Citrus Sinensis ID: 041990

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-----
Protein Sequence
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDGVAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDDDDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL
Secondary Structure (PSIPRED)
ccccccccEEEcccccccccccccccccEEEEEEEccccccccccccccHHHHHHHHHccccccccccccccccccccccccccHHHHHcccccccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHccccccccHHHHHHHccccccccccHHHHHHcccEEEcccccccccccccEEccccccccEEEEccccccccHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHHHHHcEEEEEEEEEEHHHHcccccccccccHcccccccHHHHHHHHHHHHHHHcccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccHHHHHcccEEEEEHHHcccccccccEcHccccccHHHcccccccccccHcHHHHHHHccccccEEccc
Coil and Loop (DISEMBL)
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSfihlprdpaedddeeedGVAEINNltesavedrdIEVARDRLINEETCQETLEGILssvrvpsrplFVEKILSCARAMASDKAFEGYKVLRMQVRICAvvddddgdieevsesasvaeGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGlqvtrlpcshifhgdcvlnwltkskscplcrsel
Flexible Loop (DISEMBL)
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDGVAEinnltesavedrdieVARDRLINEETCQETLEgilssvrvpsrpLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDDDDGDIEEVsesasvaegasreaIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVlnwltkskscplcrsel
Low Complexity Region (SEG)
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAedddeeedGVAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAvvddddgdieevsesasvaegasreaIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL
Disordered region (IsUnstruct)
*****EDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHL******************************IEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDD****************************VQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSC*******
Disordered Region (DISOPRED)
***DYEDYCEIWAENAKSI*DEVRASVTFSLVFHVSF***************************************************************************************VLRMQVRICAVVDDDDGDI****************AIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL
Disordered Region (DISEMBL)
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRD**********GVAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDDDDGDI**************REAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL
Disordered Region (DISPRO)
**SDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPR************VAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDDDDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASDYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDGVAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGYKVLRMQVRICAVVDDDDGDIEEVSESASVAEGAxxxxxxxxxxxxxxxxxxxxxQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL
Positional Conservation
no confident homologs detected

---

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	225	2.2.26 [Sep-21-2011]
Q8LPN7	328	E3 ubiquitin-protein liga	yes	no	0.368	0.253	0.406	8e-14
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.368	0.245	0.383	2e-12
Q6GPV5	156	E3 ubiquitin-protein liga	N/A	no	0.444	0.641	0.346	1e-11
Q5M974	156	E3 ubiquitin-protein liga	yes	no	0.444	0.641	0.336	2e-11
Q6DIP3	311	RING finger protein 126 O	no	no	0.306	0.221	0.385	2e-10
O55176	578	E3 ubiquitin-protein liga	no	no	0.297	0.115	0.455	3e-10
Q8NG27	643	E3 ubiquitin-protein liga	yes	no	0.297	0.104	0.455	3e-10
Q9CY62	165	E3 ubiquitin-protein liga	no	no	0.36	0.490	0.369	4e-10
Q8RXD3	310	E3 ubiquitin-protein liga	no	no	0.324	0.235	0.386	6e-10
Q7T0Q3	312	RING finger protein 126-A	N/A	no	0.306	0.221	0.385	6e-10

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

 Score = 77.4 bits (189), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 54/86 (62%), Gaps = 3/86 (3%)

Query: 143 IEEVSESASVAEG---ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPC 199
           I++++E+     G   AS+ AI+ L  V++ +D L+ +   CA+C+ EF  G  V ++PC
Sbjct: 175 IQQLAENDPNRYGTPPASKSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPC 234

Query: 200 SHIFHGDCVLNWLTKSKSCPLCRSEL 225
            H+FH DC+L WL    SCP+CR EL
Sbjct: 235 KHVFHQDCLLPWLELHNSCPVCRFEL 260

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: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

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

 Score = 72.4 bits (176), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/86 (38%), Positives = 51/86 (59%), Gaps = 3/86 (3%)

Query: 143 IEEVSESASVAEG---ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPC 199
           I++++E+     G   AS+ AIE L  V I +  L  +   CA+C+ +F  G +  ++PC
Sbjct: 183 IQQLAENDPNRYGTPPASKSAIEALPLVNITKSNLNSEFNQCAVCMDDFEEGTEAKQMPC 242

Query: 200 SHIFHGDCVLNWLTKSKSCPLCRSEL 225
            H++H DC+L WL    SCP+CR EL
Sbjct: 243 KHLYHKDCLLPWLELHNSCPVCRHEL 268

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

Gossypium hirsutum (taxid: 3635)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6GPV5|RN181_XENLA E3 ubiquitin-protein ligase RNF181 OS=Xenopus laevis GN=rnf181 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/101 (34%), Positives = 55/101 (54%), Gaps = 1/101 (0%)

Query: 125 VLRMQVRICAVVDDDDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAIC 184
           +L +   + + +D D G ++       +   AS++ +E L +V +  ++       C +C
Sbjct: 24  LLELARSLLSGMDIDLGAVDFTEWDQRLPPPASKKVVESLPKVTVTPEQ-ADAALKCPVC 82

Query: 185 LQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           L EF  G  V +LPC H+FH  C+L WL K+ SCPLCR EL
Sbjct: 83  LLEFEEGETVRQLPCEHLFHSACILPWLGKTNSCPLCRHEL 123

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 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 = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 34/101 (33%), Positives = 55/101 (54%), Gaps = 1/101 (0%)

Query: 125 VLRMQVRICAVVDDDDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAIC 184
           +L +   + + +D D G ++       +   A+++ +E L +V +  ++       C +C
Sbjct: 24  LLELARSLLSGMDIDLGALDFTEWDQRLPPPAAKKVVESLPKVTVTPEQ-ADAALKCPVC 82

Query: 185 LQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           L EF  G  V +LPC H+FH  C+L WL K+ SCPLCR EL
Sbjct: 83  LLEFEEGETVRQLPCEHLFHSSCILPWLGKTNSCPLCRHEL 123

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: -

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

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 43/70 (61%), Gaps = 1/70 (1%)

Query: 156 ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS 215
           A  E I+ L  +QI E+ +      C +C +++ VG  V +LPC+H+FH DC++ WL + 
Sbjct: 203 ADTEKIQALPTIQITEEHVG-SGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQH 261

Query: 216 KSCPLCRSEL 225
            +CP+CR  L
Sbjct: 262 DTCPVCRKSL 271

Xenopus tropicalis (taxid: 8364)

>sp|O55176|PJA1_MOUSE E3 ubiquitin-protein ligase Praja-1 OS=Mus musculus GN=Pja1 PE=1 SV=3

 Score = 65.5 bits (158), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 40/68 (58%), Gaps = 1/68 (1%)

Query: 156 ASREAIERLERVQIDEDRLR-RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK 214
           AS+E+I+ L  + + ED     Q+  C IC  E+V G   T LPC H FH  CV  WL K
Sbjct: 504 ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGEVATELPCHHYFHKPCVSIWLQK 563

Query: 215 SKSCPLCR 222
           S +CP+CR
Sbjct: 564 SGTCPVCR 571

Has E2-dependent E3 ubiquitin-protein ligase activity. Ubiquitinates MAGED1 antigen leading to its subsequent degradation by proteasome. May be involved in protein sorting.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8NG27|PJA1_HUMAN E3 ubiquitin-protein ligase Praja-1 OS=Homo sapiens GN=PJA1 PE=1 SV=2

 Score = 65.1 bits (157), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 40/68 (58%), Gaps = 1/68 (1%)

Query: 156 ASREAIERLERVQIDEDRLR-RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK 214
           AS+E+I+ L  + + ED     Q+  C IC  E+V G   T LPC H FH  CV  WL K
Sbjct: 569 ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGEVATELPCHHYFHKPCVSIWLQK 628

Query: 215 SKSCPLCR 222
           S +CP+CR
Sbjct: 629 SGTCPVCR 636

Has E2-dependent E3 ubiquitin-protein ligase activity. Ubiquitinates MAGED1 antigen leading to its subsequent degradation by proteasome (By similarity). May be involved in protein sorting.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 65.1 bits (157), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 45/84 (53%), Gaps = 3/84 (3%)

Query: 142 DIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSH 201
           D+  V     +   A++  +E L R  I   +   +   C +CL EF     V  +PC H
Sbjct: 52  DLGLVDWEHHLPPPAAKAVVESLPRTVISSAKADLK---CPVCLLEFEAEETVIEMPCHH 108

Query: 202 IFHGDCVLNWLTKSKSCPLCRSEL 225
           +FH +C+L WL+K+ SCPLCR EL
Sbjct: 109 LFHSNCILPWLSKTNSCPLCRHEL 132

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

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 64.3 bits (155), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 2/75 (2%)

Query: 153 AEGASREAIERLERVQIDEDRLRR--QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLN 210
           A  AS+E +E+L  +   E+ L++   +  C IC +  V+G ++  LPC H FH  C+  
Sbjct: 200 APPASKEVVEKLPVIIFTEELLKKFGAEAECCICKENLVIGDKMQELPCKHTFHPPCLKP 259

Query: 211 WLTKSKSCPLCRSEL 225
           WL +  SCP+CR EL
Sbjct: 260 WLDEHNSCPICRHEL 274

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 64.3 bits (155), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 43/70 (61%), Gaps = 1/70 (1%)

Query: 156 ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS 215
           A  E I+ L  +QI E+ +      C +C +++ VG  V +LPC+H+FH DC++ WL + 
Sbjct: 204 ADNEKIQALPTIQITEEHVG-SGLECPVCKEDYTVGECVRQLPCNHLFHNDCIIPWLEQH 262

Query: 216 KSCPLCRSEL 225
            +CP+CR  L
Sbjct: 263 DTCPVCRKSL 272

Xenopus laevis (taxid: 8355)

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	225
255540965	219	protein binding protein, putative [Ricin	0.933	0.958	0.337	1e-24
224059106	227	predicted protein [Populus trichocarpa]	0.964	0.955	0.333	4e-21
255540963	215	zinc finger protein, putative [Ricinus c	0.688	0.720	0.335	5e-16
255545388	221	zinc finger protein, putative [Ricinus c	0.897	0.914	0.295	3e-13
255588335	234	zinc finger protein, putative [Ricinus c	0.924	0.888	0.265	1e-12
307175837	146	RING finger protein 181 [Camponotus flor	0.368	0.568	0.402	1e-12
356536418	286	PREDICTED: E3 ubiquitin-protein ligase R	0.311	0.244	0.457	3e-12
297830662	330	zinc finger family protein [Arabidopsis	0.368	0.251	0.406	4e-12
168050235	560	predicted protein [Physcomitrella patens	0.368	0.148	0.385	4e-12
11994207	386	unnamed protein product [Arabidopsis tha	0.311	0.181	0.457	4e-12

>gi|255540965|ref|XP_002511547.1| protein binding protein, putative [Ricinus communis] gi|223550662|gb|EEF52149.1| protein binding protein, putative [Ricinus communis]

 Score =  119 bits (297), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/225 (33%), Positives = 122/225 (54%), Gaps = 15/225 (6%)

Query: 4   DYEDYCEIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDGVAEINNLTE 63
           D E  C +   ++   EDE  +   F +   V+F+H   D   + +E+E  +       +
Sbjct: 6   DQEICCRVTPLDSVEAEDESFSCPMFHIDVAVTFMHRRDDSLMEVEEDESDLYN----GD 61

Query: 64  SAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKAFEGY 123
             V   +  V R+RL N+ET   T+  IL  + VP +   +++IL  AR MA++K ++  
Sbjct: 62  CDVIQNEFLVERERLFNQETSMSTIIQILFEMNVPVQSYMLDRILGFARQMATNKRYKNR 121

Query: 124 KVLRMQVRICAVVDDDDGDIEEVSESASVA---EGASREAIERLERVQIDEDRLRRQQCL 180
           KVL M+V I    D   G +++       A     AS+ ++E LE+++ D      QQC+
Sbjct: 122 KVLHMKVEI----DVPPGFLDDDDSDDDSAIRFVPASKPSMENLEKIKADGST--EQQCI 175

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
             ICL+E ++G +VTRLPC H++H  C++NWL KS+ CPLCR E+
Sbjct: 176 --ICLEELLIGSEVTRLPCLHVYHKQCIINWLQKSRFCPLCRFEI 218

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059106|ref|XP_002299718.1| predicted protein [Populus trichocarpa] gi|222846976|gb|EEE84523.1| predicted protein [Populus trichocarpa]

 Score =  107 bits (266), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 77/231 (33%), Positives = 126/231 (54%), Gaps = 14/231 (6%)

Query: 3   SDYEDYC--EIWAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDGVAEINN 60
           SD+ D C   I  +  K  +D V  +  F +V   SF  +P  P ++DD ++D    + +
Sbjct: 2   SDFGDLCFSTIPLDLVKPGDDSVLCN-KFCIVVEASF--MPPVPFDEDDLQDDESQHLYD 58

Query: 61  LTESAVEDRDIEVARDRLINE-ETCQETLEGILSSVRVPSRPLFVEKILSCARAMASDKA 119
                V+ RD  V RD+L+++ ET + T+  IL+ + +P R   ++++L+CAR MA    
Sbjct: 59  ADCDWVK-RDFLVDRDQLLHDLETSRLTIRNILTVMDIPVRAFMIDQVLTCARQMARSVL 117

Query: 120 FEGYKVLRMQVRI---CAVVDDDDGDIEEVSESASVAE--GASREAIERLERVQIDEDRL 174
               KVL M+VR+    +  +   G  ++  +   V     A+  +IE+LE V+++ +  
Sbjct: 118 LLDRKVLYMKVRVDVPPSFDESSGGGSDDEDDDDDVLSFVPANASSIEKLEIVKVELEGS 177

Query: 175 RRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
             Q C  A+C  + +VG + TRLPCSH++H  C+  WL KSK CPLCR E+
Sbjct: 178 ANQPC--AVCFDQLLVGCEATRLPCSHVYHCGCIRRWLEKSKFCPLCRFEV 226

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540963|ref|XP_002511546.1| zinc finger protein, putative [Ricinus communis] gi|223550661|gb|EEF52148.1| zinc finger protein, putative [Ricinus communis]

 Score = 90.5 bits (223), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 58/173 (33%), Positives = 88/173 (50%), Gaps = 18/173 (10%)

Query: 62  TESAVEDRDIEVARDRLINEETCQETLEGILSSVRVP--SRPLFVEKILSCARAMASDKA 119
           T ++   ++  V RD L++  T   TL  +L+ + +P  + P+ + KI  CA+     + 
Sbjct: 50  TNTSTIFKEFHVQRDYLLHNTTSWSTLSSMLADMNIPMYAYPMLMVKIKECAQNCRDMER 109

Query: 120 FEGYKVLRM--QVRICAVVDD-----DDGDIEEVSESASVAEGASREAIERLERVQIDED 172
               KV+ M  ++RI   V D     D+   E  S       GAS+ AI+ LE V I   
Sbjct: 110 ----KVIPMVVKLRIIHAVSDIATVSDEAFSESFSSQRLTFVGASKSAIDALETVIIQ-- 163

Query: 173 RLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
               Q   C ICL++  +G++ T LPC HI+HG C+ NWL  S  CPLCR ++
Sbjct: 164 NFSNQ---CVICLEDIQIGIEATCLPCKHIYHGGCISNWLKNSNCCPLCRFQI 213

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255545388|ref|XP_002513754.1| zinc finger protein, putative [Ricinus communis] gi|223546840|gb|EEF48337.1| zinc finger protein, putative [Ricinus communis]

 Score = 80.9 bits (198), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 70/237 (29%), Positives = 110/237 (46%), Gaps = 35/237 (14%)

Query: 1   MASDYEDYCEIWAE--NAKSIEDEVRASVTFSL---VFHVSFIHLPRDPAEDDDEEEDGV 55
           MAS YE Y  +W +  N  S + +V   + F +     HV  IH P              
Sbjct: 1   MASTYEYY--MWQDFNNKDSNDIDVDCDI-FDIQIHFHHVLEIHYPE------------- 44

Query: 56  AEINNLTESAVEDRDIEVARDRLI--NEETCQETLEGILSSVRVPSRP---LFVEKILSC 110
              +N        R   + R+ +   ++++    ++ ILS+    SR    L + ++ S 
Sbjct: 45  ---SNQIPVTTTHRSFPIPRNLIFSSDDQSRSSIMDAILSTT-AASRDFIDLILPEVSSF 100

Query: 111 ARAMASDKAFEGYKVLRMQVRICAVVDDD-----DGDIEEVSESASVAEGASREAIERLE 165
           A  MA+  + +  KVL M + IC V   D     D  + E  +  +  + AS+  IE L+
Sbjct: 101 ALEMATHPSNKNVKVLTMGLLICVVTPYDEREEIDRALGETIQEKARFKPASKSCIEGLK 160

Query: 166 RVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR 222
           RV+ID+D  +     C +CL++  VG  V RL C H+FH DC++ WL  +  CPLCR
Sbjct: 161 RVRIDKDDDKISGETCMVCLEKESVGEVVIRLACGHVFHEDCIVKWLHTNHLCPLCR 217

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255588335|ref|XP_002534571.1| zinc finger protein, putative [Ricinus communis] gi|223525002|gb|EEF27812.1| zinc finger protein, putative [Ricinus communis]

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 66/249 (26%), Positives = 113/249 (45%), Gaps = 41/249 (16%)

Query: 1   MASDYED--YCEI----WAENAKSIEDEVRASVTFSLVFHVSFIHLPRDPAEDDDEEEDG 54
           MASDY++  Y ++    +A+ +   +  V+    F  V    ++  P     DD +E   
Sbjct: 1   MASDYDEDFYFDVKGSTYADASLGAKTAVKVKFIFFKVLQ-RYVSYP-----DDVQEPFM 54

Query: 55  VAEINNLTESAVEDRDIEVARDRLINEETCQETLEGILSSVRVPSRPLFVEKILS---CA 111
           + EI  L  ++V      +     I++E  +     IL+   +P    +V+K +    C 
Sbjct: 55  LPEIRELETTSVMHI---LTCGPFIHQEPAKRLAMKILNCWHIPE---YVQKQIVEQVCY 108

Query: 112 RAMASDKAFEGYKVLRMQVRICAVVDD---------------DDGDIEEVSESASVAEGA 156
           +AM    A +   +    V++ A +D                 + +IE +   A   + A
Sbjct: 109 KAM--KMALKRINMPGFGVQVVASIDMIKYEECDYSQYEEALRNAEIESMEVDAYKPKPA 166

Query: 157 SREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK 216
           ++ +IE LER   D+    +    C IC+ E  VG+Q  R+PCSH +H DC++NWL  S 
Sbjct: 167 TKSSIEALERFVFDDVESSKD---CTICMDEIEVGMQAIRMPCSHYYHQDCIINWLQNSH 223

Query: 217 SCPLCRSEL 225
            CPLCR ++
Sbjct: 224 FCPLCRYQM 232

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307175837|gb|EFN65652.1| RING finger protein 181 [Camponotus floridanus]

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 52/87 (59%), Gaps = 4/87 (4%)

Query: 139 DDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLP 198
           D G  E + E A +   AS+ A+E L  ++I+    ++    C +CL+EF V  +   +P
Sbjct: 31  DYGMWELLGEDAKLPPPASKNAVETLPEIKIEPSETKQ----CPVCLKEFEVNDKAKSMP 86

Query: 199 CSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C H+FH +C+L WL K+ SCPLCR EL
Sbjct: 87  CHHVFHQECILPWLEKTNSCPLCRYEL 113

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|356536418|ref|XP_003536735.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Glycine max]

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 47/70 (67%)

Query: 156 ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS 215
           A+++A+E L  V +D+D L  +   CA+C  EF  G +VT++PC H +HGDC++ WL   
Sbjct: 155 AAKDAVENLPTVTVDDDLLNSELNQCAVCQDEFEKGSKVTQMPCKHAYHGDCLIPWLRLH 214

Query: 216 KSCPLCRSEL 225
            SCP+CR EL
Sbjct: 215 NSCPVCRYEL 224

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297830662|ref|XP_002883213.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297329053|gb|EFH59472.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 54/86 (62%), Gaps = 3/86 (3%)

Query: 143 IEEVSESASVAEG---ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPC 199
           I++++E+     G   AS+ AI+ L  V++ +D L+ +   CA+C+ EF  G  V ++PC
Sbjct: 177 IQQLAENDPNRYGTPPASKSAIDGLPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPC 236

Query: 200 SHIFHGDCVLNWLTKSKSCPLCRSEL 225
            H+FH DC+L WL    SCP+CR EL
Sbjct: 237 KHVFHQDCLLPWLQLHNSCPVCRFEL 262

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168050235|ref|XP_001777565.1| predicted protein [Physcomitrella patens subsp. patens] gi|162671050|gb|EDQ57608.1| predicted protein [Physcomitrella patens subsp. patens]

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 49/83 (59%)

Query: 143 IEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHI 202
           + E   S   A  AS+ A+E +  +QI ++ L      CA+C  EF +G  V ++PC H+
Sbjct: 328 LAENDPSRHGAPPASKSAVEAMPTIQISQEHLGTDAMQCAVCKDEFELGALVRQMPCKHM 387

Query: 203 FHGDCVLNWLTKSKSCPLCRSEL 225
           +H DC+L WL +  SCP+CR E+
Sbjct: 388 YHADCILPWLAQHNSCPVCRYEM 410

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|11994207|dbj|BAB01310.1| unnamed protein product [Arabidopsis thaliana]

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 46/70 (65%)

Query: 156 ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS 215
           AS+ AI+ L  V++ +D L+ +   CA+C+ EF  G  V ++PC H+FH DC+L WL   
Sbjct: 249 ASKSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELH 308

Query: 216 KSCPLCRSEL 225
            SCP+CR EL
Sbjct: 309 NSCPVCRFEL 318

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	225
TAIR|locus:2160215	226	AT5G54990 [Arabidopsis thalian	0.195	0.194	0.522	1.2e-14
TAIR|locus:2050522	180	AT2G44330 [Arabidopsis thalian	0.2	0.25	0.6	3.4e-13
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.288	0.198	0.446	5.7e-13
TAIR|locus:2101447	306	AT3G60080 [Arabidopsis thalian	0.204	0.150	0.565	7.3e-13
TAIR|locus:2195573	327	AT1G60360 [Arabidopsis thalian	0.288	0.198	0.430	7.3e-13
TAIR|locus:2143176	348	AT5G15820 [Arabidopsis thalian	0.288	0.186	0.4	1e-12
TAIR|locus:2058465	328	RHC1A "RING-H2 finger C1A" [Ar	0.288	0.198	0.4	2.7e-12
TAIR|locus:2075175	395	RDUF1 "RING and Domain of Unkn	0.284	0.162	0.461	2.7e-12
RGD|1306011	328	Rnf126 "ring finger protein 12	0.284	0.195	0.353	1.6e-11
MGI|MGI:1917544	313	Rnf126 "ring finger protein 12	0.284	0.204	0.353	1.7e-11

TAIR|locus:2160215 AT5G54990 [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 1.2e-14, Sum P(2) = 1.2e-14
 Identities = 23/44 (52%), Positives = 32/44 (72%)

Query:   181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
             C ICL E   G+   +LPCSH+FH DC++ WL K+ SCP+CR++
Sbjct:   174 CPICLTELSSGVSRMKLPCSHVFHRDCIMTWLKKNPSCPICRTK 217

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2050522 AT2G44330 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 3.4e-13, P = 3.4e-13
 Identities = 27/45 (60%), Positives = 34/45 (75%)

Query:   181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
             CAIC ++FVVG    RLPC+H++H DC++ WLT   SCPLCR EL
Sbjct:    96 CAICREDFVVGESARRLPCNHLYHNDCIIPWLTSHNSCPLCRVEL 140

GO:0005634 "nucleus" evidence=ISM

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

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

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

 Score = 175 (66.7 bits), Expect = 5.7e-13, P = 5.7e-13
 Identities = 29/65 (44%), Positives = 42/65 (64%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             I+ L  V++ +D L+ +   CA+C+ EF  G  V ++PC H+FH DC+L WL    SCP+
Sbjct:   196 IDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLELHNSCPV 255

Query:   221 CRSEL 225
             CR EL
Sbjct:   256 CRFEL 260

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2101447 AT3G60080 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 7.3e-13, P = 7.3e-13
 Identities = 26/46 (56%), Positives = 35/46 (76%)

Query:   180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
             LCA+C ++F++G    RLPCSHI+H DC++ WL+   SCPLCR EL
Sbjct:   168 LCAVCKEDFIIGESARRLPCSHIYHSDCIVPWLSDHNSCPLCRFEL 213

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2195573 AT1G60360 [Arabidopsis thaliana (taxid:3702)]

 Score = 174 (66.3 bits), Expect = 7.3e-13, P = 7.3e-13
 Identities = 28/65 (43%), Positives = 39/65 (60%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             I  L  V+I    L      C +C++EF+VG   T LPC HI+H DC++ WL  + SCP+
Sbjct:   204 INSLPSVKITPQHLTNDMSQCTVCMEEFIVGGDATELPCKHIYHKDCIVPWLRLNNSCPI 263

Query:   221 CRSEL 225
             CR +L
Sbjct:   264 CRRDL 268

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

TAIR|locus:2143176 AT5G15820 [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 1.0e-12, Sum P(2) = 1.0e-12
 Identities = 26/65 (40%), Positives = 39/65 (60%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             ++ L  V++  + L     +CAIC  E V   +V RLPC H +HG+C++ WL    +CP+
Sbjct:   271 VDGLPDVELTIEELSSVSIVCAICKDEVVFKEKVKRLPCKHYYHGECIIPWLGIRNTCPV 330

Query:   221 CRSEL 225
             CR EL
Sbjct:   331 CRHEL 335

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 169 (64.5 bits), Expect = 2.7e-12, P = 2.7e-12
 Identities = 26/65 (40%), Positives = 41/65 (63%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             I+ L  ++I +  LR     C +C  EF +G +  ++PC+HI+H DC++ WL +  SCP+
Sbjct:   170 IDALPTIKIAQRHLRSSDSNCPVCKDEFELGSEAKQMPCNHIYHSDCIVPWLVQHNSCPV 229

Query:   221 CRSEL 225
             CR EL
Sbjct:   230 CRQEL 234

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

GO:0005618 "cell wall" evidence=IDA

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

 Score = 171 (65.3 bits), Expect = 2.7e-12, P = 2.7e-12
 Identities = 30/65 (46%), Positives = 42/65 (64%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             IE L RV+I  D   + +  CA+C + F  G++   +PC HIFHGDC++ WL+   SCP+
Sbjct:   196 IESLPRVEIS-DCHTKAEANCAVCTEVFEAGIEGREMPCKHIFHGDCIVPWLSIRNSCPV 254

Query:   221 CRSEL 225
             CR EL
Sbjct:   255 CRFEL 259

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

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

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009611 "response to wounding" evidence=RCA

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

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

GO:0035556 "intracellular signal transduction" evidence=RCA

RGD|1306011 Rnf126 "ring finger protein 126" [Rattus norvegicus (taxid:10116)]

 Score = 144 (55.7 bits), Expect = 1.6e-11, Sum P(2) = 1.6e-11
 Identities = 23/65 (35%), Positives = 40/65 (61%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             I+ L  V + E+ +      C +C +++ +G +V +LPC+H+FH  C++ WL +  SCP+
Sbjct:   227 IQALPTVPVTEEHVG-SGLECPVCKEDYALGERVRQLPCNHLFHDSCIVPWLEQHDSCPV 285

Query:   221 CRSEL 225
             CR  L
Sbjct:   286 CRKSL 290

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1917544 Rnf126 "ring finger protein 126" [Mus musculus (taxid:10090)]

 Score = 143 (55.4 bits), Expect = 1.7e-11, Sum P(2) = 1.7e-11
 Identities = 23/65 (35%), Positives = 39/65 (60%)

Query:   161 IERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPL 220
             I+ L  V + E+ +      C +C +++ +G  V +LPC+H+FH  C++ WL +  SCP+
Sbjct:   212 IQALPTVPVTEEHVG-SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPV 270

Query:   221 CRSEL 225
             CR  L
Sbjct:   271 CRKSL 275

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	225
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-10
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	3e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-08
smart00184	40	smart00184, RING, Ring finger	2e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	7e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	7e-04
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	0.004

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

 Score = 68.2 bits (167), Expect = 1e-15
 Identities = 23/44 (52%), Positives = 29/44 (65%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
           C ICL EF  G +V  LPC H+FH +C+  WL  S +CPLCR+ 
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 53.6 bits (129), Expect = 3e-10
 Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 3/46 (6%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLCRSEL 225
           C ICL+EF     V  LPC H+F   C+  WL +   +CPLCR+ +
Sbjct: 2   CPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 58.5 bits (141), Expect = 3e-10
 Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL 225
             CAIC+  F+   ++  LPC H FH  CV  WL      CP+CR+ +
Sbjct: 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 55.7 bits (134), Expect = 3e-09
 Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 10/69 (14%)

Query: 167 VQIDEDRLRRQQCLCAICLQEFV--------VGLQVT--RLPCSHIFHGDCVLNWLTKSK 216
               E++L      C IC+ E           GL +T  RLPC HI H  C+ NWL + +
Sbjct: 276 PTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ 335

Query: 217 SCPLCRSEL 225
           +CP+CR  +
Sbjct: 336 TCPICRRPV 344

Length = 491

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

 Score = 49.0 bits (117), Expect = 3e-08
 Identities = 18/52 (34%), Positives = 21/52 (40%), Gaps = 10/52 (19%)

Query: 181 CAICLQEFVVGLQVTRLP----------CSHIFHGDCVLNWLTKSKSCPLCR 222
           CAIC   F       + P          C H FH  C+  WL    +CPLCR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLC 221
           C ICL+E++       LPC H F   C+  WL + + +CP+C
Sbjct: 1   CPICLEEYLK--DPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS 223
            C ICL        V   PC H+F  +C+L +L K   CP+CR+
Sbjct: 4   ECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 42.5 bits (100), Expect = 3e-06
 Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 3/42 (7%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLC 221
           C ICL+E      VT LPC H+F   C+L+WL + + +CPLC
Sbjct: 1   CPICLEEPKD--PVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 39.8 bits (93), Expect = 7e-05
 Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 3/29 (10%)

Query: 199 CSHIFHGDCVLNWLTKSKS---CPLCRSE 224
           C H FH  C+L WL    S   CP+CR  
Sbjct: 52  CKHNFHMHCILKWLATETSKGLCPMCRQT 80

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

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

 Score = 42.3 bits (99), Expect = 1e-04
 Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 10/53 (18%)

Query: 181  CAICLQEFVVGLQVTRLP------CSHIFHGDCVLNWLTKSKS--CPLCRSEL 225
            CAIC    V+ +    LP      C + FH  C+  W   S    CPLCRSE+
Sbjct: 1472 CAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

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

 Score = 37.1 bits (86), Expect = 7e-04
 Identities = 11/26 (42%), Positives = 13/26 (50%)

Query: 199 CSHIFHGDCVLNWLTKSKSCPLCRSE 224
           C+H FH  C+  WL     CPL R  
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQT 79

Length = 88

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 37.2 bits (86), Expect = 0.004
 Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 5/45 (11%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKS--CPLCRS 223
           C +CL+E  V       PC H+F   C+L   TK K   CPLCR+
Sbjct: 218 CFLCLEEPEVPS---CTPCGHLFCLSCLLISWTKKKYEFCPLCRA 259

Length = 271

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	225
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.6
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.57
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.32
PHA02929	238	N1R/p28-like protein; Provisional	99.32
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.3
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.18
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.08
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.07
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.02
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.02
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.0
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.99
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.95
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.89
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.89
PHA02926	242	zinc finger-like protein; Provisional	98.88
PF14634	44	zf-RING_5: zinc-RING finger domain	98.86
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.86
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.85
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.81
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.66
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.65
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.62
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.48
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.45
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.45
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.45
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.31
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.31
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.28
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.24
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.23
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.2
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.96
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.62
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.6
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.43
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.16
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.16
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.15
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.14
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.12
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.89
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.88
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.56
KOG2660	331	consensus Locus-specific chromosome binding protei	96.42
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.24
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.22
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.22
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.2
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.14
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.12
COG5152	259	Uncharacterized conserved protein, contains RING a	96.12
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	95.92
PHA03096	284	p28-like protein; Provisional	95.86
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.78
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.69
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.67
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.66
PF04641	260	Rtf2: Rtf2 RING-finger	95.45
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.42
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.22
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.14
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.13
KOG1002	791	consensus Nucleotide excision repair protein RAD16	94.8
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.49
KOG1940	276	consensus Zn-finger protein [General function pred	94.31
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.14
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.01
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.7
KOG3002	299	consensus Zn finger protein [General function pred	93.48
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.15
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.87
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.72
COG5236	493	Uncharacterized conserved protein, contains RING Z	92.55
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.85
COG5222	427	Uncharacterized conserved protein, contains RING Z	91.65
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.73
KOG3899	381	consensus Uncharacterized conserved protein [Funct	88.26
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	87.5
KOG1609	323	consensus Protein involved in mRNA turnover and st	86.96
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	86.89
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.46
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.1
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	83.87
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	83.3
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	82.3
COG5175	480	MOT2 Transcriptional repressor [Transcription]	81.7
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	80.75

>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=99.60  E-value=3.1e-16  Score=101.89  Aligned_cols=43  Identities=51%  Similarity=1.300  Sum_probs=40.3

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR  222 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR  222 (225)
                      +|+||++.+..++.+..++|+|+||.+||.+|++++.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5799999999999999999999999999999999999999998

...

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

Probab=99.57  E-value=1.2e-15  Score=138.14  Aligned_cols=74  Identities=28%  Similarity=0.679  Sum_probs=60.6

Q ss_pred             CCCCCCHHHHHhcccccccccccccccccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          152 VAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       152 ~~~~as~~~i~~L~~~~~~~~~~~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      +...+.+..++++|..++.........-.|+||||+|..|++++.|||+|.||..||++||.+. +.||+||+.+
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence            3356678888888888886554433224689999999999999999999999999999999886 5699999863

>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=99.32  E-value=6.8e-13  Score=95.49  Aligned_cols=43  Identities=42%  Similarity=1.004  Sum_probs=35.2

Q ss_pred             cccccccccccC----------ceeEEeCcCCeecHHHHHHHhhcCCCCCCcC
Q 041990          180 LCAICLQEFVVG----------LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR  222 (225)
Q Consensus       180 ~C~ICLee~~~g----------~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR  222 (225)
                      .|+||++.|...          ..+...+|+|.||..||.+||+.+.+||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            479999999432          2345568999999999999999999999998

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

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.32  E-value=1.2e-12  Score=113.57  Aligned_cols=73  Identities=22%  Similarity=0.545  Sum_probs=54.0

Q ss_pred             CCCCCHHHHHhccccccccccc--ccccccccccccccccCce-----eEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          153 AEGASREAIERLERVQIDEDRL--RRQQCLCAICLQEFVVGLQ-----VTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       153 ~~~as~~~i~~L~~~~~~~~~~--~~~~c~C~ICLee~~~g~~-----~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..+.++..++.+|.+..+....  .....+|+||++.+..+..     ...++|+|.||..||.+|++.+.+||+||.++
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            3455888888888876433221  2234578999998775431     23447999999999999999999999999864

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

Probab=99.30  E-value=1.1e-12  Score=115.96  Aligned_cols=48  Identities=42%  Similarity=1.002  Sum_probs=44.2

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .++|+|||+.|-.+++++.|||.|.||..|+.+|+.. ++.||+||.++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i  371 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI  371 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence            3789999999998899999999999999999999984 78899999875

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

Probab=99.18  E-value=1e-11  Score=112.42  Aligned_cols=51  Identities=39%  Similarity=0.997  Sum_probs=43.1

Q ss_pred             ccccccccccccc-cccCc---------eeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          175 RRQQCLCAICLQE-FVVGL---------QVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       175 ~~~~c~C~ICLee-~~~g~---------~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .+++-.|.||+++ |..+.         +.+++||||.+|.+|++.|++++.+||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            3455578999999 65552         458899999999999999999999999999873

>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=99.08  E-value=8.7e-11  Score=74.29  Aligned_cols=39  Identities=41%  Similarity=1.028  Sum_probs=33.5

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlC  221 (225)
                      |+||++.+..  .++.++|||+||..||.+|++++..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            7999998874  55778999999999999999999999998

>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=99.07  E-value=1.2e-10  Score=73.85  Aligned_cols=44  Identities=45%  Similarity=1.136  Sum_probs=36.5

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .|+||++.+.  .....++|+|.||..|+..|++. +..||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4899999882  34445569999999999999998 77899999864

>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=99.02  E-value=2.1e-10  Score=76.27  Aligned_cols=43  Identities=37%  Similarity=0.964  Sum_probs=37.0

Q ss_pred             cccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|.||++...   .+..+||+|. ||..|+.+|++++..||+||+++
T Consensus         4 ~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    4 ECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             B-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             CCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence            5899999754   4677899999 99999999999999999999875

...

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

Probab=99.02  E-value=1.2e-10  Score=102.43  Aligned_cols=47  Identities=34%  Similarity=0.923  Sum_probs=40.2

Q ss_pred             cccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...-.|.+||+....+   ..+||||+||+.||..|......||+||.+.
T Consensus       237 ~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~  283 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKF  283 (293)
T ss_pred             CCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence            3444689999987655   6799999999999999999999999999853

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.00  E-value=2.5e-10  Score=95.99  Aligned_cols=45  Identities=29%  Similarity=0.777  Sum_probs=36.9

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhc----------------CCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK----------------SKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~----------------~~sCPlCR~~l  225 (225)
                      ..+|+||++.+..+   +.++|+|+||..||.+|+..                ...||+||.++
T Consensus        18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I   78 (193)
T PLN03208         18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV   78 (193)
T ss_pred             ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence            34789999988654   66899999999999999852                34799999864

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

Probab=98.99  E-value=1.8e-10  Score=98.62  Aligned_cols=46  Identities=35%  Similarity=0.777  Sum_probs=37.7

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhc---CCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK---SKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~---~~sCPlCR~~l  225 (225)
                      ..-+|.|||+.-+.   .+++.|||.||+.||.+||+.   ++.||+||..+
T Consensus        46 ~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V   94 (230)
T KOG0823|consen   46 GFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV   94 (230)
T ss_pred             CceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence            33478999987544   478899999999999999986   45699999864

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

Probab=98.95  E-value=2.2e-10  Score=110.41  Aligned_cols=48  Identities=44%  Similarity=1.108  Sum_probs=42.9

Q ss_pred             ccccccccccccccCce--eEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGLQ--VTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~--~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      ....|+||++++..+.+  ..++||+|+||..|+.+|++.+++||+||..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~  339 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV  339 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence            34468999999998765  7889999999999999999999999999973

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

Probab=98.89  E-value=9.3e-10  Score=81.05  Aligned_cols=45  Identities=38%  Similarity=0.877  Sum_probs=34.9

Q ss_pred             cccccccccccC--------c--eeEEeCcCCeecHHHHHHHhhc---CCCCCCcCCC
Q 041990          180 LCAICLQEFVVG--------L--QVTRLPCSHIFHGDCVLNWLTK---SKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g--------~--~~~~lpC~H~FH~~CI~~WL~~---~~sCPlCR~~  224 (225)
                      .|.||...|...        +  .++.-.|+|.||.+||.+||++   +..||+||++
T Consensus        23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~   80 (85)
T PF12861_consen   23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP   80 (85)
T ss_pred             ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence            578888888742        1  2233369999999999999986   4689999985

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

Probab=98.89  E-value=1.2e-09  Score=70.41  Aligned_cols=38  Identities=39%  Similarity=0.883  Sum_probs=29.4

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhhcC----CCCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS----KSCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~----~sCPlC  221 (225)
                      |+||++.|..+   +.|+|||+|+..||.+|.+..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            79999999755   779999999999999999863    369998

>PHA02926 zinc finger-like protein; Provisional

Probab=98.88  E-value=7.5e-10  Score=94.58  Aligned_cols=47  Identities=30%  Similarity=0.735  Sum_probs=35.5

Q ss_pred             ccccccccccccC-----ceeEEe-CcCCeecHHHHHHHhhcC------CCCCCcCCCC
Q 041990          179 CLCAICLQEFVVG-----LQVTRL-PCSHIFHGDCVLNWLTKS------KSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g-----~~~~~l-pC~H~FH~~CI~~WL~~~------~sCPlCR~~l  225 (225)
                      .+|+|||+..-..     ..-+.| +|+|.||..||.+|.+.+      .+||+||..+
T Consensus       171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            4689999976332     123445 799999999999999753      4699999853

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.86  E-value=1.7e-09  Score=70.14  Aligned_cols=44  Identities=32%  Similarity=0.778  Sum_probs=38.4

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      .|+||++.+........++|+|+||..|+.++......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            48999999955566788899999999999999866789999985

>smart00504 Ubox Modified RING finger domain

Probab=98.86  E-value=2.7e-09  Score=73.52  Aligned_cols=43  Identities=23%  Similarity=0.472  Sum_probs=38.5

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+..+   +.+||||+|+..||.+|++.+.+||+|+.++
T Consensus         3 ~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~   45 (63)
T smart00504        3 LCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPL   45 (63)
T ss_pred             CCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence            489999998765   6679999999999999999999999999764

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

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

Probab=98.85  E-value=1.6e-09  Score=68.79  Aligned_cols=39  Identities=51%  Similarity=1.152  Sum_probs=33.5

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhh--cCCCCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT--KSKSCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~--~~~sCPlC  221 (225)
                      |+||++.+..+  ...++|+|.||..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            79999998754  35789999999999999999  46689998

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 ....

>smart00184 RING Ring finger

Probab=98.81  E-value=3.4e-09  Score=64.72  Aligned_cols=38  Identities=42%  Similarity=1.180  Sum_probs=32.8

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhh-cCCCCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT-KSKSCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCPlC  221 (225)
                      |+||++..   .....++|+|.||..|+..|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            79999883   4567789999999999999998 56789998

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)

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

Probab=98.81  E-value=1.7e-09  Score=89.36  Aligned_cols=48  Identities=27%  Similarity=0.756  Sum_probs=39.9

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      +...|+|||+.+..... ..+.|||+||..||..-+++.+.||+||.+|
T Consensus       130 ~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI  177 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKI  177 (187)
T ss_pred             cccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence            33578999999874322 4478999999999999999999999999764

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

Probab=98.66  E-value=1.5e-08  Score=73.46  Aligned_cols=27  Identities=41%  Similarity=1.051  Sum_probs=25.9

Q ss_pred             CcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          198 PCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       198 pC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      -|.|.||.+||.+||.+++.||++|++
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~   79 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQT   79 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCce
Confidence            699999999999999999999999986

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

Probab=98.65  E-value=4.2e-09  Score=104.48  Aligned_cols=66  Identities=27%  Similarity=0.563  Sum_probs=44.3

Q ss_pred             HHHhcccccccccccccccccccccccccccCce----eEEeCcCCeecHHHHHHHhhc--CCCCCCcCCCC
Q 041990          160 AIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQ----VTRLPCSHIFHGDCVLNWLTK--SKSCPLCRSEL  225 (225)
Q Consensus       160 ~i~~L~~~~~~~~~~~~~~c~C~ICLee~~~g~~----~~~lpC~H~FH~~CI~~WL~~--~~sCPlCR~~l  225 (225)
                      ..+.|...+........+..+||||+..+..-++    .++-.|.|.||..|+.+|++.  +++||+||.++
T Consensus      1451 ~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1451 FMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             HHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            3344433333333333555678999988763221    133359999999999999987  56899999875

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.62  E-value=1.9e-08  Score=93.37  Aligned_cols=44  Identities=39%  Similarity=0.751  Sum_probs=38.6

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.|..+   +.+||+|.||..||..|+.....||+||..+
T Consensus        27 l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~   70 (397)
T TIGR00599        27 LRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAED   70 (397)
T ss_pred             cCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence            4789999998654   4689999999999999999988999999853

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

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

Probab=98.48  E-value=3.2e-08  Score=71.12  Aligned_cols=45  Identities=36%  Similarity=0.848  Sum_probs=34.1

Q ss_pred             cccccccccccCceeE---------Ee-CcCCeecHHHHHHHhhc---CCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVT---------RL-PCSHIFHGDCVLNWLTK---SKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~---------~l-pC~H~FH~~CI~~WL~~---~~sCPlCR~~  224 (225)
                      .|.||...|...-..-         .+ -|.|.||.+||.+|+..   +..||+||++
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~   79 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQT   79 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhe
Confidence            6799988887532111         12 49999999999999976   4579999985

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

Probab=98.45  E-value=1.2e-07  Score=63.03  Aligned_cols=42  Identities=31%  Similarity=0.834  Sum_probs=32.8

Q ss_pred             cccccccccccCceeEEeCcC-----CeecHHHHHHHhhcC--CCCCCcC
Q 041990          180 LCAICLQEFVVGLQVTRLPCS-----HIFHGDCVLNWLTKS--KSCPLCR  222 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~-----H~FH~~CI~~WL~~~--~sCPlCR  222 (225)
                      .|.||++. ..+.....+||.     |.+|..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            37999983 334455678985     899999999999764  4899995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

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

Probab=98.45  E-value=7.2e-08  Score=84.21  Aligned_cols=46  Identities=39%  Similarity=0.871  Sum_probs=37.7

Q ss_pred             cccccccccccccccCceeEEeCcCCeecHHHHHH-HhhcCC-CCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLN-WLTKSK-SCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~-WL~~~~-sCPlCR~~  224 (225)
                      ..+..|+||++....   ...+||||+||..||.. |-.++. .||+||+.
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak  260 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAK  260 (271)
T ss_pred             ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhh
Confidence            345578999988654   47789999999999999 977765 49999985

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

Probab=98.45  E-value=1.4e-07  Score=61.12  Aligned_cols=38  Identities=39%  Similarity=0.888  Sum_probs=22.9

Q ss_pred             ccccccccccC-ceeEEeCcCCeecHHHHHHHhhcCC----CCC
Q 041990          181 CAICLQEFVVG-LQVTRLPCSHIFHGDCVLNWLTKSK----SCP  219 (225)
Q Consensus       181 C~ICLee~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~----sCP  219 (225)
                      |+||.+ |... .....|||||+|+.+||.+|++++.    .||
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            799999 7554 4567899999999999999998642    577

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

Probab=98.44  E-value=8.5e-08  Score=90.32  Aligned_cols=44  Identities=45%  Similarity=0.974  Sum_probs=35.6

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-----CCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-----KSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-----~sCPlCR~~l  225 (225)
                      -.|||||+.....   .+|.|||+||..||.+++...     ..||+||..|
T Consensus       187 ~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I  235 (513)
T KOG2164|consen  187 MQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI  235 (513)
T ss_pred             CcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence            3689999886544   566799999999999998753     5799999754

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

Probab=98.31  E-value=4.2e-07  Score=65.13  Aligned_cols=43  Identities=26%  Similarity=0.503  Sum_probs=34.4

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .|+|+.+.+..+   +++|+||+|.+.||.+||++ +.+||+||.++
T Consensus         6 ~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l   49 (73)
T PF04564_consen    6 LCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPL   49 (73)
T ss_dssp             B-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred             CCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence            589999999765   77899999999999999999 88999998764

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 ....

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

Probab=98.31  E-value=1.4e-07  Score=82.76  Aligned_cols=48  Identities=33%  Similarity=0.942  Sum_probs=39.2

Q ss_pred             ccccccccccccccCc-------eeEEeCcCCeecHHHHHHHh--hcCCCCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGL-------QVTRLPCSHIFHGDCVLNWL--TKSKSCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~-------~~~~lpC~H~FH~~CI~~WL--~~~~sCPlCR~~  224 (225)
                      ++..|+||=..+....       +.-+|.|+|+||..||+.|.  .++.+||.|+.+
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKek  279 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEK  279 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHH
Confidence            3457899988776543       56788999999999999996  468899999865

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

Probab=98.28  E-value=2.6e-07  Score=83.30  Aligned_cols=43  Identities=33%  Similarity=0.812  Sum_probs=39.2

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|.||.+-|..+   ..+||+|.||.-||.+.|..+..||.|+.++
T Consensus        25 RC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~   67 (442)
T KOG0287|consen   25 RCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTV   67 (442)
T ss_pred             HHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceeccc
Confidence            689999999766   7789999999999999999999999999763

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

Probab=98.27  E-value=2.7e-07  Score=86.60  Aligned_cols=50  Identities=38%  Similarity=0.929  Sum_probs=38.0

Q ss_pred             cccccccccccccccCc---e-----------eEEeCcCCeecHHHHHHHhhcCC-CCCCcCCCC
Q 041990          176 RQQCLCAICLQEFVVGL---Q-----------VTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL  225 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~---~-----------~~~lpC~H~FH~~CI~~WL~~~~-sCPlCR~~l  225 (225)
                      .....|+|||..+.--.   .           -..+||.|+||..|+.+|..+-+ .||+||.++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL  633 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL  633 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence            34447899999775321   1           12359999999999999999644 899999875

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

Probab=98.24  E-value=5.2e-07  Score=79.99  Aligned_cols=42  Identities=29%  Similarity=0.710  Sum_probs=38.2

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .|-||-+-|..+   ..++|||.||.-||...|..+..||+||.+
T Consensus        27 rC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~   68 (391)
T COG5432          27 RCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED   68 (391)
T ss_pred             Hhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence            689999888765   667999999999999999999999999975

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

Probab=98.23  E-value=3.9e-07  Score=84.68  Aligned_cols=43  Identities=33%  Similarity=0.935  Sum_probs=36.1

Q ss_pred             ccccccccccccCce-eEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          179 CLCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       179 c~C~ICLee~~~g~~-~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      .+||||||-+..... +..+.|.|.||..|+.+|  ...+||+||+
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~  219 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRY  219 (493)
T ss_pred             CCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhh
Confidence            479999998876543 345589999999999999  7789999997

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

Probab=98.20  E-value=2.4e-07  Score=66.14  Aligned_cols=46  Identities=28%  Similarity=0.632  Sum_probs=22.1

Q ss_pred             cccccccccc-cCcee--EEe--CcCCeecHHHHHHHhhc-----------CCCCCCcCCCC
Q 041990          180 LCAICLQEFV-VGLQV--TRL--PCSHIFHGDCVLNWLTK-----------SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~-~g~~~--~~l--pC~H~FH~~CI~~WL~~-----------~~sCPlCR~~l  225 (225)
                      +|+||++.+. .+...  ..-  .|++.||..|+.+||..           .+.||.|+.+|
T Consensus         4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            6899999866 33322  222  59999999999999973           12599999864

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

Probab=97.96  E-value=4.9e-06  Score=63.23  Aligned_cols=27  Identities=41%  Similarity=0.971  Sum_probs=25.2

Q ss_pred             CcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          198 PCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       198 pC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      -|.|.||.+||.+||++++.||+|-++
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            699999999999999999999999764

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

Probab=97.72  E-value=3.8e-06  Score=76.23  Aligned_cols=45  Identities=36%  Similarity=0.775  Sum_probs=36.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      -.|+|||+.++..  .....|.|.||.+||.+-++. +++||.||+.+
T Consensus        44 v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l   89 (381)
T KOG0311|consen   44 VICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL   89 (381)
T ss_pred             hccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence            4689999988632  333469999999999888875 78999999853

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

Probab=97.62  E-value=1.4e-05  Score=55.88  Aligned_cols=41  Identities=29%  Similarity=0.776  Sum_probs=21.7

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .|++|.+.+..+  +....|.|+||..||..-+..  -||+|+.+
T Consensus         9 rCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~P   49 (65)
T PF14835_consen    9 RCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECPVCHTP   49 (65)
T ss_dssp             S-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-SSS--B
T ss_pred             CCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCCCcCCh
Confidence            689999988744  334479999999999886554  49999875

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

Probab=97.60  E-value=1.3e-05  Score=79.01  Aligned_cols=46  Identities=28%  Similarity=0.629  Sum_probs=41.5

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|++|+..+..+......+|+|.||.+||..|-+.-.+||+||.++
T Consensus       125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            5799999998887777789999999999999999999999999753

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

Probab=97.50  E-value=6.1e-05  Score=68.55  Aligned_cols=45  Identities=31%  Similarity=0.785  Sum_probs=36.5

Q ss_pred             cccccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..+|.|||.+.   ..+..|||.|. -|..|.+..--+.+.||+||+++
T Consensus       290 gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  290 GKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             CCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence            45799999875   45688999997 68889877665788899999874

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

Probab=97.50  E-value=3.9e-05  Score=70.19  Aligned_cols=47  Identities=36%  Similarity=0.868  Sum_probs=35.2

Q ss_pred             cccccccccccccCc----eeEEeC-cCCeecHHHHHHHhh--c-----CCCCCCcCCC
Q 041990          178 QCLCAICLQEFVVGL----QVTRLP-CSHIFHGDCVLNWLT--K-----SKSCPLCRSE  224 (225)
Q Consensus       178 ~c~C~ICLee~~~g~----~~~~lp-C~H~FH~~CI~~WL~--~-----~~sCPlCR~~  224 (225)
                      +..|.||++......    ..+++| |.|.||..||.+|-+  +     ...||.||..
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~  219 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP  219 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence            346899999765432    123444 999999999999973  3     5789999975

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

Probab=97.43  E-value=3.5e-05  Score=68.80  Aligned_cols=39  Identities=33%  Similarity=0.634  Sum_probs=33.1

Q ss_pred             ccccccccccccccccccCceeEEeCcCCeecHHHHHHHhh
Q 041990          173 RLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT  213 (225)
Q Consensus       173 ~~~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~  213 (225)
                      +....+|  .|||--|..+....+++|-|.||..|+.++|.
T Consensus       112 n~p~gqC--vICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~  150 (368)
T KOG4445|consen  112 NHPNGQC--VICLYGFASSPAFTVTACDHYMHFACLARYLT  150 (368)
T ss_pred             CCCCCce--EEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence            3335555  99999999999899999999999999988873

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

Probab=97.18  E-value=0.00019  Score=66.99  Aligned_cols=46  Identities=33%  Similarity=0.767  Sum_probs=38.5

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .+.+|.||+..+..+   +.+||||.||..||.+-+..+..||.||.++
T Consensus        83 sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l  128 (398)
T KOG4159|consen   83 SEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDEL  128 (398)
T ss_pred             chhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccc
Confidence            344789998887644   6679999999999999888888999999764

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

Probab=97.16  E-value=0.00011  Score=67.69  Aligned_cols=44  Identities=39%  Similarity=0.904  Sum_probs=36.7

Q ss_pred             cccccccccccC-ceeEEeCcCCeecHHHHHHHhhcC--CCCCCcCC
Q 041990          180 LCAICLQEFVVG-LQVTRLPCSHIFHGDCVLNWLTKS--KSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g-~~~~~lpC~H~FH~~CI~~WL~~~--~sCPlCR~  223 (225)
                      -|..|=+.+... +....|||+|+||..|+...|.++  .+||.||+
T Consensus       367 ~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  367 YCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            589998877654 456778999999999999999875  48999993

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

Probab=97.16  E-value=0.00012  Score=67.74  Aligned_cols=43  Identities=35%  Similarity=1.001  Sum_probs=34.6

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc--CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCPlCR~~l  225 (225)
                      .|-||-+.   ...+.+-||||..|..|+..|-..  ..+||.||.+|
T Consensus       371 LCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            48999865   234566699999999999999754  57899999865

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

Probab=97.15  E-value=0.00019  Score=66.95  Aligned_cols=47  Identities=36%  Similarity=0.859  Sum_probs=39.1

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ....|++|...+..+..  .+.|+|.||..|+.+|+..+..||.||..+
T Consensus        20 ~~l~C~~C~~vl~~p~~--~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~   66 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDPVQ--TTTCGHRFCAGCLLESLSNHQKCPVCRQEL   66 (391)
T ss_pred             ccccCccccccccCCCC--CCCCCCcccccccchhhccCcCCccccccc
Confidence            33578999998876533  268999999999999999999999998753

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

Probab=97.14  E-value=0.00032  Score=48.08  Aligned_cols=40  Identities=35%  Similarity=0.747  Sum_probs=28.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc--CCCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--SKSCPL  220 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCPl  220 (225)
                      ..|||.+..|+  +.++...|+|+|-...|.+||++  ...||+
T Consensus        12 ~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   12 LKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            36899999987  44666789999999999999954  446998

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

Probab=97.12  E-value=7.7e-05  Score=50.55  Aligned_cols=44  Identities=27%  Similarity=0.619  Sum_probs=31.7

Q ss_pred             ccccccccccccCceeEEeCcCCe-ecHHHHHHHhh-cCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLT-KSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~-~~~sCPlCR~~l  225 (225)
                      .+|.||++.-..   .+...|||. .|..|-.+-++ .+..||+||.++
T Consensus         8 dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            378999985432   234489996 57788666555 688999999864

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

Probab=96.89  E-value=0.00028  Score=69.62  Aligned_cols=46  Identities=22%  Similarity=0.664  Sum_probs=36.6

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      +-+.|++|-.-++.   ++.+.|+|+||..||..-+.+ +..||.|-..+
T Consensus       642 ~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF  688 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAF  688 (698)
T ss_pred             hceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence            34579999866543   356689999999999999986 67899997653

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

Probab=96.88  E-value=0.00031  Score=57.72  Aligned_cols=40  Identities=35%  Similarity=0.816  Sum_probs=32.0

Q ss_pred             cccccccccccccccccccccccccCceeEEeCcCCeecH
Q 041990          166 RVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHG  205 (225)
Q Consensus       166 ~~~~~~~~~~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~  205 (225)
                      ++.+.++-...+.-+|.||||++..|+.+.+|||-.+||.
T Consensus       165 rlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  165 RLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccccccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            3344445455556689999999999999999999999995

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

Probab=96.56  E-value=0.0014  Score=43.02  Aligned_cols=40  Identities=28%  Similarity=0.779  Sum_probs=27.1

Q ss_pred             ccccccccccCceeEEeCcC--C---eecHHHHHHHhhc--CCCCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCS--H---IFHGDCVLNWLTK--SKSCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~--H---~FH~~CI~~WL~~--~~sCPlC  221 (225)
                      |-||++.-.... ..+.||.  -   ..|..|+.+|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            689998766544 4556763  3   7899999999985  5679988

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

Probab=96.42  E-value=0.00065  Score=61.37  Aligned_cols=44  Identities=30%  Similarity=0.683  Sum_probs=34.9

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      -.|.+|---|-.  ..++.-|-|.||..||.+.|..+.+||.|.-.
T Consensus        16 itC~LC~GYliD--ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~   59 (331)
T KOG2660|consen   16 ITCRLCGGYLID--ATTITECLHTFCKSCIVKYLEESKYCPTCDIV   59 (331)
T ss_pred             eehhhccceeec--chhHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence            368999765543  23344699999999999999999999999753

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

Probab=96.24  E-value=0.003  Score=66.33  Aligned_cols=73  Identities=27%  Similarity=0.600  Sum_probs=51.0

Q ss_pred             CCCCCHHHHHhccccccccccc-ccccccccccccccccCceeEEeCcCCeecHHHHHHHhhcC----------CCCCCc
Q 041990          153 AEGASREAIERLERVQIDEDRL-RRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS----------KSCPLC  221 (225)
Q Consensus       153 ~~~as~~~i~~L~~~~~~~~~~-~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~----------~sCPlC  221 (225)
                      +-|.-+.....||-..-+.... ...+..|.||+.+--......+|.|+|.||..|...-|+++          -+||+|
T Consensus      3460 ~CGGvkNEE~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC 3539 (3738)
T KOG1428|consen 3460 PCGGVKNEEHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPIC 3539 (3738)
T ss_pred             cccCccchhhcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccc
Confidence            3344455556677665433322 23344689999876666778889999999999998877652          269999


Q ss_pred             CCCC
Q 041990          222 RSEL  225 (225)
Q Consensus       222 R~~l  225 (225)
                      +.+|
T Consensus      3540 ~n~I 3543 (3738)
T KOG1428|consen 3540 KNKI 3543 (3738)
T ss_pred             cchh
Confidence            9865

>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=96.22  E-value=0.0019  Score=48.42  Aligned_cols=30  Identities=23%  Similarity=0.644  Sum_probs=25.2

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHH
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVL  209 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~  209 (225)
                      ..|++|-..+.. ......||+|+||..|+.
T Consensus        79 ~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   79 TKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            458999999876 566778999999999975

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 [].

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

Probab=96.22  E-value=0.0044  Score=54.89  Aligned_cols=47  Identities=23%  Similarity=0.474  Sum_probs=35.7

Q ss_pred             cccccccccccccccCceeEEeCcCCeecHHHHHHHhhc--CCCCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--SKSCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCPlCR~~  224 (225)
                      ..+.+|++|-+.-..+  -...+|+|+||+-||..=+..  +.+||.|-.+
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~  285 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN  285 (298)
T ss_pred             cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence            4556899998765433  344579999999999987765  4789999764

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.20  E-value=0.0048  Score=54.01  Aligned_cols=49  Identities=18%  Similarity=0.421  Sum_probs=43.2

Q ss_pred             ccccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ....||||.+.+.+......| ||||+|+.+|+.+.+.....||+|-.++
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl  269 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL  269 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence            445799999999988777777 8999999999999999999999997654

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

Probab=96.14  E-value=0.0036  Score=41.46  Aligned_cols=44  Identities=23%  Similarity=0.505  Sum_probs=22.6

Q ss_pred             cccccccccc-CceeEEeCcCCeecHHHHHHHhh-cCCCCCCcCCC
Q 041990          181 CAICLQEFVV-GLQVTRLPCSHIFHGDCVLNWLT-KSKSCPLCRSE  224 (225)
Q Consensus       181 C~ICLee~~~-g~~~~~lpC~H~FH~~CI~~WL~-~~~sCPlCR~~  224 (225)
                      |++|.+++.. +....--+|++..+..|-.+-++ ..+.||-||.+
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            6999999833 22333346899999999888886 47899999975

>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=96.12  E-value=0.003  Score=50.49  Aligned_cols=35  Identities=23%  Similarity=0.495  Sum_probs=28.8

Q ss_pred             ccccccccccccCceeEEeCcC------CeecHHHHHHHhh
Q 041990          179 CLCAICLQEFVVGLQVTRLPCS------HIFHGDCVLNWLT  213 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~------H~FH~~CI~~WL~  213 (225)
                      -+|+||++.+.....++.++|+      |.||.+|+.+|-+
T Consensus        27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            3799999999884456777885      8999999999943

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

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

Probab=96.12  E-value=0.0018  Score=54.95  Aligned_cols=42  Identities=26%  Similarity=0.686  Sum_probs=37.1

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .|.||-.+|..+   +.+.|||.||..|..+=.++...|-+|-..
T Consensus       198 ~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         198 LCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             eehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            689999999766   678899999999999999999999999653

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

Probab=95.92  E-value=0.0052  Score=53.15  Aligned_cols=45  Identities=33%  Similarity=0.766  Sum_probs=36.9

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc--------CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--------SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--------~~sCPlCR~~l  225 (225)
                      -|..|-..+..|+. ++|-|-|+||+.|+..|-..        ...||-|..+|
T Consensus        52 NC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   52 NCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            57999888877754 67899999999999999764        34699998765

>PHA03096 p28-like protein; Provisional

Probab=95.86  E-value=0.0039  Score=55.88  Aligned_cols=45  Identities=27%  Similarity=0.510  Sum_probs=32.1

Q ss_pred             ccccccccccccCc----eeEEe-CcCCeecHHHHHHHhhc---CCCCCCcCC
Q 041990          179 CLCAICLQEFVVGL----QVTRL-PCSHIFHGDCVLNWLTK---SKSCPLCRS  223 (225)
Q Consensus       179 c~C~ICLee~~~g~----~~~~l-pC~H~FH~~CI~~WL~~---~~sCPlCR~  223 (225)
                      -.|.|||+......    .-..| .|.|.||..||..|-..   ..+||.||.
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            46899999776532    23455 49999999999999864   334555553

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

Probab=95.78  E-value=0.0052  Score=57.17  Aligned_cols=44  Identities=32%  Similarity=0.679  Sum_probs=35.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc--------CCCCCCcC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--------SKSCPLCR  222 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--------~~sCPlCR  222 (225)
                      ..|.||+++.....-...+||+|+||..|...++..        .-.||-+.
T Consensus       185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            368999999876677888999999999999999863        22587654

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

Probab=95.69  E-value=0.0071  Score=55.44  Aligned_cols=46  Identities=28%  Similarity=0.661  Sum_probs=37.4

Q ss_pred             cccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .++..|+||.-.   +-.++..||+|.-|..||.+-+.+.+.|=.|+.+
T Consensus       420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktT  465 (489)
T KOG4692|consen  420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTT  465 (489)
T ss_pred             cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecce
Confidence            344579999743   2345667999999999999999999999999875

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

Probab=95.67  E-value=0.0072  Score=39.00  Aligned_cols=41  Identities=24%  Similarity=0.718  Sum_probs=24.1

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhhcCC--CCCCc
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK--SCPLC  221 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~--sCPlC  221 (225)
                      |.+|.+....|..-..-.|+=.+|..|+.++++...  .||.|
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            678888777664333334999999999999998865  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.66  E-value=0.004  Score=55.66  Aligned_cols=42  Identities=29%  Similarity=0.607  Sum_probs=37.6

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .|-||...|..+   +++.|+|.||..|..+=+++...|++|-++
T Consensus       243 ~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~  284 (313)
T KOG1813|consen  243 KCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQ  284 (313)
T ss_pred             cccccccccccc---hhhcCCceeehhhhccccccCCcceecccc
Confidence            479999999765   778999999999999999999999999775

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.45  E-value=0.016  Score=51.06  Aligned_cols=48  Identities=27%  Similarity=0.614  Sum_probs=37.8

Q ss_pred             cccccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .....|||...+|......+.+ ||||+|-..+|..- .....||+|-.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~  159 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKP  159 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCc
Confidence            3445789999999665565555 99999999999887 336689999765

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

Probab=95.42  E-value=0.0064  Score=60.97  Aligned_cols=49  Identities=31%  Similarity=0.714  Sum_probs=37.0

Q ss_pred             ccccccccccccccccCceeE-EeCcCCeecHHHHHHHhhcC-------CCCCCcCC
Q 041990          175 RRQQCLCAICLQEFVVGLQVT-RLPCSHIFHGDCVLNWLTKS-------KSCPLCRS  223 (225)
Q Consensus       175 ~~~~c~C~ICLee~~~g~~~~-~lpC~H~FH~~CI~~WL~~~-------~sCPlCR~  223 (225)
                      .+...+|.||++.+.....+. ...|-|+||..||.+|-++.       -.||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            355568999999987655443 33699999999999998651       15999973

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

Probab=95.22  E-value=0.0089  Score=54.73  Aligned_cols=40  Identities=35%  Similarity=0.897  Sum_probs=29.4

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|.||+++..+   ..-+||||+=|  |+.- -+...+||+||+.|
T Consensus       307 lcVVcl~e~~~---~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI  346 (355)
T KOG1571|consen  307 LCVVCLDEPKS---AVFVPCGHVCC--CTLC-SKHLPQCPVCRQRI  346 (355)
T ss_pred             ceEEecCCccc---eeeecCCcEEE--chHH-HhhCCCCchhHHHH
Confidence            58999998754   57789999976  5433 23455699999853

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

Probab=95.14  E-value=0.0035  Score=56.03  Aligned_cols=41  Identities=32%  Similarity=0.750  Sum_probs=30.0

Q ss_pred             cccccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+|||+.-   .....|+|||. -|..|-..    -+.||+||+.|
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            44699999764   45578899995 47777644    34899999753

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

Probab=95.13  E-value=0.016  Score=52.56  Aligned_cols=47  Identities=15%  Similarity=0.413  Sum_probs=36.2

Q ss_pred             ccccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          175 RRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       175 ~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      ....+.||||+..-.++  .+...-|-+||+.||.+.+.+.+.||+=-.
T Consensus       297 ~~~~~~CpvClk~r~Np--tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNP--TVLEVSGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             CCccccChhHHhccCCC--ceEEecceEEeHHHHHHHHHhcCCCCccCC
Confidence            35566899999876544  233346999999999999999999998443

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

Probab=94.80  E-value=0.0097  Score=57.13  Aligned_cols=43  Identities=21%  Similarity=0.636  Sum_probs=33.4

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-----CCCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-----SKSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-----~~sCPlCR~~  224 (225)
                      -+|.+|-+.-+   ......|.|.||+-||..++..     +-+||.|-..
T Consensus       537 ~~C~lc~d~ae---d~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~  584 (791)
T KOG1002|consen  537 VECGLCHDPAE---DYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIG  584 (791)
T ss_pred             eeecccCChhh---hhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence            46899987643   3356789999999999998763     4589999654

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

Probab=94.49  E-value=0.0024  Score=58.98  Aligned_cols=46  Identities=28%  Similarity=0.706  Sum_probs=40.1

Q ss_pred             cccccccccccC-ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVG-LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||.+.++.. .+...+-|+|.+|..||.+||.+...||-||+++
T Consensus       198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel  244 (465)
T KOG0827|consen  198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRREL  244 (465)
T ss_pred             hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhh
Confidence            579999999876 5566678999999999999999999999999864

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

Probab=94.31  E-value=0.022  Score=50.80  Aligned_cols=44  Identities=25%  Similarity=0.750  Sum_probs=37.4

Q ss_pred             cccccccccccCc-eeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          180 LCAICLQEFVVGL-QVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~-~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      .||||.+.+..+. .+..++|||.-|..|.......+.+||+|..
T Consensus       160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            3799999887765 4577899999999999988888899999975

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

Probab=94.14  E-value=0.029  Score=47.04  Aligned_cols=46  Identities=28%  Similarity=0.746  Sum_probs=31.1

Q ss_pred             cccccccccccCcee----EEeCcCCeecHHHHHHHhhc-----------CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQV----TRLPCSHIFHGDCVLNWLTK-----------SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~----~~lpC~H~FH~~CI~~WL~~-----------~~sCPlCR~~l  225 (225)
                      .|.||+----.|...    --..|+.-||.-|+..||+.           -..||.|..++
T Consensus       167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi  227 (234)
T KOG3268|consen  167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI  227 (234)
T ss_pred             cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence            357776433333221    22479999999999999974           12599998764

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.01  E-value=0.041  Score=45.22  Aligned_cols=48  Identities=27%  Similarity=0.627  Sum_probs=29.2

Q ss_pred             ccccccccccccccCceeEEe-CcCCeecHHHHHHHhhc--CCCCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTK--SKSCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~--~~sCPlCR~~  224 (225)
                      ....|-||.++-......-.- .-...-|.+|+.+|+..  ..+||+|+++
T Consensus         7 ~~~~CRIC~~~~~~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~   57 (162)
T PHA02825          7 MDKCCWICKDEYDVVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGP   57 (162)
T ss_pred             CCCeeEecCCCCCCccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCe
Confidence            344689999874311000000 00015699999999986  4479999875

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

Probab=93.70  E-value=0.024  Score=56.42  Aligned_cols=42  Identities=29%  Similarity=0.636  Sum_probs=34.7

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc--CCCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--SKSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--~~sCPlCR~~  224 (225)
                      ..|.||++    ......++|+|.||..|+.+-++.  ...||+||..
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~  498 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNV  498 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHH
Confidence            57899998    356688899999999999998875  3369999964

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

Probab=93.48  E-value=0.049  Score=49.21  Aligned_cols=39  Identities=26%  Similarity=0.714  Sum_probs=32.2

Q ss_pred             cccccccccccCceeEEeCc--CCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPC--SHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC--~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      +||||.+.+..+    .+.|  ||.-|..|-.   +.++.||.||.+|
T Consensus        50 eCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~   90 (299)
T KOG3002|consen   50 DCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPI   90 (299)
T ss_pred             cCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCcccccc
Confidence            689999998765    5677  7999999975   3688899999875

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

Probab=93.15  E-value=0.06  Score=49.77  Aligned_cols=27  Identities=26%  Similarity=0.934  Sum_probs=22.1

Q ss_pred             cCCeecHHHHHHHhhc-------------CCCCCCcCCCC
Q 041990          199 CSHIFHGDCVLNWLTK-------------SKSCPLCRSEL  225 (225)
Q Consensus       199 C~H~FH~~CI~~WL~~-------------~~sCPlCR~~l  225 (225)
                      |.-.+|.+|+.+||..             +-+||.||+++
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            7888899999999963             33699999864

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

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.87  E-value=0.052  Score=36.90  Aligned_cols=33  Identities=30%  Similarity=0.853  Sum_probs=25.2

Q ss_pred             CceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          191 GLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       191 g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      +.+...+||+|+.+..|-.-  +.-+.||+|-+++
T Consensus        17 ~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~   49 (55)
T PF14447_consen   17 GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPF   49 (55)
T ss_pred             ccccccccccceeeccccCh--hhccCCCCCCCcc
Confidence            34557789999999999544  3667899998764

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

Probab=92.72  E-value=0.047  Score=49.35  Aligned_cols=40  Identities=30%  Similarity=0.790  Sum_probs=26.6

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      .|--|=-.+  .-..+..||+|+||.+|...  ..-+.||+|-.
T Consensus        92 fCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d  131 (389)
T KOG2932|consen   92 FCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDD  131 (389)
T ss_pred             eecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCccc
Confidence            356663322  22334559999999999743  34678999964

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

Probab=92.55  E-value=0.11  Score=47.64  Aligned_cols=43  Identities=37%  Similarity=0.802  Sum_probs=33.8

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHH--hhcCCCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNW--LTKSKSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~W--L~~~~sCPlCR~~  224 (225)
                      -.|.||-+.+   ....++||+|.-|--|..+.  |-+.+.||+||.+
T Consensus        62 ~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          62 MNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            3589998765   35578899999999998664  4468899999974

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

Probab=91.85  E-value=0.084  Score=53.27  Aligned_cols=40  Identities=25%  Similarity=0.708  Sum_probs=31.4

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      ..|..|--.+..+  .+-.-|+|.||.+|+.   .+...||-|+-
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccch
Confidence            4689997766533  4556799999999998   56778999985

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

Probab=91.65  E-value=0.1  Score=47.14  Aligned_cols=42  Identities=26%  Similarity=0.637  Sum_probs=32.3

Q ss_pred             ccccccccccccCceeEEeC-cCCeecHHHHHHHhh-cCCCCCCcCC
Q 041990          179 CLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLT-KSKSCPLCRS  223 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI~~WL~-~~~sCPlCR~  223 (225)
                      -.|+.|--.+...   ..+| |+|.||.+||..-|. ....||.|.+
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            4689998776554   4455 899999999997765 4678999976

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

Probab=89.73  E-value=0.093  Score=55.08  Aligned_cols=42  Identities=36%  Similarity=0.705  Sum_probs=36.5

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~  223 (225)
                      .|.||++.+..  ...+..|+|.+|..|+..|+..+..||.|..
T Consensus      1155 ~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1155 VCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             chHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            68999999872  2356789999999999999999999999964

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.26  E-value=0.25  Score=44.52  Aligned_cols=27  Identities=26%  Similarity=0.803  Sum_probs=21.8

Q ss_pred             cCCeecHHHHHHHhh-------------cCCCCCCcCCCC
Q 041990          199 CSHIFHGDCVLNWLT-------------KSKSCPLCRSEL  225 (225)
Q Consensus       199 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~l  225 (225)
                      |...+|.+|+.+|+.             ++-+||.||+.+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f  364 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF  364 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence            678889999999984             345799999853

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

Probab=87.50  E-value=0.26  Score=50.04  Aligned_cols=34  Identities=26%  Similarity=0.714  Sum_probs=26.8

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhh
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT  213 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~  213 (225)
                      ..|.+|...+... .-...||+|.||+.||.+-..
T Consensus       818 d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  818 DSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cchHHhcchhhcC-cceeeeccchHHHHHHHHHHH
Confidence            3589999887643 456679999999999988753

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

Probab=86.96  E-value=0.25  Score=43.78  Aligned_cols=47  Identities=28%  Similarity=0.656  Sum_probs=34.4

Q ss_pred             cccccccccccccCce-eEEeCcC-----CeecHHHHHHHhh--cCCCCCCcCCC
Q 041990          178 QCLCAICLQEFVVGLQ-VTRLPCS-----HIFHGDCVLNWLT--KSKSCPLCRSE  224 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~-~~~lpC~-----H~FH~~CI~~WL~--~~~sCPlCR~~  224 (225)
                      +..|-||..+...... ...+||.     +..|..|+.+|+.  .+..|.+|.+.
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~  132 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF  132 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence            3468999997654322 4556874     6779999999998  45679999763

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

Probab=86.89  E-value=0.39  Score=48.21  Aligned_cols=28  Identities=25%  Similarity=0.718  Sum_probs=24.0

Q ss_pred             eeEEeCcCCeecHHHHHHHhhcCCCCCC
Q 041990          193 QVTRLPCSHIFHGDCVLNWLTKSKSCPL  220 (225)
Q Consensus       193 ~~~~lpC~H~FH~~CI~~WL~~~~sCPl  220 (225)
                      ...+..|+|+-|.+|...|++....||-
T Consensus      1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             chhhccccccccHHHHHHHHhcCCcCCC
Confidence            3345679999999999999999999984

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.46  E-value=0.54  Score=31.86  Aligned_cols=30  Identities=33%  Similarity=0.882  Sum_probs=25.5

Q ss_pred             ccccccccccccCceeEEeC-cCCeecHHHH
Q 041990          179 CLCAICLQEFVVGLQVTRLP-CSHIFHGDCV  208 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI  208 (225)
                      ..|++|-+.|..++.+++-| |+-.||+.|-
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~   36 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCW   36 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence            46899999998777777775 9999999994

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.10  E-value=0.25  Score=43.61  Aligned_cols=45  Identities=29%  Similarity=0.710  Sum_probs=31.0

Q ss_pred             cccccccccccCc-eeEEeCc-----CCeecHHHHHHHhhcC--------CCCCCcCCC
Q 041990          180 LCAICLQEFVVGL-QVTRLPC-----SHIFHGDCVLNWLTKS--------KSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~-~~~~lpC-----~H~FH~~CI~~WL~~~--------~sCPlCR~~  224 (225)
                      .|=||+.-=++.. ..-+-||     .|..|..|+..|+..+        -+||-|+.+
T Consensus        22 ~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE   80 (293)
T KOG3053|consen   22 CCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE   80 (293)
T ss_pred             eEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence            4899987533321 2234477     5899999999999542        269999874

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

Probab=83.87  E-value=0.95  Score=42.22  Aligned_cols=44  Identities=18%  Similarity=0.408  Sum_probs=36.6

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcC---CCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS---KSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~---~sCPlCR~  223 (225)
                      .|||=-+.=...+....|.|||+-..+=|.+..++.   ..||.|=.
T Consensus       336 ~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  336 ICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            689988877777888999999999999999987763   36999943

>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=83.30  E-value=0.51  Score=31.18  Aligned_cols=29  Identities=31%  Similarity=0.835  Sum_probs=22.3

Q ss_pred             eCc-CCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          197 LPC-SHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       197 lpC-~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..| .|..|..|+...|..+..||+|..++
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~L   45 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPL   45 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcC
Confidence            457 59999999999999999999998764

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.

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

Probab=82.30  E-value=0.49  Score=44.18  Aligned_cols=37  Identities=30%  Similarity=0.506  Sum_probs=27.1

Q ss_pred             cccccccccccccC-ceeEEeCcCCeecHHHHHHHhhc
Q 041990          178 QCLCAICLQEFVVG-LQVTRLPCSHIFHGDCVLNWLTK  214 (225)
Q Consensus       178 ~c~C~ICLee~~~g-~~~~~lpC~H~FH~~CI~~WL~~  214 (225)
                      ..+|.||+.+...+ .......|+|.||.+|..+.++.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            34789999544444 33344579999999999998874

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=81.70  E-value=0.78  Score=42.22  Aligned_cols=45  Identities=22%  Similarity=0.564  Sum_probs=31.9

Q ss_pred             cccccccccccCce-eEEeCcCCeecHHHHHHHhhc-CCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~-~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~  224 (225)
                      -|+.|++++...++ ..-.|||-..|.-|-..--+. ++.||-||+.
T Consensus        16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~   62 (480)
T COG5175          16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK   62 (480)
T ss_pred             cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence            48999999877654 344588987777774433332 7789999974

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

Probab=80.75  E-value=0.62  Score=45.28  Aligned_cols=38  Identities=45%  Similarity=1.053  Sum_probs=32.7

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      .|+||+++.    ..+..+|.   |..|..+|+..+..||+|+..
T Consensus       481 ~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~  518 (543)
T KOG0802|consen  481 VCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTY  518 (543)
T ss_pred             cchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchh
Confidence            579999987    44667888   899999999999999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	225
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		7e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-05

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 161 IERLERVQIDEDRLR-RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCP 219
           I+ L  + + ED     Q+  C IC  E+V G   T LPC H FH  CV  WL KS +CP
Sbjct: 22  IDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCP 81
Query: 220 LCR 222
           +CR
Sbjct: 82  VCR 84

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 31/45 (68%)
Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C +C +++ +G  V +LPC+H+FH  C++ WL +  SCP+CR  L
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 27/45 (60%)
Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C ICL     G  V RLPC H+FH  CV  WL  +K CP+CR ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 37/62 (59%)
Query: 163 RLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR 222
           +L   + + +  + +Q LC +C+ +F     +  LPC+H FH  CV  WL  +++CP+CR
Sbjct: 8   QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
Query: 223 SE 224
           ++
Sbjct: 68  AD 69

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/43 (48%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 181 CAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCR 222
           CA+CL E   G +   LP C H FH +CV  WL    +CPLCR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 26/43 (60%)
Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR 222
           LCA+CL++F    ++   PC H FH  C++ WL   K CPLC 
Sbjct: 17  LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCN 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	225
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-26
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	5e-19
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	8e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-14
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	9e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-08
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	6e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	7e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	8e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	7e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	9e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	5e-04

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

 Score = 97.0 bits (242), Expect = 2e-26
 Identities = 31/72 (43%), Positives = 40/72 (55%), Gaps = 1/72 (1%)

Query: 155 GASREAIERLERVQIDEDRLRRQQCL-CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT 213
            AS+E+I+ L  + + ED     Q + C IC  E+V G   T LPC H FH  CV  WL 
Sbjct: 16  PASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ 75

Query: 214 KSKSCPLCRSEL 225
           KS +CP+CR   
Sbjct: 76  KSGTCPVCRCMF 87

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

 Score = 79.7 bits (197), Expect = 5e-20
 Identities = 21/70 (30%), Positives = 39/70 (55%)

Query: 156 ASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS 215
            S  +  +L   + + +  + +Q LC +C+ +F     +  LPC+H FH  CV  WL  +
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 216 KSCPLCRSEL 225
           ++CP+CR++ 
Sbjct: 61  RTCPICRADS 70

>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 = 77.1 bits (190), Expect = 5e-19
 Identities = 19/45 (42%), Positives = 31/45 (68%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C +C +++ +G  V +LPC+H+FH  C++ WL +  SCP+CR  L
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 71.3 bits (175), Expect = 8e-17
 Identities = 18/45 (40%), Positives = 26/45 (57%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           CA+CL++F    ++   PC H FH  C++ WL   K CPLC   +
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62

>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 = 70.1 bits (172), Expect = 2e-16
 Identities = 22/45 (48%), Positives = 27/45 (60%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C ICL     G  V RLPC H+FH  CV  WL  +K CP+CR ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

 Score = 67.0 bits (164), Expect = 3e-15
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 4/45 (8%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C IC+           LPC+H F   C+  W  + ++CP+CR ++
Sbjct: 18  CCICMDGR----ADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58

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

 Score = 65.0 bits (159), Expect = 1e-14
 Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 178 QCLCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTKSKSCPLCR 222
              C ICL++          LPC H+ H  C    L +   CPLC 
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 63.8 bits (156), Expect = 3e-14
 Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 181 CAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           CA+CL E   G +   LP C H FH +CV  WL    +CPLCR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 61.7 bits (150), Expect = 3e-13
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C ICL++         LPC H F   C+  W+ ++ +CPLC+  +
Sbjct: 8   CPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 60.3 bits (146), Expect = 1e-12
 Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 181 CAICLQEFV----VGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C IC+  +      G  +    C H+F   C+ + L  + +CP CR ++
Sbjct: 18  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 57.2 bits (138), Expect = 2e-11
 Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 181 CAICLQEFVVGLQVTR----LPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C IC+  +   +Q  R      C H+F   C+ + L  + +CP CR ++
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 56.3 bits (136), Expect = 3e-11
 Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 181 CAICLQEFVVGLQVTR----LPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C IC+  +   +Q  R      C H+F   C+ + L  + +CP CR ++
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 55.2 bits (133), Expect = 9e-11
 Identities = 20/51 (39%), Positives = 22/51 (43%), Gaps = 3/51 (5%)

Query: 175 RRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
                 CAICLQ  V       LPC H+F   CV       K C LCR E+
Sbjct: 12  SLTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 52.8 bits (127), Expect = 8e-10
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C+IC    +     T   C H F   C++     S  CP C   +
Sbjct: 18  CSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 51.8 bits (124), Expect = 2e-09
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 180 LCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSEL 225
            C  C  E      V     C+H FH  C+  W+ ++  CPLC+ + 
Sbjct: 28  ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

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

 Score = 51.0 bits (122), Expect = 3e-09
 Identities = 12/44 (27%), Positives = 14/44 (31%), Gaps = 3/44 (6%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
           C IC Q F          C H F   C L     +  C +C   
Sbjct: 18  CFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICDQP 58

>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 = 53.2 bits (127), Expect = 1e-08
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 4/56 (7%)

Query: 171 EDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLCRSEL 225
              +     LC IC +       V   PC H+    C+ +W  ++ + CP CR E+
Sbjct: 325 YCEMGSTFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377

>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 = 49.2 bits (117), Expect = 2e-08
 Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 4/47 (8%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKS--CPLCRSEL 225
           C IC    + G   +   C    H  CV  +   +    CP C    
Sbjct: 18  CNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>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 = 49.4 bits (117), Expect = 3e-08
 Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 1/57 (1%)

Query: 169 IDEDRLRRQQCLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSE 224
           I  + +      C                  C+H FH  C+  WL   + CPL   E
Sbjct: 42  ICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 98

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 49.1 bits (117), Expect = 3e-08
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL 225
           C IC+++           CS +    C+  WLT+ +  CP CR+ L
Sbjct: 25  CFICMEKLRDARLCP--HCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

>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 = 48.7 bits (115), Expect = 6e-08
 Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 1/57 (1%)

Query: 169 IDEDRLRRQQCLCAICLQEFVVGLQVT-RLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
           I  + +      C                  C+H FH  C+  WL   + CPL   E
Sbjct: 53  ICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 109

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

 Score = 48.1 bits (114), Expect = 2e-07
 Identities = 18/88 (20%), Positives = 38/88 (43%), Gaps = 3/88 (3%)

Query: 138 DDDGDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRL 197
           D +  I+  ++     +    +   + E V    + +   +  C IC + F+   +   L
Sbjct: 24  DFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI---EAVTL 80

Query: 198 PCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
            C+H F   C+  W+ +   CP+CR ++
Sbjct: 81  NCAHSFCSYCINEWMKRKIECPICRKDI 108

>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 = 46.4 bits (110), Expect = 4e-07
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C +C   F+     T + C H F   C++ +L  SK CP+C  ++
Sbjct: 18  CVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 45.2 bits (106), Expect = 1e-06
 Identities = 18/95 (18%), Positives = 33/95 (34%), Gaps = 27/95 (28%)

Query: 150 ASVAEGASREAIER-LERVQIDEDRLRRQQCLCAICLQEFVV---------------GLQ 193
           +S + G   + I +  E +++  +        C IC+++  V                + 
Sbjct: 2   SSGSSGEPEQVIRKYTEELKVAPEED------CIICMEKLAVASGYSDMTDSKALGPMVV 55

Query: 194 VTRLPCSHIFHGDCVLNWLTKS-----KSCPLCRS 223
                CSH FH  C+L             CP C++
Sbjct: 56  GRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

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

 Score = 46.0 bits (108), Expect = 3e-06
 Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 16/61 (26%)

Query: 181 CAICLQEFVVGLQVTR-----LPCSHIFHGDCVLNWLTKSKS-----------CPLCRSE 224
           C IC    + G +V         C    H  C+  W                 CP C+++
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370

Query: 225 L 225
           L
Sbjct: 371 L 371

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

 Score = 43.2 bits (101), Expect = 7e-06
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 181 CAICLQEF----VVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCR 222
           C IC+  +      G  +    C H+F   C+ + L  + +CP CR
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

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

 Score = 40.2 bits (93), Expect = 8e-05
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 176 RQQCLCAICLQEFVVGLQVTR----LPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
                C IC+  +   +Q  R      C H+F   C+ + L  + +CP CR ++
Sbjct: 70  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
            C IC + F +   +    CSH +   C+  +L+    CP C   +
Sbjct: 24  RCGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

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

 Score = 42.0 bits (98), Expect = 5e-05
 Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 4/49 (8%)

Query: 179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS--KSCPLCRSEL 225
            +C IC    + G   +   C    H  CV  +   +    CP C    
Sbjct: 181 KICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

>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 = 40.3 bits (94), Expect = 7e-05
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 4/51 (7%)

Query: 176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL 225
            +   C  C +      +     C H    DC+         SCP CR +L
Sbjct: 50  EETFQCICCQELVF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 39.3 bits (92), Expect = 9e-05
 Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 181 CAICLQEFVVGLQVTR-LPCSHIFHGDCVLNWLTKSK---SCPLCRSE 224
           C IC++ F       + L C H     C+   L  S     CP C   
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

>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 = 39.1 bits (91), Expect = 2e-04
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL 225
           +C C IC++  V   +   LPC+H     C  + + K+   CP CR  +
Sbjct: 15  ECQCGICMEILV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60

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

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 4/47 (8%)

Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL 225
            C  C        Q     C H F   C+   L+ S   C  C+  +
Sbjct: 17  KCEKCHLVLCSPKQ---TECGHRFCESCMAALLSSSSPKCTACQESI 60

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

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 4/49 (8%)

Query: 176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
            +   C+ C         V    C HIF  +CV + +     CP+C + 
Sbjct: 20  EKLLRCSRCTNILRE--PVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP 64

>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 = 38.1 bits (88), Expect = 5e-04
 Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLCRSEL 225
            Q  +C  C +       VT   C H    DC+      +  SCP CR +L
Sbjct: 76  EQSFMCVCCQELVYQP--VT-TECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	225
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.73
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.69
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.57
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.55
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.53
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.5
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.5
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.47
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.47
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.45
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.44
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.44
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.39
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.37
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.36
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.35
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.34
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.34
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.33
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.32
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.32
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.28
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.28
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.27
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.26
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.26
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.24
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.22
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.22
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.2
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.2
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.19
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.18
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.18
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.17
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.16
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.15
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.15
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.12
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.12
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.12
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.12
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.09
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.03
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.02
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.0
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.99
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.97
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.97
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.96
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.93
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.89
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.87
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.85
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.83
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.81
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.79
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.71
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.7
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.69
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.58
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.58
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.55
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.54
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.42
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.41
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.33
3nw0_A	238	Non-structural maintenance of chromosomes element	97.9
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.54
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.45
1we9_A	64	PHD finger family protein; structural genomics, PH	90.78
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	90.44
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	90.16
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	86.21
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	84.17
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	83.86
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	83.85
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	83.26

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

Probab=99.73  E-value=2.5e-18  Score=126.94  Aligned_cols=76  Identities=41%  Similarity=0.791  Sum_probs=66.0

Q ss_pred             ccCCCCCCHHHHHhcccccccccc-cccccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          150 ASVAEGASREAIERLERVQIDEDR-LRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       150 ~~~~~~as~~~i~~L~~~~~~~~~-~~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .....+++++.+++|+.+.+.... .......|+||++.|..+..+..+||+|.||..||.+|++.+.+||+||+++
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   87 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF   87 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBS
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccC
Confidence            567789999999999988886543 2344557899999999988889999999999999999999999999999864

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

Probab=99.69  E-value=3.2e-18  Score=121.52  Aligned_cols=66  Identities=30%  Similarity=0.812  Sum_probs=55.5

Q ss_pred             HHHhcccccccccccccccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          160 AIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       160 ~i~~L~~~~~~~~~~~~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .+++|+..++.......+...|+||++.|..+..+..+||+|+||..||.+|++.+.+||+||+++
T Consensus         5 ~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~   70 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADS   70 (75)
T ss_dssp             CCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCC
T ss_pred             hHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcC
Confidence            345677777765544455567899999999998889999999999999999999999999999875

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

Probab=99.59  E-value=6.1e-16  Score=102.94  Aligned_cols=48  Identities=44%  Similarity=0.964  Sum_probs=43.9

Q ss_pred             cccccccccccccCceeEEeC-cCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..++....+| |+|.||..||.+|++++.+||+||+++
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            346899999999988888897 999999999999999999999999875

>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=99.57  E-value=1.6e-15  Score=105.58  Aligned_cols=49  Identities=45%  Similarity=1.034  Sum_probs=44.2

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ....|+||++.|..+..+..+||+|.||..||.+|++.+.+||+||.++
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI   61 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBS
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccc
Confidence            3346899999998888889999999999999999999999999999864

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

Probab=99.55  E-value=2.7e-15  Score=105.74  Aligned_cols=47  Identities=40%  Similarity=1.005  Sum_probs=43.6

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.|..+..+..+||+|+||..||.+|++.+.+||+||+++
T Consensus        16 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~   62 (74)
T 2ep4_A           16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV   62 (74)
T ss_dssp             CBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccc
Confidence            46899999999888888899999999999999999999999999875

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

Probab=99.53  E-value=4.2e-15  Score=105.79  Aligned_cols=48  Identities=40%  Similarity=1.141  Sum_probs=43.9

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.|..+..+..+||+|+||..||.+|++.+.+||+||.++
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   62 (78)
T 2ect_A           15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL   62 (78)
T ss_dssp             SCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCC
T ss_pred             CCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCcc
Confidence            346899999999888888899999999999999999999999999865

>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=96.52  Aligned_cols=47  Identities=32%  Similarity=0.789  Sum_probs=41.3

Q ss_pred             ccccccccccccC-ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVG-LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g-~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+ ..+..+||+|+||..||.+|++.+.+||+||+++
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   53 (55)
T 2ecm_A            6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS   53 (55)
T ss_dssp             CSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSS
T ss_pred             CcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcC
Confidence            4689999999654 3567789999999999999999999999999875

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

Probab=99.50  E-value=7.3e-15  Score=106.12  Aligned_cols=46  Identities=33%  Similarity=0.790  Sum_probs=37.6

Q ss_pred             ccccccccccc-----------CceeEEeC-cCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVV-----------GLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~-----------g~~~~~lp-C~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.|..           ++.++.+| |+|.||..||.+||+++++||+||+++
T Consensus        17 ~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   74 (81)
T 2ecl_A           17 TCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW   74 (81)
T ss_dssp             CBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCc
Confidence            46777777753           44455664 999999999999999999999999874

>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=3e-14  Score=108.44  Aligned_cols=48  Identities=33%  Similarity=0.625  Sum_probs=40.8

Q ss_pred             ccccccccccccccCc---------------eeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGL---------------QVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~---------------~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      ++..|+||++.|..+.               .+..++|+|.||..||.+||+.+.+||+||++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~   98 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE   98 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSB
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCc
Confidence            3446899999998541               35667999999999999999999999999986

>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=99.47  E-value=3.5e-14  Score=107.98  Aligned_cols=46  Identities=33%  Similarity=0.663  Sum_probs=38.1

Q ss_pred             cccccccccccCc---------------eeEEeCcCCeecHHHHHHHh-----hcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGL---------------QVTRLPCSHIFHGDCVLNWL-----TKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~---------------~~~~lpC~H~FH~~CI~~WL-----~~~~sCPlCR~~l  225 (225)
                      .|+|||+.|..+.               .+..+||+|+||..||.+|+     +.+.+||+||..+
T Consensus        27 ~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~   92 (114)
T 1v87_A           27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             EETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             cCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCcc
Confidence            6899999997643               33467999999999999999     4577999999853

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

Probab=99.45  E-value=3.4e-14  Score=98.96  Aligned_cols=48  Identities=25%  Similarity=0.746  Sum_probs=41.6

Q ss_pred             cccccccccccccC----ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVG----LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+...    .....++|+|+||..||.+|++.+.+||+||.++
T Consensus        10 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (71)
T 3ng2_A           10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   61 (71)
T ss_dssp             CCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCcc
Confidence            34689999998764    4457789999999999999999999999999864

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

Probab=99.44  E-value=4.4e-14  Score=97.57  Aligned_cols=48  Identities=25%  Similarity=0.746  Sum_probs=41.4

Q ss_pred             cccccccccccccC----ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVG----LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..+    ..+..++|+|.||..||.+|++.+.+||+||.++
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   66 (69)
T 2ea6_A           15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   66 (69)
T ss_dssp             CCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCC
T ss_pred             CCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCcc
Confidence            34689999999864    3347789999999999999999999999999875

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

Probab=99.44  E-value=4.3e-14  Score=96.20  Aligned_cols=47  Identities=26%  Similarity=0.762  Sum_probs=41.0

Q ss_pred             ccccccccccccC----ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVG----LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+    ..+..++|+|.||..||.+|++++.+||+||.++
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   54 (64)
T 2xeu_A            4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   54 (64)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccC
Confidence            4689999999764    3457789999999999999999999999999864

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

Probab=99.39  E-value=1.4e-13  Score=95.29  Aligned_cols=45  Identities=33%  Similarity=0.858  Sum_probs=39.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+..  ....+||+|.||..||.+|++.+.+||+||.++
T Consensus         6 ~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   50 (68)
T 1chc_A            6 ERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCcCCChhh
Confidence            368999999864  347789999999999999999999999999864

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

Probab=99.37  E-value=2.1e-13  Score=95.50  Aligned_cols=44  Identities=45%  Similarity=0.779  Sum_probs=39.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+...   +.+||+|+||..||.+|++.+.+||+||..+
T Consensus        16 ~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (71)
T 2d8t_A           16 PECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEI   59 (71)
T ss_dssp             CBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBC
T ss_pred             CCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchh
Confidence            4689999998643   6789999999999999999999999999865

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

Probab=99.36  E-value=1.2e-13  Score=96.20  Aligned_cols=44  Identities=32%  Similarity=0.911  Sum_probs=39.2

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..    +.+||+|.||..||.+|++.+.+||+||.++
T Consensus        15 ~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (70)
T 2ecn_A           15 EEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQM   58 (70)
T ss_dssp             CCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCT
T ss_pred             CCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcc
Confidence            3468999999865    6789999999999999999999999999864

>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=99.35  E-value=5.3e-14  Score=108.94  Aligned_cols=47  Identities=34%  Similarity=0.640  Sum_probs=0.4

Q ss_pred             cccccccccccccC-------------c--eeEEeCcCCeecHHHHHHHhhcCCCCCCcCCC
Q 041990          178 QCLCAICLQEFVVG-------------L--QVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE  224 (225)
Q Consensus       178 ~c~C~ICLee~~~g-------------~--~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~  224 (225)
                      ...|+||++.|..+             +  .+..++|+|.||..||.+||+.+.+||+||++
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~  109 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE  109 (117)
T ss_dssp             C-------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCe
Confidence            34689999999753             1  23335899999999999999999999999986

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

Probab=99.34  E-value=4.3e-13  Score=105.75  Aligned_cols=44  Identities=32%  Similarity=0.953  Sum_probs=39.1

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.+||||.||..||.+|+..+.+||+||.++
T Consensus        54 ~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   97 (138)
T 4ayc_A           54 LQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDI   97 (138)
T ss_dssp             SBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBC
T ss_pred             CCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcC
Confidence            3689999998643   6789999999999999999999999999864

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

Probab=99.34  E-value=4.1e-13  Score=97.18  Aligned_cols=47  Identities=34%  Similarity=0.781  Sum_probs=39.9

Q ss_pred             cccccccccccccCceeEEeCcC-----CeecHHHHHHHhhcC--CCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCS-----HIFHGDCVLNWLTKS--KSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~-----H~FH~~CI~~WL~~~--~sCPlCR~~l  225 (225)
                      ...|+||++++..+..+ .+||+     |.||..||.+||..+  .+||+||+++
T Consensus        15 ~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~   68 (80)
T 2d8s_A           15 QDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF   68 (80)
T ss_dssp             SCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBC
T ss_pred             CCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCee
Confidence            34689999999877665 68996     999999999999875  4899999864

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

Probab=99.33  E-value=9e-13  Score=92.50  Aligned_cols=45  Identities=29%  Similarity=0.665  Sum_probs=38.4

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+...  +..++|+|.||..||.+|++.+.+||+||.++
T Consensus        16 ~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (72)
T 2djb_A           16 ILCSICKGYLIDA--TTITECLHTFCKSCIVRHFYYSNRCPKCNIVV   60 (72)
T ss_dssp             GSCTTTSSCCSSC--EECSSSCCEECHHHHHHHHHHCSSCTTTCCCC
T ss_pred             CCCCCCChHHHCc--CEECCCCCHHHHHHHHHHHHcCCcCCCcCccc
Confidence            4689999998753  33349999999999999999999999999864

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

Probab=99.32  E-value=9.1e-13  Score=95.17  Aligned_cols=48  Identities=27%  Similarity=0.607  Sum_probs=40.9

Q ss_pred             cccccccccccccCce-eEEeCcCCeecHHHHHHHhhcC---CCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTKS---KSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~-~~~lpC~H~FH~~CI~~WL~~~---~sCPlCR~~l  225 (225)
                      ...|+||++.|..+.. .+.+||+|.||..||.+|++.+   .+||+||..+
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   66 (88)
T 2ct2_A           15 VLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT   66 (88)
T ss_dssp             CCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCB
T ss_pred             CCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcc
Confidence            3468999999987654 6778999999999999999876   7899999853

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

Probab=99.32  E-value=9.7e-13  Score=94.28  Aligned_cols=45  Identities=27%  Similarity=0.596  Sum_probs=39.3

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..+   +.+||+|+||..||.+|++...+||+||.++
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (81)
T 2csy_A           15 PFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPT   59 (81)
T ss_dssp             CSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHHCSBCSSSCCBC
T ss_pred             CCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHCCCcCCCcCccc
Confidence            34689999998653   5689999999999999999999999999864

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

Probab=99.28  E-value=2.3e-12  Score=90.15  Aligned_cols=45  Identities=27%  Similarity=0.676  Sum_probs=37.8

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhh---cCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT---KSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~---~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..   .+.+||+|.||..||.+|++   .+..||+||.++
T Consensus        20 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   67 (73)
T 2ysl_A           20 EVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV   67 (73)
T ss_dssp             CCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCC
T ss_pred             CCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcC
Confidence            3468999999874   35679999999999999997   456899999875

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

Probab=99.28  E-value=1.5e-12  Score=89.72  Aligned_cols=45  Identities=22%  Similarity=0.588  Sum_probs=37.9

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhh-cCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT-KSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..+   ..++|+|+||..||.+|++ .+.+||+||.++
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A           15 KYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             CCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            34689999998755   3479999999999999995 567899999875

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

Probab=99.27  E-value=2.2e-12  Score=91.13  Aligned_cols=43  Identities=28%  Similarity=0.763  Sum_probs=37.6

Q ss_pred             ccccccccccccCceeEEeC-cCCeecHHHHHHHhhcC--CCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKS--KSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI~~WL~~~--~sCPlCR~~  224 (225)
                      ..|+||++.|..+   +.+| |+|.||..||.+|++.+  .+||+||.+
T Consensus        16 ~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~   61 (74)
T 2yur_A           16 LLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQN   61 (74)
T ss_dssp             GSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCS
T ss_pred             CCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCc
Confidence            4689999999754   5689 99999999999999875  689999986

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

Probab=99.26  E-value=2.4e-12  Score=99.16  Aligned_cols=48  Identities=25%  Similarity=0.746  Sum_probs=41.7

Q ss_pred             cccccccccccccC----ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVG----LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.|..+    ..++.++|||+||..||.+|++.+.+||+||+.+
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   58 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBC
T ss_pred             CCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcC
Confidence            34689999999764    4457889999999999999999999999999864

>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=99.26  E-value=2e-12  Score=96.57  Aligned_cols=44  Identities=32%  Similarity=0.770  Sum_probs=38.1

Q ss_pred             ccccccccccccCceeEE-eCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTR-LPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~-lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      ..|+||++.|..   .+. ++|||.||..||.+|+..+ .+||+||.++
T Consensus        23 ~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   68 (100)
T 3lrq_A           23 FRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL   68 (100)
T ss_dssp             TBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcC
Confidence            468999999964   345 8999999999999999987 6999999864

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

Probab=99.26  E-value=2.6e-12  Score=91.19  Aligned_cols=45  Identities=20%  Similarity=0.462  Sum_probs=38.9

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .-.|+||++.|..+   +.+||||+||..||.+|++. +.+||+||.++
T Consensus         8 ~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~   53 (78)
T 1t1h_A            8 YFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             cCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCC
Confidence            34689999998754   56799999999999999997 78999999864

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

Probab=99.24  E-value=4.2e-12  Score=94.24  Aligned_cols=44  Identities=27%  Similarity=0.745  Sum_probs=38.2

Q ss_pred             ccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.|..+   +.+ +|||.||..||.+|+..+.+||+||.++
T Consensus        23 ~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   67 (99)
T 2y43_A           23 LRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV   67 (99)
T ss_dssp             TBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcC
Confidence            3689999998753   445 8999999999999999999999999864

>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=99.22  E-value=6.1e-12  Score=94.88  Aligned_cols=45  Identities=31%  Similarity=0.844  Sum_probs=38.6

Q ss_pred             cccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..  . +.+ ||||.||..||.+|+..+.+||+||..+
T Consensus        15 ~~~C~IC~~~~~~--p-~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (108)
T 2ckl_A           15 HLMCVLCGGYFID--A-TTIIECLHSFCKTCIVRYLETSKYCPICDVQV   60 (108)
T ss_dssp             GTBCTTTSSBCSS--E-EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBS
T ss_pred             cCCCccCChHHhC--c-CEeCCCCChhhHHHHHHHHHhCCcCcCCCccc
Confidence            3468999999864  3 455 9999999999999999999999999864

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

Probab=99.22  E-value=7.1e-12  Score=89.48  Aligned_cols=44  Identities=27%  Similarity=0.658  Sum_probs=38.3

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc------CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK------SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~------~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+   ..+||+|.||..||.+|++.      ...||+||.++
T Consensus        20 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecw_A           20 VTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY   69 (85)
T ss_dssp             TSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCC
T ss_pred             CCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcC
Confidence            4689999998754   46899999999999999987      67899999864

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

Probab=99.20  E-value=7.3e-12  Score=96.70  Aligned_cols=44  Identities=27%  Similarity=0.556  Sum_probs=37.6

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC-CCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCPlCR~~l  225 (225)
                      ..|+||++.|..+   +.+||||.||..||.+|+..+. +||+||.++
T Consensus        53 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   97 (124)
T 3fl2_A           53 FQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL   97 (124)
T ss_dssp             TBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccC
Confidence            4689999998744   6679999999999999998654 899999864

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

Probab=99.20  E-value=2.6e-12  Score=91.02  Aligned_cols=45  Identities=27%  Similarity=0.628  Sum_probs=38.3

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhc-------CCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-------SKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-------~~sCPlCR~~l  225 (225)
                      ...|+||++.|..+   +.+||+|.||..||.+|++.       ...||+||.++
T Consensus        12 ~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~   63 (79)
T 2egp_A           12 EVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY   63 (79)
T ss_dssp             CCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCC
T ss_pred             CCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcC
Confidence            34689999998754   45799999999999999987       66899999864

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

Probab=99.19  E-value=1.1e-11  Score=88.37  Aligned_cols=46  Identities=24%  Similarity=0.593  Sum_probs=38.8

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcC--CCCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS--KSCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~--~sCPlCR~~  224 (225)
                      ....|+||.+.+..+..  ...|+|.||..||.+||+++  .+||+||++
T Consensus        14 ~i~~C~IC~~~i~~g~~--C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~   61 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQS--CETCGIRMHLPCVAKYFQSNAEPRCPHCNDY   61 (74)
T ss_dssp             SSCBCSSSCCBCSSSEE--CSSSCCEECHHHHHHHSTTCSSCCCTTTCSC
T ss_pred             CCCcCcchhhHcccCCc--cCCCCchhhHHHHHHHHHhcCCCCCCCCcCc
Confidence            33478999999986643  33899999999999999987  899999986

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

Probab=99.18  E-value=1e-11  Score=95.59  Aligned_cols=50  Identities=24%  Similarity=0.709  Sum_probs=42.2

Q ss_pred             cccccccccccccccC----ceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          176 RQQCLCAICLQEFVVG----LQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g----~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .+...|+||++.+..+    ...+.++|+|+||..||.+|++.+++||+||.++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~  123 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI  123 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcC
Confidence            3445689999999764    3347789999999999999999999999999864

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

Probab=99.18  E-value=1.7e-11  Score=83.55  Aligned_cols=41  Identities=29%  Similarity=0.693  Sum_probs=34.9

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhh---cCCCCCCc
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT---KSKSCPLC  221 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~---~~~sCPlC  221 (225)
                      ...|+||++.+..+   +.+||+|+||..||.+|++   .+..||+|
T Consensus        20 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           20 EVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34689999998754   6679999999999999998   45689998

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

Probab=99.18  E-value=1.6e-11  Score=84.23  Aligned_cols=47  Identities=21%  Similarity=0.441  Sum_probs=38.1

Q ss_pred             cccccccc-ccccCcee-EEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQ-EFVVGLQV-TRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLe-e~~~g~~~-~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      ..|+||++ .+..+... ..++|||+||..||.+|+.+ +..||+||.++
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   53 (65)
T 1g25_A            4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcc
Confidence            36899999 77766433 45799999999999999765 56899999864

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

Probab=99.17  E-value=9.8e-12  Score=88.74  Aligned_cols=44  Identities=34%  Similarity=0.739  Sum_probs=38.1

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc------CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK------SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~------~~sCPlCR~~l  225 (225)
                      ..|+||++.+...   ..+||+|.||..||.+|++.      ...||+||..+
T Consensus        20 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecv_A           20 VTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY   69 (85)
T ss_dssp             CCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS
T ss_pred             CCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc
Confidence            4689999998754   55799999999999999987      78999999864

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

Probab=99.16  E-value=1.7e-11  Score=89.49  Aligned_cols=45  Identities=27%  Similarity=0.712  Sum_probs=37.9

Q ss_pred             cccccccccccccCceeEEeC-cCCeecHHHHHHHhhcC--CCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKS--KSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI~~WL~~~--~sCPlCR~~l  225 (225)
                      ...|+||++.|..+   +.+| |||.||..||.+|+..+  .+||+||.++
T Consensus        13 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           13 ELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             TTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            34689999998754   6789 99999999999999754  5899999863

>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=99.15  E-value=1.9e-11  Score=98.72  Aligned_cols=45  Identities=38%  Similarity=0.863  Sum_probs=37.9

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      ..|+||++.|..  .+..+||+|.||..||.+|+.. +.+||+||.++
T Consensus        55 ~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  100 (165)
T 2ckl_B           55 LMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKL  100 (165)
T ss_dssp             HBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcC
Confidence            468999999874  3333499999999999999997 77899999864

>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=99.15  E-value=1.4e-11  Score=92.87  Aligned_cols=44  Identities=36%  Similarity=0.849  Sum_probs=37.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC---CCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK---SCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~---sCPlCR~~l  225 (225)
                      ..|+||++.+..+   ..+||||.||..||.+|+..+.   +||+||.++
T Consensus        22 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (112)
T 1jm7_A           22 LECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (112)
T ss_dssp             TSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcC
Confidence            3689999998654   4579999999999999998754   899999864

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

Probab=99.12  E-value=2.5e-11  Score=80.97  Aligned_cols=40  Identities=28%  Similarity=0.870  Sum_probs=34.2

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhh---cCCCCCCc
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT---KSKSCPLC  221 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~---~~~sCPlC  221 (225)
                      ..|+||++.+..+   +.+||+|+||..||.+|+.   .+.+||+|
T Consensus        16 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           16 ASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             CCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4689999999765   5589999999999999954   56789998

>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=99.12  E-value=2.8e-11  Score=92.74  Aligned_cols=46  Identities=26%  Similarity=0.670  Sum_probs=38.9

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC-CCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCPlCR~~l  225 (225)
                      +...|+||++.+..+   +.++|+|+||..||.+|++.+. +||+||.++
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCc
Confidence            334789999998754   5679999999999999998865 999999864

>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=99.12  E-value=1.4e-11  Score=93.79  Aligned_cols=44  Identities=36%  Similarity=0.916  Sum_probs=38.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+   +.+||||.||..||.+|+.. +.+||+||..+
T Consensus        16 ~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (115)
T 3l11_A           16 CQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV   60 (115)
T ss_dssp             HBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBC
T ss_pred             CCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCccc
Confidence            3689999998654   66799999999999999987 67899999864

>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=99.12  E-value=3.1e-11  Score=96.77  Aligned_cols=44  Identities=27%  Similarity=0.615  Sum_probs=37.9

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC-CCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCPlCR~~l  225 (225)
                      ..|+||++.|..+   +.+||+|.||..||.+|+.... +||+||.++
T Consensus        79 ~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  123 (150)
T 1z6u_A           79 FMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDL  123 (150)
T ss_dssp             TBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccC
Confidence            4689999998654   5589999999999999999765 899999864

>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=99.09  E-value=4.6e-11  Score=91.05  Aligned_cols=44  Identities=30%  Similarity=0.651  Sum_probs=38.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+   +.+||||.||..||.+|++. +.+||+||.++
T Consensus        24 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   68 (116)
T 1rmd_A           24 ISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (116)
T ss_dssp             TBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCC
Confidence            3689999998643   55899999999999999987 77999999864

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

Probab=99.06  E-value=7.8e-11  Score=85.69  Aligned_cols=44  Identities=20%  Similarity=0.237  Sum_probs=39.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.+||||+|++.||.+|+..+.+||+||.++
T Consensus        15 ~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l   58 (85)
T 2kr4_A           15 FRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQML   58 (85)
T ss_dssp             TBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             eECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCC
Confidence            4689999999765   7789999999999999999999999999864

>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=99.03  E-value=1.1e-10  Score=87.58  Aligned_cols=45  Identities=22%  Similarity=0.265  Sum_probs=40.0

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .-.|+||++.|..+   +.+||||+|++.||.+|+..+.+||+||.++
T Consensus        29 ~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l   73 (100)
T 2kre_A           29 EFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTL   73 (100)
T ss_dssp             TTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBC
T ss_pred             hhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCC
Confidence            34689999999765   7789999999999999999999999999864

>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=99.02  E-value=1.7e-10  Score=79.52  Aligned_cols=44  Identities=25%  Similarity=0.539  Sum_probs=37.2

Q ss_pred             ccccccccccccCceeEEe--CcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRL--PCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~l--pC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.....   ..+  ||||. |+..|+.+|.+.+..||+||+++
T Consensus         9 ~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            9 EPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             SCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            4689999986532   444  99999 89999999999999999999875

>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=99.00  E-value=2e-10  Score=85.90  Aligned_cols=44  Identities=23%  Similarity=0.207  Sum_probs=39.5

Q ss_pred             ccccccccccccCceeEEeCcC-CeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCS-HIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.+||| |+|++.||.+|+..+.+||+||.++
T Consensus        23 ~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l   67 (98)
T 1wgm_A           23 FLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPL   67 (98)
T ss_dssp             TBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBC
T ss_pred             cCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCC
Confidence            4689999999765   678999 9999999999999989999999864

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

Probab=98.99  E-value=2.5e-10  Score=78.50  Aligned_cols=45  Identities=20%  Similarity=0.439  Sum_probs=37.1

Q ss_pred             cccccccccccccCceeEEe--CcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRL--PCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~l--pC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++....   ...+  ||||. ||..|+.+|.+.+..||+||+++
T Consensus         7 ~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            7 LKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             CCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            3468999987543   2344  99998 99999999999889999999875

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

Probab=98.97  E-value=2.2e-10  Score=82.27  Aligned_cols=49  Identities=18%  Similarity=0.414  Sum_probs=36.7

Q ss_pred             ccccccccccccccCce-eEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~-~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      +...|+||++.+..... ...++|||.||..|+.+|++. ...||+||+++
T Consensus        10 ~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~   60 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   60 (78)
T ss_dssp             CCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBC
T ss_pred             cCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCcc
Confidence            34478999998864322 222359999999999999854 67899999864

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

Probab=98.97  E-value=1.1e-10  Score=92.60  Aligned_cols=46  Identities=22%  Similarity=0.548  Sum_probs=38.7

Q ss_pred             cccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC-CCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK-SCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~-sCPlCR~~  224 (225)
                      .+...|+||++.+..+   +.++|||.||..||.+|++... +||+||.+
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~   75 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHE   75 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHT
T ss_pred             CcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCc
Confidence            3445789999998755   5589999999999999998765 89999975

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

Probab=98.96  E-value=2.9e-10  Score=103.96  Aligned_cols=44  Identities=34%  Similarity=0.905  Sum_probs=38.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhh-cCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLT-KSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~-~~~sCPlCR~~l  225 (225)
                      ..|+||++.+..   .+.+||||.||..||..|+. .+.+||+||.++
T Consensus       333 ~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i  377 (389)
T 2y1n_A          333 QLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI  377 (389)
T ss_dssp             SBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCcc
Confidence            468999998854   47789999999999999999 688999999864

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

Probab=98.93  E-value=1.7e-10  Score=88.26  Aligned_cols=42  Identities=29%  Similarity=0.698  Sum_probs=36.3

Q ss_pred             ccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.|..+   +.+ ||||.||..||.+|+.  ..||+||.++
T Consensus        23 ~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (117)
T 1jm7_B           23 LRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA   65 (117)
T ss_dssp             TSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             CCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcC
Confidence            4689999999754   556 9999999999999998  8899999864

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

Probab=98.89  E-value=4.9e-10  Score=79.18  Aligned_cols=40  Identities=28%  Similarity=0.823  Sum_probs=34.3

Q ss_pred             ccccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ..|+||++.+..   .+.+||+|. ||..|+.+|    ..||+||.++
T Consensus        25 ~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i   65 (74)
T 4ic3_A           25 KLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVI   65 (74)
T ss_dssp             TBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBC
T ss_pred             CCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCc
Confidence            368999998753   467899999 999999999    8899999864

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

Probab=98.87  E-value=3.2e-10  Score=75.93  Aligned_cols=41  Identities=27%  Similarity=0.649  Sum_probs=34.9

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.+||+|.||..||.+|   ...||+||+++
T Consensus         7 ~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~   47 (56)
T 1bor_A            7 LRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPW   47 (56)
T ss_dssp             SSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSS
T ss_pred             CCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEe
Confidence            4689999999754   66899999999999884   67899999864

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

Probab=98.85  E-value=9.9e-10  Score=94.25  Aligned_cols=45  Identities=16%  Similarity=0.138  Sum_probs=38.5

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      .-.|+||++.|..+   +++||||+||..||.+|+..+ .+||+||.++
T Consensus       208 ~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~  253 (281)
T 2c2l_A          208 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPL  253 (281)
T ss_dssp             TTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             ccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCC
Confidence            34699999999765   678999999999999999874 4599999875

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

Probab=98.83  E-value=1.6e-09  Score=87.71  Aligned_cols=46  Identities=26%  Similarity=0.683  Sum_probs=38.7

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      +...|+||++.+..+   +.++|||+||..||.+|++.+ .+||+||.++
T Consensus        17 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (170)
T 3hcs_A           17 SKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (170)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCc
Confidence            344789999998754   558999999999999999874 4999999864

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

Probab=98.81  E-value=5.2e-10  Score=100.58  Aligned_cols=50  Identities=26%  Similarity=0.683  Sum_probs=38.6

Q ss_pred             cccccccccccccccCcee----E-EeCcCCeecHHHHHHHhhcC-----------CCCCCcCCCC
Q 041990          176 RQQCLCAICLQEFVVGLQV----T-RLPCSHIFHGDCVLNWLTKS-----------KSCPLCRSEL  225 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~~~----~-~lpC~H~FH~~CI~~WL~~~-----------~sCPlCR~~l  225 (225)
                      .++.+|+||++.+..+..+    . ..+|+|.||..||.+||++.           ++||+||.+|
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            3556899999999873322    1 23799999999999999752           4699999864

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

Probab=98.79  E-value=1.9e-09  Score=79.63  Aligned_cols=44  Identities=20%  Similarity=0.541  Sum_probs=36.5

Q ss_pred             cccccccccccccCceeEEeC-cCCeecHHHHHHHhhcC------CCCCC--cCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKS------KSCPL--CRSE  224 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lp-C~H~FH~~CI~~WL~~~------~sCPl--CR~~  224 (225)
                      .-.||||++.|..+   +.+| |||+|+..||.+|+..+      .+||+  |+..
T Consensus         7 ~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            7 GFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             EeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            34689999999754   6675 99999999999999864      48999  9843

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

Probab=98.71  E-value=4.7e-09  Score=74.12  Aligned_cols=39  Identities=28%  Similarity=0.882  Sum_probs=32.5

Q ss_pred             cccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+..   .+.+||+|. ||..|+.+    ...||+||.++
T Consensus        27 ~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i   66 (75)
T 2ecg_A           27 LCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVI   66 (75)
T ss_dssp             SCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBC
T ss_pred             CCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCcee
Confidence            68999998754   466899999 99999964    47899999864

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

Probab=98.70  E-value=7.9e-09  Score=85.29  Aligned_cols=46  Identities=15%  Similarity=0.131  Sum_probs=38.7

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      ..-.||||++.|..+   +.+||||+|+..||.+|+..+ .+||+||.++
T Consensus       105 ~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l  151 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPL  151 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             HhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCC
Confidence            334689999999755   677999999999999999874 4699999864

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

Probab=98.69  E-value=7.1e-09  Score=70.76  Aligned_cols=45  Identities=29%  Similarity=0.684  Sum_probs=34.7

Q ss_pred             cccccccccccccCceeEEeCcC--C---eecHHHHHHHhhc--CCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCS--H---IFHGDCVLNWLTK--SKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~--H---~FH~~CI~~WL~~--~~sCPlCR~~l  225 (225)
                      ...|.||+++.  +.. ..+||.  |   .||..|+.+|+..  +.+||+||+++
T Consensus         6 ~~~CrIC~~~~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            6 VPVCWICNEEL--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             CCEETTTTEEC--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCEeEEeecCC--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            34689999873  333 357964  4   9999999999975  67899999864

>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=98.58  E-value=1.3e-08  Score=72.97  Aligned_cols=39  Identities=38%  Similarity=0.922  Sum_probs=33.0

Q ss_pred             cccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+.   .++.+||||. ||..|+.+|    ..||+||.++
T Consensus        20 ~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i   59 (79)
T 2yho_A           20 LCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCPVCRSRV   59 (79)
T ss_dssp             BCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCTTTCCBC
T ss_pred             EeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCCCCCchh
Confidence            6899998764   3577899999 999999887    3999999864

>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=98.58  E-value=2.5e-08  Score=73.19  Aligned_cols=46  Identities=30%  Similarity=0.645  Sum_probs=37.1

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc--------CCCCCC--cCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK--------SKSCPL--CRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~--------~~sCPl--CR~~  224 (225)
                      -.|+||++.+..+......+|+|.||..|+.++++.        .-.||.  ||..
T Consensus         6 ~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            6 SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             cCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            468999999876655444589999999999999974        237999  9975

>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=98.55  E-value=2.4e-08  Score=68.24  Aligned_cols=43  Identities=19%  Similarity=0.234  Sum_probs=38.2

Q ss_pred             cccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+..+   +.+ +|||+|.+.||.+||+++.+||+.|.++
T Consensus         5 ~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L   48 (61)
T 2bay_A            5 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   48 (61)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             EecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCC
Confidence            589999999754   666 8999999999999999988999999865

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

Probab=98.54  E-value=3.5e-08  Score=68.70  Aligned_cols=41  Identities=32%  Similarity=0.737  Sum_probs=33.6

Q ss_pred             cccccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|.||++...   .++.+||+|. ||..|+..    ...||+||.++
T Consensus        15 ~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i   56 (68)
T 2ea5_A           15 SKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFV   56 (68)
T ss_dssp             SSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCC
T ss_pred             CCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcch
Confidence            346899998764   4577899999 99999984    57899999875

>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=98.42  E-value=7.6e-08  Score=83.65  Aligned_cols=44  Identities=25%  Similarity=0.631  Sum_probs=36.7

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcC--CCCCC--cCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS--KSCPL--CRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~--~sCPl--CR~~  224 (225)
                      -.||||++.|..+  ++.+.|||+|++.||.+|++.+  .+||+  ||..
T Consensus       182 l~CPIcl~~f~DP--Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~  229 (267)
T 3htk_C          182 LTCPITCKPYEAP--LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQV  229 (267)
T ss_dssp             SBCTTTSSBCSSE--EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCE
T ss_pred             eECcCccCcccCC--eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCc
Confidence            4799999999744  4445999999999999999864  47999  9975

>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=98.41  E-value=5.4e-08  Score=87.82  Aligned_cols=41  Identities=29%  Similarity=0.894  Sum_probs=35.0

Q ss_pred             cccccccccccccCceeEEeCcCCe-ecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHI-FHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~-FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...|+||++.+..   .+.+||||. ||..|+.+|    ..||+||.++
T Consensus       295 ~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i  336 (345)
T 3t6p_A          295 ERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGII  336 (345)
T ss_dssp             TCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBC
T ss_pred             CCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCc
Confidence            3478999998753   477899999 999999988    7899999864

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

Probab=98.33  E-value=4.3e-07  Score=67.83  Aligned_cols=43  Identities=30%  Similarity=0.675  Sum_probs=35.0

Q ss_pred             ccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       181 C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      |++|--.+.  ...+..||+|+||.+|+..|.++ .++||.||.++
T Consensus         4 C~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V   47 (101)
T 3vk6_A            4 CDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPV   47 (101)
T ss_dssp             CTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             cCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCee
Confidence            788865544  45677799999999999999855 78999999875

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

Probab=97.90  E-value=4.5e-06  Score=71.56  Aligned_cols=46  Identities=24%  Similarity=0.604  Sum_probs=37.1

Q ss_pred             ccccccccccccccCceeEEeCcCCeecHHHHHHHhhcCC--CCCCcCCC
Q 041990          177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK--SCPLCRSE  224 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~--sCPlCR~~  224 (225)
                      ....|+||.+....|.  +.-.|+|.||..|+.+|++++.  .||.|+.+
T Consensus       179 ~i~~C~iC~~iv~~g~--~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~  226 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY  226 (238)
T ss_dssp             TCCBCTTTCSBCSSCE--ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCB
T ss_pred             CCCcCcchhhHHhCCc--ccCccChHHHHHHHHHHHHhCCCCCCCCCCCC
Confidence            3567999999988662  2224999999999999998754  89999874

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.54  E-value=0.018  Score=41.79  Aligned_cols=34  Identities=21%  Similarity=0.434  Sum_probs=25.4

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHH-Hh
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLN-WL  212 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~-WL  212 (225)
                      -.|+||++.+........++|+|.||..|+.. |-
T Consensus         4 ~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            4 VLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            36899998754333334489999999999998 53

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.45  E-value=0.09  Score=35.92  Aligned_cols=43  Identities=21%  Similarity=0.437  Sum_probs=31.0

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcC----CCCCCcCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS----KSCPLCRSE  224 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~----~sCPlCR~~  224 (225)
                      ..|.||.+.   ++-+..-.|...||..|+...|...    =.||.|+..
T Consensus        13 ~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           13 ARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            468999742   3333333799999999999888653    379999753

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=90.78  E-value=0.046  Score=36.70  Aligned_cols=49  Identities=24%  Similarity=0.513  Sum_probs=33.1

Q ss_pred             cccccccccccccccCc-eeEEeCcCCeecHHHHHHHhh-----cCCCCCCcCCC
Q 041990          176 RQQCLCAICLQEFVVGL-QVTRLPCSHIFHGDCVLNWLT-----KSKSCPLCRSE  224 (225)
Q Consensus       176 ~~~c~C~ICLee~~~g~-~~~~lpC~H~FH~~CI~~WL~-----~~~sCPlCR~~  224 (225)
                      .+...|+||...+..+. .+..-.|...||..|+.--..     ....||.|+.+
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            34456899998875443 333347999999999865332     24579999753

>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=90.16  E-value=0.16  Score=36.47  Aligned_cols=31  Identities=19%  Similarity=0.618  Sum_probs=21.2

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHH
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNW  211 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~W  211 (225)
                      .|.||- .+..+.....--|+-+||..|+.+-
T Consensus        17 ~C~VC~-~~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           17 MCDVCE-VWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCTTTC-CCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             ccCccc-cccccceeccccccccccHhhcccc
Confidence            579994 3444433222348999999999996

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=86.21  E-value=0.31  Score=31.36  Aligned_cols=45  Identities=20%  Similarity=0.301  Sum_probs=30.6

Q ss_pred             cccccccccccccCcee-EEe-CcCCeecHHHHHHHh----hcCCCCCCcC
Q 041990          178 QCLCAICLQEFVVGLQV-TRL-PCSHIFHGDCVLNWL----TKSKSCPLCR  222 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~-~~l-pC~H~FH~~CI~~WL----~~~~sCPlCR  222 (225)
                      .|.|.||...+..+... ..- .|.-.||..|+.--.    .....||.|+
T Consensus         2 ~c~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            2 VCAAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             CCSCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cccCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            36789999888655433 333 589999999975322    2466899996

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=84.17  E-value=0.42  Score=32.87  Aligned_cols=46  Identities=24%  Similarity=0.411  Sum_probs=30.9

Q ss_pred             ccccccccccccccCce-eEEeCcCCeecHHHHHHHhhc----CCCCCCcCC
Q 041990          177 QQCLCAICLQEFVVGLQ-VTRLPCSHIFHGDCVLNWLTK----SKSCPLCRS  223 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~-~~~lpC~H~FH~~CI~~WL~~----~~sCPlCR~  223 (225)
                      +...|+||..... +.. +..=.|.-.||..|+..-...    .-.||.|+.
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~   67 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCAN   67 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHH
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccC
Confidence            3346899987643 332 233379999999999765432    346999975

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=83.86  E-value=0.78  Score=46.22  Aligned_cols=43  Identities=19%  Similarity=0.158  Sum_probs=37.5

Q ss_pred             cccccccccccCceeEEeCcC-CeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCS-HIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|||=++.+..+   +.+|-| ++|-+.+|.+||..+.+||+=|.++
T Consensus       893 ~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L  936 (968)
T 3m62_A          893 LDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLSDSTDPFNRMPL  936 (968)
T ss_dssp             BCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCC
Confidence            589999998765   778987 6999999999999999999987764

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=83.85  E-value=0.61  Score=30.97  Aligned_cols=42  Identities=29%  Similarity=0.590  Sum_probs=29.5

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc----CCCCCCcCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK----SKSCPLCRS  223 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~----~~sCPlCR~  223 (225)
                      ..|.||...   +.-+..-.|...||..|+..=+..    .-.||.|+.
T Consensus        12 ~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A           12 DYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            368999862   333333379999999999875543    336999976

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=83.26  E-value=0.7  Score=29.26  Aligned_cols=45  Identities=22%  Similarity=0.445  Sum_probs=28.8

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc----CCCCCCcCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK----SKSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~----~~sCPlCR~~  224 (225)
                      .|.||...-..+.-+..-.|...||..|+..=+..    .-.||.|+..
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~~   50 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA   50 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSCC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCcccc
Confidence            47889764322222333379999999999754433    2259999763

---

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	225
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	7e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	8e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-07
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	9e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	8e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-05
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	8e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	8e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 60.3 bits (146), Expect = 3e-13
 Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 181 CAICLQEFVVGLQVTRLP-CSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           CA+CL E   G +   LP C H FH +CV  WL    +CPLCR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 54.6 bits (131), Expect = 5e-11
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           C ICL++         LPC H F   C+  W+ ++ +CPLC+  +
Sbjct: 8   CPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 7e-10
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLCRSEL 225
           LC IC +       V   PC H+    C+ +W  ++ + CP CR E+
Sbjct: 25  LCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.9 bits (121), Expect = 2e-09
 Identities = 16/59 (27%), Positives = 20/59 (33%), Gaps = 15/59 (25%)

Query: 181 CAICLQEFV---------------VGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSE 224
           CAIC    +                   V    C+H FH  C+  WL   + CPL   E
Sbjct: 24  CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

>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 = 8e-08
 Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 6/49 (12%)

Query: 177 QQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           Q   C  C  E         LPC H     C+         CP+C++  
Sbjct: 5   QFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPW 47

>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 = 42.8 bits (100), Expect = 9e-07
 Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 3/48 (6%)

Query: 181 CAICLQEFVVGLQVTRL--PCSHIFHGDCVLNWLT-KSKSCPLCRSEL 225
           C  C         +  +   C H     CV       + +CP C + L
Sbjct: 6   CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 42.4 bits (99), Expect = 9e-07
 Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 2/47 (4%)

Query: 181 CAICLQEFVVGLQVTR-LPCSHIFHGDCVLNWLT-KSKSCPLCRSEL 225
           C +C++   +         C +     C     T ++  CP CR   
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>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 = 41.8 bits (98), Expect = 4e-06
 Identities = 13/46 (28%), Positives = 15/46 (32%), Gaps = 4/46 (8%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWL-TKSKSCPLCRSEL 225
           C IC              C H+F   C+L  L      CP CR   
Sbjct: 26  CQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 41.6 bits (96), Expect = 8e-06
 Identities = 16/88 (18%), Positives = 26/88 (29%), Gaps = 9/88 (10%)

Query: 141 GDIEEVSESASVAEGASREAIERLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCS 200
           G+ E+V    +     + E    +   ++                   V  L      CS
Sbjct: 7   GEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRL----TKCS 62

Query: 201 HIFHGDCVLNWLTKS-----KSCPLCRS 223
           H FH  C+L             CP C++
Sbjct: 63  HAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>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 = 40.8 bits (95), Expect = 1e-05
 Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 7/66 (10%)

Query: 163 RLERVQIDEDRLRRQQCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK---SCP 219
           R+E VQ   + ++ +   C ICL+      +     C HIF   C+L  L + K    CP
Sbjct: 7   RVEEVQNVINAMQ-KILECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCP 62

Query: 220 LCRSEL 225
           LC++++
Sbjct: 63  LCKNDI 68

>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 = 37.5 bits (86), Expect = 8e-05
 Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 4/48 (8%)

Query: 181 CAICLQEF--VVGLQVTRLPCSHIFHGDCVLNWLTKS--KSCPLCRSE 224
           C IC +E                  H  C+  WLT S   +C +C   
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (83), Expect = 2e-04
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)

Query: 180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL 225
           LCAI  +       V       IF    +  ++  + + P+    L
Sbjct: 2   LCAISGKVPRR--PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 8e-04
 Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 8/50 (16%)

Query: 181 CAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSK--------SCPLCR 222
           C +CL E+ V    T   C  IF   C+  ++            SCP   
Sbjct: 8   CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	225
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.69
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.54
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.48
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.47
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.45
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.44
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.39
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.29
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.26
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.22
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.18
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.07
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.07
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.03
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.99
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.77
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.56
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.44
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.9
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	85.06
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	83.05
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	82.5
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	80.21

>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=99.69  E-value=4.6e-18  Score=113.41  Aligned_cols=47  Identities=43%  Similarity=0.931  Sum_probs=43.4

Q ss_pred             ccccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .+|+|||++|..++.+..+ +|+|.||..||.+||+++++||+||++|
T Consensus         6 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            3689999999999888887 5999999999999999999999999975

>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=99.54  E-value=1e-15  Score=105.74  Aligned_cols=44  Identities=34%  Similarity=0.900  Sum_probs=39.3

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+..  .++.+||+|.||..||.+|++++.+||+||+++
T Consensus         7 ~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           7 RCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            57999999864  456789999999999999999999999999875

>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=99.48  E-value=3.8e-15  Score=97.80  Aligned_cols=46  Identities=20%  Similarity=0.419  Sum_probs=38.9

Q ss_pred             cccccccccccCcee-EEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQV-TRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~-~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      +|+||+++|..+... ..++|+|.||..||.+|++. +.+||+||+++
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~   49 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   49 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcC
Confidence            589999999877554 45599999999999999986 45799999874

>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=99.47  E-value=1.2e-14  Score=105.10  Aligned_cols=46  Identities=35%  Similarity=0.692  Sum_probs=39.2

Q ss_pred             cccccccccccCc---------------eeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGL---------------QVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~---------------~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+....               .+..++|+|+||..||.+||+.+++||+||++.
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            4799998886532               356779999999999999999999999999863

>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=99.45  E-value=2.3e-14  Score=107.75  Aligned_cols=45  Identities=31%  Similarity=0.703  Sum_probs=36.3

Q ss_pred             cccccccccccC---------------ceeEEeCcCCeecHHHHHHHhhcC-----CCCCCcCCC
Q 041990          180 LCAICLQEFVVG---------------LQVTRLPCSHIFHGDCVLNWLTKS-----KSCPLCRSE  224 (225)
Q Consensus       180 ~C~ICLee~~~g---------------~~~~~lpC~H~FH~~CI~~WL~~~-----~sCPlCR~~  224 (225)
                      .|+||++.|...               ..+..++|+|.||..||.+||+.+     .+||+||+.
T Consensus        27 ~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~   91 (114)
T d1v87a_          27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI   91 (114)
T ss_dssp             EETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCB
T ss_pred             cccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccch
Confidence            579999998642               134567999999999999999753     479999975

>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=99.44  E-value=2.5e-14  Score=97.91  Aligned_cols=47  Identities=21%  Similarity=0.439  Sum_probs=38.1

Q ss_pred             ccccccccccccCc--eeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGL--QVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~--~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      ..|+||++.+..+.  .+..++|+|.||..||.+|+++ +++||+||+++
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i   53 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCc
Confidence            46899999875443  3456699999999999999965 56899999875

>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=99.39  E-value=7.9e-14  Score=98.92  Aligned_cols=43  Identities=35%  Similarity=0.936  Sum_probs=37.2

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .|+||++.+..   .+.+||||.||..||.+||.. +++||+||..|
T Consensus        25 ~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i   68 (79)
T d1fbva4          25 LCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI   68 (79)
T ss_dssp             BCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCC
T ss_pred             CCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCc
Confidence            58999998753   577899999999999999985 56899999875

>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=99.29  E-value=4.4e-13  Score=88.96  Aligned_cols=43  Identities=19%  Similarity=0.234  Sum_probs=37.6

Q ss_pred             cccccccccccCceeEEe-CcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRL-PCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~l-pC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.+..+   +.+ .|||+||..||.+||+++++||+||+++
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l   45 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   45 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcC
Confidence            489999998643   555 5999999999999999999999999875

>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=99.26  E-value=1.3e-12  Score=94.07  Aligned_cols=43  Identities=30%  Similarity=0.675  Sum_probs=37.0

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      .|+||++.+..+   +.++|||+||..||.+|++. +.+||+||.++
T Consensus        25 ~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~   68 (86)
T d1rmda2          25 SCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (86)
T ss_dssp             BCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCC
Confidence            589999998643   77899999999999999975 56899999864

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.22  E-value=1.8e-12  Score=95.75  Aligned_cols=44  Identities=34%  Similarity=0.825  Sum_probs=37.2

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcC---CCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS---KSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~---~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.+||||+||..||.+|++.+   ..||+||.++
T Consensus        22 l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             cCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcC
Confidence            3689999998754   568999999999999999764   3799999864

>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=99.18  E-value=9.7e-13  Score=87.43  Aligned_cols=40  Identities=28%  Similarity=0.678  Sum_probs=34.7

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      +|+||++.+..+   +.+||+|+||..||.+|   +.+||+||+++
T Consensus         8 ~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~   47 (56)
T d1bora_           8 RCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPW   47 (56)
T ss_dssp             SCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSS
T ss_pred             CCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcc
Confidence            689999999754   66899999999999876   67899999875

>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=99.07  E-value=1.4e-11  Score=89.84  Aligned_cols=42  Identities=29%  Similarity=0.667  Sum_probs=34.8

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      .|+||++.|..+  +...+|||.||..||.+|+.  +.||.||.++
T Consensus        24 ~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (97)
T d1jm7b_          24 RCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA   65 (97)
T ss_dssp             SCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             CCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcC
Confidence            689999999754  33458999999999999985  4599999754

>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=99.07  E-value=2.1e-11  Score=81.49  Aligned_cols=49  Identities=22%  Similarity=0.400  Sum_probs=35.5

Q ss_pred             ccccccccccccccCcee--EEeCcCCeecHHHHHHHhhc--CCCCCCcCCCC
Q 041990          177 QQCLCAICLQEFVVGLQV--TRLPCSHIFHGDCVLNWLTK--SKSCPLCRSEL  225 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~--~~lpC~H~FH~~CI~~WL~~--~~sCPlCR~~l  225 (225)
                      +...|+||++++......  ....|+|.||..||.+|++.  +.+||+||+++
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            334689999987644221  11235699999999999964  56899999864

>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=99.03  E-value=6.1e-11  Score=83.52  Aligned_cols=44  Identities=16%  Similarity=0.164  Sum_probs=37.9

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhc-CCCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK-SKSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~-~~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.++|||+|+..||.+|+.. +.+||+||.++
T Consensus         8 l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l   52 (80)
T d2c2la2           8 LCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPL   52 (80)
T ss_dssp             TBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             ccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCccccc
Confidence            3689999999754   57899999999999999975 56799999864

>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=98.99  E-value=1.1e-10  Score=81.73  Aligned_cols=44  Identities=20%  Similarity=0.489  Sum_probs=37.8

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcC-CCCCCcCCCC
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS-KSCPLCRSEL  225 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~-~sCPlCR~~l  225 (225)
                      -.|+||++.|..+   +.++|||+|++.||.+|++.+ ..||.||.++
T Consensus         9 l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l   53 (78)
T d1t1ha_           9 FRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccC
Confidence            4689999999755   578999999999999999874 5799999864

>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=98.77  E-value=1.9e-09  Score=78.78  Aligned_cols=45  Identities=22%  Similarity=0.215  Sum_probs=38.8

Q ss_pred             cccccccccccccCceeEEeCcC-CeecHHHHHHHhhcCCCCCCcCCCC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCS-HIFHGDCVLNWLTKSKSCPLCRSEL  225 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~-H~FH~~CI~~WL~~~~sCPlCR~~l  225 (225)
                      ...||||++.|..+   +++||+ |.|++.||.+||+.+++||+||.++
T Consensus        22 ~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l   67 (98)
T d1wgma_          22 EFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPL   67 (98)
T ss_dssp             TTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBC
T ss_pred             HhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccc
Confidence            35789999999755   678866 5899999999999999999999875

>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=98.56  E-value=1.3e-08  Score=73.07  Aligned_cols=45  Identities=29%  Similarity=0.545  Sum_probs=35.5

Q ss_pred             cccccccccccccCceeEEeCcCCeecHHHHHHHhhcC--------CCCCCcC
Q 041990          178 QCLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS--------KSCPLCR  222 (225)
Q Consensus       178 ~c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~--------~sCPlCR  222 (225)
                      ...|+||++++...+....++|+|.||..|+..|++.+        -.||.|+
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            34789999999766655666899999999999999631        1599854

>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=92.44  E-value=0.032  Score=34.25  Aligned_cols=44  Identities=23%  Similarity=0.455  Sum_probs=30.0

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhc----CCCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTK----SKSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~----~~sCPlCR~  223 (225)
                      .|.||-..-..+.-+..-.|...||..|+..-+..    .-.||.||.
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            47889754332222233379999999999887654    226999986

>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=90.90  E-value=0.02  Score=36.92  Aligned_cols=47  Identities=26%  Similarity=0.493  Sum_probs=32.4

Q ss_pred             ccccccccccccccCceeE-EeCcCCeecHHHHHHHhh-----cCCCCCCcCC
Q 041990          177 QQCLCAICLQEFVVGLQVT-RLPCSHIFHGDCVLNWLT-----KSKSCPLCRS  223 (225)
Q Consensus       177 ~~c~C~ICLee~~~g~~~~-~lpC~H~FH~~CI~~WL~-----~~~sCPlCR~  223 (225)
                      ....|.||.+....+...+ .-.|+..||..|+..=..     ..-.||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            3456899998776655433 337999999999853211     2457999975

>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=85.06  E-value=0.2  Score=31.94  Aligned_cols=43  Identities=26%  Similarity=0.440  Sum_probs=30.6

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHHhhcCCCCCCc
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKSKSCPLC  221 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~~sCPlC  221 (225)
                      ..|--|...+.....-....|++.|+.+|=.---++-++||-|
T Consensus        16 ~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          16 RFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            3578898887654333334699999999965444567789988

>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=83.05  E-value=0.2  Score=32.66  Aligned_cols=41  Identities=37%  Similarity=0.706  Sum_probs=28.5

Q ss_pred             cccccccccccCceeEEeCcCCeecHHHHHHHhhcC----CCCCCcCC
Q 041990          180 LCAICLQEFVVGLQVTRLPCSHIFHGDCVLNWLTKS----KSCPLCRS  223 (225)
Q Consensus       180 ~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~WL~~~----~sCPlCR~  223 (225)
                      .|.||..   .|.-+..=.|...||..|+...+...    -.||.|+.
T Consensus         9 ~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~   53 (70)
T d1fp0a1           9 ICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   53 (70)
T ss_dssp             CCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             CCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcC
Confidence            5677754   34333333799999999999877542    25999975

>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=82.50  E-value=0.36  Score=32.84  Aligned_cols=32  Identities=19%  Similarity=0.614  Sum_probs=23.3

Q ss_pred             ccccccccccccCceeEEeCcCCeecHHHHHHH
Q 041990          179 CLCAICLQEFVVGLQVTRLPCSHIFHGDCVLNW  211 (225)
Q Consensus       179 c~C~ICLee~~~g~~~~~lpC~H~FH~~CI~~W  211 (225)
                      -.|.|| +.|......-.--|+-+||..|+.+-
T Consensus        16 ~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          16 EMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cccccc-CcccccceecceeecchhhHHHHHHh
Confidence            368999 77765543322237999999999997

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.21  E-value=0.83  Score=30.10  Aligned_cols=44  Identities=27%  Similarity=0.471  Sum_probs=28.5

Q ss_pred             ccccccccccCceeE-EeCcCCeecHHHHHH--Hh-hc--CCCCCCcCCC
Q 041990          181 CAICLQEFVVGLQVT-RLPCSHIFHGDCVLN--WL-TK--SKSCPLCRSE  224 (225)
Q Consensus       181 C~ICLee~~~g~~~~-~lpC~H~FH~~CI~~--WL-~~--~~sCPlCR~~  224 (225)
                      +-||...+......+ .-.|.-.||..|+.-  .- ..  +-.||.||..
T Consensus        14 ~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          14 YCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             EeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            349987655443333 337999999999842  11 11  3589999863