  Aligned_cols=63  Identities=29%  Similarity=0.671  Sum_probs=48.4

Q ss_pred             hhccceeeeccCcccccccccccccccC--CCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          115 YLQSQPIVVDCEEEEEEEERCAICLGSG--TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       115 ~l~~~~~~~~~~~~~~~~~~C~ICl~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .|+...+.  ......++..|+||++..  ...++.++|+|+||..||..|++ .+.+||+||+.+..
T Consensus         8 ~lp~~~~~--~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~-~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A            8 QLPSYRFN--PNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLK-ANRTCPICRADSGP   72 (75)
T ss_dssp             SCCCEEBC--SSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHH-HCSSCTTTCCCCCC
T ss_pred             hCCcEEec--CccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHH-cCCcCcCcCCcCCC
Confidence            34444443  223456778999999943  34466789999999999999999 78899999999875

>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=99.53  E-value=4e-15  Score=97.86  Aligned_cols=54  Identities=39%  Similarity=0.949  Sum_probs=45.3

Q ss_pred             ccccccccccccccC--CCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSG--TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ...++..|+||++..  ...++.++|+|.||..||..|+. .+.+||+||..+....
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLI-TNKKCPICRVDIEAQL   65 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHH-HCSBCTTTCSBSCSCC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHH-cCCCCcCcCccccCcC
Confidence            456678999999943  34567789999999999999999 7889999999987754

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

Probab=99.53  E-value=4.3e-15  Score=93.37  Aligned_cols=49  Identities=31%  Similarity=0.863  Sum_probs=40.8

Q ss_pred             ccccccccccccC--CCceEEec-CCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          130 EEEERCAICLGSG--TGSVIQMD-CLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       130 ~~~~~C~ICl~~~--~~~~~~l~-C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      +++..|+||++..  .+.+..++ |+|.||..||.+|++ .+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG-SHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTT-TCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHH-cCCcCcCCCCEeE
Confidence            4577999999943  33455576 999999999999999 8899999999874

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

Probab=99.52  E-value=5.7e-15  Score=100.57  Aligned_cols=52  Identities=35%  Similarity=0.807  Sum_probs=41.5

Q ss_pred             cccccccccccccCCC-------------ceEEe-cCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTG-------------SVIQM-DCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~-------------~~~~l-~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      +.++..|+||++...+             .++.+ +|+|.||..||.+|+. .+.+||+||+++...
T Consensus        12 ~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVK-QNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             SCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTT-TCCBCTTTCCBCCEE
T ss_pred             cCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHH-hCCCCCCcCCCcchh
Confidence            3467789999994432             24445 5999999999999999 889999999998654

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

Probab=99.51  E-value=7.8e-15  Score=97.77  Aligned_cols=55  Identities=31%  Similarity=0.675  Sum_probs=45.0

Q ss_pred             ccccccccccccccC--CCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          128 EEEEEERCAICLGSG--TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ...++..|+||++..  ...+..++|+|.||..||..|++ .+.+||+||..+.....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLE-VRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHH-HCSBCTTTCCBCSSCCS
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHH-cCCcCCCcCcccccccc
Confidence            345678999999943  34456679999999999999999 77899999999876443

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

Probab=99.50  E-value=1.2e-14  Score=91.17  Aligned_cols=49  Identities=27%  Similarity=0.579  Sum_probs=41.3

Q ss_pred             ccccccccccccCC---CceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          130 EEEERCAICLGSGT---GSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       130 ~~~~~C~ICl~~~~---~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      .++..|+||++...   ..+..++|+|.||..||.+|+. .+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHH-HTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHH-cCCcCCCCCCcCC
Confidence            45789999999442   3466689999999999999999 7799999999874

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

Probab=99.50  E-value=3.1e-15  Score=98.74  Aligned_cols=58  Identities=19%  Similarity=0.561  Sum_probs=47.1

Q ss_pred             cccccccccccccCCC------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          129 EEEEERCAICLGSGTG------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ..++..|+||++...+      .++.++|||.||..||.+|++ .+.+||+||..+......++|
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHH-HCSBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHH-cCCCCCCCCCccChhheeecc
Confidence            4567899999994332      335689999999999999999 788999999999876665544

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

Probab=99.50  E-value=1.1e-14  Score=98.04  Aligned_cols=55  Identities=31%  Similarity=0.717  Sum_probs=45.5

Q ss_pred             ccccccccccccccCC--CceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          128 EEEEEERCAICLGSGT--GSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~--~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ...++..|+||++...  ..+..++|+|.||..||..|++ .+.+||+||..+.....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLE-QHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHT-TTCSCTTTCCCCCCSCS
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHH-cCCcCcCcCCccCCccc
Confidence            4556789999999443  4456679999999999999999 88999999999876543

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

Probab=99.48  E-value=1.6e-14  Score=94.66  Aligned_cols=50  Identities=36%  Similarity=0.893  Sum_probs=44.2

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .++..|+||++...+++..++|+|.||..|+..|+. .+.+||+||..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~-~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHH-HSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHh-CcCcCcCCChhhHh
Confidence            357799999997777667789999999999999999 88999999999864

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

Probab=99.47  E-value=5.8e-15  Score=95.31  Aligned_cols=56  Identities=20%  Similarity=0.577  Sum_probs=46.1

Q ss_pred             cccccccccccCCC------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          131 EEERCAICLGSGTG------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       131 ~~~~C~ICl~~~~~------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ++..|+||++...+      .+..++|||.||..||..|+. .+.+||+||..+......+.|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHH-HCSBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHH-cCCCCCCCCccCCccceeeee
Confidence            46799999994332      345689999999999999999 788999999999887666554

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

Probab=99.47  E-value=2e-14  Score=95.48  Aligned_cols=56  Identities=27%  Similarity=0.497  Sum_probs=47.5

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~  184 (192)
                      ...+...|+||++...+++..++|+|.||..||..|++ .+..||+||..+......
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           11 ELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFY-YSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             CCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHH-HCSSCTTTCCCCCSSCSC
T ss_pred             hcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHH-cCCcCCCcCcccCccccc
Confidence            34567899999998777777459999999999999999 789999999999775543

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

Probab=99.47  E-value=1.8e-14  Score=95.39  Aligned_cols=54  Identities=26%  Similarity=0.483  Sum_probs=46.2

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ...++..|+||++...+++. ++|+|.||..||..|+. .+..||+||..+.....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~-~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~~~   64 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVS-LPCKHVFCYLCVKGASW-LGKRCALCRQEIPEDFL   64 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEE-ETTTEEEEHHHHHHCTT-CSSBCSSSCCBCCHHHH
T ss_pred             cCCCCCCCccCCcccCCCEE-ccCCCHHHHHHHHHHHH-CCCcCcCcCchhCHhhc
Confidence            35567899999997777655 89999999999999999 78999999999987543

>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=99.47  E-value=3.7e-14  Score=101.44  Aligned_cols=50  Identities=30%  Similarity=0.586  Sum_probs=41.6

Q ss_pred             cccccccccccccCCC-----------------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          129 EEEEERCAICLGSGTG-----------------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~-----------------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      +.+++.|+||++...+                 .++.++|+|.||..||.+|+. .+.+||+||+++.
T Consensus        34 d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           34 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLK-TRQVCPLDNREWE  100 (106)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHT-TCSBCSSSCSBCC
T ss_pred             CCCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHH-cCCcCcCCCCcce
Confidence            4467899999994332                 256679999999999999999 8999999999864

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

Probab=99.43  E-value=2.6e-14  Score=93.59  Aligned_cols=52  Identities=21%  Similarity=0.595  Sum_probs=42.5

Q ss_pred             ccccccccccccccCCC------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTG------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ...+...|+||++...+      .+..++|+|.||..||..|+. .+.+||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHH-HCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHH-cCCCCCCCCCccCc
Confidence            35567899999994332      235589999999999999999 78899999998753

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

Probab=99.42  E-value=8.5e-14  Score=90.77  Aligned_cols=52  Identities=21%  Similarity=0.496  Sum_probs=44.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ..+...|+||++...+++. ++|||.||..||..|+...+..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESSCCC-CSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcCeeE-CCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            4567899999997777666 899999999999999953677899999998764

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

Probab=99.42  E-value=2.8e-14  Score=94.05  Aligned_cols=51  Identities=39%  Similarity=0.957  Sum_probs=44.2

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..+...|+||++...+  +.++|+|.||..||..|+. .+.+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~--~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD--LILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSCCS--EEETTTEEECHHHHHHSSC-CCSSCHHHHHCTTCCC
T ss_pred             CCCCCCCeeCCcCccC--cccCCCCcccHHHHHHHHH-CcCcCCCcCCcccCCC
Confidence            4567899999996666  5589999999999999999 8999999999987644

>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=99.41  E-value=1.3e-13  Score=99.15  Aligned_cols=50  Identities=26%  Similarity=0.565  Sum_probs=39.2

Q ss_pred             cccccccccccCCC-----------------ceEEecCCCccChHhHHHHHh----CCCCCCcccCcccch
Q 047298          131 EEERCAICLGSGTG-----------------SVIQMDCLHQFHEKCIACWFD----NRNYSCPLCRFDMAT  180 (192)
Q Consensus       131 ~~~~C~ICl~~~~~-----------------~~~~l~C~H~Fh~~CI~~Wl~----~~~~~CP~CR~~l~~  180 (192)
                      .+..|+||++....                 .+..++|+|+||..||..|+.    ..+.+||+||..+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            45799999994422                 223579999999999999994    157799999998854

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

Probab=99.41  E-value=6.7e-14  Score=104.37  Aligned_cols=48  Identities=35%  Similarity=0.859  Sum_probs=42.5

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ++..|+||++...+++. ++|||.||..||..|+. .+.+||+||.++..
T Consensus        52 ~~~~C~iC~~~~~~~~~-~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSEEE-ETTSCEEEHHHHHHHTT-TCSBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCceE-CCCCCCccHHHHHHHHH-cCCcCCCCCCcCCC
Confidence            45689999997777665 89999999999999999 88999999999864

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

Probab=99.40  E-value=1.4e-13  Score=93.34  Aligned_cols=50  Identities=32%  Similarity=0.561  Sum_probs=43.9

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ...+...|+||++...+++. ++|+|.||..||..|+. ....||+||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNPVV-TKCRHYFCESCALEHFR-ATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSEEE-CTTSCEEEHHHHHHHHH-HCSBCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchhcCeeE-ccCCCHhHHHHHHHHHH-CCCcCCCcCcccc
Confidence            34567899999998777665 89999999999999999 8889999999975

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

Probab=99.39  E-value=1.8e-13  Score=92.01  Aligned_cols=53  Identities=25%  Similarity=0.376  Sum_probs=45.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..++..|+||++.+.+++. ++|||.||..||..|+..++.+||+||..+....
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~-~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVI-VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEE-ETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccccccCCEE-cCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            4467899999998888776 7999999999999999834889999999987543

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

Probab=99.39  E-value=8.8e-14  Score=98.24  Aligned_cols=55  Identities=24%  Similarity=0.508  Sum_probs=45.5

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ..++..|+||++...+++..++|||.||..||..|+......||+||..+.....
T Consensus        19 l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l   73 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL   73 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHh
Confidence            3467899999998777766589999999999999999333799999999876543

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

Probab=99.39  E-value=2.2e-13  Score=90.90  Aligned_cols=51  Identities=24%  Similarity=0.535  Sum_probs=43.1

Q ss_pred             ccccccccccccccCCCceEEec-CCCccChHhHHHHHhCCC--CCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVIQMD-CLHQFHEKCIACWFDNRN--YSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~~~--~~CP~CR~~l~~  180 (192)
                      ...++..|+||++...+++. ++ |+|.||..||..|+. .+  ..||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~-~~~CgH~fC~~Ci~~~~~-~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           11 PIPDELLCLICKDIMTDAVV-IPCCGNSYCDECIRTALL-ESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CSCGGGSCSSSCCCCTTCEE-CSSSCCEECTTHHHHHHH-HSSSSCCSSSCCSSCC
T ss_pred             cCCCCCCCcCCChHHhCCeE-cCCCCCHHHHHHHHHHHH-hcCCCcCCCCCCcCCC
Confidence            34567899999998888776 88 999999999999998 43  689999997544

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

Probab=99.38  E-value=2.1e-13  Score=90.35  Aligned_cols=53  Identities=34%  Similarity=0.659  Sum_probs=43.9

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhC--CCCCCcccCcccchh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLCRFDMATA  181 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~CR~~l~~~  181 (192)
                      ...++..|+||++...+++. ++|+|.||..||..|++.  ....||+||..+...
T Consensus        16 ~~~~~~~C~IC~~~~~~~~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPVT-IDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEEE-CTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             hCccCCEeccCCcccCCeEE-cCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            34567899999997777665 799999999999999962  456899999998754

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

Probab=99.36  E-value=2.1e-13  Score=88.62  Aligned_cols=54  Identities=19%  Similarity=0.442  Sum_probs=42.9

Q ss_pred             cccccccccc-cCCCce---EEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhh
Q 047298          131 EEERCAICLG-SGTGSV---IQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       131 ~~~~C~ICl~-~~~~~~---~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~  184 (192)
                      ++..|+||++ ...++.   ..++|||.||..||..|+......||+||..+......
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            4678999999 554443   44799999999999999774567899999999765443

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

Probab=99.35  E-value=2.6e-13  Score=95.35  Aligned_cols=51  Identities=24%  Similarity=0.579  Sum_probs=44.4

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .+...|+||++...+++..++|||.||..||..|+. .+..||+||..+...
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS-YKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHT-TCCBCTTTCCBCCGG
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHH-CCCCCCCCCCcCChh
Confidence            356899999998777776449999999999999999 889999999998764

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

Probab=99.35  E-value=1.8e-13  Score=91.98  Aligned_cols=57  Identities=28%  Similarity=0.586  Sum_probs=46.3

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCC------CCCCcccCcccchhhhhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR------NYSCPLCRFDMATAVIES  185 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~------~~~CP~CR~~l~~~~~~~  185 (192)
                      ...++..|+||++...+++. ++|||.||..||..|+...      ...||+||..+.......
T Consensus         8 ~~~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~   70 (79)
T 2egp_A            8 NVQEEVTCPICLELLTEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA   70 (79)
T ss_dssp             CCCCCCEETTTTEECSSCCC-CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGT
T ss_pred             hcccCCCCcCCCcccCCeeE-CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCc
Confidence            34567899999997777665 8999999999999999831      678999999998755443

>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=4.7e-13  Score=91.65  Aligned_cols=55  Identities=22%  Similarity=0.440  Sum_probs=43.3

Q ss_pred             ccccccccccccccCCC---ceEEecCCCccChHhHHHHHhCC--CCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGTG---SVIQMDCLHQFHEKCIACWFDNR--NYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~---~~~~l~C~H~Fh~~CI~~Wl~~~--~~~CP~CR~~l~~~~  182 (192)
                      ...+...|+||++...+   ..+.++|||.||..||..|+...  ...||+||..+....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            45567899999995544   14558999999999999999832  378999999886643

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

Probab=99.35  E-value=5.8e-13  Score=90.34  Aligned_cols=55  Identities=31%  Similarity=0.653  Sum_probs=45.7

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCC-----CCCCcccCcccchhhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR-----NYSCPLCRFDMATAVIE  184 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~-----~~~CP~CR~~l~~~~~~  184 (192)
                      ..++..|+||++...+++. ++|+|.||..||..|+...     ...||+||..+......
T Consensus        16 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK   75 (85)
T ss_dssp             CCTTTSCTTTCSCCSSCEE-CTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCE
T ss_pred             CccCCCCcCCChhhCccee-CCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCC
Confidence            4567899999998777765 8999999999999999831     67899999999875433

>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=99.34  E-value=1.1e-13  Score=100.52  Aligned_cols=51  Identities=29%  Similarity=0.560  Sum_probs=2.3

Q ss_pred             cccccccccccccCCC-----------------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTG-----------------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~-----------------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      +.+++.|+||++...+                 .+..++|+|.||..||.+|+. .+.+||+||+++..
T Consensus        45 d~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~-~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           45 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLK-TRQVCPLDNREWEF  112 (117)
T ss_dssp             CCCC-----------------------------------------------------------------
T ss_pred             cCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHH-cCCcCCCCCCeeee
Confidence            4567899999994322                 223359999999999999999 89999999998643

>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=99.34  E-value=6.6e-13  Score=94.78  Aligned_cols=52  Identities=23%  Similarity=0.648  Sum_probs=45.5

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ..++..|+||++...+++..++|||.||..||..|+. .+..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLE-TSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHT-SCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHH-hCCcCcCCCcccccc
Confidence            4568899999998888777449999999999999999 789999999998764

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

Probab=99.33  E-value=6.6e-13  Score=90.07  Aligned_cols=55  Identities=33%  Similarity=0.678  Sum_probs=45.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhC-----CCCCCcccCcccchhhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN-----RNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----~~~~CP~CR~~l~~~~~~  184 (192)
                      ..+...|+||++...+++. ++|+|.||..|+..|+..     ....||+||..+......
T Consensus        16 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLS-LDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBC-CSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCC
T ss_pred             ccCCCCCCCCCcccCCcee-CCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcC
Confidence            4567899999997777665 799999999999999982     278899999999875433

>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=99.31  E-value=7.2e-13  Score=96.83  Aligned_cols=50  Identities=28%  Similarity=0.666  Sum_probs=42.9

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .++..|+||++...+++. ++|||.||..||..|+......||+||..+..
T Consensus        50 ~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPIT-TVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEE-CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCcEE-eeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            356799999998777766 79999999999999998445599999999866

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

Probab=99.29  E-value=2e-12  Score=83.30  Aligned_cols=46  Identities=39%  Similarity=0.746  Sum_probs=38.7

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhC--CCCCCccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLC  174 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~C  174 (192)
                      ...++..|+||++...+++. ++|||.||..||..|++.  ....||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVT-IDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEE-CTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCeEE-eCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34567899999997777766 799999999999999973  35589998

>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=99.28  E-value=1.4e-12  Score=99.91  Aligned_cols=51  Identities=31%  Similarity=0.709  Sum_probs=43.7

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+...|+||++...+++..++|||.||..||..|+......||+||..+..
T Consensus        52 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            456799999998888777559999999999999999448889999999854

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

Probab=99.28  E-value=1.8e-12  Score=89.73  Aligned_cols=51  Identities=24%  Similarity=0.527  Sum_probs=42.5

Q ss_pred             ccccccccccccccCCCceEEec-CCCccChHhHHHHHhC-CCCCCcccCcccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMD-CLHQFHEKCIACWFDN-RNYSCPLCRFDMA  179 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~-C~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~  179 (192)
                      ...++..|+||++.+.+++. ++ |||.||..||..|+.. ....||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSSCEE-CTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcCceE-CCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            34567899999998777776 88 9999999999999962 3368999999873

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

Probab=99.28  E-value=1.3e-12  Score=88.81  Aligned_cols=54  Identities=24%  Similarity=0.709  Sum_probs=41.1

Q ss_pred             ccccccccccccccC-CCceEEecCC-----CccChHhHHHHHhCC-CCCCcccCcccchh
Q 047298          128 EEEEEERCAICLGSG-TGSVIQMDCL-----HQFHEKCIACWFDNR-NYSCPLCRFDMATA  181 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~-~~~~~~l~C~-----H~Fh~~CI~~Wl~~~-~~~CP~CR~~l~~~  181 (192)
                      ...++..|.||++.. .+....+||+     |.||..||.+|+... ..+||+||+.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            345678999999832 2233458996     999999999999832 25899999998764

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

Probab=99.28  E-value=9.6e-13  Score=96.35  Aligned_cols=57  Identities=19%  Similarity=0.576  Sum_probs=46.7

Q ss_pred             ccccccccccccCCCc------eEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          130 EEEERCAICLGSGTGS------VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~------~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      .++..|+||++...++      ++.++|||.||..||..|++ .+.+||+||+.+........+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~l~~l~   67 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHPIY   67 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHT-TCSBCTTTCCBCTTTCEEECB
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHH-hCCCCCCCCCcCccccccccc
Confidence            4578999999954333      36689999999999999999 888999999999876665544

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

Probab=99.27  E-value=2.5e-12  Score=81.23  Aligned_cols=46  Identities=35%  Similarity=1.009  Sum_probs=38.3

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhC--CCCCCccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLC  174 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~~~CP~C  174 (192)
                      ...+...|+||++...+++. ++|+|.||..||..|+..  .+..||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEPVI-IECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSCCC-CSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCccEe-CCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34567899999997777665 899999999999999652  67789998

>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=99.25  E-value=2.2e-12  Score=93.13  Aligned_cols=53  Identities=25%  Similarity=0.423  Sum_probs=45.3

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..++..|+||++...+++. ++|||.||..||..|+.....+||+||..+....
T Consensus        20 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           20 FVKSISCQICEHILADPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHHHTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             ccCCCCCCCCCcHhcCcEE-cCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            3457899999998877776 8999999999999999844779999999987654

>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=99.25  E-value=8.9e-13  Score=95.08  Aligned_cols=52  Identities=23%  Similarity=0.601  Sum_probs=44.6

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ...++..|+||++...+++. ++|||.||..||..|+......||+||..+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEE-CTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCceeE-cCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            34567899999998777766 79999999999999998447789999999875

>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=99.24  E-value=2.9e-12  Score=91.56  Aligned_cols=51  Identities=27%  Similarity=0.613  Sum_probs=42.9

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCC---CCCcccCcccchhhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN---YSCPLCRFDMATAVI  183 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~---~~CP~CR~~l~~~~~  183 (192)
                      +...|+||++...+++. ++|||.||..||..|+. .+   ..||+||..+.....
T Consensus        20 ~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~-~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLELIKEPVS-TKCDHIFCKFCMLKLLN-QKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHH-SSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccChhhcCeEE-CCCCCHHHHHHHHHHHH-hCCCCCCCcCCCCcCCHhhc
Confidence            46799999997777666 89999999999999998 44   489999999876543

>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=99.24  E-value=2.9e-12  Score=96.96  Aligned_cols=51  Identities=27%  Similarity=0.662  Sum_probs=43.8

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .+...|+||++...+++. ++|||.||..||..|+......||+||..+...
T Consensus        76 ~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVT-TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEE-CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhhcCCEE-cCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            356799999998888776 899999999999999994445899999998865

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

Probab=99.24  E-value=1.5e-12  Score=95.28  Aligned_cols=58  Identities=19%  Similarity=0.559  Sum_probs=48.4

Q ss_pred             cccccccccccccCC------CceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          129 EEEEERCAICLGSGT------GSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~------~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ..+...|+||++...      ...+.++|||.||..||.+|++ .+.+||+||..+......++|
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHH-HCSBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHH-cCCCCCCCCCcCChhcceeee
Confidence            456788999999432      2335579999999999999999 889999999999998877665

>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=99.23  E-value=3.6e-12  Score=92.39  Aligned_cols=54  Identities=24%  Similarity=0.399  Sum_probs=45.0

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ...+...|+||++...+++. ++|||.||..||..|+.....+||+||..+....
T Consensus        14 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           14 PLESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcCChhhcCeEE-CCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            34567899999998777765 8999999999999999833449999999987653

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

Probab=99.23  E-value=5.9e-12  Score=84.12  Aligned_cols=54  Identities=22%  Similarity=0.415  Sum_probs=43.1

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCC--CCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--~~CP~CR~~l~~~~  182 (192)
                      -.+....|+||.+.......-..|+|.||..||.+||+ .+  .+||+||.+...++
T Consensus        11 y~~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~-~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQ-SNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHST-TCSSCCCTTTCSCCCSCC
T ss_pred             ccCCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHH-hcCCCCCCCCcCcCCCCC
Confidence            35567899999995444444458999999999999998 55  78999999887543

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

Probab=99.21  E-value=6.6e-12  Score=86.12  Aligned_cols=52  Identities=13%  Similarity=0.024  Sum_probs=46.4

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..+...|+||++.+.+++. ++|||.|+..||..|+. .+.+||+||..+....
T Consensus        11 ~p~~~~CpI~~~~m~dPV~-~~cGhtf~r~~I~~~l~-~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVR-LPSGTVMDRSIILRHLL-NSPTDPFNRQMLTESM   62 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHH-HCSBCTTTCCBCCGGG
T ss_pred             CchheECcccCchhcCCeE-CCCCCEECHHHHHHHHh-cCCCCCCCcCCCChHh
Confidence            3467899999999999887 89999999999999999 7889999999987654

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=99.20  E-value=7.8e-12  Score=81.22  Aligned_cols=51  Identities=27%  Similarity=0.458  Sum_probs=42.6

Q ss_pred             cccccccccccccCCCceE-EecCCCc-cChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVI-QMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~-~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      +.++..|+||++...+.+. .+||||. ||..|+..|.+ .+..||+||+++..
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CPiCR~~i~~   57 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKK-RNKPCPVCRQPIQM   57 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHH-TTCCCTTTCCCCCE
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHH-cCCcCCCcCcchhc
Confidence            4467799999997766554 1399999 89999999998 88899999999854

>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=99.19  E-value=8.4e-12  Score=88.21  Aligned_cols=52  Identities=13%  Similarity=0.041  Sum_probs=46.3

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..+...|+||++.+.+++. ++|||.||..||..|+. .+.+||+||..+....
T Consensus        26 ~p~~~~CpI~~~~m~dPV~-~~cGhtf~r~~I~~~l~-~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVR-LPSGTIMDRSIILRHLL-NSPTDPFNRQTLTESM   77 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEE-ETTTEEEEHHHHHHHTT-SCSBCSSSCCBCCTTS
T ss_pred             CcHhhCCcCccCcccCCeE-CCCCCEEchHHHHHHHH-cCCCCCCCCCCCChhh
Confidence            3467899999999999887 88999999999999999 7899999999987643

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

Probab=99.17  E-value=1.2e-11  Score=80.07  Aligned_cols=52  Identities=17%  Similarity=0.312  Sum_probs=42.7

Q ss_pred             ccccccccccccccCCCceE-EecCCCc-cChHhHHHHHhCCCCCCcccCcccch
Q 047298          128 EEEEEERCAICLGSGTGSVI-QMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~-~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+.....|+||++...+.+. .+||||. ||..|+..|.+ .+..||+||+++..
T Consensus         3 ~~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CPiCR~~i~~   56 (63)
T 2vje_B            3 CQNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKK-AGASCPICKKEIQL   56 (63)
T ss_dssp             CGGGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHH-TTCBCTTTCCBCCE
T ss_pred             CCCcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHH-hCCcCCCcCchhhc
Confidence            34567899999997666544 2399998 99999999998 77899999999854

>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=99.17  E-value=1.4e-11  Score=86.72  Aligned_cols=52  Identities=13%  Similarity=0.026  Sum_probs=46.3

Q ss_pred             cccccccccccccCCCceEEecCC-CccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCL-HQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..+...|+||++.+.++++ ++|| |.|+..||..|+. .+.+||+||..+....
T Consensus        19 ~p~~~~CpI~~~~m~dPV~-~~cG~htf~r~cI~~~l~-~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVV-LPSSRVTVDRSTIARHLL-SDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEE-CTTTCCEEEHHHHHHHTT-TSCBCTTTCSBCCTTT
T ss_pred             CcHhcCCcCccccccCCeE-CCCCCeEECHHHHHHHHH-hCCCCCCCCCCCChhh
Confidence            3467899999999999887 8999 9999999999999 7889999999987644

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

Probab=99.16  E-value=1.5e-11  Score=83.09  Aligned_cols=54  Identities=20%  Similarity=0.391  Sum_probs=41.6

Q ss_pred             cccccccccccccCC-CceEEec--CCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGT-GSVIQMD--CLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~-~~~~~l~--C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ..++.+|+||++... .+...++  |||.||..|+..|.......||+||+.+....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            456789999999442 2233344  99999999999998646788999999987644

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

Probab=99.14  E-value=8.7e-12  Score=93.39  Aligned_cols=51  Identities=18%  Similarity=0.402  Sum_probs=43.2

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      ...+...|+||++...+++. ++|||.||..||..|+......||+||.++.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~-~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQ-AQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEE-CCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            34578899999998888766 8999999999999999844458999999763

>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=99.10  E-value=3.4e-11  Score=103.45  Aligned_cols=51  Identities=24%  Similarity=0.640  Sum_probs=43.1

Q ss_pred             ccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          132 EERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ...|+||++...+++. ++|||.||..|+..|+.....+||+||..+.....
T Consensus       332 ~~~C~ICle~~~~pv~-lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~  382 (389)
T 2y1n_A          332 FQLCKICAENDKDVKI-EPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP  382 (389)
T ss_dssp             SSBCTTTSSSBCCEEE-ETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEE
T ss_pred             CCCCCccCcCCCCeEE-eCCCChhhHHHHHHHHhcCCCCCCCCCCccCCcee
Confidence            4799999997766554 89999999999999998557889999999877543

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

Probab=99.06  E-value=3e-11  Score=76.23  Aligned_cols=48  Identities=23%  Similarity=0.592  Sum_probs=39.7

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      +.+...|+||++...+++. ++|+|.||..||..|    ...||+||+.+...
T Consensus         3 e~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKL-LPCLHTLCSGCLEAS----GMQCPICQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSC-STTSCCSBTTTCSSS----SSSCSSCCSSSSCC
T ss_pred             cccCCCceEeCCccCCeEE-cCCCCcccHHHHccC----CCCCCcCCcEeecC
Confidence            4567889999997777655 899999999998874    46899999988653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.05  E-value=8.2e-11  Score=96.16  Aligned_cols=54  Identities=11%  Similarity=0.004  Sum_probs=45.8

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ...+...|+||++.+.+|++ ++|||.||..||..|+.....+||+||.++....
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~-~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEE-CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCCcccCCcCcCCHhcCCeE-CCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            34567899999999999887 8999999999999999844556999999997644

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

Probab=99.04  E-value=2.5e-11  Score=87.79  Aligned_cols=48  Identities=25%  Similarity=0.477  Sum_probs=41.2

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .+...|+||++...+++...+|||.||..||..|+.   ..||+||..+..
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~   67 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWI   67 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSC
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCcc
Confidence            457899999998888877339999999999999976   789999998854

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

Probab=99.04  E-value=4.8e-11  Score=79.56  Aligned_cols=46  Identities=26%  Similarity=0.613  Sum_probs=38.9

Q ss_pred             ccccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccchh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .++..|+||++...+.+. +||||. ||..|+..|     ..||+||..+...
T Consensus        22 ~~~~~C~iC~~~~~~~~~-~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVF-VPCGHLVTCKQCAEAV-----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEE-ETTCCBCCCHHHHTTC-----SBCTTTCCBCSEE
T ss_pred             ccCCCCCCCCCCCCCEEE-cCCCChhHHHHhhhcC-----ccCCCcCcCccCc
Confidence            356799999997777655 899999 999999988     6799999988653

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

Probab=99.01  E-value=1.4e-10  Score=88.97  Aligned_cols=54  Identities=24%  Similarity=0.399  Sum_probs=45.7

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      ...+...|+||++...+++. ++|||.||..||..|+.....+||+||..+....
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCChhhcCcEE-CCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            45578899999998888766 8999999999999999844559999999987643

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

Probab=99.00  E-value=1.6e-10  Score=80.51  Aligned_cols=52  Identities=21%  Similarity=0.394  Sum_probs=42.5

Q ss_pred             cccccccccccccCCCceEEe-cCCCccChHhHHHHHhCC-----CCCCcc--cCcc-cchh
Q 047298          129 EEEEERCAICLGSGTGSVIQM-DCLHQFHEKCIACWFDNR-----NYSCPL--CRFD-MATA  181 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~~-----~~~CP~--CR~~-l~~~  181 (192)
                      ..+...|+||++.+.++++ + .|||.|+..||..|+...     ..+||+  |+.. +...
T Consensus         4 ~~~~~~CPI~~~~~~dPV~-~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVK-NKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEE-ESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG
T ss_pred             CCcEeECcCcCchhcCCEE-cCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh
Confidence            3467899999999999887 7 499999999999999832     358999  9876 5443

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.96  E-value=3.3e-10  Score=87.88  Aligned_cols=55  Identities=13%  Similarity=0.016  Sum_probs=46.3

Q ss_pred             ccccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ...+...||||++.+.+|++ ++|||.|+..||..|+.....+||+||.++.....
T Consensus       102 ~ip~~f~CPI~~elm~DPV~-~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L  156 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQL  156 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCcHhhcccCccccCCCCeE-CCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhC
Confidence            34578899999999999887 79999999999999998334479999999876543

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

Probab=98.87  E-value=1e-09  Score=70.29  Aligned_cols=51  Identities=25%  Similarity=0.561  Sum_probs=40.1

Q ss_pred             cccccccccccccCCCceEEecCC--C---ccChHhHHHHHhC-CCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCL--H---QFHEKCIACWFDN-RNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~--H---~Fh~~CI~~Wl~~-~~~~CP~CR~~l~~  180 (192)
                      +++...|.||++...++. .+||.  |   .||..|+.+|+.. ++.+||+||+.+..
T Consensus         3 ~~~~~~CrIC~~~~~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            3 DEDVPVCWICNEELGNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCEeEEeecCCCCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456789999999655554 47865  4   9999999999973 46789999998753

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

Probab=98.85  E-value=6.3e-10  Score=74.19  Aligned_cols=45  Identities=27%  Similarity=0.633  Sum_probs=37.2

Q ss_pred             ccccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccch
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .++..|+||++...+++. +||||. ||..|+..     ...||+||..+..
T Consensus        23 ~~~~~C~IC~~~~~~~~~-~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVF-VPCGHLVTCKQCAEA-----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCC-SSSCCCCBCHHHHHH-----CSBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCCCCEEE-ecCCCHHHHHHHhhC-----CCCCccCCceecC
Confidence            346789999997777655 899999 99999954     3689999998865

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

Probab=98.83  E-value=2e-09  Score=70.59  Aligned_cols=48  Identities=25%  Similarity=0.689  Sum_probs=38.9

Q ss_pred             ccccccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccchh
Q 047298          128 EEEEEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ...+...|+||++...+.+. +||+|. ||..|+..     ...||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~-~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVL-LPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEE-TTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             cCCCCCCCCCcCcCCCCEEE-ECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            45567899999997666444 899999 99999984     36899999998763

>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=98.79  E-value=2.2e-09  Score=87.51  Aligned_cols=55  Identities=20%  Similarity=0.387  Sum_probs=45.6

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhC-CCCCCcc--cCcccchhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDN-RNYSCPL--CRFDMATAVI  183 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~~~CP~--CR~~l~~~~~  183 (192)
                      ...+..||||++.+.++++.+.|||.||..||..|+.. +...||+  ||..+.....
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL  235 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDF  235 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGE
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhC
Confidence            45668999999999999986699999999999999973 2357999  9998765443

>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=98.78  E-value=9.8e-10  Score=74.17  Aligned_cols=45  Identities=31%  Similarity=0.622  Sum_probs=37.6

Q ss_pred             cccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ++..|+||++...+.+. +||||. ||..|+..|     ..||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~~v~-~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTF-CPCGHTVCCESCAAQL-----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHTBCTTTSSSBCCEEE-ETTCBCCBCHHHHTTC-----SBCTTTCCBCCEE
T ss_pred             CCCEeEEeCcccCcEEE-ECCCCHHHHHHHHHhc-----CcCCCCCchhhCe
Confidence            46789999997766554 899999 999999877     3899999988764

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

Probab=98.78  E-value=1.2e-09  Score=92.11  Aligned_cols=54  Identities=30%  Similarity=0.748  Sum_probs=39.8

Q ss_pred             cccccccccccccCCC--ceE-----EecCCCccChHhHHHHHhCC----------CCCCcccCcccchhh
Q 047298          129 EEEEERCAICLGSGTG--SVI-----QMDCLHQFHEKCIACWFDNR----------NYSCPLCRFDMATAV  182 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~--~~~-----~l~C~H~Fh~~CI~~Wl~~~----------~~~CP~CR~~l~~~~  182 (192)
                      ++...+|+||++...+  .+-     ..+|+|.||..||.+|+++.          ..+||+||+++....
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf  375 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSF  375 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccH
Confidence            4567799999993322  111     23799999999999999731          157999999987643

>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=98.75  E-value=3.4e-09  Score=68.02  Aligned_cols=55  Identities=13%  Similarity=0.145  Sum_probs=46.7

Q ss_pred             ccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          132 EERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      ...|+||++.+.+++...+|||+|..+||.+|+. .+.+||+++.++......+..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~-~~~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVK-DTGNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHH-HHSBCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHH-hCCCCcCCcCCCChhhcEECc
Confidence            4689999998888877339999999999999999 677899999999887766554

>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=98.62  E-value=7.3e-09  Score=88.05  Aligned_cols=46  Identities=26%  Similarity=0.690  Sum_probs=39.0

Q ss_pred             ccccccccccccCCCceEEecCCCc-cChHhHHHHHhCCCCCCcccCcccchh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQ-FHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      .++..|+||++...+++. +||||. ||..|+..|     ..||+||..+...
T Consensus       293 ~~~~~C~IC~~~~~~~v~-lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVVF-IPCGHLVVCQECAPSL-----RKCPICRGIIKGT  339 (345)
T ss_dssp             HTTCBCTTTSSSBCCEEE-ETTCCEEECTTTGGGC-----SBCTTTCCBCCEE
T ss_pred             cCCCCCCccCCcCCceEE-cCCCChhHhHHHHhcC-----CcCCCCCCCccCe
Confidence            356799999998777665 899999 999999988     5799999998653

>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=98.56  E-value=2.5e-08  Score=69.06  Aligned_cols=54  Identities=24%  Similarity=0.551  Sum_probs=40.3

Q ss_pred             cccccccccccCCCc-eEEe-cCCCccChHhHHHHHhC----C---CCCCcc--cCcc--cchhhhh
Q 047298          131 EEERCAICLGSGTGS-VIQM-DCLHQFHEKCIACWFDN----R---NYSCPL--CRFD--MATAVIE  184 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~-~~~l-~C~H~Fh~~CI~~Wl~~----~---~~~CP~--CR~~--l~~~~~~  184 (192)
                      +..+|+||++....+ ...+ +|+|.||..|+..++..    +   .-.||.  |+..  +......
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~   70 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIE   70 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHH
Confidence            567899999954443 3444 79999999999999862    1   247999  9998  7665443

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=98.47  E-value=1.1e-07  Score=66.25  Aligned_cols=47  Identities=19%  Similarity=0.261  Sum_probs=37.3

Q ss_pred             ccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       134 ~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      .|++|--......+.+||.|+||.+|+..|.+++.++||+|+.++..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            47777664444556669999999999999987577899999998743

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

Probab=97.98  E-value=4.5e-06  Score=67.35  Aligned_cols=51  Identities=22%  Similarity=0.413  Sum_probs=39.6

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCC-CCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR-NYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~-~~~CP~CR~~l~~~  181 (192)
                      ....|.||.+......+.-.|+|.||..|+..|++.+ +..||.|+...+.+
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            4789999999544444434699999999999999832 34899999877654

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.04  E-value=0.012  Score=40.37  Aligned_cols=34  Identities=18%  Similarity=0.481  Sum_probs=26.0

Q ss_pred             ccccccccccc-CCCceEE-ecCCCccChHhHHH-HH
Q 047298          131 EEERCAICLGS-GTGSVIQ-MDCLHQFHEKCIAC-WF  164 (192)
Q Consensus       131 ~~~~C~ICl~~-~~~~~~~-l~C~H~Fh~~CI~~-Wl  164 (192)
                      ++..|+||.+. ...++.. +.|+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            46789999974 4444433 79999999999998 54

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.47  E-value=0.076  Score=33.92  Aligned_cols=48  Identities=23%  Similarity=0.445  Sum_probs=33.7

Q ss_pred             cccccccccccccCCCceE-EecCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          129 EEEEERCAICLGSGTGSVI-QMDCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      ...+..|.||.+.  +.++ --.|...||..|+.+.+..   ..=.||.|+...
T Consensus         9 ~~~~~~C~vC~~~--~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            9 LAPGARCGVCGDG--TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CCTTCCCTTTSCC--TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCCcCCCCCC--CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            4456789999863  2232 1278899999999988763   234799997653

>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=89.90  E-value=0.27  Score=46.61  Aligned_cols=55  Identities=11%  Similarity=0.089  Sum_probs=46.5

Q ss_pred             cccccccccccccCCCceEEecCC-CccChHhHHHHHhCCCCCCcccCcccchhhhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCL-HQFHEKCIACWFDNRNYSCPLCRFDMATAVIES  185 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~  185 (192)
                      ..+...|||=++.+.+||+ +|-| +.|-..+|.+|+. .+.+||+=|.++......+
T Consensus       888 iP~~F~cPIs~~lM~DPVi-lpsG~~TydR~~I~~wl~-~~~tdP~Tr~~L~~~~liP  943 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKDPVI-LPASKMNIDRSTIKAHLL-SDSTDPFNRMPLKLEDVTP  943 (968)
T ss_dssp             SCGGGBCTTTCSBCSSEEE-CTTTCCEEEHHHHHHHHT-TCCBCTTTCCBCCGGGCEE
T ss_pred             CcHHhCCcchhhHHhCCeE-cCCCCEEECHHHHHHHHh-cCCCCCCCCCCCCcccccc
Confidence            3456779999999999888 8887 5899999999999 7889999999998765443

>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=88.32  E-value=0.36  Score=32.24  Aligned_cols=36  Identities=22%  Similarity=0.452  Sum_probs=25.4

Q ss_pred             ccccccccccccccCCCceE-EecCCCccChHhHHHH
Q 047298          128 EEEEEERCAICLGSGTGSVI-QMDCLHQFHEKCIACW  163 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~W  163 (192)
                      ....++.|.||-....+... --.|+-+||..|+.+.
T Consensus        11 ~~~~D~~C~VC~~~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           11 PVVNDEMCDVCEVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTTCCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCCCcccCccccccccceeccccccccccHhhcccc
Confidence            34578999999874333221 1147899999999997

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=87.46  E-value=0.12  Score=33.44  Aligned_cols=51  Identities=22%  Similarity=0.401  Sum_probs=33.3

Q ss_pred             ccccccccccccccCCCceEEe--cCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          128 EEEEEERCAICLGSGTGSVIQM--DCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~l--~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      ...+...|.||.....+.....  .|.-.||..|+..-...   ..-.||.|+..+
T Consensus        14 ~~~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           14 WGNQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             SSCEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             cCCCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            3445667999988433322213  78889999999765431   245699997544

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=85.49  E-value=0.42  Score=28.40  Aligned_cols=43  Identities=28%  Similarity=0.713  Sum_probs=27.8

Q ss_pred             ccccccccCC-CceEE-ecCCCccChHhHHHHHhC---CCCCCcccCc
Q 047298          134 RCAICLGSGT-GSVIQ-MDCLHQFHEKCIACWFDN---RNYSCPLCRF  176 (192)
Q Consensus       134 ~C~ICl~~~~-~~~~~-l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~  176 (192)
                      .|.||..... +.++. -.|...||..|+.+=+..   ..-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            5889987432 22321 178889999999754431   2346999965

>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=85.42  E-value=0.18  Score=31.44  Aligned_cols=50  Identities=20%  Similarity=0.570  Sum_probs=33.1

Q ss_pred             cccccccccccccccCCCceE-EecCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          127 EEEEEEERCAICLGSGTGSVI-QMDCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      +.+..+..|.||.+.  +.++ --.|...||..|+.+-+..   ..-.||.|+...
T Consensus         4 ~~d~~~~~C~vC~~~--g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            4 GSDHHMEFCRVCKDG--GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSCSSCSSCTTTCCC--SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cccCCCCcCCCCCCC--CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            345567889999873  2222 1178889999999864441   334699997653

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=84.24  E-value=0.5  Score=29.36  Aligned_cols=47  Identities=26%  Similarity=0.724  Sum_probs=32.3

Q ss_pred             ccccccccccccccCCCceEE-ecCCCccChHhHHHHHhC---CCCCCcccCc
Q 047298          128 EEEEEERCAICLGSGTGSVIQ-MDCLHQFHEKCIACWFDN---RNYSCPLCRF  176 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~~-l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~  176 (192)
                      ....+..|.||...  +.++. -.|.-.||..|+..-+..   ..-.||.|+.
T Consensus         7 ~~~~~~~C~vC~~~--g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG--GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SSCCCSSCTTTSCC--SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             cCCCCCCCccCCCC--CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            35567889999873  23321 177889999999975431   3447999965

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=81.88  E-value=0.35  Score=37.53  Aligned_cols=48  Identities=25%  Similarity=0.592  Sum_probs=33.0

Q ss_pred             cccccccccccccCCCceEE-ecCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          129 EEEEERCAICLGSGTGSVIQ-MDCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~-l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      +..+..|.+|....  .+.. -.|...||..|+.+.+..   +.-.||.|+..-
T Consensus         4 d~~~~~C~~C~~~g--~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            4 DPNEDWCAVCQNGG--DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSCSSBTTTCCCE--EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCCCC--ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            45677899998632  2221 178889999999876652   334799998754

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=81.31  E-value=0.38  Score=36.50  Aligned_cols=46  Identities=28%  Similarity=0.653  Sum_probs=32.1

Q ss_pred             cccccccccccCCCceE-EecCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          131 EEERCAICLGSGTGSVI-QMDCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      .+..|.+|.+.  +.+. .-.|.-.||..|+.+-+..   +.-.||.|+..-
T Consensus         3 ~~~~C~~C~~~--g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            3 NEDWCAVCQNG--GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCSSCTTTCCC--SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCccccCCCC--CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            46789999863  2222 1278889999999876652   334699998754

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=81.14  E-value=1.3  Score=37.62  Aligned_cols=51  Identities=18%  Similarity=0.303  Sum_probs=36.2

Q ss_pred             cccccccccccCCCceEEecCCCccChHh--HHHHHh-CCCCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKC--IACWFD-NRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~C--I~~Wl~-~~~~~CP~CR~~l~~~  181 (192)
                      -...|||=......+++...|.|.-|.+-  +..+.. ...-.||+|...+...
T Consensus       248 vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~  301 (371)
T 3i2d_A          248 MSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALE  301 (371)
T ss_dssp             EESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGG
T ss_pred             EeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHH
Confidence            34789988888888999899999854443  333332 2456799999887543

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=80.97  E-value=0.52  Score=32.73  Aligned_cols=47  Identities=21%  Similarity=0.615  Sum_probs=30.6

Q ss_pred             cccccccccccccCC-Cc-eEEecCCCccChHhHHHHHhC---CCCCCcccC
Q 047298          129 EEEEERCAICLGSGT-GS-VIQMDCLHQFHEKCIACWFDN---RNYSCPLCR  175 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~-~~-~~~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR  175 (192)
                      ..++..|.||.+... .+ +.--.|...||..|+...+..   ..-.||.|+
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            346789999998432 22 222388999999999877541   233455553

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=80.54  E-value=1.4  Score=37.20  Aligned_cols=50  Identities=16%  Similarity=0.205  Sum_probs=35.7

Q ss_pred             ccccccccccCCCceEEecCCCccC--hHhHHHHHh-CCCCCCcccCcccchh
Q 047298          132 EERCAICLGSGTGSVIQMDCLHQFH--EKCIACWFD-NRNYSCPLCRFDMATA  181 (192)
Q Consensus       132 ~~~C~ICl~~~~~~~~~l~C~H~Fh--~~CI~~Wl~-~~~~~CP~CR~~l~~~  181 (192)
                      ...|||=......+++...|.|.-|  ..=...+.. ...-.||+|.+.+..+
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~  267 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYE  267 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGG
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHH
Confidence            4679988888888999889999844  333333333 2456799999988643

---

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	192
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-09
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-09
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-07
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-05

>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 = 3e-09
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 3/71 (4%)

Query: 108 TKKDVVKYLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNR 167
           T +D +K  Q Q  +    E     + C IC  +     I   C H     C+  W ++ 
Sbjct: 1   TPQDHIKVTQEQYELY--CEMGSTFQLCKICAENDKDVKI-EPCGHLMCTSCLTSWQESE 57

Query: 168 NYSCPLCRFDM 178
              CP CR ++
Sbjct: 58  GQGCPFCRCEI 68

>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 = 48.8 bits (116), Expect = 4e-09
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 133 ERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM 178
           ERC ICL   +   + + CLH F   CI  W      +CPLC+  +
Sbjct: 6   ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-TCPLCKVPV 50

>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 = 46.0 bits (109), Expect = 4e-08
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 130 EEEERCAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFD 177
           ++   CA+CL     G  +     C H FH +C+  W    + +CPLCR  
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWL-GSHSTCPLCRLT 52

>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 = 45.6 bits (108), Expect = 4e-08
 Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 5/51 (9%)

Query: 127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFD 177
           EEE +  RC  C          + CLH     C+    +     CP+C+  
Sbjct: 1   EEEFQFLRCQQCQAEAK-CPKLLPCLHTLCSGCL----EASGMQCPICQAP 46

>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 = 46.4 bits (110), Expect = 5e-08
 Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 1/61 (1%)

Query: 115 YLQSQPIVVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
           +L ++ + VD      +   C IC       V    C H F   CI          CP C
Sbjct: 6   HLSTKLLAVDFPAHFVKSISCQICEHILADPVETS-CKHLFCRICILRCLKVMGSYCPSC 64

Query: 175 R 175
           R
Sbjct: 65  R 65

>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 = 43.2 bits (101), Expect = 5e-07
 Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 4/49 (8%)

Query: 131 EEERCAICLG----SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           +++ C  C      + +  ++   C H   E C+   F     +CP C 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 42.5 bits (99), Expect = 7e-07
 Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 5/54 (9%)

Query: 128 EEEEEERCAICLGSGTGSVIQM----DCLHQFHEKCIACWFDNRNY-SCPLCRF 176
           E+E+   C IC         +       L   H  C++ W       +C +C  
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 41.3 bits (96), Expect = 5e-06
 Identities = 17/64 (26%), Positives = 21/64 (32%), Gaps = 18/64 (28%)

Query: 131 EEERCAICL-----------------GSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPL 173
             + CAIC                   S   +V    C H FH  CI+ W   R   CPL
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPL 78

Query: 174 CRFD 177
              +
Sbjct: 79  DNRE 82

>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 = 39.3 bits (91), Expect = 1e-05
 Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 3/44 (6%)

Query: 135 CAICLG---SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCR 175
           C +C+        +     C +Q    C      + N  CP CR
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 2e-05
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 3/56 (5%)

Query: 122 VVDCEEEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCR 175
           V +     ++   C ICL      V    C H F + C+    + +     CPLC+
Sbjct: 11  VQNVINAMQKILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

>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 = 39.0 bits (90), Expect = 3e-05
 Identities = 10/45 (22%), Positives = 15/45 (33%)

Query: 127 EEEEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSC 171
           +  E+  RC+ C       V    C H F   C++         C
Sbjct: 17  DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVC 61

>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 = 39.2 bits (90), Expect = 4e-05
 Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 21/71 (29%)

Query: 126 EEEEEEEERCAICLGSGTGSVIQMD-----------------CLHQFHEKCIACWFDNRN 168
           E +   EE C IC+     +    D                 C H FH  C+   + N N
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 169 ----YSCPLCR 175
                 CP C+
Sbjct: 79  KDGSLQCPSCK 89

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	192
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.59
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.53
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.5
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.49
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.43
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.43
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.41
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.34
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.29
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.28
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.27
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.21
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.96
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.47
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.8
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	89.55
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	86.34
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	85.7
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	82.57
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	80.74
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	80.19

>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=4.1e-17  Score=101.87  Aligned_cols=49  Identities=31%  Similarity=0.897  Sum_probs=40.7

Q ss_pred             cccccccccccc--CCCceEEe-cCCCccChHhHHHHHhCCCCCCcccCcccc
Q 047298          130 EEEERCAICLGS--GTGSVIQM-DCLHQFHEKCIACWFDNRNYSCPLCRFDMA  179 (192)
Q Consensus       130 ~~~~~C~ICl~~--~~~~~~~l-~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~  179 (192)
                      +++.+|+||++.  .++.++.+ +|+|.||..||.+|++ .+.+||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~-~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG-SHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTT-TCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHH-hCCcCCCCCCEeE
Confidence            356789999993  33456656 6999999999999999 8999999999874

>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=99.59  E-value=2.2e-16  Score=102.70  Aligned_cols=49  Identities=37%  Similarity=0.912  Sum_probs=43.3

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      ..+.|+||++...++++.++|+|.||..||..|++ .+.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHH-HSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHH-hCCcCCCCCcchHh
Confidence            45689999997777777789999999999999999 88999999998854

>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=99.53  E-value=3.1e-15  Score=96.32  Aligned_cols=51  Identities=20%  Similarity=0.507  Sum_probs=40.7

Q ss_pred             ccccccccccc---C-CCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          131 EEERCAICLGS---G-TGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~---~-~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      ++..|+||++.   . ...+..++|+|.||..||.+|+.+++..||+||+.+...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            57899999982   2 223455699999999999999974667899999998654

>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=99.52  E-value=3e-15  Score=100.03  Aligned_cols=50  Identities=22%  Similarity=0.642  Sum_probs=41.9

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      +...|+||++...+.+ .++|||.||..||..|+..+..+||+||..|...
T Consensus        22 ~~~~C~IC~~~~~~~~-~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          22 TFQLCKICAENDKDVK-IEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             CTTBCTTTSSSBCCEE-CSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCCccCCCcCCCeE-EeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            3457999999776654 4899999999999999985667899999999753

>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=99.50  E-value=2.2e-15  Score=92.81  Aligned_cols=47  Identities=21%  Similarity=0.440  Sum_probs=37.6

Q ss_pred             ccccccccCC--C-ceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          134 RCAICLGSGT--G-SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       134 ~C~ICl~~~~--~-~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      +|+||++...  + .++.++|||.||..|+.+|++.++.+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            7999999432  2 234459999999999999998556689999998864

>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=99.49  E-value=1e-14  Score=99.36  Aligned_cols=51  Identities=29%  Similarity=0.560  Sum_probs=40.3

Q ss_pred             cccccccccccccCCC-----------------ceEEecCCCccChHhHHHHHhCCCCCCcccCcccch
Q 047298          129 EEEEERCAICLGSGTG-----------------SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT  180 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~-----------------~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~  180 (192)
                      +..++.|+||++...+                 .+..++|+|+||..||.+||+ .+.+||+||++...
T Consensus        18 d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~~~   85 (88)
T d3dplr1          18 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLK-TRQVCPLDNREWEF   85 (88)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHT-TCSBCSSSCSBCCE
T ss_pred             cCCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHH-HCCcCCCCCCcccc
Confidence            3456679999882211                 345579999999999999999 89999999998753

>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=99.43  E-value=1.4e-14  Score=90.43  Aligned_cols=53  Identities=13%  Similarity=0.160  Sum_probs=46.5

Q ss_pred             ccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhhhcc
Q 047298          134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMF  187 (192)
Q Consensus       134 ~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~~~~  187 (192)
                      .|+||++.+.+++....|||+||.+||.+|++ .+.+||+||+++..++..+++
T Consensus         2 ~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~-~~~~CP~c~~~l~~~dLipik   54 (56)
T d2baya1           2 LCAISGKVPRRPVLSPKSRTIFEKSLLEQYVK-DTGNDPITNEPLSIEEIVEIV   54 (56)
T ss_dssp             CCTTTCSCCSSEEEETTTTEEEEHHHHHHHHH-HHSBCTTTCCBCCGGGCEECC
T ss_pred             CCccCCchHHhcCccCCCCCcccHHHHHHHHh-hccCCCccCCcCCHHhceeCC
Confidence            69999998888887557999999999999999 888999999999887765543

>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=99.43  E-value=1.8e-14  Score=97.55  Aligned_cols=52  Identities=25%  Similarity=0.486  Sum_probs=44.5

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      +...|+||++.+.+++. ++|||.||..||..|++.++..||+||.++.....
T Consensus        22 ~~l~C~IC~~~~~~pv~-~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l   73 (86)
T d1rmda2          22 KSISCQICEHILADPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (86)
T ss_dssp             HHTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cCcCCccCCcchhccee-cCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhc
Confidence            45789999998888766 89999999999999997566789999999876543

>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=99.41  E-value=8.1e-14  Score=98.91  Aligned_cols=51  Identities=27%  Similarity=0.562  Sum_probs=38.4

Q ss_pred             cccccccccccCC-----------------CceEEecCCCccChHhHHHHHhCC----CCCCcccCcccchh
Q 047298          131 EEERCAICLGSGT-----------------GSVIQMDCLHQFHEKCIACWFDNR----NYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~-----------------~~~~~l~C~H~Fh~~CI~~Wl~~~----~~~CP~CR~~l~~~  181 (192)
                      .+..|+||++...                 ..+..++|+|+||..||..|++.+    +.+||+||..+...
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4668999999321                 123456999999999999999732    34799999987543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.9e-13  Score=95.41  Aligned_cols=51  Identities=27%  Similarity=0.608  Sum_probs=42.3

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCC--CCCcccCcccchhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRN--YSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--~~CP~CR~~l~~~~  182 (192)
                      +...|+||++.+.+++. ++|||.||..||..|++...  ..||+||.++....
T Consensus        20 ~~l~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          20 KILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HHTSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             cCcCCCccCchhCCeEE-cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            45789999998878776 89999999999999997322  47999999986544

>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=99.29  E-value=7.3e-13  Score=88.25  Aligned_cols=52  Identities=12%  Similarity=0.004  Sum_probs=45.5

Q ss_pred             ccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          130 EEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       130 ~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      .++..|+||++.+.+++. ++|||.||..||..|+...+.+||.||..+....
T Consensus         5 P~~l~CpIc~~l~~dPv~-~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           5 PDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEE-CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CccccCcCcCchhhhhcc-cCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            367899999999999876 8999999999999999856678999999987654

>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=99.28  E-value=1.6e-13  Score=85.56  Aligned_cols=47  Identities=21%  Similarity=0.608  Sum_probs=38.9

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV  182 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~  182 (192)
                      +...|+||++...+++. ++|||.||..||.+|    +.+||+||+++....
T Consensus         5 ~~l~C~IC~~~~~~p~~-lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKL-LPCLHTLCSGCLEAS----GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCCSC-STTSCCSBTTTCSSS----SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCCEE-ecCCCHHhHHHHHcC----CCcCcCCCCcccCCC
Confidence            45699999997777655 899999999999765    568999999997644

>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=99.27  E-value=1.2e-12  Score=86.73  Aligned_cols=55  Identities=24%  Similarity=0.379  Sum_probs=46.8

Q ss_pred             cccccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchhhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIE  184 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~~  184 (192)
                      ..++..|+||++.+.+++. ++|||.||..||..|+......||.|+..+......
T Consensus         5 iP~~l~CpIc~~~m~dPV~-~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~   59 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVI-VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEE-ETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             CCccCCCcCcCchhhCceE-ccCCCcchHHHHHHHHHHCCCCCCcccccCCccccc
Confidence            4478899999999999886 899999999999999984567899999998765443

>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=99.21  E-value=3.4e-12  Score=80.37  Aligned_cols=50  Identities=26%  Similarity=0.647  Sum_probs=38.4

Q ss_pred             cccccccccccccCCCceEEecC-----CCccChHhHHHHHhC-CCCCCcccCcccc
Q 047298          129 EEEEERCAICLGSGTGSVIQMDC-----LHQFHEKCIACWFDN-RNYSCPLCRFDMA  179 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C-----~H~Fh~~CI~~Wl~~-~~~~CP~CR~~l~  179 (192)
                      +++...|.||++...++.. .+|     +|.||..||..|+.. ++.+||+||+++.
T Consensus         3 ded~~~C~IC~~~~~~~~~-~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERF-RACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCC-CSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccCCCcee-EecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            4577899999995444332 344     599999999999952 5678999999864

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=1.2e-12  Score=90.30  Aligned_cols=48  Identities=23%  Similarity=0.451  Sum_probs=40.6

Q ss_pred             cccccccccccCCCceEEecCCCccChHhHHHHHhCCCCCCcccCcccchh
Q 047298          131 EEERCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA  181 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~  181 (192)
                      +...|+||++.+.+++...+|||.||..||..|+.   +.||+||..+...
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQ   68 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCS
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh---ccccccCCcCchh
Confidence            45689999998888887559999999999999975   4699999887543

>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=98.96  E-value=2e-10  Score=79.12  Aligned_cols=53  Identities=15%  Similarity=0.051  Sum_probs=45.3

Q ss_pred             cccccccccccccCCCceEEecCC-CccChHhHHHHHhCCCCCCcccCcccchhhh
Q 047298          129 EEEEERCAICLGSGTGSVIQMDCL-HQFHEKCIACWFDNRNYSCPLCRFDMATAVI  183 (192)
Q Consensus       129 ~~~~~~C~ICl~~~~~~~~~l~C~-H~Fh~~CI~~Wl~~~~~~CP~CR~~l~~~~~  183 (192)
                      ..++..||||++.+.++|+ ++|+ |.|+..||..|++ .+.+||+||.++..+..
T Consensus        19 ~P~~f~CPI~~~lm~dPV~-~~~~~~ty~r~~I~~~l~-~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVV-LPSSRVTVDRSTIARHLL-SDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEE-CTTTCCEEEHHHHHHHTT-TSCBCTTTCSBCCTTTS
T ss_pred             CcHHhCCcCchhHHHHHHh-cccccchhhHHHHHHHHH-hcCCcccccccccchhh
Confidence            3457999999999999887 7766 5899999999999 88999999999876543

>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=98.47  E-value=2.6e-08  Score=67.35  Aligned_cols=47  Identities=21%  Similarity=0.526  Sum_probs=34.3

Q ss_pred             cccccccccccc-CCCceEE-ecCCCccChHhHHHHHhC----C---CCCCcccCc
Q 047298          130 EEEERCAICLGS-GTGSVIQ-MDCLHQFHEKCIACWFDN----R---NYSCPLCRF  176 (192)
Q Consensus       130 ~~~~~C~ICl~~-~~~~~~~-l~C~H~Fh~~CI~~Wl~~----~---~~~CP~CR~  176 (192)
                      .....|+||++. ..+.... ++|+|.||..|+..|++.    .   .-.||.|+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            356799999994 3344444 489999999999999963    1   226998643

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.013  Score=33.89  Aligned_cols=43  Identities=26%  Similarity=0.722  Sum_probs=29.5

Q ss_pred             ccccccccCCCceEEe--cCCCccChHhHHHHHhC---CCCCCcccCc
Q 047298          134 RCAICLGSGTGSVIQM--DCLHQFHEKCIACWFDN---RNYSCPLCRF  176 (192)
Q Consensus       134 ~C~ICl~~~~~~~~~l--~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~  176 (192)
                      .|.||-.........+  .|...||..|+.+-+..   ..-.||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5889987433322223  88899999999887652   2336999975

>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=89.55  E-value=0.049  Score=33.48  Aligned_cols=46  Identities=24%  Similarity=0.594  Sum_probs=29.4

Q ss_pred             cccccccccccCCCceE-EecCCCccChHhHHHHHhC---CCCCCcccCccc
Q 047298          131 EEERCAICLGSGTGSVI-QMDCLHQFHEKCIACWFDN---RNYSCPLCRFDM  178 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~l  178 (192)
                      ....|.||.+.  +.++ --.|...||..|+.+.+..   ..-.||.|+..-
T Consensus         6 ~c~~C~~C~~~--~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQKP--GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCSS--SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCCc--CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            34456666542  2232 1188999999999987752   233599997644

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.34  E-value=0.073  Score=31.71  Aligned_cols=48  Identities=21%  Similarity=0.604  Sum_probs=31.7

Q ss_pred             ccccccccccccccCCCceE-EecCCCccChHhHHHHHhC---CCCCCcccCcc
Q 047298          128 EEEEEERCAICLGSGTGSVI-QMDCLHQFHEKCIACWFDN---RNYSCPLCRFD  177 (192)
Q Consensus       128 ~~~~~~~C~ICl~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~---~~~~CP~CR~~  177 (192)
                      .+..++.|.+|.+.  +.++ --.|.-.||..|+...+..   ..-.||.|+..
T Consensus         5 ~d~~~~~C~~C~~~--g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           5 SDHHMEFCRVCKDG--GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCC--SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             ccCCcCCCcCCCCC--CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            34556679999863  2222 1178889999999766542   24479999754

>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=85.70  E-value=0.064  Score=32.17  Aligned_cols=49  Identities=27%  Similarity=0.477  Sum_probs=31.6

Q ss_pred             ccccccccccccC-CCce-E-EecCCCccChHhHHHHHh----CCCCCCcccCccc
Q 047298          130 EEEERCAICLGSG-TGSV-I-QMDCLHQFHEKCIACWFD----NRNYSCPLCRFDM  178 (192)
Q Consensus       130 ~~~~~C~ICl~~~-~~~~-~-~l~C~H~Fh~~CI~~Wl~----~~~~~CP~CR~~l  178 (192)
                      .++..|.||.... .+.. + --.|+..||..|+..-..    ...-.||.|+..-
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~   59 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcC
Confidence            4577999999832 2222 2 128899999999853211    1345799997543

>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=82.57  E-value=0.39  Score=30.33  Aligned_cols=35  Identities=23%  Similarity=0.544  Sum_probs=24.7

Q ss_pred             cccccccccccccccCCCceEEec---CCCccChHhHHHH
Q 047298          127 EEEEEEERCAICLGSGTGSVIQMD---CLHQFHEKCIACW  163 (192)
Q Consensus       127 ~~~~~~~~C~ICl~~~~~~~~~l~---C~H~Fh~~CI~~W  163 (192)
                      +....+..|.||--...+ .. +|   |+-+||..|+.+.
T Consensus        10 e~v~~D~mC~vC~v~t~~-~l-~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          10 EPVVNDEMCDVCEVWTAE-SL-FPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTTCCCCSS-CC-SSCSSSSSCCCHHHHHHH
T ss_pred             cCCCcCccccccCccccc-ce-ecceeecchhhHHHHHHh
Confidence            345678999999433322 22 34   6789999999998

>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=80.74  E-value=0.079  Score=33.83  Aligned_cols=50  Identities=18%  Similarity=0.488  Sum_probs=30.7

Q ss_pred             ccccccccccccCC---CceE-EecCCCccChHhHHHHH-----hC--CCCCCcccCcccc
Q 047298          130 EEEERCAICLGSGT---GSVI-QMDCLHQFHEKCIACWF-----DN--RNYSCPLCRFDMA  179 (192)
Q Consensus       130 ~~~~~C~ICl~~~~---~~~~-~l~C~H~Fh~~CI~~Wl-----~~--~~~~CP~CR~~l~  179 (192)
                      +....|.||.....   ..++ --.|...||..|+.+.+     ..  ..-.||.|.....
T Consensus        14 ~~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            34567999987322   2222 11788899999976432     10  2457999965443

>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=80.19  E-value=0.48  Score=27.92  Aligned_cols=43  Identities=28%  Similarity=0.454  Sum_probs=29.0

Q ss_pred             cccccccccccCCCceE--EecCCCccChHhHHHHHhCCCCCCccc
Q 047298          131 EEERCAICLGSGTGSVI--QMDCLHQFHEKCIACWFDNRNYSCPLC  174 (192)
Q Consensus       131 ~~~~C~ICl~~~~~~~~--~l~C~H~Fh~~CI~~Wl~~~~~~CP~C  174 (192)
                      ....|--|.....+..+  -..|+++||.+|=.---. .-..||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe-~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHD-SLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTT-TSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhh-hhcCCCCC
Confidence            46779889885444433  128899999999543322 45679988