Psyllid ID: psy12643

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140----
Protein Sequence
MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHHHHHHccccccccccccccccHHHHHHcccEEcccccccccccccccccccccEEcccccccccccHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHcccEEEEEcccccccccHHHcccccEEEEcccccccccccEHHHHHcccccccEEcccccccccHHHHccccccHHHcccHHHHHcccccc
Coil and Loop (DISEMBL)
msdyfdefniaplgpgetpnHMLHLARLLRdfgmnpyefndelpppasKAFVKSLQEvtshepesscpicLKLFLvgesakkldckhtfhstcilpwlektstcplcrhefktddaDYEAYKVQKKREKEREGEIENLHNAMFS
Flexible Loop (DISEMBL)
MSDYFDEFNiaplgpgetPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFktddadyeAYKVQKkrekeregeienlhnamfs
Low Complexity Region (SEG)
MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQkkrekereGEIENLHNAMFS
Disordered region (IsUnstruct)
*******FNIA********NHMLHLARLLRDFGMNPYEF***************************CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEA************************
Disordered Region (DISOPRED)
MSDYFD*FNIAPL*PGETPNHMLHLARLLRDFG*****************************PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT*******************************
Disordered Region (DISEMBL)
MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVK*************CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYK***********EIENLHNAMFS
Disordered Region (DISPRO)
******EFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	144	2.2.26 [Sep-21-2011]
Q6GPV5	156	E3 ubiquitin-protein liga	N/A	N/A	0.993	0.916	0.471	1e-30
Q7ZW78	156	E3 ubiquitin-protein liga	yes	N/A	0.993	0.916	0.452	2e-29
Q9CY62	165	E3 ubiquitin-protein liga	yes	N/A	0.986	0.860	0.407	5e-28
Q6AXU4	165	E3 ubiquitin-protein liga	yes	N/A	0.986	0.860	0.413	4e-27
Q3T0W3	153	E3 ubiquitin-protein liga	yes	N/A	0.993	0.934	0.428	1e-26
Q5M974	156	E3 ubiquitin-protein liga	yes	N/A	0.993	0.916	0.464	2e-26
Q9P0P0	153	E3 ubiquitin-protein liga	yes	N/A	0.993	0.934	0.409	7e-26
Q9VE61	147	E3 ubiquitin-protein liga	yes	N/A	1.0	0.979	0.340	5e-17
Q9SPL2	334	E3 ubiquitin-protein liga	no	N/A	0.562	0.242	0.436	1e-14
P0CH30	338	E3 ubiquitin-protein liga	N/A	N/A	0.708	0.301	0.362	2e-14

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

 Score =  131 bits (330), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 97/157 (61%), Gaps = 14/157 (8%)

Query: 1   MSDYFDEFNIAPLGPGET--PNHMLHLARLLR-----DFGMNPY-EFNDELPPPASKAFV 52
           M+ YFDE N  P  P E    N +L LAR L      D G   + E++  LPPPASK  V
Sbjct: 1   MASYFDEHNCEPTVPEEQYRQNALLELARSLLSGMDIDLGAVDFTEWDQRLPPPASKKVV 60

Query: 53  KSLQEVTSHEPESS-----CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLC 107
           +SL +VT   PE +     CP+CL  F  GE+ ++L C+H FHS CILPWL KT++CPLC
Sbjct: 61  ESLPKVTV-TPEQADAALKCPVCLLEFEEGETVRQLPCEHLFHSACILPWLGKTNSCPLC 119

Query: 108 RHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           RHE  TD  DYE +K +K R +++E  +E LH AM++
Sbjct: 120 RHELPTDSPDYEEFKQEKARRQQKEHRLECLHGAMYT 156

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

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

 Score =  127 bits (319), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 71/157 (45%), Positives = 96/157 (61%), Gaps = 14/157 (8%)

Query: 1   MSDYFDEFNIAPLGPGET--PNHMLHLARLLR---DFGMNPYEFND---ELPPPASKAFV 52
           M+ YFDE +  P  P E    N +L LAR L    D     ++ +D    LPPPA+KA V
Sbjct: 1   MASYFDEHDCEPTNPEEQYRQNALLELARSLMQGLDIDSGSFDLSDWDQRLPPPAAKAVV 60

Query: 53  KSLQEVTSHEPESS-----CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLC 107
           +SL  V    PE +     CP+CL  F   ES +++ CKH FH+ CILPWL KT++CPLC
Sbjct: 61  QSLP-VVIISPEQADKGVKCPVCLLEFEEQESVREMPCKHLFHTGCILPWLNKTNSCPLC 119

Query: 108 RHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           R E  TD+ADYE +K  K+R ++RE  +E+LH AM++
Sbjct: 120 RLELPTDNADYEEFKKDKERRRQREHRLEDLHGAMYT 156

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

Danio rerio (taxid: 7955)

EC: 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 =  122 bits (307), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 68/167 (40%), Positives = 95/167 (56%), Gaps = 25/167 (14%)

Query: 1   MSDYFDEFNIAPLGPGETP--NHMLHLARLLR-------------------DFGMNPYEF 39
           M+ YFDE +  PL P      N +L LAR +R                   D G+  +E 
Sbjct: 1   MASYFDEHDCEPLNPEREARNNMLLELARRVRGAWSWAPGGRSLFNRMDFEDLGLVDWEH 60

Query: 40  NDELPPPASKAFVKSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPW 97
           +  LPPPA+KA V+SL    ++S + +  CP+CL  F   E+  ++ C H FHS CILPW
Sbjct: 61  H--LPPPAAKAVVESLPRTVISSAKADLKCPVCLLEFEAEETVIEMPCHHLFHSNCILPW 118

Query: 98  LEKTSTCPLCRHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           L KT++CPLCRHE  TDD  YE +K  K R ++++  +ENLH AM++
Sbjct: 119 LSKTNSCPLCRHELPTDDDSYEEHKKDKARRQQQQHRLENLHGAMYT 165

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

 Score =  119 bits (299), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 69/167 (41%), Positives = 94/167 (56%), Gaps = 25/167 (14%)

Query: 1   MSDYFDEFNIAPLGPGETP--NHMLHLARLLR-------------------DFGMNPYEF 39
           M+ YFDE +  PL P      N +L LAR +R                   D G+  +E 
Sbjct: 1   MASYFDEHDCEPLNPEREARNNMLLELARRVRGAWSWAPGSRSLFNRMDFEDLGLVDWEH 60

Query: 40  NDELPPPASKAFVKSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPW 97
           +  LPPPA+KA V+SL    + S + E  CP+CL  F   E+  ++ C H FHS CILPW
Sbjct: 61  H--LPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHLFHSNCILPW 118

Query: 98  LEKTSTCPLCRHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           L KT++CPLCRHE  TDD  YE +K  K R ++++  +ENLH AM++
Sbjct: 119 LSKTNSCPLCRHELPTDDDSYEEHKKDKARRQQQQHRLENLHGAMYT 165

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

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q3T0W3|RN181_BOVIN E3 ubiquitin-protein ligase RNF181 OS=Bos taurus GN=RNF181 PE=2 SV=1

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 66/154 (42%), Positives = 93/154 (60%), Gaps = 11/154 (7%)

Query: 1   MSDYFDEFNIAPLGPGETP--NHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
           M+ YFDE +  PL     P  N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct: 1   MASYFDEHDCEPLDRERDPRTNMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKTAV 59

Query: 53  KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
           ++L    +   + E  CP+CL  F   E+A ++ C H FHS CILPWL KT++CPLCRHE
Sbjct: 60  ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSNCILPWLSKTNSCPLCRHE 119

Query: 111 FKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
             TDD  YE +K  K R+++++  +ENLH AM++
Sbjct: 120 LPTDDDTYEEHKRDKARKQQQKHRLENLHGAMYT 153

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.

Bos taurus (taxid: 9913)

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 =  117 bits (294), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 73/157 (46%), Positives = 101/157 (64%), Gaps = 14/157 (8%)

Query: 1   MSDYFDEFNIAPLGPGET--PNHMLHLARLLR-----DFG-MNPYEFNDELPPPASKAFV 52
           M+ YFDE N  P  P E    N +L LAR L      D G ++  E++  LPPPA+K  V
Sbjct: 1   MASYFDEHNCEPTVPEEQYRQNALLELARSLLSGMDIDLGALDFTEWDQRLPPPAAKKVV 60

Query: 53  KSLQEVTSHEPESS-----CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLC 107
           +SL +VT   PE +     CP+CL  F  GE+ ++L C+H FHS+CILPWL KT++CPLC
Sbjct: 61  ESLPKVTV-TPEQADAALKCPVCLLEFEEGETVRQLPCEHLFHSSCILPWLGKTNSCPLC 119

Query: 108 RHEFKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           RHE  TD  +YE YK +K+R +++E  +E LH+AM++
Sbjct: 120 RHELPTDSPEYEEYKQEKERRQQKEHRLECLHDAMYT 156

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

 Score =  115 bits (289), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 94/154 (61%), Gaps = 11/154 (7%)

Query: 1   MSDYFDEFNIAPLGPGE--TPNHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
           M+ YFDE +  P  P +    N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct: 1   MASYFDEHDCEPSDPEQETRTNMLLELARSLFNRMDFEDLGLV-VDWDHHLPPPAAKTVV 59

Query: 53  KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
           ++L    +   + E  CP+CL  F   E+A ++ C H FHS+CILPWL KT++CPLCR+E
Sbjct: 60  ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYE 119

Query: 111 FKTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
             TDD  YE ++  K R+++++  +ENLH AM++
Sbjct: 120 LPTDDDTYEEHRRDKARKQQQQHRLENLHGAMYT 153

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

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 50/147 (34%), Positives = 77/147 (52%), Gaps = 3/147 (2%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVK-SLQEVT 59
           MSDYF+E    P GP    +   +L RL     MN  +   E+P  + +A ++  + E+ 
Sbjct: 1   MSDYFEELGHEPTGPLGANDLARNLKRLQVLAIMNGIDMEIEVPEASKRAILELPVHEIV 60

Query: 60  SHEP--ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD 117
             +   +  C +C +    G+  + L CKH FH  CIL WL+KT++CPLCR+E +TDD  
Sbjct: 61  KSDEGGDLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDDPV 120

Query: 118 YEAYKVQKKREKEREGEIENLHNAMFS 144
           YE  +  ++ E  R      L ++MF 
Sbjct: 121 YEELRRFRQDEANRRERENTLLDSMFG 147

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

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SPL2|CIP8_ARATH E3 ubiquitin-protein ligase CIP8 OS=Arabidopsis thaliana GN=CIP8 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/87 (43%), Positives = 59/87 (67%), Gaps = 6/87 (6%)

Query: 45  PPASKAFVKSLQ--EVTSHEPESS--CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK 100
           PPA+K+ +++L+  EV+S E E    C +C    ++GE+ KKL C H +H  CI+PWL  
Sbjct: 231 PPAAKSAIEALETFEVSSSEGEMVMVCAVCKDGMVMGETGKKLPCGHCYHGDCIVPWLGT 290

Query: 101 TSTCPLCRHEFKTDDADYEAYKVQKKR 127
            ++CP+CR + +TDDA+YE  + +KKR
Sbjct: 291 RNSCPVCRFQLETDDAEYE--EERKKR 315

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. Probably forms a minimal ubiquitin ligase complex in cooperation with the E2 enzyme UBC8. Its interaction with COP1 suggests that it may participate in proteasome-mediated degradation of HY5 in vivo.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/124 (36%), Positives = 66/124 (53%), Gaps = 22/124 (17%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTS 60
           + DYF       +GPG        L +L++    N  + N    PPASK+ +++L  V  
Sbjct: 170 IGDYF-------IGPG--------LEQLIQQLAEN--DPNRYGTPPASKSAIEALPLVNI 212

Query: 61  HEPE-----SSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
            +       + C +C+  F  G  AK++ CKH +H  C+LPWLE  ++CP+CRHE  TDD
Sbjct: 213 TKSNLNSEFNQCAVCMDDFEEGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCRHELPTDD 272

Query: 116 ADYE 119
            DYE
Sbjct: 273 PDYE 276

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: -

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	144
332017271	146	E3 ubiquitin-protein ligase rnf181 [Acro	1.0	0.986	0.547	1e-39
242019730	145	RING finger protein, putative [Pediculus	1.0	0.993	0.572	1e-39
307192009	146	RING finger protein 181 [Harpegnathos sa	1.0	0.986	0.534	6e-39
342326454	155	RING finger protein 181 [Cherax quadrica	0.993	0.922	0.522	2e-38
189234248	144	PREDICTED: similar to RING finger protei	1.0	1.0	0.520	2e-38
307175837	146	RING finger protein 181 [Camponotus flor	1.0	0.986	0.534	1e-37
357623756	147	putative RING finger protein 181 [Danaus	1.0	0.979	0.523	4e-37
156550430	148	PREDICTED: E3 ubiquitin-protein ligase R	0.986	0.959	0.526	7e-37
332375354	147	unknown [Dendroctonus ponderosae]	1.0	0.979	0.530	7e-36
442756771	152	Putative e3 ubiquitin-protein ligase [Ix	1.0	0.947	0.480	1e-34

>gi|332017271|gb|EGI58040.1| E3 ubiquitin-protein ligase rnf181 [Acromyrmex echinatior]

 Score =  167 bits (423), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 80/146 (54%), Positives = 101/146 (69%), Gaps = 2/146 (1%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFND-ELPPPASKAFVKSLQEVT 59
           MSDYF E    PL  GE PNH++ +AR LRDFGM      D ELPPPASK  V +L E+ 
Sbjct: 1   MSDYFTEMGWTPLSDGEAPNHLIQMARFLRDFGMWDLVGQDTELPPPASKNAVANLPEIK 60

Query: 60  SHEPES-SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY 118
               E+  CP+CLK F +G  AK + C+H FH  CI+PWLEKT++CPLCR+E  TDD DY
Sbjct: 61  IESNENKQCPVCLKEFEIGNKAKSMPCQHVFHQECIIPWLEKTNSCPLCRYELPTDDEDY 120

Query: 119 EAYKVQKKREKEREGEIENLHNAMFS 144
           E Y+ +KKR  ERE ++E+LHN+MF+
Sbjct: 121 EMYRKEKKRVVEREKDLESLHNSMFT 146

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242019730|ref|XP_002430312.1| RING finger protein, putative [Pediculus humanus corporis] gi|212515427|gb|EEB17574.1| RING finger protein, putative [Pediculus humanus corporis]

 Score =  167 bits (423), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 83/145 (57%), Positives = 98/145 (67%), Gaps = 1/145 (0%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDE-LPPPASKAFVKSLQEVT 59
           M+DYF+E    PL  GE PNH LH ARLLRDFGM      D+ LPPPASK ++K+L+  T
Sbjct: 1   MADYFEEMGWRPLENGENPNHFLHFARLLRDFGMFEELGEDKKLPPPASKEYIKNLKRET 60

Query: 60  SHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYE 119
            HE E  CP+CL     GE    L+C H FH  CILPWL +TSTCPLCR+E  TDD DYE
Sbjct: 61  VHESEKQCPVCLTFSKEGEEMILLNCNHGFHPDCILPWLNRTSTCPLCRYEMPTDDEDYE 120

Query: 120 AYKVQKKREKEREGEIENLHNAMFS 144
            YK +K R K+RE +I  LHN+MFS
Sbjct: 121 MYKKEKIRAKKREEDINALHNSMFS 145

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307192009|gb|EFN75399.1| RING finger protein 181 [Harpegnathos saltator]

 Score =  165 bits (417), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 78/146 (53%), Positives = 103/146 (70%), Gaps = 2/146 (1%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGM-NPYEFNDELPPPASKAFVKSLQEVT 59
           MSDYF+E    PL  GE PNH++ +AR LRD GM +    N++LPPPASK+ V +L+E+ 
Sbjct: 1   MSDYFEEMGWTPLAHGEAPNHLIQMARFLRDLGMWDLLGENEKLPPPASKSAVNNLEEIQ 60

Query: 60  SHEPES-SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY 118
               E+  CP+CLK F  G  A  + C+H FHS CILPWLEKT++CPLCR+E  TDD DY
Sbjct: 61  IGSGETKQCPVCLKDFEAGNKAISMPCRHAFHSECILPWLEKTNSCPLCRYELPTDDEDY 120

Query: 119 EAYKVQKKREKEREGEIENLHNAMFS 144
           E Y+ +K+R  ERE ++E LH++MFS
Sbjct: 121 EIYRKEKRRAVEREKDLETLHSSMFS 146

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|342326454|gb|AEL23142.1| RING finger protein 181 [Cherax quadricarinatus]

 Score =  163 bits (413), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 80/153 (52%), Positives = 103/153 (67%), Gaps = 10/153 (6%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFG---------MNPYEFNDELPPPASKAF 51
           M+ YFDE N  PLG G+TP+H LH ARLL   G            + +++  PPP SK F
Sbjct: 4   MASYFDEHNCIPLGSGQTPDHFLHFARLLLHGGYWQDLQLEFTQLFGYDERPPPPTSKEF 63

Query: 52  VKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEF 111
           ++ L  VT+ +    CP+CLK +  GE  K+L CKH+ HS+CILPWL+KT++CP+CRHE 
Sbjct: 64  IEKLNTVTATKG-GQCPVCLKEWTEGEEMKELPCKHSLHSSCILPWLKKTNSCPMCRHEL 122

Query: 112 KTDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
            TDD DYE YK QKKR K+RE E+E LHN+MFS
Sbjct: 123 PTDDEDYEEYKKQKKRAKDREAEMEMLHNSMFS 155

Source: Cherax quadricarinatus

Species: Cherax quadricarinatus

Genus: Cherax

Family: Parastacidae

Order: Decapoda

Class: Malacostraca

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189234248|ref|XP_973806.2| PREDICTED: similar to RING finger protein 181 [Tribolium castaneum] gi|270002614|gb|EEZ99061.1| hypothetical protein TcasGA2_TC004936 [Tribolium castaneum]

 Score =  163 bits (412), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 75/144 (52%), Positives = 96/144 (66%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTS 60
           M+DYF E    PL  G+ PNH+LH ARL RD+ +        L PPASK+ V++L  +T 
Sbjct: 1   MADYFQEMGWQPLSEGQAPNHLLHFARLFRDYNIFDESLTQSLAPPASKSVVENLPSITI 60

Query: 61  HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEA 120
           +     CP+CLK    GE+ KK+ C HTFH+ CILPWL KT++CPLCR E  TDD DYEA
Sbjct: 61  NGQGVKCPVCLKEHSEGETVKKMPCNHTFHAECILPWLAKTNSCPLCRFELATDDEDYEA 120

Query: 121 YKVQKKREKEREGEIENLHNAMFS 144
           ++ +K R K RE +IE LHN+MFS
Sbjct: 121 FRKEKIRAKAREADIEILHNSMFS 144

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  160 bits (406), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 78/146 (53%), Positives = 101/146 (69%), Gaps = 2/146 (1%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFND-ELPPPASKAFVKSLQEVT 59
           MSDYF+E    PL  GE PNH++ +AR LRD+GM      D +LPPPASK  V++L E+ 
Sbjct: 1   MSDYFEEMGWTPLDDGEAPNHLIQMARFLRDYGMWELLGEDAKLPPPASKNAVETLPEIK 60

Query: 60  SHEPES-SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY 118
               E+  CP+CLK F V + AK + C H FH  CILPWLEKT++CPLCR+E  TDD +Y
Sbjct: 61  IEPSETKQCPVCLKEFEVNDKAKSMPCHHVFHQECILPWLEKTNSCPLCRYELPTDDEEY 120

Query: 119 EAYKVQKKREKEREGEIENLHNAMFS 144
           E Y+ +KKR  ERE ++E LHN+MF+
Sbjct: 121 EMYRKEKKRAVEREKDLEYLHNSMFT 146

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357623756|gb|EHJ74781.1| putative RING finger protein 181 [Danaus plexippus]

 Score =  159 bits (402), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 77/147 (52%), Positives = 100/147 (68%), Gaps = 3/147 (2%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDE---LPPPASKAFVKSLQE 57
           M+DYF E     L  GE PNH+LH+AR L DFGM    F  E   LPPPASK  VK+L+E
Sbjct: 1   MTDYFQEMGWRELEDGEQPNHLLHMARFLIDFGMYDDNFTGEWPRLPPPASKESVKNLKE 60

Query: 58  VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD 117
           V   +   +CPICLK F + ++AK++ C H FH  CIL WL +T++CP CRHE  TD+  
Sbjct: 61  VKIEDENQNCPICLKKFNINDTAKEMPCHHLFHEKCILTWLNQTNSCPFCRHELPTDNEG 120

Query: 118 YEAYKVQKKREKEREGEIENLHNAMFS 144
           YEA+K +KKR ++R+ +IE LHN+MFS
Sbjct: 121 YEAFKKEKKRSEQRKEDIEALHNSMFS 147

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156550430|ref|XP_001600973.1| PREDICTED: E3 ubiquitin-protein ligase RNF181-like [Nasonia vitripennis]

 Score =  158 bits (400), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 79/150 (52%), Positives = 102/150 (68%), Gaps = 8/150 (5%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEF---NDELPPPASKAFVKSLQE 57
           M+DYFDE    PLG  ETPNH + +AR LRD GM  +E    +++LPPPASK  VK+L E
Sbjct: 1   MADYFDEMGWTPLGNSETPNHAMLMARFLRDTGM--WELLGEHEKLPPPASKDVVKNLPE 58

Query: 58  VTSHEP---ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD 114
           +   +       CP+C++ F  G +AK L C+H FH  CI PWLEKT++CPLCR+E  TD
Sbjct: 59  IEYKDKLDKREQCPVCIRDFETGNTAKALPCEHNFHKECIEPWLEKTNSCPLCRYELLTD 118

Query: 115 DADYEAYKVQKKREKEREGEIENLHNAMFS 144
           D DYE YK +KKR  ERE ++E LH++MFS
Sbjct: 119 DEDYENYKKEKKRAAEREKDLEALHDSMFS 148

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332375354|gb|AEE62818.1| unknown [Dendroctonus ponderosae]

 Score =  155 bits (391), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 78/147 (53%), Positives = 96/147 (65%), Gaps = 3/147 (2%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPY---EFNDELPPPASKAFVKSLQE 57
           M+DYF E     L  GE PNH LH+ARL RD+GM      +  D LPPPASKA V +L+ 
Sbjct: 1   MTDYFSEMGWRELRDGEQPNHSLHMARLFRDYGMFELLRSQNGDMLPPPASKAAVDALES 60

Query: 58  VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD 117
            T  +    CP+CLK F   +  KK+ CKH FH  CILPWL KT++CP+CR E  TDD D
Sbjct: 61  ETILQTGLQCPVCLKEFPSHDKVKKMPCKHVFHPDCILPWLSKTNSCPVCRFELPTDDED 120

Query: 118 YEAYKVQKKREKEREGEIENLHNAMFS 144
           YE  + +KKR  ER+ +IENLHN+MFS
Sbjct: 121 YEEERKEKKRAVERKIDIENLHNSMFS 147

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442756771|gb|JAA70544.1| Putative e3 ubiquitin-protein ligase [Ixodes ricinus]

 Score =  151 bits (381), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 73/152 (48%), Positives = 97/152 (63%), Gaps = 8/152 (5%)

Query: 1   MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPY---EFNDELP-----PPASKAFV 52
           M+ YFDE   +PL PGE P+HMLHLARLL D G   +   E++   P     PPASKA +
Sbjct: 1   MASYFDEHGCSPLAPGEQPDHMLHLARLLIDGGYGAHFDMEYHRIFPDEPHKPPASKAAI 60

Query: 53  KSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK 112
            SL+     E    CP+CLK +  GE+  ++ C H FH  CI+PWL + +TCP+CR+E  
Sbjct: 61  DSLKTAPIEEEGKKCPVCLKDYSPGETVTEIACCHAFHKDCIIPWLTRINTCPVCRYELP 120

Query: 113 TDDADYEAYKVQKKREKEREGEIENLHNAMFS 144
           TDD DYEA+K QK R K+R+  ++ LHN+MF 
Sbjct: 121 TDDPDYEAFKAQKARVKQRDEALQELHNSMFG 152

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

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	144
MGI|MGI:1913760	165	Rnf181 "ring finger protein 18	0.777	0.678	0.448	7.6e-29
RGD|1359698	165	Rnf181 "ring finger protein 18	0.777	0.678	0.456	7.6e-29
UNIPROTKB|Q6AXU4	165	Rnf181 "E3 ubiquitin-protein l	0.777	0.678	0.456	7.6e-29
ZFIN|ZDB-GENE-040426-1024	156	rnf181 "ring finger protein 18	0.993	0.916	0.426	9.4e-27
UNIPROTKB|Q3T0W3	153	RNF181 "E3 ubiquitin-protein l	0.993	0.934	0.415	1.5e-26
UNIPROTKB|E2QUN1	153	RNF181 "Uncharacterized protei	0.993	0.934	0.409	2.5e-26
UNIPROTKB|F1SVB7	153	RNF181 "Uncharacterized protei	0.993	0.934	0.409	3.2e-26
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.993	0.934	0.409	1.1e-25
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.840	0.870	0.431	6.1e-23
FB|FBgn0038627	147	CG7694 [Drosophila melanogaste	0.986	0.965	0.346	3.2e-17

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

 Score = 274 (101.5 bits), Expect = 7.6e-29, Sum P(2) = 7.6e-29
 Identities = 52/116 (44%), Positives = 71/116 (61%)

Query:    31 DFGMNPYEFNDELPPPASKAFVKSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHT 88
             D G+  +E +  LPPPA+KA V+SL    ++S + +  CP+CL  F   E+  ++ C H 
Sbjct:    52 DLGLVDWEHH--LPPPAAKAVVESLPRTVISSAKADLKCPVCLLEFEAEETVIEMPCHHL 109

Query:    89 FHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
             FHS CILPWL KT++CPLCRHE  TDD  YE +K            +ENLH AM++
Sbjct:   110 FHSNCILPWLSKTNSCPLCRHELPTDDDSYEEHKKDKARRQQQQHRLENLHGAMYT 165

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 274 (101.5 bits), Expect = 7.6e-29, Sum P(2) = 7.6e-29
 Identities = 53/116 (45%), Positives = 70/116 (60%)

Query:    31 DFGMNPYEFNDELPPPASKAFVKSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHT 88
             D G+  +E +  LPPPA+KA V+SL    + S + E  CP+CL  F   E+  ++ C H 
Sbjct:    52 DLGLVDWEHH--LPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHL 109

Query:    89 FHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
             FHS CILPWL KT++CPLCRHE  TDD  YE +K            +ENLH AM++
Sbjct:   110 FHSNCILPWLSKTNSCPLCRHELPTDDDSYEEHKKDKARRQQQQHRLENLHGAMYT 165

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

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

 Score = 274 (101.5 bits), Expect = 7.6e-29, Sum P(2) = 7.6e-29
 Identities = 53/116 (45%), Positives = 70/116 (60%)

Query:    31 DFGMNPYEFNDELPPPASKAFVKSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHT 88
             D G+  +E +  LPPPA+KA V+SL    + S + E  CP+CL  F   E+  ++ C H 
Sbjct:    52 DLGLVDWEHH--LPPPAAKAVVESLPRTVIRSSKAELKCPVCLLEFEEEETVIEMPCHHL 109

Query:    89 FHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
             FHS CILPWL KT++CPLCRHE  TDD  YE +K            +ENLH AM++
Sbjct:   110 FHSNCILPWLSKTNSCPLCRHELPTDDDSYEEHKKDKARRQQQQHRLENLHGAMYT 165

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 67/157 (42%), Positives = 89/157 (56%)

Query:     1 MSDYFDEFNIAPLGPGET--PNHMLHLARLLR---DFGMNPYEFND---ELPPPASKAFV 52
             M+ YFDE +  P  P E    N +L LAR L    D     ++ +D    LPPPA+KA V
Sbjct:     1 MASYFDEHDCEPTNPEEQYRQNALLELARSLMQGLDIDSGSFDLSDWDQRLPPPAAKAVV 60

Query:    53 KSLQEVTSHEPESS-----CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLC 107
             +SL  V    PE +     CP+CL  F   ES +++ CKH FH+ CILPWL KT++CPLC
Sbjct:    61 QSLPVVII-SPEQADKGVKCPVCLLEFEEQESVREMPCKHLFHTGCILPWLNKTNSCPLC 119

Query:   108 RHEFKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
             R E  TD+ADYE +K            +E+LH AM++
Sbjct:   120 RLELPTDNADYEEFKKDKERRRQREHRLEDLHGAMYT 156

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 64/154 (41%), Positives = 86/154 (55%)

Query:     1 MSDYFDEFNIAPLGPGETP--NHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
             M+ YFDE +  PL     P  N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct:     1 MASYFDEHDCEPLDRERDPRTNMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKTAV 59

Query:    53 KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
             ++L    +   + E  CP+CL  F   E+A ++ C H FHS CILPWL KT++CPLCRHE
Sbjct:    60 ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSNCILPWLSKTNSCPLCRHE 119

Query:   111 FKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
               TDD  YE +K            +ENLH AM++
Sbjct:   120 LPTDDDTYEEHKRDKARKQQQKHRLENLHGAMYT 153

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 63/154 (40%), Positives = 89/154 (57%)

Query:     1 MSDYFDEFNIAPLGPGETP--NHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
             M+ YFDE +  PL   +    + +L LAR L       D G+   +++  LPPPA+KA V
Sbjct:     1 MASYFDEHDCEPLDSEQEARTSMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKAVV 59

Query:    53 KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
             ++L    + S + E  CP+CL  F   E+A ++ C+H FHS CILPWL KT++CPLCRHE
Sbjct:    60 ENLPRTVIRSSQAELKCPVCLLEFEEEETAIEMPCRHLFHSNCILPWLSKTNSCPLCRHE 119

Query:   111 FKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
               TDD  YE ++            +ENLH AM++
Sbjct:   120 LPTDDDAYEEHRRDKARKQQQKHRLENLHGAMYT 153

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 63/154 (40%), Positives = 86/154 (55%)

Query:     1 MSDYFDEFNIAPLGP--GETPNHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
             M+ YFDE +  PL P      N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct:     1 MASYFDEHDCEPLDPEPDARTNMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKTVV 59

Query:    53 KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
             ++L    +   + E  CP+CL  F   E+A ++ C H FHS CILPWL KT++CPLCRHE
Sbjct:    60 ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSGCILPWLSKTNSCPLCRHE 119

Query:   111 FKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
               TDD  YE ++            +ENLH AM++
Sbjct:   120 LPTDDDTYEEHRRDKARKQQQKHRLENLHGAMYT 153

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 63/154 (40%), Positives = 88/154 (57%)

Query:     1 MSDYFDEFNIAPLGPG-ET-PNHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
             M+ YFDE +  P  P  ET  N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct:     1 MASYFDEHDCEPSDPEQETRTNMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKTVV 59

Query:    53 KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
             ++L    +   + E  CP+CL  F   E+A ++ C H FHS+CILPWL KT++CPLCR+E
Sbjct:    60 ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYE 119

Query:   111 FKTDDADYEAYKVQXXXXXXXXGEIENLHNAMFS 144
               TDD  YE ++            +ENLH AM++
Sbjct:   120 LPTDDDTYEEHRRDKARKQQQQHRLENLHGAMYT 153

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

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

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 57/132 (43%), Positives = 79/132 (59%)

Query:     1 MSDYFDEFNIAPLGPG-ET-PNHMLHLARLL------RDFGMNPYEFNDELPPPASKAFV 52
             M+ YFDE +  P  P  ET  N +L LAR L       D G+   +++  LPPPA+K  V
Sbjct:     1 MASYFDEHDCEPSDPEQETRTNMLLELARSLFNRMDFEDLGL-VVDWDHHLPPPAAKTVV 59

Query:    53 KSLQE--VTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
             ++L    +   + E  CP+CL  F   E+A ++ C H FHS+CILPWL KT++CPLCR+E
Sbjct:    60 ENLPRTVIRGSQAELKCPVCLLEFEEEETAIEMPCHHLFHSSCILPWLSKTNSCPLCRYE 119

Query:   111 FKTDDADYEAYK 122
               TDD  YE ++
Sbjct:   120 LPTDDDTYEEHR 131

GO:0008270 "zinc ion binding" evidence=IEA

FB|FBgn0038627 CG7694 [Drosophila melanogaster (taxid:7227)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 51/147 (34%), Positives = 77/147 (52%)

Query:     1 MSDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVK-SLQEVT 59
             MSDYF+E    P GP    +   +L RL     MN  +   E+P  + +A ++  + E+ 
Sbjct:     1 MSDYFEELGHEPTGPLGANDLARNLKRLQVLAIMNGIDMEIEVPEASKRAILELPVHEIV 60

Query:    60 SHEP--ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD 117
               +   +  C +C +    G+  + L CKH FH  CIL WL+KT++CPLCR+E +TDD  
Sbjct:    61 KSDEGGDLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDDPV 120

Query:   118 YEAYKVQXXXXXXXXGEIEN-LHNAMF 143
             YE  + +         E EN L ++MF
Sbjct:   121 YEELR-RFRQDEANRRERENTLLDSMF 146

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9VE61	RN181_DROME	6, ., 3, ., 2, ., -	0.3401	1.0	0.9795	yes	N/A
Q5M974	RN181_XENTR	6, ., 3, ., 2, ., -	0.4649	0.9930	0.9166	yes	N/A
Q7ZW78	RN181_DANRE	6, ., 3, ., 2, ., -	0.4522	0.9930	0.9166	yes	N/A
Q9P0P0	RN181_HUMAN	6, ., 3, ., 2, ., -	0.4090	0.9930	0.9346	yes	N/A
Q9CY62	RN181_MOUSE	6, ., 3, ., 2, ., -	0.4071	0.9861	0.8606	yes	N/A
Q3T0W3	RN181_BOVIN	6, ., 3, ., 2, ., -	0.4285	0.9930	0.9346	yes	N/A
Q6AXU4	RN181_RAT	6, ., 3, ., 2, ., -	0.4131	0.9861	0.8606	yes	N/A

EC Number Prediction by EFICAz Software

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	144
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-08
smart00184	40	smart00184, RING, Ring finger	4e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-07
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	4e-07
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	2e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	4e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-05
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.003

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

 Score = 64.3 bits (157), Expect = 4e-15
 Identities = 22/45 (48%), Positives = 25/45 (55%)

Query: 66  SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
            CPICL  F  GE    L C H FH  C+  WL  ++TCPLCR  
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 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 = 52.1 bits (125), Expect = 3e-10
 Identities = 21/46 (45%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEF 111
           CPICL+ F   E    L C H F  +CI  WL+    TCPLCR   
Sbjct: 2   CPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 46.7 bits (111), Expect = 3e-08
 Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 63  PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRH 109
            E  CPICL L    +      C H F   CIL +L+K S CP+CR 
Sbjct: 1   EELECPICLDLL--RDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 46.3 bits (110), Expect = 4e-08
 Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 3/42 (7%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLC 107
           CPICL+ +L  +    L C HTF  +CI  WLE   +TCP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 45.1 bits (107), Expect = 3e-07
 Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 11/46 (23%)

Query: 63  PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCR 108
           P   CP+              +C H FH  CI  WL+  +TCPLCR
Sbjct: 39  PGDDCPVVW-----------GECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 47.7 bits (113), Expect = 4e-07
 Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 37  YEFNDELPPPASKAFVKSLQEVTSHEPES--SCPICLKLFLVGESAKKLDCKHTFHSTCI 94
           Y  ++ +P   +K  +K L    + E +    C IC+  F+  +  + L C H FH  C+
Sbjct: 294 YSSSEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCV 353

Query: 95  LPWLEKTS-TCPLCRHE 110
             WL   S  CP+CR  
Sbjct: 354 DKWLLGYSNKCPVCRTA 370

Length = 374

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

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 14/56 (25%)

Query: 63  PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTST---CPLCRHEFKTDD 115
           P   CP+               CKH FH  CIL WL   ++   CP+CR  F   +
Sbjct: 41  PGDDCPLVWGK-----------CKHNFHMHCILKWLATETSKGLCPMCRQTFVFAE 85

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

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

 Score = 44.6 bits (105), Expect = 4e-06
 Identities = 14/28 (50%), Positives = 18/28 (64%)

Query: 81  KKLDCKHTFHSTCILPWLEKTSTCPLCR 108
           K+L C H  H  C+  WLE+  TCP+CR
Sbjct: 314 KRLPCGHILHLHCLKNWLERQQTCPICR 341

Length = 491

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

 Score = 39.8 bits (93), Expect = 1e-05
 Identities = 21/42 (50%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLC 107
           CPICL+     +    L C H F S CIL WLE  + TCPLC
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 42.3 bits (99), Expect = 2e-05
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)

Query: 67   CPICLKLFLVGE----SAKKLDCKHTFHSTCILPWLEKT--STCPLCRHEF 111
            C IC  +  + +    S +   CK+ FH+ C+  W   +  S CPLCR E 
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 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 = 39.4 bits (92), Expect = 5e-05
 Identities = 12/27 (44%), Positives = 14/27 (51%)

Query: 85  CKHTFHSTCILPWLEKTSTCPLCRHEF 111
           C H FH  CI  WL+    CPL R  +
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQTW 80

Length = 88

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

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 12/27 (44%), Positives = 16/27 (59%)

Query: 85  CKHTFHSTCILPWLEKTSTCPLCRHEF 111
           C H F   CI  W ++ +TCP+CR  F
Sbjct: 200 CNHVFCIECIDIWKKEKNTCPVCRTPF 226

Length = 238

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	144
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.46
KOG4628|consensus	348		99.33
KOG0317|consensus	293		99.23
KOG0823|consensus	230		99.17
PHA02929	238	N1R/p28-like protein; Provisional	99.17
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.14
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.11
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.09
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.05
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.01
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.01
KOG0320|consensus	187		99.01
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.0
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.96
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.93
PF14634	44	zf-RING_5: zinc-RING finger domain	98.93
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.85
PHA02926	242	zinc finger-like protein; Provisional	98.82
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.82
KOG0287|consensus	442		98.78
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.78
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.71
KOG0802|consensus	543		98.7
KOG2164|consensus	513		98.69
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.69
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.65
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.56
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.46
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.46
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.39
KOG1493|consensus	84		98.21
KOG0978|consensus	698		98.2
KOG2177|consensus	386		98.18
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.12
KOG0311|consensus	381		98.12
KOG0828|consensus	636		98.1
KOG0824|consensus	324		98.08
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.04
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.03
KOG1734|consensus	328		98.0
KOG4265|consensus	349		97.95
KOG0804|consensus	493		97.93
COG5152	259	Uncharacterized conserved protein, contains RING a	97.86
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.85
KOG4159|consensus	398		97.84
KOG4172|consensus	62		97.81
KOG0827|consensus	465		97.8
KOG2930|consensus	114		97.79
KOG1039|consensus	344		97.63
KOG1813|consensus	313		97.62
KOG2660|consensus	331		97.53
KOG4445|consensus	368		97.44
KOG1645|consensus	463		97.41
KOG0297|consensus	391		97.39
KOG1785|consensus	563		97.37
KOG2879|consensus	298		97.32
KOG0825|consensus	1134		97.29
KOG1002|consensus	791		97.28
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.1
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.08
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.98
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.9
KOG4692|consensus	489		96.86
KOG1941|consensus	518		96.83
KOG1428|consensus	3738		96.81
KOG1814|consensus	445		96.66
KOG4275|consensus	350		96.44
KOG4185|consensus	296		96.42
PF04641	260	Rtf2: Rtf2 RING-finger	96.3
KOG4739|consensus	233		96.25
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.22
KOG3039|consensus	303		96.17
KOG0826|consensus	357		96.09
KOG2114|consensus	933		96.01
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.0
PHA02862	156	5L protein; Provisional	95.92
KOG3970|consensus	299		95.91
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.89
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.83
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.82
KOG3268|consensus	234		95.82
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.74
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.64
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.63
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.48
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.44
KOG1571|consensus	355		95.42
KOG3800|consensus	300		95.33
KOG2817|consensus	394		95.32
KOG1940|consensus	276		94.94
PHA03096	284	p28-like protein; Provisional	94.78
KOG1952|consensus	950		94.71
KOG1001|consensus	674		94.56
KOG0801|consensus	205		94.47
KOG4367|consensus	699		94.02
KOG1812|consensus	384		93.34
KOG2034|consensus	911		92.74
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.64
KOG3002|consensus	299		92.44
KOG0298|consensus	1394		91.18
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	90.97
KOG0827|consensus	465		90.92
KOG0309|consensus	1081		90.37
KOG1100|consensus	207		90.13
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	90.02
KOG2932|consensus	389		89.62
KOG3899|consensus	381		88.01
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.17
KOG3113|consensus	293		87.0
COG5109	396	Uncharacterized conserved protein, contains RING Z	86.59
KOG3053|consensus	293		83.91
KOG3579|consensus	352		83.58
KOG4362|consensus	684		83.13
KOG3161|consensus	861		81.98
KOG4718|consensus	235		81.41
KOG3799|consensus	169		80.48
KOG3039|consensus	303		80.3

>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=99.46  E-value=2.2e-14  Score=80.31  Aligned_cols=44  Identities=50%  Similarity=1.210  Sum_probs=39.5

Q ss_pred             cccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccc
Q psy12643         65 SSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCR  108 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr  108 (144)
                      +.|+||++.+..+...+.++|+|.||..||.+|+..+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            47999999998778888999999999999999999889999997

...

>KOG4628|consensus

Probab=99.33  E-value=9.3e-13  Score=102.26  Aligned_cols=72  Identities=36%  Similarity=0.797  Sum_probs=54.7

Q ss_pred             CCcHHHHHhhccccCCCc-----ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCC-ccccccccCCCChh
Q psy12643         46 PASKAFVKSLQEVTSHEP-----ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTST-CPLCRHEFKTDDAD  117 (144)
Q Consensus        46 ~~~~~~~~~~~~~~~~~~-----~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~-CP~Cr~~~~~~~~~  117 (144)
                      ...+..+..++.......     ...|+||+|.|.+|+..+.|||+|.||..||..|+...++ ||+|++.+......
T Consensus       206 r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~  283 (348)
T KOG4628|consen  206 RLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS  283 (348)
T ss_pred             hhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence            344455555553333222     1399999999999999999999999999999999997754 99999987655443

>KOG0317|consensus

Probab=99.23  E-value=6.1e-12  Score=94.63  Aligned_cols=60  Identities=28%  Similarity=0.671  Sum_probs=51.7

Q ss_pred             hccccCCCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         55 LQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        55 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      .......+....|.+|++..   ..+..+||||.||..||..|......||+||..+...+.+
T Consensus       230 ~~~~~i~~a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  230 NSLSSIPEATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI  289 (293)
T ss_pred             cCCccCCCCCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence            34445556689999999987   8889999999999999999999999999999999877655

>KOG0823|consensus

Probab=99.17  E-value=1.4e-11  Score=90.13  Aligned_cols=55  Identities=29%  Similarity=0.670  Sum_probs=47.6

Q ss_pred             CCCcccccccccccccCCCceeecCCCCcchHhhHHHHhh---CCCCccccccccCCCChh
Q psy12643         60 SHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        60 ~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~---~~~~CP~Cr~~~~~~~~~  117 (144)
                      .....+.|.||++..   ..++++.|||.||+.||.+|+.   ....||+|+..+..++.+
T Consensus        43 ~~~~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv  100 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV  100 (230)
T ss_pred             CCCCceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence            355689999999988   8899999999999999999998   344689999999887766

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.17  E-value=2.7e-11  Score=90.29  Aligned_cols=51  Identities=31%  Similarity=0.760  Sum_probs=41.3

Q ss_pred             CcccccccccccccCCCc-----eeecCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGES-----AKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~-----~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      ..+.+|+||++.+.....     .+.++|+|.||..||..|+..+.+||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            347899999998743221     244579999999999999999999999999875

>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=99.14  E-value=4.1e-11  Score=74.12  Aligned_cols=46  Identities=37%  Similarity=0.814  Sum_probs=35.8

Q ss_pred             cccccccccccccCC----------CceeecCCCCcchHhhHHHHhhCCCCccccc
Q psy12643         63 PESSCPICLKLFLVG----------ESAKKLDCKHTFHSTCILPWLEKTSTCPLCR  108 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~----------~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr  108 (144)
                      .++.|+||++.+...          ......+|||.||..||.+|+....+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            355699999998322          2234457999999999999999999999997

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.11  E-value=6.4e-11  Score=85.21  Aligned_cols=53  Identities=25%  Similarity=0.591  Sum_probs=43.6

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC----------------CCCccccccccCCCChh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK----------------TSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~----------------~~~CP~Cr~~~~~~~~~  117 (144)
                      .+..+|+||++.+   ..+++++|||.||..||..|+..                ...||+||..+...+..
T Consensus        16 ~~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv   84 (193)
T PLN03208         16 GGDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV   84 (193)
T ss_pred             CCccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence            3478999999988   77888999999999999999852                24699999998765443

>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=99.09  E-value=9.7e-11  Score=67.17  Aligned_cols=46  Identities=30%  Similarity=0.804  Sum_probs=40.2

Q ss_pred             ccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      +..|.||++..   ...+.++|||. ||..|+.+|+.....||+||+++.
T Consensus         2 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            57899999987   77888899999 999999999999999999999875

...

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

Probab=99.05  E-value=1.5e-10  Score=63.99  Aligned_cols=38  Identities=39%  Similarity=1.024  Sum_probs=30.0

Q ss_pred             cccccccccCCCceeecCCCCcchHhhHHHHhhCC----CCcccc
Q psy12643         67 CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT----STCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~----~~CP~C  107 (144)
                      |+||++.|   ..++.++|||.||..||.+|+...    ..||.|
T Consensus         1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999   899999999999999999999733    368887

>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=99.01  E-value=2.3e-10  Score=62.24  Aligned_cols=38  Identities=42%  Similarity=1.035  Sum_probs=32.3

Q ss_pred             cccccccccCCCce-eecCCCCcchHhhHHHHhhCCCCcccc
Q psy12643         67 CPICLKLFLVGESA-KKLDCKHTFHSTCILPWLEKTSTCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~-~~~~C~h~f~~~Ci~~~~~~~~~CP~C  107 (144)
                      |+||++.+   ..+ +.++|||.||..|+..|+.....||+|
T Consensus         1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            78999988   556 678999999999999999988899987

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

Probab=99.01  E-value=1.9e-10  Score=87.26  Aligned_cols=50  Identities=32%  Similarity=0.876  Sum_probs=46.0

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~  113 (144)
                      .-+|+||++.+..++..+.+||.|.||..|+..|+. .+..||+||..++.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            678999999998888899999999999999999998 77889999998874

>KOG0320|consensus

Probab=99.01  E-value=2e-10  Score=81.00  Aligned_cols=52  Identities=35%  Similarity=0.714  Sum_probs=43.0

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      +..+.|+||++.+.+ ..++.+.|||.||..||...++....||+|++.+..+
T Consensus       129 ~~~~~CPiCl~~~se-k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSE-KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccCCCceecchhh-ccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            346889999999843 3335578999999999999999999999999877643

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

Probab=99.00  E-value=2.5e-10  Score=88.74  Aligned_cols=53  Identities=32%  Similarity=0.862  Sum_probs=44.1

Q ss_pred             CCcccccccccccccC-C---------CceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         61 HEPESSCPICLKLFLV-G---------ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~-~---------~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..++..|.||++++-+ +         ..+.++||||.+|.+|+..|+.++.+||.||.++..
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            3458899999998522 2         245788999999999999999999999999999543

>smart00504 Ubox Modified RING finger domain

Probab=98.96  E-value=1.2e-09  Score=65.31  Aligned_cols=51  Identities=24%  Similarity=0.406  Sum_probs=44.4

Q ss_pred             cccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhH
Q psy12643         65 SSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY  118 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~  118 (144)
                      ..|+||.+.+   ..++.++|||.|+..||..|+.....||.|+..+..++...
T Consensus         2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~   52 (63)
T smart00504        2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP   52 (63)
T ss_pred             cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence            5799999999   66888999999999999999998889999999986655443

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.93  E-value=9e-10  Score=87.53  Aligned_cols=60  Identities=30%  Similarity=0.641  Sum_probs=50.1

Q ss_pred             hhccccCCCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         54 SLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        54 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      .++.+........|+||.+.+   ..+++++|||.||..||..|+.....||+|+..+.....
T Consensus        16 ~~~~l~~Le~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L   75 (397)
T TIGR00599        16 PIPSLYPLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL   75 (397)
T ss_pred             CcccccccccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence            344555566689999999999   677789999999999999999988889999998876543

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.93  E-value=1.1e-09  Score=61.11  Aligned_cols=44  Identities=27%  Similarity=0.757  Sum_probs=37.9

Q ss_pred             ccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccccc
Q psy12643         66 SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRH  109 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~  109 (144)
                      .|+||.+.+.....+.+++|||.||..|+..+......||+||+
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            48999999955567888899999999999998866778999985

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

Probab=98.85  E-value=2.5e-09  Score=58.97  Aligned_cols=43  Identities=47%  Similarity=1.098  Sum_probs=35.1

Q ss_pred             ccccccccccCCCceeec-CCCCcchHhhHHHHhhC-CCCcccccccc
Q psy12643         66 SCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEK-TSTCPLCRHEF  111 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~  111 (144)
                      .|+||++.+   .....+ +|+|.||..|+..|+.. ...||.|+..+
T Consensus         1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            489999887   444444 59999999999999986 77899998753

>PHA02926 zinc finger-like protein; Provisional

Probab=98.82  E-value=3.2e-09  Score=77.59  Aligned_cols=62  Identities=27%  Similarity=0.665  Sum_probs=44.0

Q ss_pred             HHHhhccccCCCcccccccccccccCC-----Cceee-cCCCCcchHhhHHHHhhC------CCCccccccccC
Q psy12643         51 FVKSLQEVTSHEPESSCPICLKLFLVG-----ESAKK-LDCKHTFHSTCILPWLEK------TSTCPLCRHEFK  112 (144)
Q Consensus        51 ~~~~~~~~~~~~~~~~C~IC~~~~~~~-----~~~~~-~~C~h~f~~~Ci~~~~~~------~~~CP~Cr~~~~  112 (144)
                      .+.....+...+.+.+|+||++..-..     ....+ .+|+|.||..||..|...      ...||.||..+.
T Consensus       157 il~~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        157 ILDKYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             HHHHHHHHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            334445555566689999999875221     11233 479999999999999973      245999999775

>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=98.82  E-value=3.5e-09  Score=58.03  Aligned_cols=38  Identities=50%  Similarity=1.219  Sum_probs=33.0

Q ss_pred             cccccccccCCCcee-ecCCCCcchHhhHHHHhh--CCCCcccc
Q psy12643         67 CPICLKLFLVGESAK-KLDCKHTFHSTCILPWLE--KTSTCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~~-~~~C~h~f~~~Ci~~~~~--~~~~CP~C  107 (144)
                      |+||++.+   ..+. .++|+|.||..|+.+|+.  ....||.|
T Consensus         1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            78999998   5555 789999999999999998  56679987

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 ....

>KOG0287|consensus

Probab=98.78  E-value=2.1e-09  Score=82.74  Aligned_cols=57  Identities=28%  Similarity=0.607  Sum_probs=48.5

Q ss_pred             ccccCCCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         56 QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        56 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      +.+....+-..|.||.++|   ..++++||+|.||..||..++..+..||+|+.++....
T Consensus        15 pslk~lD~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   15 PSLKTLDDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             chhhhhHHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            3344444578899999999   88999999999999999999999999999999887543

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

Probab=98.78  E-value=6.1e-09  Score=65.49  Aligned_cols=50  Identities=36%  Similarity=0.861  Sum_probs=38.1

Q ss_pred             ccccccccccccCC--------C-ceeec-CCCCcchHhhHHHHhhC---CCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVG--------E-SAKKL-DCKHTFHSTCILPWLEK---TSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~--------~-~~~~~-~C~h~f~~~Ci~~~~~~---~~~CP~Cr~~~~~  113 (144)
                      ++.|.||...|+..        + -+.++ .|+|.||..||.+|+..   +..||.||+.+..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            78899998888411        1 13333 59999999999999984   4579999998754

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

Probab=98.71  E-value=6.7e-09  Score=77.54  Aligned_cols=52  Identities=31%  Similarity=0.689  Sum_probs=44.2

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHH-HhhCCCC-ccccccccCCCCh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILP-WLEKTST-CPLCRHEFKTDDA  116 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~-~~~~~~~-CP~Cr~~~~~~~~  116 (144)
                      ..++.|.||++..   ..+..++|||.||..||.. |-.++.. ||+||+....++.
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            4589999999988   8888999999999999998 7666665 9999998776554

>KOG0802|consensus

Probab=98.70  E-value=5.6e-09  Score=86.65  Aligned_cols=52  Identities=37%  Similarity=0.888  Sum_probs=44.2

Q ss_pred             ccccccccccccCCCc--eeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGES--AKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~--~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      +..|.||++.+..+..  +.+++|+|.||..|+..|+.++.+||+||..+....
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYV  344 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence            8899999999954432  788999999999999999999999999999554433

>KOG2164|consensus

Probab=98.69  E-value=1.1e-08  Score=82.42  Aligned_cols=51  Identities=31%  Similarity=0.789  Sum_probs=42.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCC-----CCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT-----STCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~-----~~CP~Cr~~~~~~~~~  117 (144)
                      +..|+||++..   ..+..+.|||+||..||..++...     ..||+|+..+..+++.
T Consensus       186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            88999999887   677778899999999999998733     4699999988774443

>smart00184 RING Ring finger

Probab=98.69  E-value=2e-08  Score=53.42  Aligned_cols=38  Identities=47%  Similarity=1.183  Sum_probs=32.9

Q ss_pred             cccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCcccc
Q psy12643         67 CPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~C  107 (144)
                      |+||++..   .....++|+|.||..|+..|+. ....||+|
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            78998875   7778889999999999999998 66679987

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

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

Probab=98.65  E-value=1.2e-08  Score=77.32  Aligned_cols=58  Identities=26%  Similarity=0.508  Sum_probs=48.8

Q ss_pred             HhhccccCCCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         53 KSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        53 ~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .++|.+.....-..|.||-..+   ..+..++|||.||..||..++..+..||+||.....
T Consensus        14 T~IPSL~~LDs~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          14 TKIPSLKGLDSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             ccCcchhcchhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            3445555555578899999999   888889999999999999999999999999987643

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

Probab=98.56  E-value=1.3e-07  Score=58.35  Aligned_cols=57  Identities=28%  Similarity=0.406  Sum_probs=44.1

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCChhHHHHHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDADYEAYKV  123 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~  123 (144)
                      .+.|+|+.+.+   ..++++++||.|...+|..|+.. ...||+|+..+...+.......+
T Consensus         4 ~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk   61 (73)
T PF04564_consen    4 EFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALK   61 (73)
T ss_dssp             GGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHH
T ss_pred             ccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHH
Confidence            68899999999   89999999999999999999997 88999999999877665444333

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 ....

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

Probab=98.46  E-value=1.3e-07  Score=52.36  Aligned_cols=33  Identities=33%  Similarity=0.743  Sum_probs=21.4

Q ss_pred             ccccccccc-CCCceeecCCCCcchHhhHHHHhhC
Q psy12643         67 CPICLKLFL-VGESAKKLDCKHTFHSTCILPWLEK  100 (144)
Q Consensus        67 C~IC~~~~~-~~~~~~~~~C~h~f~~~Ci~~~~~~  100 (144)
                      |+||.+ +. ....++.|+|||.||..|+..++..
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~   34 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK   34 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence            899999 63 3345788999999999999999883

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

Probab=98.46  E-value=1.5e-07  Score=58.00  Aligned_cols=49  Identities=33%  Similarity=0.792  Sum_probs=35.3

Q ss_pred             cccccccccccCCCce-eec-CCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         65 SSCPICLKLFLVGESA-KKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~~-~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..|+-|+.....+++- +.. .|.|.||..||.+|+..+..||++|+++..
T Consensus        32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            3444455444344432 333 499999999999999999999999998743

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.39  E-value=5.2e-07  Score=69.48  Aligned_cols=52  Identities=19%  Similarity=0.481  Sum_probs=37.7

Q ss_pred             cccccccccc--ccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         64 ESSCPICLKL--FLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~--~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      +..|++|...  +.......+.+|||.||.+|+...+. ....||.|+..+....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            5789999983  32222223337999999999999765 5568999999886654

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

>KOG1493|consensus

Probab=98.21  E-value=2.8e-07  Score=56.39  Aligned_cols=50  Identities=36%  Similarity=0.909  Sum_probs=37.1

Q ss_pred             ccccccccccccC--------C-Cceeec-CCCCcchHhhHHHHhh---CCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLV--------G-ESAKKL-DCKHTFHSTCILPWLE---KTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~--------~-~~~~~~-~C~h~f~~~Ci~~~~~---~~~~CP~Cr~~~~~  113 (144)
                      ++.|.||.-.|+-        + +-+.++ .|.|.||..||.+|+.   .+..||.||+.+..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            5688888877732        1 223344 4999999999999997   34579999998754

>KOG0978|consensus

Probab=98.20  E-value=4.9e-07  Score=76.07  Aligned_cols=49  Identities=27%  Similarity=0.687  Sum_probs=42.8

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      -..|+.|...+   ...+++.|+|.||..|+.+... +++.||.|.+.|+..+
T Consensus       643 ~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  643 LLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             ceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            78899999777   6677788999999999998776 8999999999998754

>KOG2177|consensus

Probab=98.18  E-value=7.6e-07  Score=67.17  Aligned_cols=45  Identities=38%  Similarity=0.892  Sum_probs=38.7

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRH  109 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~  109 (144)
                      .+...|+||++.|   ..+..++|+|.||..|+..++.....||.||.
T Consensus        11 ~~~~~C~iC~~~~---~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYF---REPVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHh---hcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            3478999999999   55588899999999999998885567999994

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

Probab=98.12  E-value=1.1e-06  Score=52.29  Aligned_cols=49  Identities=31%  Similarity=0.718  Sum_probs=24.2

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      -..|++|...+   ..++.+ .|.|.||..||..-+.  ..||+|..+.-..+..
T Consensus         7 lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    7 LLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             TTS-SSS-S-----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred             hcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence            56799999998   777654 6999999999976433  4599998876544433

>KOG0311|consensus

Probab=98.12  E-value=3.2e-07  Score=71.15  Aligned_cols=48  Identities=33%  Similarity=0.791  Sum_probs=39.3

Q ss_pred             cccccccccccccCCCceeec-CCCCcchHhhHHHHhh-CCCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE-KTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~  113 (144)
                      .+..|+||+..+   ...+.+ .|.|.||..||...+. ..+.||.||+.+..
T Consensus        42 ~~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   42 IQVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            388999999998   555455 4999999999987776 67789999997744

>KOG0828|consensus

Probab=98.10  E-value=1.2e-06  Score=70.64  Aligned_cols=50  Identities=30%  Similarity=0.840  Sum_probs=38.7

Q ss_pred             ccccccccccccC---CC-----------ceeecCCCCcchHhhHHHHhh-CCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLV---GE-----------SAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~---~~-----------~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~  113 (144)
                      ...|+||+.....   +.           .-+.+||.|.||..|+.+|+. .+-.||+||.+++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            6779999986621   11           123459999999999999999 55589999998863

>KOG0824|consensus

Probab=98.08  E-value=2.3e-06  Score=65.20  Aligned_cols=59  Identities=24%  Similarity=0.436  Sum_probs=47.0

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCChhHHHHHHH
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDDADYEAYKVQ  124 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~~  124 (144)
                      ...+|.||+...   -.++.++|+|.||.-||..... ...+|++||.++.++...-+.++.+
T Consensus         6 ~~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~psl~~~   65 (324)
T KOG0824|consen    6 KKKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPSLKYR   65 (324)
T ss_pred             cCCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcchhhhhh
Confidence            367899998877   7778999999999999986555 5667999999998876665555543

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

Probab=98.04  E-value=1.8e-06  Score=52.86  Aligned_cols=50  Identities=32%  Similarity=0.749  Sum_probs=23.6

Q ss_pred             cccccccccccc-CCCceeec----CCCCcchHhhHHHHhh---CCC--------CccccccccCC
Q psy12643         64 ESSCPICLKLFL-VGESAKKL----DCKHTFHSTCILPWLE---KTS--------TCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~-~~~~~~~~----~C~h~f~~~Ci~~~~~---~~~--------~CP~Cr~~~~~  113 (144)
                      +..|.||..... .+..+...    .|+..||..||.+|+.   ..+        .||.|++++..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            467999998764 33333332    5999999999999997   111        49999998764

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

Probab=98.03  E-value=6.6e-06  Score=46.83  Aligned_cols=42  Identities=24%  Similarity=0.669  Sum_probs=32.0

Q ss_pred             ccccccccccCCCceeecCCC-----CcchHhhHHHHhhC--CCCccccc
Q psy12643         66 SCPICLKLFLVGESAKKLDCK-----HTFHSTCILPWLEK--TSTCPLCR  108 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C~-----h~f~~~Ci~~~~~~--~~~CP~Cr  108 (144)
                      .|.||++ ...+..+.+.||.     +.+|..|+.+|+..  ..+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889988 3333566677874     78999999999974  45899984

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

>KOG1734|consensus

Probab=98.00  E-value=1.6e-06  Score=65.20  Aligned_cols=51  Identities=35%  Similarity=0.796  Sum_probs=39.9

Q ss_pred             CcccccccccccccCCC-------ceeecCCCCcchHhhHHHHhh--CCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGE-------SAKKLDCKHTFHSTCILPWLE--KTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~-------~~~~~~C~h~f~~~Ci~~~~~--~~~~CP~Cr~~~~  112 (144)
                      -++..|+||-..+....       ....++|+|.||..||.-|-.  ++.+||.|+..+-
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            34788999988774332       345679999999999999986  6678999987653

>KOG4265|consensus

Probab=97.95  E-value=5.6e-06  Score=64.48  Aligned_cols=48  Identities=29%  Similarity=0.668  Sum_probs=41.7

Q ss_pred             cccccccccccccCCCceeecCCCC-cchHhhHHHHhhCCCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKH-TFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h-~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ...+|.||+...   ....+|||.| -.|..|.....-+.+.||+||+++..
T Consensus       289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            367899999887   8889999999 67999998877788999999998754

>KOG0804|consensus

Probab=97.93  E-value=4.7e-06  Score=66.60  Aligned_cols=50  Identities=30%  Similarity=0.810  Sum_probs=38.2

Q ss_pred             CCcccccccccccccCCCceee-cCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         61 HEPESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      ..+-.+|++|++.+......++ +.|.|.||..|+..|  ...+||+||....
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence            3457889999999954332223 369999999999998  5677999997555

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

Probab=97.86  E-value=1.2e-05  Score=58.18  Aligned_cols=57  Identities=25%  Similarity=0.403  Sum_probs=47.8

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhHHHHHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKV  123 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~  123 (144)
                      .+.|.||-+.|   ..++++.|||.||..|...-......|-+|.+...-..++...+..
T Consensus       196 PF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~k  252 (259)
T COG5152         196 PFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQK  252 (259)
T ss_pred             ceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHH
Confidence            67899999999   8899999999999999888777888999998877666666555544

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

Probab=97.85  E-value=5.4e-06  Score=71.54  Aligned_cols=51  Identities=33%  Similarity=0.856  Sum_probs=37.6

Q ss_pred             ccccccccccccc-CCC-ce--eecCCCCcchHhhHHHHhh--CCCCccccccccCC
Q psy12643         63 PESSCPICLKLFL-VGE-SA--KKLDCKHTFHSTCILPWLE--KTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~-~~~-~~--~~~~C~h~f~~~Ci~~~~~--~~~~CP~Cr~~~~~  113 (144)
                      ..++|+||...+. .+. -|  +.-.|.|.||..|+..|+.  ....||+||..++.
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            3788999988773 111 11  1225899999999999998  45689999987753

>KOG4159|consensus

Probab=97.84  E-value=2.9e-05  Score=62.12  Aligned_cols=49  Identities=29%  Similarity=0.676  Sum_probs=44.6

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..++.|.||...+   ..++.++|||.||..||.+.+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            4489999999988   889999999999999999988888899999998875

>KOG4172|consensus

Probab=97.81  E-value=5.8e-06  Score=47.45  Aligned_cols=48  Identities=25%  Similarity=0.531  Sum_probs=37.2

Q ss_pred             cccccccccccccCCCceeecCCCC-cchHhhHHHHhh-CCCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKH-TFHSTCILPWLE-KTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h-~f~~~Ci~~~~~-~~~~CP~Cr~~~~~  113 (144)
                      .+.+|.||.+-.   -..+...||| -.|..|-.+.+. .+..||.||+++.+
T Consensus         6 ~~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    6 WSDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            358999998765   5555668999 679999776666 77789999998753

>KOG0827|consensus

Probab=97.80  E-value=1e-05  Score=63.68  Aligned_cols=48  Identities=29%  Similarity=0.819  Sum_probs=35.4

Q ss_pred             ccccccccccccCCCceeecC-CCCcchHhhHHHHhh--CC-CCcccccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLE--KT-STCPLCRHEF  111 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~--~~-~~CP~Cr~~~  111 (144)
                      ...|.||.+.+........+. |||+||..|+..|+.  .+ +.||.|+-.+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            357999966664434444454 999999999999998  33 5899999433

>KOG2930|consensus

Probab=97.79  E-value=1.5e-05  Score=51.63  Aligned_cols=29  Identities=41%  Similarity=0.975  Sum_probs=26.3

Q ss_pred             CCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         84 DCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        84 ~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      .|.|.||..||.+|++....||+|.+..-
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            49999999999999999999999987653

>KOG1039|consensus

Probab=97.63  E-value=3.4e-05  Score=60.64  Aligned_cols=50  Identities=28%  Similarity=0.725  Sum_probs=37.3

Q ss_pred             CcccccccccccccCCC----ceee-cCCCCcchHhhHHHHhh--C-----CCCcccccccc
Q psy12643         62 EPESSCPICLKLFLVGE----SAKK-LDCKHTFHSTCILPWLE--K-----TSTCPLCRHEF  111 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~----~~~~-~~C~h~f~~~Ci~~~~~--~-----~~~CP~Cr~~~  111 (144)
                      ..+..|.||++......    ...+ .+|.|.||..||..|..  +     .+.||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            34788999999774322    0122 35999999999999994  4     46899999864

>KOG1813|consensus

Probab=97.62  E-value=3.5e-05  Score=58.73  Aligned_cols=61  Identities=25%  Similarity=0.377  Sum_probs=49.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhHHHHHHHHHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQKKR  127 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~  127 (144)
                      .+.|-||...|   ..++++.|+|.||..|...-+.....|.+|.+......+....+...-..
T Consensus       241 Pf~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~~  301 (313)
T KOG1813|consen  241 PFKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLKL  301 (313)
T ss_pred             Ccccccccccc---ccchhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHHh
Confidence            66799999999   88999999999999998877778889999999887666665555544433

>KOG2660|consensus

Probab=97.53  E-value=5e-05  Score=58.69  Aligned_cols=50  Identities=28%  Similarity=0.778  Sum_probs=40.8

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ....|.+|..++.  +...+..|-|.||.+||..++.....||.|...+...
T Consensus        14 ~~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            3788999999983  3334446999999999999999999999999866544

>KOG4445|consensus

Probab=97.44  E-value=1.9e-05  Score=60.29  Aligned_cols=54  Identities=28%  Similarity=0.713  Sum_probs=44.2

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC-----------------------CCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-----------------------TSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-----------------------~~~CP~Cr~~~~~~~~~  117 (144)
                      ...|.||+.-|..+...++++|-|.||..|+.+++..                       ...||+||..+..+...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s  191 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS  191 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence            6789999999987777889999999999999887751                       12499999988766544

>KOG1645|consensus

Probab=97.41  E-value=0.00028  Score=56.10  Aligned_cols=51  Identities=37%  Similarity=0.851  Sum_probs=37.5

Q ss_pred             cccccccccccccCC-Cce-eecCCCCcchHhhHHHHhhC--CCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVG-ESA-KKLDCKHTFHSTCILPWLEK--TSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~-~~~-~~~~C~h~f~~~Ci~~~~~~--~~~CP~Cr~~~~~  113 (144)
                      ...+|+||++.+... .+. +.+.|||.|..+||..|+.+  ...||.|...-..
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk   57 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK   57 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence            357899999987533 333 34569999999999999963  2369999765443

>KOG0297|consensus

Probab=97.39  E-value=8.9e-05  Score=59.48  Aligned_cols=54  Identities=28%  Similarity=0.744  Sum_probs=45.5

Q ss_pred             CcccccccccccccCCCceee-cCCCCcchHhhHHHHhhCCCCccccccccCCCChhH
Q psy12643         62 EPESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY  118 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~  118 (144)
                      ..+..|++|...+   ..+.. +.|||.||..|+..|+..+..||.|+..+.......
T Consensus        19 ~~~l~C~~C~~vl---~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   19 DENLLCPICMSVL---RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             cccccCccccccc---cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence            4479999999998   66666 589999999999999999999999998876655443

>KOG1785|consensus

Probab=97.37  E-value=7.1e-05  Score=59.40  Aligned_cols=51  Identities=29%  Similarity=0.690  Sum_probs=39.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh--CCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE--KTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~--~~~~CP~Cr~~~~~~~~~  117 (144)
                      -..|.||-+.-   ....+-||||..|..|+..|..  ...+||.||..+.-...+
T Consensus       369 FeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  369 FELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             HHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            45599997663   4555568999999999999985  367899999988655444

>KOG2879|consensus

Probab=97.32  E-value=0.00019  Score=54.30  Aligned_cols=49  Identities=24%  Similarity=0.594  Sum_probs=38.2

Q ss_pred             CCcccccccccccccCCCceeec-CCCCcchHhhHHHHhh--CCCCccccccccC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE--KTSTCPLCRHEFK  112 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~--~~~~CP~Cr~~~~  112 (144)
                      .+.+.+|++|.+..   ..|.+. +|+|+||..|+..-..  -+.+||.|..+..
T Consensus       236 ~t~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCC---CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            45589999999887   444444 6999999999987665  4578999987665

>KOG0825|consensus

Probab=97.29  E-value=5.9e-05  Score=64.19  Aligned_cols=51  Identities=31%  Similarity=0.569  Sum_probs=37.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ...|++|+..+...-.....+|+|.||..||..|-.-..+||+||..|...
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            445666666553222223347999999999999999999999999977543

>KOG1002|consensus

Probab=97.28  E-value=0.00015  Score=59.55  Aligned_cols=84  Identities=23%  Similarity=0.447  Sum_probs=56.9

Q ss_pred             CchHHHHHHHHHHHhCCCCCCCCCCCCCCCcHHHHHhhccccCCCcccccccccccccCCCceeecCCCCcchHhhHHHH
Q psy12643         18 TPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPW   97 (144)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~   97 (144)
                      +++.+..+...++|....|....-.        ....++.  .......|.+|.+..   ...+...|.|.||..|+.+|
T Consensus       500 NYAnIF~LitRmRQ~aDHP~LVl~S--------~~~n~~~--enk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~ey  566 (791)
T KOG1002|consen  500 NYANIFTLITRMRQAADHPDLVLYS--------ANANLPD--ENKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEY  566 (791)
T ss_pred             hHHHHHHHHHHHHHhccCcceeeeh--------hhcCCCc--cccCceeecccCChh---hhhHhhhhhHHHHHHHHHHH
Confidence            3677777777777766544433321        1111111  122367899998887   77788899999999999888


Q ss_pred             hh-----CCCCccccccccCCC
Q psy12643         98 LE-----KTSTCPLCRHEFKTD  114 (144)
Q Consensus        98 ~~-----~~~~CP~Cr~~~~~~  114 (144)
                      +.     ..-+||+|-..+..+
T Consensus       567 v~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  567 VESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             HHhhhcccCCCCcccccccccc
Confidence            86     234799999887765

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

Probab=97.10  E-value=0.0004  Score=40.71  Aligned_cols=42  Identities=36%  Similarity=0.770  Sum_probs=27.9

Q ss_pred             CcccccccccccccCCCceee-cCCCCcchHhhHHHHhh--CCCCccc
Q psy12643         62 EPESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLE--KTSTCPL  106 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~--~~~~CP~  106 (144)
                      .-...|+|.+..+   ..++. ..|+|.|-...|.+|+.  ....||+
T Consensus         9 ~~~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPF---EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChh---hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3478899999998   66655 47999999999999994  4456998

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.08  E-value=0.00057  Score=53.33  Aligned_cols=52  Identities=19%  Similarity=0.570  Sum_probs=36.5

Q ss_pred             ccccccccccccCCCce-eecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESA-KKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~-~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      ++-|++|++.+...+.- .-.+||-..|..|+..... -...||.||..+.+..
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            44499999998543322 2236899999999876655 4557999999765443

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

Probab=96.98  E-value=0.001  Score=51.09  Aligned_cols=43  Identities=35%  Similarity=0.725  Sum_probs=36.6

Q ss_pred             ccccccccccccCCCceeecC-CCCcchHhhHHHHhh-CCCCcccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLE-KTSTCPLCRH  109 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~-~~~~CP~Cr~  109 (144)
                      ...|+.|.-++   ..+..++ |+|.||..||...+. ....||.|..
T Consensus       274 ~LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            37899999988   7788886 899999999987776 6678999976

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

Probab=96.90  E-value=0.0011  Score=37.30  Aligned_cols=44  Identities=25%  Similarity=0.619  Sum_probs=22.1

Q ss_pred             cccccccccCCCceeec--CCCCcchHhhHHHHhh-CCCCcccccccc
Q psy12643         67 CPICLKLFLVGESAKKL--DCKHTFHSTCILPWLE-KTSTCPLCRHEF  111 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~--~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~  111 (144)
                      |++|.+.+.. ......  +|+..+|..|....+. ....||.||.++
T Consensus         1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7889888833 222333  5899999999998886 678899999864

>KOG4692|consensus

Probab=96.86  E-value=0.0012  Score=51.88  Aligned_cols=49  Identities=24%  Similarity=0.464  Sum_probs=42.2

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .++..|+||....   ...+..||+|.-|+.||.+.+-..+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            4588899996554   667778999999999999999999999999988774

>KOG1941|consensus

Probab=96.83  E-value=0.00045  Score=54.80  Aligned_cols=46  Identities=35%  Similarity=0.732  Sum_probs=36.7

Q ss_pred             ccccccccccccCCC-ceeecCCCCcchHhhHHHHhh--CCCCcccccc
Q psy12643         64 ESSCPICLKLFLVGE-SAKKLDCKHTFHSTCILPWLE--KTSTCPLCRH  109 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~-~~~~~~C~h~f~~~Ci~~~~~--~~~~CP~Cr~  109 (144)
                      +..|..|-+.+.... ....+||.|+||..|+.+++.  ...+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            677999999875433 334579999999999999997  4458999995

>KOG1428|consensus

Probab=96.81  E-value=0.0024  Score=58.19  Aligned_cols=53  Identities=32%  Similarity=0.739  Sum_probs=41.7

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCC----------CCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT----------STCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~----------~~CP~Cr~~~~~~  114 (144)
                      ..++-|.||..+-....+.+++.|+|+||..|....+...          -.||.|..++...
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            3478899998876655678899999999999997666521          1599999988654

>KOG1814|consensus

Probab=96.66  E-value=0.0056  Score=48.93  Aligned_cols=35  Identities=29%  Similarity=0.654  Sum_probs=29.2

Q ss_pred             ccccccccccccCC-CceeecCCCCcchHhhHHHHhh
Q psy12643         64 ESSCPICLKLFLVG-ESAKKLDCKHTFHSTCILPWLE   99 (144)
Q Consensus        64 ~~~C~IC~~~~~~~-~~~~~~~C~h~f~~~Ci~~~~~   99 (144)
                      .+.|.||.+.. .| .....+||+|.||..|+..|..
T Consensus       184 lf~C~ICf~e~-~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  184 LFDCCICFEEQ-MGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             cccceeeehhh-cCcceeeecccchHHHHHHHHHHHH
Confidence            67899999986 44 4556679999999999998886

>KOG4275|consensus

Probab=96.44  E-value=0.00034  Score=53.47  Aligned_cols=42  Identities=26%  Similarity=0.646  Sum_probs=33.8

Q ss_pred             ccccccccccccCCCceeecCCCC-cchHhhHHHHhhCCCCccccccccC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKH-TFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h-~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      ...|.||++..   ...+.|+||| .-|..|..+    ...||+||+.+.
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence            67799998877   8889999999 568888654    348999998654

>KOG4185|consensus

Probab=96.42  E-value=0.0036  Score=48.21  Aligned_cols=62  Identities=24%  Similarity=0.518  Sum_probs=44.7

Q ss_pred             ccccccccccccCCC---ceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCChhHHHHHHHH
Q psy12643         64 ESSCPICLKLFLVGE---SAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDADYEAYKVQK  125 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~---~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~~~  125 (144)
                      -..|-||-+.|+.++   .+..+.|||.+|..|+...+.. .-.||.||............+.++-
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf   68 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNF   68 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhH
Confidence            357999999996552   4566789999999999887763 4469999998644444444444433

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.30  E-value=0.0056  Score=46.55  Aligned_cols=55  Identities=25%  Similarity=0.444  Sum_probs=42.4

Q ss_pred             CcccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         62 EPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      ...+.|+|....+......+.+ +|||.|...++.... ....||+|..+|...+.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDII  166 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence            4478899999998443344444 899999999999874 456799999998876655

>KOG4739|consensus

Probab=96.25  E-value=0.0015  Score=48.63  Aligned_cols=49  Identities=20%  Similarity=0.604  Sum_probs=34.5

Q ss_pred             ccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         66 SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      -|..|..... +....++.|+|+||..|...-  ....||.|++++.....+
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~   53 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLN   53 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccC--Cccccccccceeeeeecc
Confidence            4777776654 456667789999999996532  233899999987554433

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.22  E-value=0.0026  Score=36.75  Aligned_cols=45  Identities=27%  Similarity=0.623  Sum_probs=32.5

Q ss_pred             cccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         65 SSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ..|-.|...-   ...++++|+|..|..|..-  .+-+.||.|..++...
T Consensus         8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence            3455554443   5667889999999999653  3667899999988654

>KOG3039|consensus

Probab=96.17  E-value=0.005  Score=46.17  Aligned_cols=55  Identities=16%  Similarity=0.274  Sum_probs=46.9

Q ss_pred             cccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         63 PESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      ..+.|++|...+........| +|||.|+..|+...+.....||+|..++.+++.+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII  275 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence            478899999998665555555 7999999999999999999999999999887766

>KOG0826|consensus

Probab=96.09  E-value=0.0068  Score=47.13  Aligned_cols=50  Identities=24%  Similarity=0.553  Sum_probs=40.3

Q ss_pred             CcccccccccccccCCCceeecC-CCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      .+...|++|+...   ..+.++. -|-.||..|+..++.....||+-..+...+
T Consensus       298 ~~~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~  348 (357)
T KOG0826|consen  298 PDREVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD  348 (357)
T ss_pred             CccccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence            4478899998876   5555554 699999999999999999999987766543

>KOG2114|consensus

Probab=96.01  E-value=0.013  Score=50.74  Aligned_cols=43  Identities=28%  Similarity=0.664  Sum_probs=33.6

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEF  111 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~  111 (144)
                      ...|..|-..++  -+.+...|||.||.+|+.   .....||.|+...
T Consensus       840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            457999988882  344567899999999987   4667899998743

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=96.00  E-value=0.0076  Score=42.25  Aligned_cols=53  Identities=32%  Similarity=0.595  Sum_probs=36.6

Q ss_pred             ccccccccccccCCCceeecC------------CCC-cchHhhHHHHhhC------------------------------
Q psy12643         64 ESSCPICLKLFLVGESAKKLD------------CKH-TFHSTCILPWLEK------------------------------  100 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~------------C~h-~f~~~Ci~~~~~~------------------------------  100 (144)
                      +..|+||++..   ...+.|-            |+. .-|..|+.++.+.                              
T Consensus         2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            57899999887   5555553            332 3478899887651                              


Q ss_pred             -CCCccccccccCCCChhHH
Q psy12643        101 -TSTCPLCRHEFKTDDADYE  119 (144)
Q Consensus       101 -~~~CP~Cr~~~~~~~~~~~  119 (144)
                       .-.||+||..+.-++.+.+
T Consensus        79 ~~L~CPLCRG~V~GWtvve~   98 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVVEP   98 (162)
T ss_pred             ccccCccccCceeceEEchH
Confidence             0139999999887766644

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>PHA02862 5L protein; Provisional

Probab=95.92  E-value=0.0064  Score=41.99  Aligned_cols=46  Identities=24%  Similarity=0.652  Sum_probs=33.9

Q ss_pred             ccccccccccccCCCceeecCCC-----CcchHhhHHHHhh--CCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCK-----HTFHSTCILPWLE--KTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~-----h~f~~~Ci~~~~~--~~~~CP~Cr~~~~~  113 (144)
                      +..|-||.+.-+   .. .-||.     ...|..|+.+|+.  +...|+.|+.++..
T Consensus         2 ~diCWIC~~~~~---e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCD---ER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCC---CC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            457999988742   22 34552     4679999999998  45579999998864

>KOG3970|consensus

Probab=95.91  E-value=0.012  Score=43.56  Aligned_cols=50  Identities=26%  Similarity=0.640  Sum_probs=39.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC--------CCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK--------TSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~--------~~~CP~Cr~~~~~~  114 (144)
                      ..-|.+|...+..++ .+.+-|-|.||..|+.+|...        ...||.|..++...
T Consensus        50 ~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            556999988886544 567889999999999999872        34699999987554

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.89  E-value=0.01  Score=41.70  Aligned_cols=48  Identities=21%  Similarity=0.663  Sum_probs=34.6

Q ss_pred             CcccccccccccccCCCceeecCCCC-----cchHhhHHHHhh--CCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKH-----TFHSTCILPWLE--KTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h-----~f~~~Ci~~~~~--~~~~CP~Cr~~~~~  113 (144)
                      ..+..|-||.+..   . ....||..     ..|.+|+.+|+.  +...|+.|++++..
T Consensus         6 ~~~~~CRIC~~~~---~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          6 LMDKCCWICKDEY---D-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCeeEecCCCC---C-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3477899998774   2 22346533     559999999998  44579999997644

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

Probab=95.83  E-value=0.0074  Score=33.84  Aligned_cols=40  Identities=28%  Similarity=0.718  Sum_probs=25.5

Q ss_pred             cccccccccCCCceeecCCC--C---cchHhhHHHHhh--CCCCcccc
Q psy12643         67 CPICLKLFLVGESAKKLDCK--H---TFHSTCILPWLE--KTSTCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~~C~--h---~f~~~Ci~~~~~--~~~~CP~C  107 (144)
                      |-||++.-.... +.+.||.  -   ..|..|+.+|+.  ....|++|
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            678988764323 5566753  3   779999999998  55678876

>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=95.82  E-value=0.0064  Score=33.48  Aligned_cols=41  Identities=27%  Similarity=0.797  Sum_probs=21.6

Q ss_pred             cccccccccCCCceeecCCCCcchHhhHHHHhhCCC--Ccccc
Q psy12643         67 CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS--TCPLC  107 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~--~CP~C  107 (144)
                      |.+|.+....|..-....|+-.+|..|+..++....  .||.|
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            567777664333222235888999999999998544  79987

; PDB: 3NW0_A 2CT0_A.

>KOG3268|consensus

Probab=95.82  E-value=0.0066  Score=43.45  Aligned_cols=31  Identities=32%  Similarity=0.931  Sum_probs=25.3

Q ss_pred             CCCCcchHhhHHHHhhC-----CC------CccccccccCCC
Q psy12643         84 DCKHTFHSTCILPWLEK-----TS------TCPLCRHEFKTD  114 (144)
Q Consensus        84 ~C~h~f~~~Ci~~~~~~-----~~------~CP~Cr~~~~~~  114 (144)
                      .||..||.-|+..|+..     +.      .||.|..++..+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            69999999999999982     11      499999888654

>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=95.74  E-value=0.0039  Score=40.55  Aligned_cols=33  Identities=24%  Similarity=0.505  Sum_probs=26.4

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHH
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCIL   95 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~   95 (144)
                      .+...|++|...+.. ......||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            447789999998854 455667999999999964

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 [].

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

Probab=95.64  E-value=0.012  Score=40.16  Aligned_cols=50  Identities=22%  Similarity=0.542  Sum_probs=37.7

Q ss_pred             cccccccccccccCCCceeec-C---CCCcchHhhHHHHhh---CCCCccccccccCCCC
Q psy12643         63 PESSCPICLKLFLVGESAKKL-D---CKHTFHSTCILPWLE---KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~---C~h~f~~~Ci~~~~~---~~~~CP~Cr~~~~~~~  115 (144)
                      .-++|.||.+...   +...+ |   ||-..|..|....++   -...||+|+.++....
T Consensus        79 ~lYeCnIC~etS~---ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSA---EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccc---hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            4689999998763   22333 2   899999999877776   4567999999987654

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

Probab=95.63  E-value=0.011  Score=46.41  Aligned_cols=47  Identities=30%  Similarity=0.626  Sum_probs=37.4

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHH--HhhCCCCcccccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILP--WLEKTSTCPLCRHEF  111 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~--~~~~~~~CP~Cr~~~  111 (144)
                      ++...|-||-+.+   .-..++||+|..|--|..+  .+..++.|++||...
T Consensus        59 Een~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            3466799998877   6677889999999999754  444888999999853

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

Probab=95.48  E-value=0.0052  Score=34.33  Aligned_cols=43  Identities=23%  Similarity=0.643  Sum_probs=25.4

Q ss_pred             ccccccccccCCCceeecCC-CCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         66 SCPICLKLFLVGESAKKLDC-KHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C-~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      -|.-|+-..     .....| .|..|..|+..++..+..||.|..+++.
T Consensus         4 nCKsCWf~~-----k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCWFAN-----KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS-S-------SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhhhcC-----CCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            355565332     234457 5899999999999999999999998875

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.

>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=95.44  E-value=0.0068  Score=41.42  Aligned_cols=36  Identities=17%  Similarity=0.392  Sum_probs=28.7

Q ss_pred             ccccccccccccCCCceeecCCC------CcchHhhHHHHhh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCK------HTFHSTCILPWLE   99 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~------h~f~~~Ci~~~~~   99 (144)
                      ..+|.||++.+......+.++|+      |.||..|+.+|-.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            68899999998764455666664      7899999999944

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.

>KOG1571|consensus

Probab=95.42  E-value=0.0081  Score=47.24  Aligned_cols=43  Identities=30%  Similarity=0.683  Sum_probs=32.3

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      ..-|.||.+..   .....++|||.-|  |..-. .....||+||+.+.
T Consensus       305 p~lcVVcl~e~---~~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  305 PDLCVVCLDEP---KSAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCceEEecCCc---cceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            67799999887   6678889999866  65433 34445999998765

>KOG3800|consensus

Probab=95.33  E-value=0.038  Score=42.36  Aligned_cols=51  Identities=18%  Similarity=0.460  Sum_probs=35.0

Q ss_pred             cccccccc--ccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCCh
Q psy12643         66 SCPICLKL--FLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        66 ~C~IC~~~--~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~  116 (144)
                      .|++|...  +.+.-...+-+|+|..|.+|+...+. ....||.|...+....-
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf   55 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF   55 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence            47888652  22111222337999999999999987 56689999887755433

>KOG2817|consensus

Probab=95.32  E-value=0.012  Score=46.79  Aligned_cols=46  Identities=17%  Similarity=0.309  Sum_probs=38.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCC---CCcccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT---STCPLCRH  109 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~---~~CP~Cr~  109 (144)
                      -+.|||-.+.-....+|+.+.|||+.+.+-+.+.....   ..||.|-.
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            57799988777776789999999999999999988733   57999954

>KOG1940|consensus

Probab=94.94  E-value=0.02  Score=43.82  Aligned_cols=53  Identities=30%  Similarity=0.616  Sum_probs=40.3

Q ss_pred             ccccccccccccCCC-ceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGE-SAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~-~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      ..-|+||.+.+-.+. .+..++|||..|..|+..+......||.|.+ +.+....
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~  211 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDMSHY  211 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHHHHHH
Confidence            444999998774443 4556789999999999998877799999988 5554333

>PHA03096 p28-like protein; Provisional

Probab=94.78  E-value=0.019  Score=44.33  Aligned_cols=45  Identities=31%  Similarity=0.546  Sum_probs=30.5

Q ss_pred             cccccccccccCC----Cceeec-CCCCcchHhhHHHHhhC---CCCcccccc
Q psy12643         65 SSCPICLKLFLVG----ESAKKL-DCKHTFHSTCILPWLEK---TSTCPLCRH  109 (144)
Q Consensus        65 ~~C~IC~~~~~~~----~~~~~~-~C~h~f~~~Ci~~~~~~---~~~CP~Cr~  109 (144)
                      ..|.||++.....    ..-..+ .|.|.||..|+..|...   ...||.||.
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            6799999876432    122334 59999999999999872   234554444

>KOG1952|consensus

Probab=94.71  E-value=0.017  Score=50.04  Aligned_cols=48  Identities=27%  Similarity=0.684  Sum_probs=34.8

Q ss_pred             CcccccccccccccCCCceee-cCCCCcchHhhHHHHhhCCC-------Ccccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEKTS-------TCPLCRH  109 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~~~-------~CP~Cr~  109 (144)
                      ...++|.||.+.+........ ..|-|+||..||..|.....       .||.|..
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            348999999999853332222 24789999999999987311       4999984

>KOG1001|consensus

Probab=94.56  E-value=0.019  Score=49.20  Aligned_cols=45  Identities=31%  Similarity=0.746  Sum_probs=37.2

Q ss_pred             cccccccccccCCCceeecCCCCcchHhhHHHHhhCC--CCccccccccCC
Q psy12643         65 SSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT--STCPLCRHEFKT  113 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~--~~CP~Cr~~~~~  113 (144)
                      ..|.||.+ .   .....+.|+|.||..|+...+...  ..||.||..+..
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            89999998 4   788889999999999998887732  369999876543

>KOG0801|consensus

Probab=94.47  E-value=0.011  Score=41.64  Aligned_cols=30  Identities=27%  Similarity=0.709  Sum_probs=26.7

Q ss_pred             CcccccccccccccCCCceeecCCCCcchH
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHS   91 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~   91 (144)
                      .+.-+|.||+|+++.++...+|||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            347889999999999999999999988885

>KOG4367|consensus

Probab=94.02  E-value=0.034  Score=45.08  Aligned_cols=35  Identities=29%  Similarity=0.654  Sum_probs=30.7

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE   99 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~   99 (144)
                      ++...|+||...|   .++++++|+|..|..|....+.
T Consensus         2 eeelkc~vc~~f~---~epiil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFY---REPIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhc---cCceEeecccHHHHHHHHhhcc
Confidence            4578899999999   8999999999999999876655

>KOG1812|consensus

Probab=93.34  E-value=0.15  Score=41.06  Aligned_cols=81  Identities=20%  Similarity=0.416  Sum_probs=45.1

Q ss_pred             Cccccccccc-ccccCCCceeecCCCCcchHhhHHHHhhCC------CCccc--cccccCCCChh-HHHHHHHHHHHHHH
Q psy12643         62 EPESSCPICL-KLFLVGESAKKLDCKHTFHSTCILPWLEKT------STCPL--CRHEFKTDDAD-YEAYKVQKKREKER  131 (144)
Q Consensus        62 ~~~~~C~IC~-~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~------~~CP~--Cr~~~~~~~~~-~~~~~~~~~~~~~~  131 (144)
                      ....+|.||. +............|+|.||..|+.+++...      ..||-  |...+...... +...+....++...
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e~~~  223 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTPKLREMWEQRL  223 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCHHHHHHHHHHH
Confidence            3478899999 444222222345799999999999888722      24654  33333333222 11113344556555


Q ss_pred             HHHHHHHhhcc
Q psy12643        132 EGEIENLHNAM  142 (144)
Q Consensus       132 ~~~~~~~~~~~  142 (144)
                      +++....++.+
T Consensus       224 ~e~~i~~~~~~  234 (384)
T KOG1812|consen  224 KEEVIPSLDRV  234 (384)
T ss_pred             HHHhhhhhhcc
Confidence            55555544443

>KOG2034|consensus

Probab=92.74  E-value=0.064  Score=46.82  Aligned_cols=37  Identities=30%  Similarity=0.727  Sum_probs=29.5

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE   99 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~   99 (144)
                      +.+++|.+|...+.. .+..+.+|||.||..|+.+...
T Consensus       815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence            558999999887742 4567779999999999976554

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

Probab=92.64  E-value=0.074  Score=42.29  Aligned_cols=32  Identities=28%  Similarity=0.802  Sum_probs=24.6

Q ss_pred             CCCcchHhhHHHHhhC-------------CCCccccccccCCCCh
Q psy12643         85 CKHTFHSTCILPWLEK-------------TSTCPLCRHEFKTDDA  116 (144)
Q Consensus        85 C~h~f~~~Ci~~~~~~-------------~~~CP~Cr~~~~~~~~  116 (144)
                      |....|.+|+-+|+..             +-.||+||+.+...+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            5677899999999862             2259999999876543

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

>KOG3002|consensus

Probab=92.44  E-value=0.11  Score=40.36  Aligned_cols=46  Identities=24%  Similarity=0.531  Sum_probs=33.7

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      +-..|+||.+.+.  .+..+-.=||..|.+|-.   +....||+||.+++.
T Consensus        47 ~lleCPvC~~~l~--~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   47 DLLDCPVCFNPLS--PPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             hhccCchhhccCc--ccceecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            3678999998873  222333348999999954   467789999999984

>KOG0298|consensus

Probab=91.18  E-value=0.16  Score=46.14  Aligned_cols=47  Identities=28%  Similarity=0.641  Sum_probs=39.4

Q ss_pred             ccccccccccccCCC-ceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGE-SAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~-~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ...|.||.+.+   . ...+..|||.+|..|...|+..+..||.|.....+
T Consensus      1153 ~~~c~ic~dil---~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~d 1200 (1394)
T KOG0298|consen 1153 HFVCEICLDIL---RNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIKGD 1200 (1394)
T ss_pred             ccchHHHHHHH---HhcCCeeeechhHhhhHHHHHHHHhccCcchhhhhhh
Confidence            55899999988   4 45667899999999999999999999999864433

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

Probab=90.97  E-value=0.11  Score=38.96  Aligned_cols=46  Identities=22%  Similarity=0.539  Sum_probs=32.5

Q ss_pred             ccccccccccc-cCCC-ceeecC-CCCcchHhhHHHHhh-CCCCcc--cccc
Q psy12643         64 ESSCPICLKLF-LVGE-SAKKLD-CKHTFHSTCILPWLE-KTSTCP--LCRH  109 (144)
Q Consensus        64 ~~~C~IC~~~~-~~~~-~~~~~~-C~h~f~~~Ci~~~~~-~~~~CP--~Cr~  109 (144)
                      +..|+||.... ..++ ...+-| |-|.+|.+|+.+.+. +...||  -|.+
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            66899998632 2212 222336 999999999999998 555798  6755

>KOG0827|consensus

Probab=90.92  E-value=0.023  Score=45.24  Aligned_cols=57  Identities=21%  Similarity=0.490  Sum_probs=44.2

Q ss_pred             ccccccccccccCC-CceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhHHH
Q psy12643         64 ESSCPICLKLFLVG-ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEA  120 (144)
Q Consensus        64 ~~~C~IC~~~~~~~-~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~  120 (144)
                      ..+|+||.+.++.. .....+.|||.+|..|+..|+.....||.|+..+.....-.+.
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e~k~  253 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGFEEKL  253 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhHHHHH
Confidence            66799998877432 3344567999999999999999988999999988765444433

>KOG0309|consensus

Probab=90.37  E-value=0.18  Score=43.58  Aligned_cols=42  Identities=29%  Similarity=0.677  Sum_probs=30.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPL  106 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~  106 (144)
                      ...|.||.... .+...+...|+|..|.+|...|+.....||.
T Consensus      1028 ~~~C~~C~l~V-~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAV-RGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeeeEeeEe-eccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            45577775443 2233344579999999999999998888875

>KOG1100|consensus

Probab=90.13  E-value=0.13  Score=37.96  Aligned_cols=40  Identities=25%  Similarity=0.588  Sum_probs=30.3

Q ss_pred             cccccccccCCCceeecCCCC-cchHhhHHHHhhCCCCccccccccCC
Q psy12643         67 CPICLKLFLVGESAKKLDCKH-TFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        67 C~IC~~~~~~~~~~~~~~C~h-~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      |-.|.+.-   .....+||.| .+|..|-..    ...||+|+.....
T Consensus       161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            99997775   6777889998 778888432    5569999876544

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=90.02  E-value=0.34  Score=27.92  Aligned_cols=33  Identities=27%  Similarity=0.628  Sum_probs=26.7

Q ss_pred             ccccccccccccCCCceeecC-CCCcchHhhHHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLD-CKHTFHSTCILP   96 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~   96 (144)
                      ...|.+|-+.|..++..++-+ |+-.+|..|...
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            567999999997667666665 999999999643

>KOG2932|consensus

Probab=89.62  E-value=0.18  Score=39.29  Aligned_cols=42  Identities=26%  Similarity=0.593  Sum_probs=26.9

Q ss_pred             ccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccccccc
Q psy12643         66 SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEF  111 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~  111 (144)
                      .|.-|-..+.  ..-+.++|.|.||.+|..  +...+.||.|.-.+
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECAR--SDSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhh--cCccccCcCcccHH
Confidence            3666643331  222345999999999953  34567899996544

>KOG3899|consensus

Probab=88.01  E-value=0.27  Score=38.03  Aligned_cols=31  Identities=26%  Similarity=0.761  Sum_probs=23.8

Q ss_pred             CCCcchHhhHHHHhh-------------CCCCccccccccCCCC
Q psy12643         85 CKHTFHSTCILPWLE-------------KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        85 C~h~f~~~Ci~~~~~-------------~~~~CP~Cr~~~~~~~  115 (144)
                      |....|.+|+-+|+.             ++-+||+||+.+...+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            456789999998886             2336999999987654

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

Probab=87.17  E-value=0.28  Score=42.84  Aligned_cols=56  Identities=30%  Similarity=0.679  Sum_probs=40.0

Q ss_pred             CCcccccccccccccCCCceeecCCC-----CcchHhhHHHHhh--CCCCccccccccCCCChh
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCK-----HTFHSTCILPWLE--KTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~-----h~f~~~Ci~~~~~--~~~~CP~Cr~~~~~~~~~  117 (144)
                      .+++..|.||..+-.. +.+..-||.     ...|..|+.+|+.  ....|-.|..++..++..
T Consensus         9 N~d~~~CRICr~e~~~-d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY   71 (1175)
T COG5183           9 NEDKRSCRICRTEDIR-DDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY   71 (1175)
T ss_pred             CccchhceeecCCCCC-CCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence            4557899999877533 334344653     3579999999998  445799999987766554

>KOG3113|consensus

Probab=87.00  E-value=2.3  Score=32.31  Aligned_cols=52  Identities=19%  Similarity=0.285  Sum_probs=38.4

Q ss_pred             ccccccccccccCCCce-eecCCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESA-KKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~-~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      .+.|+|-..+++-.... ...+|||.|-...+.+.  ....|++|.+.+..++.+
T Consensus       111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI  163 (293)
T KOG3113|consen  111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI  163 (293)
T ss_pred             eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence            67799887777322222 23379999999887765  577899999998887766

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=86.59  E-value=0.45  Score=37.18  Aligned_cols=46  Identities=20%  Similarity=0.422  Sum_probs=35.6

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh---CCCCcccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLCRH  109 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~---~~~~CP~Cr~  109 (144)
                      -+.|++--+......+|+.+.|||..-...+....+   ....||.|--
T Consensus       336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~  384 (396)
T COG5109         336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE  384 (396)
T ss_pred             eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence            677888777666667888999999999998887665   2347999943

>KOG3053|consensus

Probab=83.91  E-value=0.7  Score=35.11  Aligned_cols=54  Identities=26%  Similarity=0.608  Sum_probs=35.0

Q ss_pred             cCCCcccccccccccccCCCce-eecCC-----CCcchHhhHHHHhhCC--------CCccccccccC
Q psy12643         59 TSHEPESSCPICLKLFLVGESA-KKLDC-----KHTFHSTCILPWLEKT--------STCPLCRHEFK  112 (144)
Q Consensus        59 ~~~~~~~~C~IC~~~~~~~~~~-~~~~C-----~h~f~~~Ci~~~~~~~--------~~CP~Cr~~~~  112 (144)
                      ...+.+..|-||...=++.... -+-||     .|..|.+|+..|+..+        -.||-|+....
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            3345577899997653211111 22365     4789999999999722        25999998653

>KOG3579|consensus

Probab=83.58  E-value=0.67  Score=35.76  Aligned_cols=50  Identities=16%  Similarity=0.337  Sum_probs=34.1

Q ss_pred             CcccccccccccccCCCceeecC--CCCcchHhhHHHHhhCCC-----------CccccccccC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD--CKHTFHSTCILPWLEKTS-----------TCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~--C~h~f~~~Ci~~~~~~~~-----------~CP~Cr~~~~  112 (144)
                      .....|.+|.|.++. .+.++.|  =.|.||.-|-.+.++.+.           +||+....++
T Consensus       266 ~apLcCTLC~ERLED-THFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vP  328 (352)
T KOG3579|consen  266 SAPLCCTLCHERLED-THFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVP  328 (352)
T ss_pred             CCceeehhhhhhhcc-CceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCccc
Confidence            336889999999942 3444444  279999999888777332           4777665544

>KOG4362|consensus

Probab=83.13  E-value=0.33  Score=41.61  Aligned_cols=47  Identities=30%  Similarity=0.771  Sum_probs=36.9

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC---CCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK---TSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~---~~~CP~Cr~~~~~  113 (144)
                      ..+|+||...+   ..+..+.|.|.|+..|+..-+..   ...||+|+..+..
T Consensus        21 ~lEc~ic~~~~---~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   21 ILECPICLEHV---KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hccCCceeEEe---eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            78899999888   66678899999999998765553   3469999865543

>KOG3161|consensus

Probab=81.98  E-value=0.59  Score=39.91  Aligned_cols=40  Identities=35%  Similarity=0.742  Sum_probs=28.9

Q ss_pred             ccccccccccccCC-CceeecCCCCcchHhhHHHHhhCCCCcc
Q psy12643         64 ESSCPICLKLFLVG-ESAKKLDCKHTFHSTCILPWLEKTSTCP  105 (144)
Q Consensus        64 ~~~C~IC~~~~~~~-~~~~~~~C~h~f~~~Ci~~~~~~~~~CP  105 (144)
                      -..|.||+..|... ..++.+-|||..|..|+...  ...+||
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp   51 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP   51 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence            35689997766332 36677789999999998754  455677

>KOG4718|consensus

Probab=81.41  E-value=1.1  Score=33.07  Aligned_cols=47  Identities=23%  Similarity=0.693  Sum_probs=35.8

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      -..|.+|....-  .....-+|+-.+|..|+..++.+...||.|.--+.
T Consensus       181 lk~Cn~Ch~LvI--qg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~  227 (235)
T KOG4718|consen  181 LKNCNLCHCLVI--QGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT  227 (235)
T ss_pred             HHHHhHhHHHhh--eeeccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence            567999988762  22223368888999999999999899999965444

>KOG3799|consensus

Probab=80.48  E-value=0.49  Score=32.46  Aligned_cols=52  Identities=25%  Similarity=0.501  Sum_probs=30.3

Q ss_pred             cCCCcccccccccc-cccCCCceeecCCCCcchHhhHHHHhhCCC----Cccccccc
Q psy12643         59 TSHEPESSCPICLK-LFLVGESAKKLDCKHTFHSTCILPWLEKTS----TCPLCRHE  110 (144)
Q Consensus        59 ~~~~~~~~C~IC~~-~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~----~CP~Cr~~  110 (144)
                      ....++.+|.||+. .|..|.......|.-.||..|--+...+++    .|.+|++.
T Consensus        60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~  116 (169)
T KOG3799|consen   60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ  116 (169)
T ss_pred             cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence            34567899999986 343333333344555666666544333333    38888764

>KOG3039|consensus

Probab=80.30  E-value=1.9  Score=32.67  Aligned_cols=34  Identities=18%  Similarity=0.273  Sum_probs=29.7

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhh
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE   99 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~   99 (144)
                      +-..|++|+..+   ..+++++=||.|+..||.+++-
T Consensus        42 ~FdcCsLtLqPc---~dPvit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   42 PFDCCSLTLQPC---RDPVITPDGYLFDREAILEYIL   75 (303)
T ss_pred             Ccceeeeecccc---cCCccCCCCeeeeHHHHHHHHH
Confidence            367789999888   8899999999999999998865

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	144
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		7e-10
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		7e-10
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		1e-06
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		3e-06
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		3e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		9e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		7e-05
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-04
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-04

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 33/50 (66%)
Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA 116
           CP+C + + +GES ++L C H FH +CI+PWLE+  +CP+CR      + 
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT 67

>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 = 59.3 bits (142), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 6/73 (8%)
Query: 45  PPASKAFVKSLQEVTSHE------PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWL 98
           PPASK  + +L E+   E       E  CPIC   ++ G+ A +L C H FH  C+  WL
Sbjct: 15  PPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWL 74
Query: 99  EKTSTCPLCRHEF 111
           +K+ TCP+CR  F
Sbjct: 75  QKSGTCPVCRCMF 87

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 51/113 (45%), Gaps = 13/113 (11%)
Query: 11  APLG-PG--ETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQ--EVTSH---- 61
            PLG PG  E    M  L R  +DF       N EL     +      Q  EV SH    
Sbjct: 1   GPLGSPGFQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDV 60
Query: 62  -EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT 113
            E E  C IC + F+    A  L+C H+F S CI  W+++   CP+CR + K+
Sbjct: 61  LENELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS 110

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/99 (33%), Positives = 45/99 (45%), Gaps = 10/99 (10%)
Query: 22  MLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQ--EVTSH-----EPESSCPICLKLF 74
           M  L R  +DF       N EL     +      Q  EV SH     E E  C IC + F
Sbjct: 4   MEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF 63
Query: 75  LVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT 113
           +    A  L+C H+F S CI  W+++   CP+CR + K+
Sbjct: 64  I---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS 99

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/99 (33%), Positives = 45/99 (45%), Gaps = 10/99 (10%)
Query: 22  MLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQ--EVTSH-----EPESSCPICLKLF 74
           M  L R  +DF       N EL     +      Q  EV SH     E E  C IC + F
Sbjct: 4   MEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF 63
Query: 75  LVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT 113
           +    A  L+C H+F S CI  W+++   CP+CR + K+
Sbjct: 64  I---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS 99

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT 113
           C ICL +   GE  ++L C H FH  C+  WL     CP+CR + + 
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA 63

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 21/43 (48%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 67  CPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCR 108
           C +CL     GE A+ L  C H FH+ C+  WL   STCPLCR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 59  TSHEPESS-CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCR 108
            +H+ E + C +C+  F   +  + L C H FH+ C+  WL+   TCP+CR
Sbjct: 17  NNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPL 106
            S      ++E+  HE    C +CL+ F   +      CKH FH  C++ WLE    CPL
Sbjct: 1   GSSGSSGKVKELNLHE---LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPL 57
Query: 107 C 107
           C
Sbjct: 58  C 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	144
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-26
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-22
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-17
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-17
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-15
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-15
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-13
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	7e-13
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	9e-12
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-11
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-10
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	6e-10
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-04
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	5e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	6e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	6e-08
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	8e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-08
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-07
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	5e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	7e-07
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	8e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	9e-07
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	1e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	4e-06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	4e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	7e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	9e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	3e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	1e-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 = 93.2 bits (232), Expect = 4e-26
 Identities = 29/74 (39%), Positives = 41/74 (55%), Gaps = 6/74 (8%)

Query: 44  PPPASKAFVKSLQEVT------SHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPW 97
            PPASK  + +L E+       +   E  CPIC   ++ G+ A +L C H FH  C+  W
Sbjct: 14  NPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIW 73

Query: 98  LEKTSTCPLCRHEF 111
           L+K+ TCP+CR  F
Sbjct: 74  LQKSGTCPVCRCMF 87

>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 = 83.2 bits (206), Expect = 3e-22
 Identities = 21/57 (36%), Positives = 33/57 (57%)

Query: 64  ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEA 120
              CP+C + + +GES ++L C H FH +CI+PWLE+  +CP+CR      +     
Sbjct: 15  GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNP 71

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

 Score = 70.5 bits (173), Expect = 2e-17
 Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 8/68 (11%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT------DD 115
                CPICL+       +  L C H F   CI  W+ +  TCPLC+   ++       D
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESD 60

Query: 116 ADYEAYKV 123
           +++    +
Sbjct: 61  SEFGDQLI 68

>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 = 70.5 bits (173), Expect = 2e-17
 Identities = 21/59 (35%), Positives = 29/59 (49%)

Query: 57  EVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
           E T  + E  C ICL +   GE  ++L C H FH  C+  WL     CP+CR + +   
Sbjct: 7   EGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

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

 Score = 71.0 bits (174), Expect = 2e-17
 Identities = 18/54 (33%), Positives = 24/54 (44%)

Query: 57  EVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
           +V        C +CL+ F   +      CKH FH  C++ WLE    CPLC   
Sbjct: 8   KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMP 61

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

 Score = 70.4 bits (173), Expect = 2e-17
 Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 5/69 (7%)

Query: 47  ASKAFVKSL-----QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT 101
            S      L             ++ C +C+  F   +  + L C H FH+ C+  WL+  
Sbjct: 1   GSSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 102 STCPLCRHE 110
            TCP+CR +
Sbjct: 61  RTCPICRAD 69

>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 = 65.4 bits (160), Expect = 1e-15
 Identities = 18/46 (39%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 64  ESSCPICL-KLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCR 108
            S CPICL  +      A  L C H  H TC    L++   CPLC 
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 64.7 bits (158), Expect = 4e-15
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 7/69 (10%)

Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPL 106
            S      ++++T    E  C IC+     G +   L C H+F   CI  W ++   CP+
Sbjct: 1   GSSGSSGRVKQLTD---EEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPI 53

Query: 107 CRHEFKTDD 115
           CR +    +
Sbjct: 54  CRLQMTGAN 62

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

 Score = 63.0 bits (154), Expect = 1e-14
 Identities = 21/44 (47%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 67  CPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRH 109
           C +CL     GE A+ L  C H FH+ C+  WL   STCPLCR 
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRL 51

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

 Score = 61.1 bits (148), Expect = 1e-13
 Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 62  EPESSCPICLKLF----LVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK 112
               SCPIC+  +      G      +C H F S C+   L+  +TCP CR +  
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67

>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 = 59.9 bits (145), Expect = 3e-13
 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 62  EPESSCPICLKLF----LVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
               SCPIC+  +      G      +C H F S C+   L+  +TCP CR +     
Sbjct: 8   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65

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

 Score = 59.1 bits (143), Expect = 6e-13
 Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 64  ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFK 112
             +C  C       +      +C H+FH+ C+  W+++ + CPLC+ ++ 
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV 75

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

 Score = 58.6 bits (142), Expect = 7e-13
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 66  SCPICLKLF----LVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
           SCPIC+  +      G      +C H F S C+   L+  +TCP CR +     
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

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

 Score = 55.9 bits (135), Expect = 9e-12
 Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHE 110
            P   C IC    +  ++    +C HTF  +CI+     ++ CP C   
Sbjct: 13  TPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIV 59

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

 Score = 55.6 bits (134), Expect = 2e-11
 Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 5/69 (7%)

Query: 66  SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKVQK 125
            C IC + F   ++     C+H F  +C L     T  C +C     T      A ++  
Sbjct: 17  RCFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYICDQP--TGGIFNPAKELMA 71

Query: 126 KREKEREGE 134
           K +K     
Sbjct: 72  KLQKSGPSS 80

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 54.4 bits (131), Expect = 8e-11
 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 15/91 (16%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT-------- 113
            P   C +C   F+  ++   ++C H+F  TCI+ +LE +  CP+C  +           
Sbjct: 13  NPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR 70

Query: 114 -----DDADYEAYKVQKKREKEREGEIENLH 139
                 D  Y+      K E +R  +    H
Sbjct: 71  SDKTLQDIVYKLVPGLFKNEMKRRRDFYAAH 101

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

 Score = 52.9 bits (127), Expect = 1e-10
 Identities = 17/61 (27%), Positives = 19/61 (31%), Gaps = 3/61 (4%)

Query: 54  SLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT 113
           S            C ICL+          L CKH F   C+         C LCR E   
Sbjct: 5   SSGNTAPSLTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE 61

Query: 114 D 114
           D
Sbjct: 62  D 62

>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 = 52.5 bits (125), Expect = 6e-10
 Identities = 16/88 (18%), Positives = 26/88 (29%), Gaps = 20/88 (22%)

Query: 44  PPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESA---------------KKLDCKHT 88
                +  ++   E     PE  C IC++   V                   +   C H 
Sbjct: 5   SSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHA 64

Query: 89  FHSTCILPWLEKTS-----TCPLCRHEF 111
           FH  C+L      +      CP C+  +
Sbjct: 65  FHLLCLLAMYCNGNKDGSLQCPSCKTIY 92

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

 Score = 50.9 bits (122), Expect = 2e-09
 Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 2/71 (2%)

Query: 45  PPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTC 104
             A   +   L  + + +    C IC + F    +     C H + S CI  +L   + C
Sbjct: 3   SLAESRWPPGLAVMKTIDDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQC 60

Query: 105 PLCRHEFKTDD 115
           P C       D
Sbjct: 61  PTCCVTVTEPD 71

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 50.3 bits (120), Expect = 2e-09
 Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 59  TSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE--KTSTCPLCRHEFKTD 114
           T  +    C IC  L + G+S +   C    H  C+  + +      CP C   +  +
Sbjct: 10  TYPDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 65

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

 Score = 51.6 bits (123), Expect = 2e-09
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADY 118
           E E  C IC + F     A  L+C H+F S CI  W+++   CP+CR + K+     
Sbjct: 62  ENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 115

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

 Score = 49.3 bits (118), Expect = 4e-09
 Identities = 24/72 (33%), Positives = 30/72 (41%), Gaps = 12/72 (16%)

Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK---TST 103
           AS  FV  LQE      E  CPICL +    +    +DC H F   CI    E       
Sbjct: 9   ASGQFVNKLQE------EVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFK 59

Query: 104 CPLCRHEFKTDD 115
           CPLC+   + + 
Sbjct: 60  CPLCKTSVRKNA 71

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

 Score = 50.6 bits (120), Expect = 2e-08
 Identities = 15/88 (17%), Positives = 23/88 (26%), Gaps = 16/88 (18%)

Query: 42  ELPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKK-----LDCKHTFHSTCILP 96
           +L       +    +       E  C IC    L G            C    H+ C+  
Sbjct: 286 DLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEE 345

Query: 97  WLEKTS-----------TCPLCRHEFKT 113
           W +               CP C+ +  T
Sbjct: 346 WFKTLMDGKTFLEVSFGQCPFCKAKLST 373

>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 = 47.6 bits (113), Expect = 3e-08
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 3/61 (4%)

Query: 56  QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT-STCPLCRHEFKTD 114
           Q V S      C IC++     ++     C      +CI  WL +  + CP CR   +  
Sbjct: 14  QSVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

Query: 115 D 115
           +
Sbjct: 72  E 72

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

 Score = 47.9 bits (113), Expect = 4e-08
 Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 4/61 (6%)

Query: 62  EPESSCPICLKLFLVGESAKK----LDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD 117
               SCPIC+  +       +     +C H F S C+   L+  +TCP CR +       
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 118 Y 118
            
Sbjct: 65  P 65

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

 Score = 37.8 bits (87), Expect = 2e-04
 Identities = 20/76 (26%), Positives = 28/76 (36%), Gaps = 4/76 (5%)

Query: 44  PPPASKAFVKSLQEVTSHEPESSCPICLKLF----LVGESAKKLDCKHTFHSTCILPWLE 99
           P    K   K    +       SCPIC+  +      G      +C H F S C+   L+
Sbjct: 52  PTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK 111

Query: 100 KTSTCPLCRHEFKTDD 115
             +TCP CR +     
Sbjct: 112 NANTCPTCRKKINHKR 127

>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 = 47.5 bits (112), Expect = 5e-08
 Identities = 12/57 (21%), Positives = 17/57 (29%)

Query: 56  QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK 112
           +                      +     C H FH  CI  WL+    CPL   E++
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE 111

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 47.1 bits (111), Expect = 6e-08
 Identities = 12/57 (21%), Positives = 17/57 (29%)

Query: 56  QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK 112
           +                      +     C H FH  CI  WL+    CPL   E++
Sbjct: 44  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE 100

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

 Score = 45.9 bits (109), Expect = 6e-08
 Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 10/70 (14%)

Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWL-EKTSTCP 105
            S  FVK++      E +  C  C  +     S K+ +C H F  +C+   L   +  C 
Sbjct: 4   GSSGFVKTV------EDKYKCEKCHLVL---CSPKQTECGHRFCESCMAALLSSSSPKCT 54

Query: 106 LCRHEFKTDD 115
            C+     D 
Sbjct: 55  ACQESIVKDK 64

>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 = 46.8 bits (111), Expect = 8e-08
 Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 4/57 (7%)

Query: 56  QEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEF 111
           ++      E  C IC+++ +       L C HT    C    +EK S  CP CR   
Sbjct: 7   KDAIPSLSECQCGICMEILV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60

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

 Score = 45.5 bits (108), Expect = 9e-08
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 6/58 (10%)

Query: 62  EPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEK--TSTCPLCRHEFKTDDA 116
             E  C IC  +      A  +  C +++   CI   L +    TCP C     + DA
Sbjct: 13  PDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 67

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 45.3 bits (108), Expect = 1e-07
 Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 16/76 (21%)

Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTST--- 103
            S     ++QE      E +CPICL+L         LDC H+    CI    ++  T   
Sbjct: 1   GSSGSSGNVQE------EVTCPICLELL---TEPLSLDCGHSLCRACITVSNKEAVTSMG 51

Query: 104 ----CPLCRHEFKTDD 115
               CP+C   +  + 
Sbjct: 52  GKSSCPVCGISYSFEH 67

>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 = 47.8 bits (113), Expect = 2e-07
 Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 4/56 (7%)

Query: 61  HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEFKTDD 115
                 C IC +     +  K   C H   ++C+  W E     CP CR E K  +
Sbjct: 329 GSTFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

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

 Score = 46.1 bits (109), Expect = 2e-07
 Identities = 18/55 (32%), Positives = 22/55 (40%), Gaps = 4/55 (7%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
               SC IC  +        +  CKH F   CIL  L+   S CP CR+     D
Sbjct: 21  VKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 45.7 bits (108), Expect = 2e-07
 Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 4/73 (5%)

Query: 43  LPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS 102
           + P    A+  S   +   E    C  C  +    E      C+H F S C+   +   +
Sbjct: 1   MEPDGRGAWAHSRAALDRLEKLLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIG--T 56

Query: 103 TCPLCRHEFKTDD 115
            CP+C       D
Sbjct: 57  GCPVCYTPAWIQD 69

>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 = 45.8 bits (108), Expect = 3e-07
 Identities = 14/72 (19%), Positives = 24/72 (33%), Gaps = 10/72 (13%)

Query: 46  PASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTC 104
                F+K L++         C  C +L          +C H     C+    +    +C
Sbjct: 66  VEGPNFLKKLEQ------SFMCVCCQELV---YQPVTTECFHNVCKDCLQRSFKAQVFSC 116

Query: 105 PLCRHEFKTDDA 116
           P CRH+   +  
Sbjct: 117 PACRHDLGQNYI 128

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

 Score = 45.7 bits (108), Expect = 5e-07
 Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 13/89 (14%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKT------- 113
             E  CPICL +     +    +C H F + CI+  L      CP CR +  +       
Sbjct: 52  HSELMCPICLDML--KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPD 109

Query: 114 ---DDADYEAYKVQKKREKEREGEIENLH 139
              D    + Y  + + E  +E  +  ++
Sbjct: 110 PNFDALISKIYPSRDEYEAHQERVLARIN 138

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

 Score = 43.6 bits (103), Expect = 7e-07
 Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 6/57 (10%)

Query: 62  EPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEK--TSTCPLCRHEFKTDD 115
             E  C IC  +      A  +  C +++   CI   L +    TCP C     + D
Sbjct: 11  PDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

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

 Score = 43.4 bits (103), Expect = 8e-07
 Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 15/78 (19%)

Query: 44  PPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK--- 100
               +   + +++E      E +CPICL+L         LDC H+F   C+    +K   
Sbjct: 5   SSGMASGILVNVKE------EVTCPICLELL---TQPLSLDCGHSFCQACLTANHKKSML 55

Query: 101 ---TSTCPLCRHEFKTDD 115
               S+CP+CR  ++ ++
Sbjct: 56  DKGESSCPVCRISYQPEN 73

>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 = 44.2 bits (104), Expect = 9e-07
 Identities = 12/70 (17%), Positives = 22/70 (31%), Gaps = 10/70 (14%)

Query: 44  PPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS- 102
                + F+  ++E         C  C +L           C+H     C+         
Sbjct: 38  SGSPFQLFLSKVEE------TFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVF 88

Query: 103 TCPLCRHEFK 112
           +CP CR++  
Sbjct: 89  SCPACRYDLG 98

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

 Score = 44.0 bits (104), Expect = 9e-07
 Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWL-EKTSTCPLCRHEFKTDD 115
           E +  CPICL        A +  C H F   CI+  + +    CP+       + 
Sbjct: 16  ESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

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

 Score = 43.1 bits (102), Expect = 1e-06
 Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 15/68 (22%)

Query: 50  AFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK------TST 103
           + ++ ++E      E +CPICL+L    +     DC H+F   CI    E          
Sbjct: 11  SVLEMIKE------EVTCPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGN 61

Query: 104 CPLCRHEF 111
           CP+CR  +
Sbjct: 62  CPVCRVPY 69

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

 Score = 42.8 bits (101), Expect = 2e-06
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 16/71 (22%)

Query: 50  AFVKSLQEVTSHEPESSCPICLKLFL--VGESAKKLDCKHTFHSTCILPWLEK---TSTC 104
             + ++Q+         CPICL+L    V        C H F   C+L  L +    S C
Sbjct: 13  NVINAMQK------ILECPICLELIKEPV-----STKCDHIFCKFCMLKLLNQKKGPSQC 61

Query: 105 PLCRHEFKTDD 115
           PLC+++     
Sbjct: 62  PLCKNDITKRS 72

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

 Score = 44.3 bits (104), Expect = 3e-06
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK--TSTCPLCRHEF 111
           C IC  L + G+S +   C    H  C+  + +      CP C   +
Sbjct: 183 CNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

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

 Score = 41.2 bits (97), Expect = 4e-06
 Identities = 24/64 (37%), Positives = 27/64 (42%), Gaps = 12/64 (18%)

Query: 47  ASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTST 103
           AS  FV  LQE      E  CPICL +    +    +DC H F   CI    E       
Sbjct: 9   ASGQFVNKLQE------EVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFK 59

Query: 104 CPLC 107
           CPLC
Sbjct: 60  CPLC 63

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

 Score = 42.8 bits (100), Expect = 4e-06
 Identities = 14/73 (19%), Positives = 23/73 (31%), Gaps = 4/73 (5%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDADYEAYKVQK 125
           C  C  +        +  C H + S C+   L      C  C HE   ++          
Sbjct: 34  CSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSA 90

Query: 126 KREKEREGEIENL 138
             +     E+E+L
Sbjct: 91  FPDNAARREVESL 103

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

 Score = 40.4 bits (95), Expect = 7e-06
 Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 12/66 (18%)

Query: 45  PPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KT 101
              S   +++LQ       E+SC +CL+     +    ++C H F   CI  W E   + 
Sbjct: 2   SSGSSGALENLQV------EASCSVCLEYL---KEPVIIECGHNFCKACITRWWEDLERD 52

Query: 102 STCPLC 107
             CP+C
Sbjct: 53  FPCPVC 58

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

 Score = 40.8 bits (96), Expect = 9e-06
 Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 4/56 (7%)

Query: 66  SCPICLKLF-LVGESAKKLDCKHTFHSTCILPWLEKTS---TCPLCRHEFKTDDAD 117
            CPIC++ F       K L C HT    C+   L  +     CP C    +     
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLT 72

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

 Score = 39.3 bits (92), Expect = 2e-05
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 8/47 (17%)

Query: 66  SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEF 111
            C  C       +  K L C HT  S C    LE +   CP+C+  +
Sbjct: 8   RCQQCQAEA---KCPKLLPCLHTLCSGC----LEASGMQCPICQAPW 47

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

 Score = 39.7 bits (92), Expect = 2e-05
 Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 60  SHEPESSCPICL-KLFLVGESAKKLDCKHTFHSTCILPWL-EKTSTCPLCRHEFKTDDAD 117
           + E    CP+C+  L +   +     C +     C      ++   CP CR  +  D A 
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66

Query: 118 Y 118
           Y
Sbjct: 67  Y 67

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
           E +  CPICL        A +  C H F   CI+  +      CP+       + 
Sbjct: 16  ESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 41.1 bits (95), Expect = 3e-05
 Identities = 22/118 (18%), Positives = 37/118 (31%), Gaps = 7/118 (5%)

Query: 2   SDYFDEFNIAPLGPGETPNHMLHLARLLRDFGMNPYEFNDELPPPASKAFVKSLQEVTSH 61
               + +   P     T  +     ++L+       +    +P   + A    LQ +   
Sbjct: 120 PKLSELYLNMPTPEPATMVNNTDTLKILKVLPYIWNDPTCVIPDLQNPADEDDLQ-IEGG 178

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK--TSTCPL--CRHEFKTDD 115
           + E +CPI  K +          C H F    I  +L+   T  CP   C       D
Sbjct: 179 KIELTCPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD 234

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A Length = 61

 Score = 36.9 bits (86), Expect = 1e-04
 Identities = 7/49 (14%), Positives = 18/49 (36%), Gaps = 2/49 (4%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
           C I  K+      + K   +  F  + +  +++ T   P+       ++
Sbjct: 6   CAISGKVPRRPVLSPK--SRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 52

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	144
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.57
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.46
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.45
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.45
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.44
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.43
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.43
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.38
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.38
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.37
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.36
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.36
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.36
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.34
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.34
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.33
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.33
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.32
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.32
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.32
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.3
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.28
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.28
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.28
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.27
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.27
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.27
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.25
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.25
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.25
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.25
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.23
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.22
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.19
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.17
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.17
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.17
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.17
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.16
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.16
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.16
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.16
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.12
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.1
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.1
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.04
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.02
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.01
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.99
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.99
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.97
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.95
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.94
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.93
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.92
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.9
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.87
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.81
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.68
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.68
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.57
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.56
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.53
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.53
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.52
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.08
3nw0_A	238	Non-structural maintenance of chromosomes element	97.66
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.67
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.49
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	92.13
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	90.79
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	87.71
1we9_A	64	PHD finger family protein; structural genomics, PH	87.7
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	86.93
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	86.15
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	85.92
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	83.02
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	81.35
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	80.81

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

Probab=99.57  E-value=5e-15  Score=94.42  Aligned_cols=76  Identities=39%  Similarity=0.826  Sum_probs=63.0

Q ss_pred             CCCCCCCCCCcHHHHHhhccccCCC------cccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccccccc
Q psy12643         38 EFNDELPPPASKAFVKSLQEVTSHE------PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEF  111 (144)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~  111 (144)
                      ........+.++..+..++......      ++..|+||++.+..+.....++|+|.||..||..|+.....||+||+.+
T Consensus         8 ~~~~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   87 (91)
T 2l0b_A            8 HSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF   87 (91)
T ss_dssp             SCCSSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBS
T ss_pred             CCCCcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccC
Confidence            3445667788889998888655432      3677999999997777788899999999999999999999999999988


Q ss_pred             CC
Q psy12643        112 KT  113 (144)
Q Consensus       112 ~~  113 (144)
                      ..
T Consensus        88 ~~   89 (91)
T 2l0b_A           88 PP   89 (91)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

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

Probab=99.46  E-value=3.4e-14  Score=82.02  Aligned_cols=51  Identities=41%  Similarity=0.879  Sum_probs=45.1

Q ss_pred             CcccccccccccccCCCceeecC-CCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      +++..|+||++.+..+.....++ |+|.||..|+.+|+..+..||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            34788999999997766677887 9999999999999999999999998774

>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=99.45  E-value=8.3e-14  Score=84.04  Aligned_cols=53  Identities=36%  Similarity=0.972  Sum_probs=46.6

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      .....|+||++.+..+..++.++|+|.||..||..|+.....||+||+.+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            44788999999997667778899999999999999999888999999988653

>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=99.45  E-value=1.9e-13  Score=90.18  Aligned_cols=71  Identities=23%  Similarity=0.600  Sum_probs=51.8

Q ss_pred             CcHHHHHhhccccCCCcccccccccccccCCC---------------ceeecCCCCcchHhhHHHHh-----hCCCCccc
Q psy12643         47 ASKAFVKSLQEVTSHEPESSCPICLKLFLVGE---------------SAKKLDCKHTFHSTCILPWL-----EKTSTCPL  106 (144)
Q Consensus        47 ~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~---------------~~~~~~C~h~f~~~Ci~~~~-----~~~~~CP~  106 (144)
                      .+...+...........+..|+||++.|..+.               ....++|+|.||..||..|+     .....||+
T Consensus         8 ~p~~~i~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~   87 (114)
T 1v87_A            8 EPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS   87 (114)
T ss_dssp             CHHHHHHHHEEECSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTT
T ss_pred             ChHHHHHHHHHhccCCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCC
Confidence            34455665555555555779999999985432               22267899999999999999     45678999


Q ss_pred             cccccCCCChh
Q psy12643        107 CRHEFKTDDAD  117 (144)
Q Consensus       107 Cr~~~~~~~~~  117 (144)
                      ||+.+......
T Consensus        88 CR~~~~~~~g~   98 (114)
T 1v87_A           88 CKTIYGEKTGT   98 (114)
T ss_dssp             TCCBSSSCSSS
T ss_pred             CCCccCCCCCC
Confidence            99998765443

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

Probab=99.44  E-value=5e-14  Score=86.45  Aligned_cols=53  Identities=30%  Similarity=0.798  Sum_probs=46.8

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      .+...|+||++.+..+.....++|+|.||..||..|+.....||+||+.+...
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            45788999999997666678889999999999999999889999999988764

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

Probab=99.43  E-value=1.1e-13  Score=84.66  Aligned_cols=54  Identities=31%  Similarity=0.735  Sum_probs=46.6

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ......|+||++.+..+.....++|+|.||..||..|+.....||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            344788999999997666667779999999999999999888999999988653

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

Probab=99.43  E-value=1.1e-13  Score=85.37  Aligned_cols=55  Identities=38%  Similarity=1.065  Sum_probs=47.4

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      .....|+||++.+..+.....++|+|.||..||..|+.....||+||+.+.....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            3478999999999766666778999999999999999988999999999876543

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

Probab=99.38  E-value=1.9e-13  Score=82.71  Aligned_cols=55  Identities=29%  Similarity=0.642  Sum_probs=45.3

Q ss_pred             CCcccccccccccccCC----CceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVG----ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~----~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ..+...|+||++.+...    ...+.++|||.||..||..|+.....||+||+.+....
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            34578999999998431    23377899999999999999998899999999987654

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

Probab=99.38  E-value=4.3e-13  Score=81.62  Aligned_cols=53  Identities=26%  Similarity=0.616  Sum_probs=45.3

Q ss_pred             CCcccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         61 HEPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      ..+...|+||++.+   ..++.+ +|||.||..||..|+.....||+||+.+...+.
T Consensus        12 ~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           12 LTPYILCSICKGYL---IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CCGGGSCTTTSSCC---SSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             cCCCCCCCCCChHH---HCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            45588999999998   556665 899999999999999988999999999876543

>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=99.37  E-value=4e-13  Score=77.36  Aligned_cols=51  Identities=35%  Similarity=0.675  Sum_probs=43.1

Q ss_pred             CcccccccccccccCC-CceeecCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVG-ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~-~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      .+...|+||++.+..+ ..++.++|+|.||..|+..|+.....||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            3478899999998433 34677899999999999999998899999999875

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

Probab=99.36  E-value=1.2e-12  Score=89.40  Aligned_cols=49  Identities=39%  Similarity=0.952  Sum_probs=44.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      +..|+||++.+   ..++.++|||.||..||..|+.....||+||+++....
T Consensus        53 ~~~C~iC~~~~---~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           53 ELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT  101 (138)
T ss_dssp             HSBCTTTCSBC---SSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEE
T ss_pred             cCCCcccCccc---CCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCC
Confidence            67899999999   77888999999999999999999999999999987653

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

Probab=99.36  E-value=3.2e-13  Score=81.14  Aligned_cols=53  Identities=30%  Similarity=0.665  Sum_probs=43.8

Q ss_pred             CCcccccccccccccCC----CceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         61 HEPESSCPICLKLFLVG----ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~----~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..+...|+||++.+...    ..++.++|||.||..||..|+.....||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34578899999998432    223778999999999999999988899999998864

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

Probab=99.36  E-value=4e-13  Score=81.55  Aligned_cols=50  Identities=30%  Similarity=0.563  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..+...|+||++.+   ..++.++|+|.||..||..|+.....||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBC---SSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCccc---CCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            34578899999998   777888999999999999999988999999998864

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

Probab=99.34  E-value=1e-12  Score=78.60  Aligned_cols=51  Identities=25%  Similarity=0.647  Sum_probs=43.9

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      .+...|+||++.+   ..++.++|||.||..||..|+. ....||+||+.+..++
T Consensus        13 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVL---CSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEE---SSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHh---cCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            4478999999999   6677789999999999999995 5678999999987653

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

Probab=99.34  E-value=4.1e-13  Score=79.51  Aligned_cols=53  Identities=30%  Similarity=0.672  Sum_probs=44.1

Q ss_pred             cccccccccccccCC----CceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         63 PESSCPICLKLFLVG----ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~----~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      +...|+||++.+...    ..++.++|||.||..|+..|+..+..||+||+.+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            467899999998431    23377899999999999999998899999999987654

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

Probab=99.33  E-value=8.9e-13  Score=80.70  Aligned_cols=53  Identities=28%  Similarity=0.579  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCCCceeecC-CCCcchHhhHHHHhhCC--CCccccccccCCCCh
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEKT--STCPLCRHEFKTDDA  116 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~~~--~~CP~Cr~~~~~~~~  116 (144)
                      ..+...|+||++.+   ..++.++ |||.||..||..|+...  ..||+||+.+...+.
T Consensus        12 ~~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2yur_A           12 IPDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA   67 (74)
T ss_dssp             SCGGGSCSSSCCCC---TTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTT
T ss_pred             CCCCCCCcCCChHH---hCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccc
Confidence            34578999999999   7788899 99999999999999854  689999998665443

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

Probab=99.33  E-value=1.5e-12  Score=79.18  Aligned_cols=52  Identities=33%  Similarity=0.769  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhh---CCCCccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~---~~~~CP~Cr~~~~~~~  115 (144)
                      ..+...|+||++.+   ..++.++|||.||..|+..|+.   ....||+||+.+...+
T Consensus        17 ~~~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBC---SSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCccc---CCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            34578999999998   6788889999999999999997   4558999999987654

>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=1.4e-12  Score=81.04  Aligned_cols=48  Identities=27%  Similarity=0.612  Sum_probs=43.5

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      .....|+||++.+   ..++.++|||.||..||..|+.....||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAF---QNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBC---CSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchh---cCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3477899999999   67788999999999999999998889999999986

>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=99.32  E-value=8.1e-13  Score=85.48  Aligned_cols=50  Identities=26%  Similarity=0.667  Sum_probs=44.4

Q ss_pred             ccccccccccccCCCceee-cCCCCcchHhhHHHHhhCC-CCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEKT-STCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~~-~~CP~Cr~~~~~~~~  116 (144)
                      ...|+||++.+   ..++. ++|||.||..||..|+... ..||+||..+.....
T Consensus        22 ~~~C~IC~~~~---~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l   73 (100)
T 3lrq_A           22 VFRCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL   73 (100)
T ss_dssp             HTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCccCCccc---cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHh
Confidence            88999999999   67777 8999999999999999976 699999999876543

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

Probab=99.32  E-value=1.8e-12  Score=79.91  Aligned_cols=52  Identities=23%  Similarity=0.504  Sum_probs=45.7

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCCh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDA  116 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~  116 (144)
                      .+...|+||++.+   ..++.++|||.||..||..|+.. ...||+||+.+.....
T Consensus         6 ~~~~~C~IC~~~~---~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l   58 (78)
T 1t1h_A            6 PEYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             SSSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             cccCCCCCccccc---cCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhC
Confidence            4478999999999   77888999999999999999986 7889999999876543

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

Probab=99.30  E-value=5.1e-13  Score=80.74  Aligned_cols=51  Identities=29%  Similarity=0.744  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ..+...|+||++.+   .. +.++|+|.||..|+..|+.....||+||+.+....
T Consensus        12 ~~~~~~C~IC~~~~---~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGR---AD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSC---CS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCCeeCCcCc---cC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            44578999999998   44 78899999999999999999999999999987654

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

Probab=99.28  E-value=1.7e-12  Score=77.93  Aligned_cols=50  Identities=34%  Similarity=0.817  Sum_probs=42.6

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .....|+||++.+.  ...+.++|||.||..|+..|+.....||+||+.+..
T Consensus         3 ~~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            34678999999983  234778999999999999999988999999998764

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

Probab=99.28  E-value=3.3e-12  Score=80.24  Aligned_cols=54  Identities=28%  Similarity=0.632  Sum_probs=44.6

Q ss_pred             CCcccccccccccccCCCc-eeecCCCCcchHhhHHHHhhCC---CCccccccccCCC
Q psy12643         61 HEPESSCPICLKLFLVGES-AKKLDCKHTFHSTCILPWLEKT---STCPLCRHEFKTD  114 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~-~~~~~C~h~f~~~Ci~~~~~~~---~~CP~Cr~~~~~~  114 (144)
                      ..+...|+||++.+..... ++.++|||.||..|+..|+...   ..||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            3447889999999954332 7888999999999999999864   7899999988664

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

Probab=99.28  E-value=1.2e-12  Score=81.58  Aligned_cols=53  Identities=25%  Similarity=0.783  Sum_probs=41.7

Q ss_pred             CcccccccccccccC-----------CCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLV-----------GESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~-----------~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      .++..|+||++.+..           +...+.+ +|+|.||..||.+|+..+.+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            346778888888743           2334455 5999999999999999999999999987643

>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=99.27  E-value=6.4e-12  Score=82.15  Aligned_cols=49  Identities=33%  Similarity=0.834  Sum_probs=44.0

Q ss_pred             cccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCC
Q psy12643         63 PESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      +...|+||++.+   ..++.+ +|||.||..||..|+.....||+||..+...
T Consensus        14 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHH---hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            488999999999   667776 9999999999999999889999999998764

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

Probab=99.27  E-value=6.3e-12  Score=80.92  Aligned_cols=49  Identities=31%  Similarity=0.708  Sum_probs=43.6

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ...|+||++.+   ..++.+ +|||.||..||..|+.....||+||..+....
T Consensus        22 ~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           22 LLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCcccCChhh---CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            78899999999   667666 89999999999999998899999999987643

>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=99.27  E-value=4.4e-12  Score=82.97  Aligned_cols=52  Identities=29%  Similarity=0.582  Sum_probs=42.9

Q ss_pred             CcccccccccccccCCC---------------ceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGE---------------SAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~---------------~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .++..|+||++.|....               ..+.++|+|.||..||..|+..+.+||+||+.+..
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            34788999999985431               24557899999999999999999999999998753

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

Probab=99.25  E-value=9.7e-12  Score=78.91  Aligned_cols=48  Identities=27%  Similarity=0.589  Sum_probs=41.9

Q ss_pred             CcccccccccccccCCCceeecC-CCCcchHhhHHHHhhC--CCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEK--TSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~~--~~~CP~Cr~~~~  112 (144)
                      .+...|+||++.+   ..++.++ |||.||..||..|+..  ...||+||+.+.
T Consensus        11 ~~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIM---TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEEC---SSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhh---cCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4478999999999   7788899 9999999999999973  368999999973

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

Probab=99.25  E-value=1.6e-12  Score=80.14  Aligned_cols=50  Identities=34%  Similarity=0.830  Sum_probs=43.5

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC-------CCCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-------TSTCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-------~~~CP~Cr~~~~~~  114 (144)
                      .+...|+||++.+   ..++.++|||.||..|+..|+..       ...||+||..+...
T Consensus        10 ~~~~~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           10 QEEVTCPICLELL---TEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCEETTTTEEC---SSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             ccCCCCcCCCccc---CCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            4578999999999   66778899999999999999985       56899999998764

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

Probab=99.25  E-value=5.5e-12  Score=78.50  Aligned_cols=51  Identities=35%  Similarity=0.864  Sum_probs=44.0

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC------CCCccccccccCCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK------TSTCPLCRHEFKTDD  115 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~------~~~CP~Cr~~~~~~~  115 (144)
                      .+...|+||++.+   ..++.++|+|.||..|+..|+..      ...||+||..+....
T Consensus        17 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           17 KEEVTCPICLELL---KEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CTTTSCTTTCSCC---SSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             ccCCCCcCCChhh---CcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            4478999999998   66778999999999999999986      668999999987543

>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=99.25  E-value=5.7e-12  Score=84.35  Aligned_cols=47  Identities=21%  Similarity=0.503  Sum_probs=42.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~  113 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+.. ...||+||+.+..
T Consensus        52 ~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHH---cCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            78999999999   77888999999999999999984 4489999999976

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

Probab=99.25  E-value=8.8e-12  Score=78.36  Aligned_cols=54  Identities=19%  Similarity=0.193  Sum_probs=48.1

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhHH
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYE  119 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~  119 (144)
                      +.+.|+||++.+   ..++.++|||.|+..||..|+....+||+|+..+........
T Consensus        13 ~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn   66 (85)
T 2kr4_A           13 DEFRDPLMDTLM---TDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPV   66 (85)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEEC
T ss_pred             hheECcccCchh---cCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchH
Confidence            478999999999   889999999999999999999988899999999987655433

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

Probab=99.23  E-value=6.6e-12  Score=78.16  Aligned_cols=51  Identities=37%  Similarity=0.944  Sum_probs=44.1

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC------CCCccccccccCCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK------TSTCPLCRHEFKTDD  115 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~------~~~CP~Cr~~~~~~~  115 (144)
                      .+...|+||++.+   ..++.++|||.||..|+..|+..      ...||+||..+...+
T Consensus        17 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELL---TQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCC---SSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             cCCCCCCCCCccc---CCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            4478999999998   66778899999999999999976      778999999987543

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

Probab=99.22  E-value=1.2e-11  Score=73.12  Aligned_cols=44  Identities=39%  Similarity=0.853  Sum_probs=38.3

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhh---CCCCcccc
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLC  107 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~---~~~~CP~C  107 (144)
                      ..+...|+||++.+   ..++.++|||.||..||..|+.   ....||+|
T Consensus        17 ~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBC---SSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchh---CCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34578999999999   6788889999999999999998   45689998

>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=99.19  E-value=1.2e-11  Score=79.81  Aligned_cols=54  Identities=22%  Similarity=0.164  Sum_probs=48.3

Q ss_pred             cccccccccccccCCCceeecCCC-CcchHhhHHHHhhCCCCccccccccCCCChhHH
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCK-HTFHSTCILPWLEKTSTCPLCRHEFKTDDADYE  119 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~-h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~  119 (144)
                      +.+.|+||++.+   ..++.++|| |.||..||..|+....+||+||.++........
T Consensus        21 ~~~~CpI~~~~m---~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn   75 (98)
T 1wgm_A           21 DEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPN   75 (98)
T ss_dssp             TTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEEC
T ss_pred             HhcCCcCccccc---cCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEc
Confidence            378999999999   889999999 999999999999988899999999987765533

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.17  E-value=3.1e-11  Score=78.12  Aligned_cols=55  Identities=18%  Similarity=0.195  Sum_probs=48.8

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCChhHH
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDADYE  119 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~  119 (144)
                      .+.+.|+||++.+   ..++.++|||.||..||..|+....+||+|+.++........
T Consensus        27 p~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn   81 (100)
T 2kre_A           27 PDEFRDPLMDTLM---TDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPV   81 (100)
T ss_dssp             STTTBCTTTCSBC---SSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEEC
T ss_pred             cHhhCCcCccCcc---cCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceEC
Confidence            3478999999999   889999999999999999999988899999999987665543

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

Probab=99.17  E-value=1.3e-11  Score=82.90  Aligned_cols=55  Identities=29%  Similarity=0.635  Sum_probs=45.3

Q ss_pred             CcccccccccccccCC----CceeecCCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         62 EPESSCPICLKLFLVG----ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~----~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      .+...|+||++.+...    ...+.++|||.||..||.+|+.....||+||+.+.....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            3478999999998421    223788999999999999999999999999999876543

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

Probab=99.17  E-value=1.6e-11  Score=73.04  Aligned_cols=53  Identities=19%  Similarity=0.483  Sum_probs=41.2

Q ss_pred             cccccccccc-cccCCCc-eeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         63 PESSCPICLK-LFLVGES-AKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        63 ~~~~C~IC~~-~~~~~~~-~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      ++..|+||++ .+..... .+.++|||.||..|+..|+. ....||+||+.+....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3678999999 7743322 24579999999999999976 4567999999987654

>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=99.17  E-value=1.9e-11  Score=80.11  Aligned_cols=50  Identities=34%  Similarity=0.848  Sum_probs=43.0

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCC---CCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT---STCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~---~~CP~Cr~~~~~~~~  116 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+...   ..||+||..+.....
T Consensus        21 ~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           21 ILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HTSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCcccChhh---cCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            67899999998   667778999999999999999855   389999998876543

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

Probab=99.16  E-value=2.4e-11  Score=70.46  Aligned_cols=43  Identities=35%  Similarity=1.007  Sum_probs=36.8

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhh---CCCCcccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLC  107 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~---~~~~CP~C  107 (144)
                      .+...|+||++.+   ..++.++|||.||..||..|+.   ....||+|
T Consensus        13 ~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYL---KEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBC---SSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCccc---CccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4578999999999   6677889999999999999954   56689988

>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=99.16  E-value=2.2e-11  Score=84.27  Aligned_cols=48  Identities=23%  Similarity=0.616  Sum_probs=43.3

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCC-CccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~-~CP~Cr~~~~~~  114 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+.... .||+||..+...
T Consensus        78 ~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELV---YQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBC---SSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhh---cCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            67899999999   7788899999999999999998654 899999999876

>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=99.16  E-value=1.5e-11  Score=81.60  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=44.9

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCC-CccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~-~CP~Cr~~~~~~~  115 (144)
                      ..+...|+||++.+   ..++.++|||.||..||..|+.... .||+||..+....
T Consensus        15 ~~~~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           15 LESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcCChhh---cCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            34578999999999   7778899999999999999998554 9999999987654

>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=99.16  E-value=8e-12  Score=82.53  Aligned_cols=49  Identities=31%  Similarity=0.769  Sum_probs=43.0

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~  113 (144)
                      .++..|+||++.+   ..++.++|||.||..||..|+.. ...||+||+.+..
T Consensus        13 ~~~~~C~iC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEIL---VEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBC---SSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCccc---CceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            3478999999999   77888999999999999999975 6789999998863

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

Probab=99.12  E-value=3.9e-11  Score=74.56  Aligned_cols=54  Identities=24%  Similarity=0.568  Sum_probs=43.3

Q ss_pred             CCcccccccccccccCCCceeecCCC-----CcchHhhHHHHhhCC--CCccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCK-----HTFHSTCILPWLEKT--STCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~-----h~f~~~Ci~~~~~~~--~~CP~Cr~~~~~~~  115 (144)
                      ..+...|.||++.+..+.. .++||.     |.||..||.+|+..+  .+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCe-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            3457889999998865444 568886     999999999999854  58999999987543

>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=99.11  E-value=3.7e-11  Score=84.10  Aligned_cols=49  Identities=33%  Similarity=0.864  Sum_probs=42.1

Q ss_pred             cccccccccccccCCCceeec-CCCCcchHhhHHHHhhC-CCCccccccccCCC
Q psy12643         63 PESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEK-TSTCPLCRHEFKTD  114 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~  114 (144)
                      +...|+||++.+   ..++.+ +|||.||..||..|+.. ...||+||..+...
T Consensus        53 ~~~~C~IC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  103 (165)
T 2ckl_B           53 SELMCPICLDML---KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK  103 (165)
T ss_dssp             HHHBCTTTSSBC---SSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSG
T ss_pred             CCCCCcccChHh---hCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCc
Confidence            367899999999   556666 89999999999999986 77899999998543

>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=99.11  E-value=3.2e-11  Score=79.75  Aligned_cols=50  Identities=36%  Similarity=0.694  Sum_probs=44.3

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~  116 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+.. ...||+||+.+...+.
T Consensus        23 ~~~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           23 SISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCcHh---cCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            68899999999   77888999999999999999985 7789999999876543

>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=99.10  E-value=9.8e-12  Score=82.55  Aligned_cols=52  Identities=29%  Similarity=0.582  Sum_probs=1.5

Q ss_pred             CcccccccccccccCCC---------------ceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGE---------------SAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~---------------~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ..+..|+||++.|....               ..+.++|+|.||..||..|+..+.+||+||+.+..
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CCC----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            34789999999985421               12234899999999999999999999999998653

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

Probab=99.10  E-value=2.5e-11  Score=83.17  Aligned_cols=50  Identities=24%  Similarity=0.527  Sum_probs=43.0

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCC-CccccccccCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS-TCPLCRHEFKT  113 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~-~CP~Cr~~~~~  113 (144)
                      ..+...|+||++.+   ..++.++|||.||..||..|+.... .||+||..+..
T Consensus        28 l~~~~~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhh---cCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            34589999999999   7778899999999999999998554 89999997643

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

Probab=99.06  E-value=1.3e-10  Score=76.98  Aligned_cols=48  Identities=25%  Similarity=0.613  Sum_probs=42.3

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      ...|+||++.+   ..++.+ +|||.||..||..|+.  ..||+||..+.....
T Consensus        22 ~~~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~   70 (117)
T 1jm7_B           22 LLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL   70 (117)
T ss_dssp             TTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSC
T ss_pred             CCCCCCCChHh---hCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccc
Confidence            89999999999   777888 8999999999999987  789999999865433

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

Probab=99.05  E-value=4.2e-11  Score=80.28  Aligned_cols=57  Identities=28%  Similarity=0.596  Sum_probs=46.4

Q ss_pred             cCCCcccccccccccccCC----CceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         59 TSHEPESSCPICLKLFLVG----ESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        59 ~~~~~~~~C~IC~~~~~~~----~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ....+...|+||++.+...    ...+.++|||.||..||.+|+....+||+||+.+..++
T Consensus        67 ~i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           67 YIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             BCSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             ccCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            3445688899999988431    22377899999999999999999999999999987654

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

Probab=99.04  E-value=1.8e-10  Score=71.25  Aligned_cols=55  Identities=22%  Similarity=0.564  Sum_probs=41.9

Q ss_pred             CCcccccccccccccCCCceeec--CCCCcchHhhHHHHhh-CCCCccccccccCCCCh
Q psy12643         61 HEPESSCPICLKLFLVGESAKKL--DCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~--~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~  116 (144)
                      ..++..|+||++.+... ....+  +|||.||..|+..++. ....||.||+.+.....
T Consensus         8 ~~~~~~CpICle~~~~~-d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTT-TTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCccCccc-cccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            35578999999987432 22333  4999999999999875 45689999999876544

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

Probab=99.02  E-value=1.2e-10  Score=71.26  Aligned_cols=44  Identities=23%  Similarity=0.504  Sum_probs=39.4

Q ss_pred             ccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ...|+||++.+   ..++.++|||. ||..|+..|    ..||+||+.+...
T Consensus        24 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           24 EKLCKICMDRN---IAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HTBCTTTSSSB---CCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             CCCCCCCCCCC---CCEEEcCCCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            78899999998   78888999999 999999887    8899999988654

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

Probab=99.01  E-value=7.1e-11  Score=68.41  Aligned_cols=48  Identities=25%  Similarity=0.513  Sum_probs=40.2

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      .+...|+||++.+   ..++.++|||.||..|+..   ....||+||+.+....
T Consensus         4 ~~~~~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEA---KCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSC---BCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCcc---CCeEEcCCCCcccHHHHcc---CCCCCCcCCcEeecCC
Confidence            4477899999999   6678899999999999876   4668999999887543

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

Probab=98.99  E-value=3.6e-10  Score=69.08  Aligned_cols=52  Identities=21%  Similarity=0.623  Sum_probs=41.6

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhCC--CCccccccccCCCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT--STCPLCRHEFKTDD  115 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~--~~CP~Cr~~~~~~~  115 (144)
                      +....|.||.+.+..+.  ....|+|.||..||.+|+..+  .+||+||+.+....
T Consensus        13 ~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            34688999999985432  223799999999999999866  78999999887543

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

Probab=98.99  E-value=2e-10  Score=68.30  Aligned_cols=49  Identities=20%  Similarity=0.438  Sum_probs=41.9

Q ss_pred             CcccccccccccccCCCceeec--CCCCc-chHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKL--DCKHT-FHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~--~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .++..|.||++..   ...+.+  +|||. ||..|+..|......||+||+.+..
T Consensus         6 ~~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            6 NAIEPCVICQGRP---KNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGGSCCTTTSSSC---SCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCcCCCCcCCCCC---CCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            3577899999987   666665  99998 8999999999988899999998854

>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=98.97  E-value=3.8e-10  Score=88.52  Aligned_cols=48  Identities=31%  Similarity=0.711  Sum_probs=43.2

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~  114 (144)
                      ...|+||++.+   ..++.++|||.||..|+..|+. ....||+||+.+...
T Consensus       332 ~~~C~ICle~~---~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSB---CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCC---CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            47899999998   7788899999999999999998 788999999988654

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

Probab=98.95  E-value=4.1e-10  Score=84.15  Aligned_cols=52  Identities=13%  Similarity=0.111  Sum_probs=45.1

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCChh
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~  117 (144)
                      +...|+||++.+   ..|++++|||+||..||..|+.. ..+||+||.++......
T Consensus       207 ~~~~c~i~~~~~---~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~  259 (281)
T 2c2l_A          207 DYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI  259 (281)
T ss_dssp             STTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE
T ss_pred             cccCCcCcCCHh---cCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCc
Confidence            478899999999   88999999999999999999985 44599999999765544

>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=98.94  E-value=4.1e-10  Score=79.06  Aligned_cols=52  Identities=27%  Similarity=0.643  Sum_probs=44.8

Q ss_pred             CCcccccccccccccCCCceeecCCCCcchHhhHHHHhhCC-CCccccccccCCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT-STCPLCRHEFKTDD  115 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~-~~CP~Cr~~~~~~~  115 (144)
                      ..+...|+||++.+   ..++.++|||.||..||..|+... ..||+||..+....
T Consensus        15 ~~~~~~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           15 LESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CCGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCChhh---cCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            34588999999999   778889999999999999999754 49999999987653

>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=98.93  E-value=6e-10  Score=71.13  Aligned_cols=53  Identities=26%  Similarity=0.584  Sum_probs=43.6

Q ss_pred             CcccccccccccccCCCceeecC-CCCcchHhhHHHHhhCC------CCccc--cccc-cCCCChh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD-CKHTFHSTCILPWLEKT------STCPL--CRHE-FKTDDAD  117 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~-C~h~f~~~Ci~~~~~~~------~~CP~--Cr~~-~~~~~~~  117 (144)
                      ...+.|+||++.|   ..++.++ |||.||..||..|+...      ..||+  |+.. +...+..
T Consensus         5 ~~~~~CPI~~~~~---~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~   67 (94)
T 2yu4_A            5 SSGFTCPITKEEM---KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLI   67 (94)
T ss_dssp             SSCCBCTTTCSBC---SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEE
T ss_pred             CcEeECcCcCchh---cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCc
Confidence            4478999999999   7889996 99999999999999743      48999  9876 6554444

>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=98.92  E-value=5e-10  Score=66.34  Aligned_cols=48  Identities=19%  Similarity=0.443  Sum_probs=40.8

Q ss_pred             cccccccccccccCCCceeec--CCCCc-chHhhHHHHhhCCCCccccccccCC
Q psy12643         63 PESSCPICLKLFLVGESAKKL--DCKHT-FHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~--~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ....|.||++..   .....+  ||||. ||..|+..|......||+||+++..
T Consensus         6 ~~~~C~IC~~~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRP---RDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSB---SCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcC---CCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            467899999887   555555  99998 9999999999888899999998854

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

Probab=98.90  E-value=1.5e-09  Score=66.29  Aligned_cols=45  Identities=22%  Similarity=0.518  Sum_probs=38.7

Q ss_pred             ccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ...|+||++.+   ..++.++|||. ||..|+..    ...||+||+.+....
T Consensus        25 ~~~C~IC~~~~---~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~~   70 (75)
T 2ecg_A           25 EKLCKICMDRN---IAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFKQ   70 (75)
T ss_dssp             HHSCSSSCSSC---CCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCCC
T ss_pred             CCCCCcCCCCC---CCEEEecCCCHHHHHHHhhC----CCCCccCCceecCcE
Confidence            77899999988   77888999999 99999864    478999999987643

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

Probab=98.87  E-value=4.1e-09  Score=74.74  Aligned_cols=54  Identities=15%  Similarity=0.089  Sum_probs=46.4

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCChhH
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDADY  118 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~  118 (144)
                      .+.+.|+||++.+   ..|+.++|||.|+..||..|+.. ..+||+|+.++.......
T Consensus       104 p~~f~CPI~~elm---~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~p  158 (179)
T 2f42_A          104 PDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIP  158 (179)
T ss_dssp             CGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEE
T ss_pred             cHhhcccCccccC---CCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcc
Confidence            3478999999999   88999999999999999999985 347999999998765553

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.81  E-value=4.4e-09  Score=78.35  Aligned_cols=54  Identities=28%  Similarity=0.525  Sum_probs=45.1

Q ss_pred             CCcccccccccccccCCCceeec-CCCCcchHhhHHHHhhCC--CCccc--cccccCCCChh
Q psy12643         61 HEPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKT--STCPL--CRHEFKTDDAD  117 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~--~~CP~--Cr~~~~~~~~~  117 (144)
                      ......|+||++.|   ..|+.. .|||.||..||..|+...  ..||+  |++.+...+..
T Consensus       178 ~~~el~CPIcl~~f---~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~  236 (267)
T 3htk_C          178 GKIELTCPITCKPY---EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFV  236 (267)
T ss_dssp             SBCCSBCTTTSSBC---SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEE
T ss_pred             CceeeECcCccCcc---cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCC
Confidence            34588999999999   777764 899999999999999753  47999  99988776655

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

Probab=98.68  E-value=1.1e-08  Score=61.38  Aligned_cols=47  Identities=26%  Similarity=0.591  Sum_probs=39.3

Q ss_pred             CCcccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccCCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ..+...|.||++..   ..++.+||+|. ||..|+..    ...||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           12 EENSKDCVVCQNGT---VNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCCSSCCSSSSSSC---CCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCCcCcCC---CCEEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            34478899999887   77888999999 99999874    47899999988653

>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=98.68  E-value=6.8e-09  Score=64.14  Aligned_cols=44  Identities=23%  Similarity=0.541  Sum_probs=38.1

Q ss_pred             ccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ...|.||++.+   ..++.+||||. ||..|+..|    ..||+||+.+...
T Consensus        18 ~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEE---INSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSB---CCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCccc---CcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            67899999988   77888999999 999998765    4899999988654

>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=98.57  E-value=3.8e-08  Score=76.38  Aligned_cols=44  Identities=27%  Similarity=0.639  Sum_probs=39.3

Q ss_pred             ccccccccccccCCCceeecCCCCc-chHhhHHHHhhCCCCccccccccCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHT-FHSTCILPWLEKTSTCPLCRHEFKTD  114 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~-f~~~Ci~~~~~~~~~CP~Cr~~~~~~  114 (144)
                      ...|+||++.+   ..++.++|||. ||..|+..|    ..||+||..+...
T Consensus       295 ~~~C~IC~~~~---~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          295 ERTCKVCMDKE---VSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TCBCTTTSSSB---CCEEEETTCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCccCCcC---CceEEcCCCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            78999999998   78888999999 999999876    7899999988654

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

Probab=98.56  E-value=6.9e-08  Score=56.51  Aligned_cols=49  Identities=24%  Similarity=0.670  Sum_probs=38.3

Q ss_pred             CcccccccccccccCCCceeecCCC--C---cchHhhHHHHhh--CCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCK--H---TFHSTCILPWLE--KTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~--h---~f~~~Ci~~~~~--~~~~CP~Cr~~~~~  113 (144)
                      ++...|.||++..   .....+||.  +   .||..|+.+|+.  ....||+|+..+..
T Consensus         4 ~~~~~CrIC~~~~---~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL---GNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC---SCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC---CCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4577899999874   334567854  4   899999999997  46789999998764

>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=98.53  E-value=4.3e-08  Score=62.25  Aligned_cols=49  Identities=24%  Similarity=0.649  Sum_probs=36.4

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC--------CCCccc--cccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK--------TSTCPL--CRHE  110 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~--------~~~CP~--Cr~~  110 (144)
                      +....|+||++.+.........+|||.||..|+..|+..        ...||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            346789999998843222222479999999999999862        236999  9988

>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=98.53  E-value=2.8e-08  Score=58.38  Aligned_cols=50  Identities=12%  Similarity=0.254  Sum_probs=43.7

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      .+.|+|+.+.+   ..++.+ ++||.|...||.+|+....+||+.+.++..++.
T Consensus         3 ~~~CpIs~~~m---~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             eEEecCCCCCC---CCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            46799999999   778888 899999999999999977789999999876554

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

Probab=98.52  E-value=2e-08  Score=77.41  Aligned_cols=53  Identities=28%  Similarity=0.723  Sum_probs=40.0

Q ss_pred             CcccccccccccccC-CCceee----cCCCCcchHhhHHHHhhCC-----------CCccccccccCCC
Q psy12643         62 EPESSCPICLKLFLV-GESAKK----LDCKHTFHSTCILPWLEKT-----------STCPLCRHEFKTD  114 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~-~~~~~~----~~C~h~f~~~Ci~~~~~~~-----------~~CP~Cr~~~~~~  114 (144)
                      +....|+||+..+.. +..+..    ..|+|.||..|+.+|+...           ..||.||+++..+
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            347789999998865 322222    3699999999999999731           3699999988653

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

Probab=98.08  E-value=2.9e-06  Score=54.05  Aligned_cols=46  Identities=22%  Similarity=0.483  Sum_probs=36.0

Q ss_pred             ccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCC
Q psy12643         66 SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKT  113 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~  113 (144)
                      .|.+|-..+.  ...+.+||.|.||.+|+..|.+ ..+.||.|+.++..
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4778866652  3445569999999999999986 56889999998754

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

Probab=97.66  E-value=2.9e-05  Score=57.28  Aligned_cols=51  Identities=22%  Similarity=0.617  Sum_probs=39.4

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhCC--CCccccccccCCCC
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT--STCPLCRHEFKTDD  115 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~--~~CP~Cr~~~~~~~  115 (144)
                      .-..|.||.+....+.  ..-.|++.||..|+..|+...  ..||.|+..++...
T Consensus       179 ~i~~C~iC~~iv~~g~--~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~  231 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI  231 (238)
T ss_dssp             TCCBCTTTCSBCSSCE--ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCC
T ss_pred             CCCcCcchhhHHhCCc--ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            3677999999885332  222499999999999999754  48999999887654

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

Probab=94.49  E-value=0.02  Score=35.91  Aligned_cols=32  Identities=19%  Similarity=0.456  Sum_probs=24.8

Q ss_pred             ccccccccccccCCCceee--cCCCCcchHhhHHHH
Q psy12643         64 ESSCPICLKLFLVGESAKK--LDCKHTFHSTCILPW   97 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~--~~C~h~f~~~Ci~~~   97 (144)
                      +..|.||.+.+.  ..++.  +.|+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~--~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPA--QDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSC--CBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCC--CCceEECCcCChHHhHHHCHHH
Confidence            578999997532  34444  789999999999973

>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=92.13  E-value=0.25  Score=42.93  Aligned_cols=53  Identities=21%  Similarity=0.235  Sum_probs=46.7

Q ss_pred             ccccccccccccCCCceeecCCC-CcchHhhHHHHhhCCCCccccccccCCCChhHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCK-HTFHSTCILPWLEKTSTCPLCRHEFKTDDADYE  119 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~-h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~  119 (144)
                      .+.|+|-.+.+   ..|+.++.| +.|-...|.+|+....+||.-|.++...+..-.
T Consensus       891 ~F~cPIs~~lM---~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN  944 (968)
T 3m62_A          891 EFLDPLMYTIM---KDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPN  944 (968)
T ss_dssp             GGBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEEC
T ss_pred             HhCCcchhhHH---hCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccccccc
Confidence            78899999999   889999987 699999999999988899999999987765533

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

Probab=90.79  E-value=0.17  Score=29.52  Aligned_cols=45  Identities=22%  Similarity=0.549  Sum_probs=30.7

Q ss_pred             CcccccccccccccCCCceee-cCCCCcchHhhHHHHhhCC----CCccccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEKT----STCPLCRHE  110 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~~----~~CP~Cr~~  110 (144)
                      .....|.||.+.    ...+. -.|...||..|+...+...    -.|+.|...
T Consensus        10 ~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           10 APGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            346779999753    22222 2599999999997666533    259999764

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=87.71  E-value=0.44  Score=33.42  Aligned_cols=50  Identities=24%  Similarity=0.451  Sum_probs=33.9

Q ss_pred             ccccccccccccCCCc---eeec-CCCCcchHhhHHH------Hhh-----CCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGES---AKKL-DCKHTFHSTCILP------WLE-----KTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~---~~~~-~C~h~f~~~Ci~~------~~~-----~~~~CP~Cr~~~~~  113 (144)
                      ...|+||...+..++.   .+.- .|...||..|+.-      .+.     ....||.|+..-+.
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            3569999998865442   3333 5999999999731      111     25689999876553

>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=87.70  E-value=0.12  Score=29.76  Aligned_cols=49  Identities=22%  Similarity=0.438  Sum_probs=32.0

Q ss_pred             CcccccccccccccCCCceeec-CCCCcchHhhHHHHhh-----CCCCccccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE-----KTSTCPLCRHE  110 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~-----~~~~CP~Cr~~  110 (144)
                      .+...|+||...+..+...+.- .|...||..|+.--..     ....||.|+..
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            4467799998877433333333 5899999999742211     34569999754

>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=86.93  E-value=0.63  Score=28.47  Aligned_cols=34  Identities=18%  Similarity=0.393  Sum_probs=22.0

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHH
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPW   97 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~   97 (144)
                      .+..|.||--.- .+.....--|+..||..|+.+.
T Consensus        14 ~D~~C~VC~~~t-~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEVWT-AESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCCCC-SSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCcccccc-ccceeccccccccccHhhcccc
Confidence            488899995322 1111111237999999999986

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=86.15  E-value=1.8  Score=26.21  Aligned_cols=37  Identities=16%  Similarity=0.230  Sum_probs=28.5

Q ss_pred             CcccccccccccccCCCceeecC--CCCcchHhhHHHHhh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD--CKHTFHSTCILPWLE   99 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~--C~h~f~~~Ci~~~~~   99 (144)
                      .....|.+|.+.++. .+.++-|  =.|.||..|-...++
T Consensus        13 ~a~l~CtlC~erLEd-tHFVQCPsv~~HkFCFpCsr~sIk   51 (93)
T 2cs3_A           13 SGPLCCTICHERLED-THFVQCPSVPSHKFCFPCSRESIK   51 (93)
T ss_dssp             CCSCCCSSSCSCCSS-TTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CCeeEeecchhhhcc-CceeeCCCccCCeeeccccHHHHH
Confidence            447889999999843 4555555  379999999988877

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=85.92  E-value=0.49  Score=29.64  Aligned_cols=45  Identities=22%  Similarity=0.286  Sum_probs=27.7

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhh---CCCCccccccc
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE---KTSTCPLCRHE  110 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~---~~~~CP~Cr~~  110 (144)
                      ...| ||......+ ..+.- .|...||..|+..-..   ....||.|+..
T Consensus        28 ~vrC-iC~~~~~~~-~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           28 VTRC-ICGFTHDDG-YMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             BCCC-TTSCCSCSS-CEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             CEEe-ECCCccCCC-cEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            4567 887654322 22222 5999999999854222   23469999743

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

Probab=83.02  E-value=0.75  Score=24.94  Aligned_cols=43  Identities=28%  Similarity=0.594  Sum_probs=25.8

Q ss_pred             ccccccccccCCCceee-cCCCCcchHhhHHHHhhC----CCCcccccc
Q psy12643         66 SCPICLKLFLVGESAKK-LDCKHTFHSTCILPWLEK----TSTCPLCRH  109 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~-~~C~h~f~~~Ci~~~~~~----~~~CP~Cr~  109 (144)
                      .|.||...-.. ...+. -.|...||..|+..-+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            47888754321 12222 258899999999643332    224888864

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

Probab=81.35  E-value=0.83  Score=25.93  Aligned_cols=44  Identities=25%  Similarity=0.667  Sum_probs=29.2

Q ss_pred             CcccccccccccccCCCceeec-CCCCcchHhhHHHHhhC----CCCcccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEK----TSTCPLCRH  109 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~----~~~CP~Cr~  109 (144)
                      ..+..|.+|...    ...+.- .|...||..|+..-+..    .-.||.|+.
T Consensus         9 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            346789999763    222222 58899999999764432    225999965

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

Probab=80.81  E-value=0.57  Score=27.62  Aligned_cols=48  Identities=27%  Similarity=0.445  Sum_probs=30.9

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhh----CCCCccccccccC
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE----KTSTCPLCRHEFK  112 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~----~~~~CP~Cr~~~~  112 (144)
                      ...|.||..... +...+.- .|...||..|+..-..    ..-.||.|+..+.
T Consensus        18 ~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           18 IWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            566999987642 2222222 5899999999864333    2346999976554

---

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	144
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-14
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	8e-10
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 60.3 bits (146), Expect = 5e-14
 Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 60  SHEPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHE 110
           + +    C +CL     GE A+ L  C H FH+ C+  WL   STCPLCR  
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>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 = 60.3 bits (146), Expect = 6e-14
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 8/63 (12%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT------DDADYEA 120
           CPICL+       +  L C H F   CI  W+ +  TCPLC+   ++       D+++  
Sbjct: 8   CPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESDSEFGD 65

Query: 121 YKV 123
             +
Sbjct: 66  QLI 68

>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 = 2e-10
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
           C IC +     +  K   C H   ++C+  W E +   CP CR E K  +
Sbjct: 26  CKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 72

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.1 bits (119), Expect = 8e-10
 Identities = 15/65 (23%), Positives = 21/65 (32%), Gaps = 15/65 (23%)

Query: 63  PESSCPICLKLFL---------------VGESAKKLDCKHTFHSTCILPWLEKTSTCPLC 107
              +C IC    +                  +     C H FH  CI  WL+    CPL 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 108 RHEFK 112
             E++
Sbjct: 80  NREWE 84

>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 = 47.2 bits (112), Expect = 1e-08
 Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 4/51 (7%)

Query: 66  SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
           SC IC  +        +  CKH F   CIL  L+   S CP CR+     D
Sbjct: 25  SCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 46.7 bits (110), Expect = 1e-08
 Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 3/55 (5%)

Query: 64  ESSCPICLKLFLVGESAKKL--DCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
           +  CP C        S K +   C HT   +C+          CP C    +  +
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 4e-08
 Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 2/51 (3%)

Query: 66  SCPICLKLFLVGESA-KKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTD 114
            CP+C++   + +       C +     C       +   CP CR  +  D
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 5e-08
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 7/68 (10%)

Query: 52  VKSLQEVTSHEPES-SCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE---KTSTCPLC 107
           V+ +Q V +   +   CPICL+L    +      C H F   C+L  L      S CPLC
Sbjct: 8   VEEVQNVINAMQKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLC 64

Query: 108 RHEFKTDD 115
           +++     
Sbjct: 65  KNDITKRS 72

>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 = 43.7 bits (103), Expect = 1e-07
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 6/45 (13%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEF 111
           C  C       +  K L C HT  S C+         CP+C+  +
Sbjct: 9   CQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPW 47

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 41.4 bits (96), Expect = 1e-06
 Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 4/56 (7%)

Query: 62  EPESSCPICLKLFLVGE--SAKKLDCKHTFHSTCILPWLEKT--STCPLCRHEFKT 113
           E    C IC +        +          H +C+  WL  +  + C +C   + T
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT 59

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.7 bits (97), Expect = 2e-06
 Identities = 15/73 (20%), Positives = 23/73 (31%), Gaps = 4/73 (5%)

Query: 43  LPPPASKAFVKSLQEVTSHEPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTS 102
           + P    A+  S   +   E    C  C  +           C+H F S C+   +    
Sbjct: 1   MEPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDCIGT-- 56

Query: 103 TCPLCRHEFKTDD 115
            CP+C       D
Sbjct: 57  GCPVCYTPAWIQD 69

>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 = 3e-06
 Identities = 16/80 (20%), Positives = 25/80 (31%), Gaps = 20/80 (25%)

Query: 52  VKSLQEVTSHEPESSCPICLKLFLVGESA---------------KKLDCKHTFHSTCILP 96
           ++   E     PE  C IC++   V                   +   C H FH  C+L 
Sbjct: 13  IRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLA 72

Query: 97  WLEK-----TSTCPLCRHEF 111
                    +  CP C+  +
Sbjct: 73  MYCNGNKDGSLQCPSCKTIY 92

>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 = 37.4 bits (86), Expect = 3e-05
 Identities = 6/49 (12%), Positives = 16/49 (32%), Gaps = 2/49 (4%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD 115
           C I  K+            +  F  + +  +++ T   P+       ++
Sbjct: 3   CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 49

>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 = 37.8 bits (87), Expect = 5e-05
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 8/55 (14%)

Query: 62  EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE--------KTSTCPLCR 108
              S C +CL  + V +      C+  F + C+  ++E           +CP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 33.1 bits (75), Expect = 0.002
 Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 4/50 (8%)

Query: 67  CPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD 115
           CPI L+L    +    +    T+  + I  WL+    TCP  +       
Sbjct: 11  CPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG 57

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	144
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.57
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.43
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.4
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.38
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.38
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.36
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.35
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.3
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.28
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.28
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.23
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.2
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.16
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.16
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.06
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.03
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.37
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.65
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	89.56
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	88.18
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	88.04
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	84.26

>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=99.57  E-value=6.2e-16  Score=88.45  Aligned_cols=51  Identities=41%  Similarity=0.881  Sum_probs=44.8

Q ss_pred             CcccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccC
Q psy12643         62 EPESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFK  112 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~  112 (144)
                      +++.+|+||++.+..++....+ .|+|.||..||.+|+..+.+||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4567899999999877777766 59999999999999999999999999764

>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=99.43  E-value=3.2e-14  Score=84.56  Aligned_cols=48  Identities=35%  Similarity=0.864  Sum_probs=41.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      .+.|+||++.+.  ...+.++|||.||..||.+|+..+.+||+||+++..
T Consensus         5 ~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            567999999983  345668999999999999999999999999998753

>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=99.40  E-value=1.5e-13  Score=83.88  Aligned_cols=49  Identities=31%  Similarity=0.715  Sum_probs=42.9

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+. +...||+||+.+....
T Consensus        23 ~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSB---CCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcC---CCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            45799999998   7788899999999999999997 5678999999997654

>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=99.38  E-value=3.1e-13  Score=87.81  Aligned_cols=72  Identities=22%  Similarity=0.558  Sum_probs=50.7

Q ss_pred             CCcHHHHHhhccccCCCcccccccccccccCC---------------CceeecCCCCcchHhhHHHHhhC-----CCCcc
Q psy12643         46 PASKAFVKSLQEVTSHEPESSCPICLKLFLVG---------------ESAKKLDCKHTFHSTCILPWLEK-----TSTCP  105 (144)
Q Consensus        46 ~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~---------------~~~~~~~C~h~f~~~Ci~~~~~~-----~~~CP  105 (144)
                      +.+...+...........+..|+||++.+...               .....++|+|.||..||..|+..     ..+||
T Consensus         7 ~~pe~v~~~~~e~~~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP   86 (114)
T d1v87a_           7 GEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP   86 (114)
T ss_dssp             CCHHHHHHHHEEECSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCT
T ss_pred             CCCHHHHHHHHHHhcccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccc
Confidence            34445555554444444577899999987432               12355789999999999999973     24799


Q ss_pred             ccccccCCCChh
Q psy12643        106 LCRHEFKTDDAD  117 (144)
Q Consensus       106 ~Cr~~~~~~~~~  117 (144)
                      +||+.+..+...
T Consensus        87 ~CR~~~~~~~~~   98 (114)
T d1v87a_          87 SCKTIYGEKTGT   98 (114)
T ss_dssp             TTCCBSSSCSSS
T ss_pred             cccchhccCcCC
Confidence            999988776543

>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=99.38  E-value=8.9e-14  Score=78.37  Aligned_cols=49  Identities=18%  Similarity=0.524  Sum_probs=39.8

Q ss_pred             cccccccccccCCCc-eeecCCCCcchHhhHHHHhhC-CCCccccccccCC
Q psy12643         65 SSCPICLKLFLVGES-AKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKT  113 (144)
Q Consensus        65 ~~C~IC~~~~~~~~~-~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~  113 (144)
                      .+|+||++.+..+.. ...++|||.||..|+.+|+.. +..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            379999999865443 344589999999999999984 5579999999875

>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=99.36  E-value=3.7e-13  Score=79.19  Aligned_cols=53  Identities=19%  Similarity=0.458  Sum_probs=41.1

Q ss_pred             cccccccccccccCC--CceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCC
Q psy12643         63 PESSCPICLKLFLVG--ESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDD  115 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~--~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~  115 (144)
                      ++..|+||++.+..+  .....++|||.||..||..|+. .+..||+||+.+....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            468899999865322  2335568999999999999996 4568999999986543

>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=99.35  E-value=2.7e-13  Score=83.91  Aligned_cols=51  Identities=35%  Similarity=0.700  Sum_probs=44.5

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~  117 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+. +...||+||.++...+..
T Consensus        23 ~l~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          23 SISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             CcCCccCCcch---hcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            57899999999   7889999999999999999997 667899999998765543

>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=99.30  E-value=1e-12  Score=81.68  Aligned_cols=52  Identities=29%  Similarity=0.582  Sum_probs=41.8

Q ss_pred             CcccccccccccccCCC---------------ceeecCCCCcchHhhHHHHhhCCCCccccccccCC
Q psy12643         62 EPESSCPICLKLFLVGE---------------SAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKT  113 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~---------------~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~  113 (144)
                      ...+.|+||++.+....               ....++|+|.||..||.+|+..+.+||+||+.+..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            34667999988774322               24556899999999999999999999999998764

>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=99.28  E-value=1e-12  Score=83.94  Aligned_cols=50  Identities=34%  Similarity=0.848  Sum_probs=42.7

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCC---CCccccccccCCCCh
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKT---STCPLCRHEFKTDDA  116 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~---~~CP~Cr~~~~~~~~  116 (144)
                      ...|+||++.+   ..++.++|||.||..||..|+...   ..||.||..+...+.
T Consensus        21 ~l~CpIC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          21 ILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HTSCSSSCCCC---SSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CcCCCccCchh---CCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            67899999999   677889999999999999999744   479999998865543

>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=99.28  E-value=4.3e-13  Score=76.63  Aligned_cols=48  Identities=13%  Similarity=0.272  Sum_probs=42.7

Q ss_pred             ccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCCh
Q psy12643         66 SCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDA  116 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~  116 (144)
                      .|+||++.+   ..++.+ .|||.||..||.+|+..+..||+||+++..++.
T Consensus         2 ~C~Ic~~~~---~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCC---SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCccCCchH---HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            699999999   778777 599999999999999999999999999876554

>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=99.23  E-value=3.9e-12  Score=77.58  Aligned_cols=52  Identities=13%  Similarity=0.083  Sum_probs=45.6

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhh-CCCCccccccccCCCChh
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLE-KTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~  117 (144)
                      +.+.|+||++.+   ..++.++|||.||..||..|+. ....||.|+.++...+..
T Consensus         6 ~~l~CpIc~~l~---~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~   58 (80)
T d2c2la2           6 DYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI   58 (80)
T ss_dssp             STTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE
T ss_pred             ccccCcCcCchh---hhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccc
Confidence            478999999999   8888999999999999999997 566899999998766544

>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=99.20  E-value=6.8e-12  Score=79.18  Aligned_cols=49  Identities=24%  Similarity=0.604  Sum_probs=40.8

Q ss_pred             ccccccccccccCCCceeec-CCCCcchHhhHHHHhhCCCCccccccccCCCChh
Q psy12643         64 ESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKTSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  117 (144)
                      ...|+||++.+   ..++.+ +|||.||..||..|+.  ..||.||..+...+..
T Consensus        22 ~l~C~IC~~~~---~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~   71 (97)
T d1jm7b_          22 LLRCSRCTNIL---REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLK   71 (97)
T ss_dssp             TTSCSSSCSCC---SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCC
T ss_pred             cCCCccCCchh---hcCceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCc
Confidence            78999999999   666654 7999999999999974  4699999988766544

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.16  E-value=1.4e-11  Score=74.64  Aligned_cols=52  Identities=23%  Similarity=0.507  Sum_probs=45.7

Q ss_pred             cccccccccccccCCCceeecCCCCcchHhhHHHHhhC-CCCccccccccCCCChh
Q psy12643         63 PESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-TSTCPLCRHEFKTDDAD  117 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~  117 (144)
                      +++.|+||++.+   ..++.++|||.||..||..|+.. ...||.|+.++...+..
T Consensus         7 ~~l~CpIc~~~m---~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~   59 (78)
T d1t1ha_           7 EYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             SSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             ccCCCcCcCchh---hCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCccccc
Confidence            489999999999   88889999999999999999975 56799999998876543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=2.2e-12  Score=73.50  Aligned_cols=46  Identities=26%  Similarity=0.540  Sum_probs=38.9

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCccccccccCCCC
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLCRHEFKTDD  115 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~  115 (144)
                      ...|+||++.+   ..++.++|||.||..||.+|   ...||+||+.+....
T Consensus         6 ~l~C~IC~~~~---~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           6 FLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSC---BCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCcccCccc---CCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            46899999998   67788999999999998653   668999999987543

>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=99.06  E-value=6.6e-11  Score=68.14  Aligned_cols=50  Identities=22%  Similarity=0.545  Sum_probs=38.7

Q ss_pred             CCcccccccccccccCCCceeecC-----CCCcchHhhHHHHhh--CCCCccccccccCC
Q psy12643         61 HEPESSCPICLKLFLVGESAKKLD-----CKHTFHSTCILPWLE--KTSTCPLCRHEFKT  113 (144)
Q Consensus        61 ~~~~~~C~IC~~~~~~~~~~~~~~-----C~h~f~~~Ci~~~~~--~~~~CP~Cr~~~~~  113 (144)
                      .++...|.||++.+.   .....+     |+|.||..||..|+.  +..+||+||+++..
T Consensus         3 ded~~~C~IC~~~~~---~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELG---NERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECS---CCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCC---CceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            345788999999873   333333     469999999999996  56689999998864

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=9.7e-11  Score=73.93  Aligned_cols=57  Identities=21%  Similarity=0.125  Sum_probs=49.0

Q ss_pred             ccccccccccccCCCceeecCCC-CcchHhhHHHHhhCCCCccccccccCCCChhHHHHHH
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCK-HTFHSTCILPWLEKTSTCPLCRHEFKTDDADYEAYKV  123 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~-h~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~  123 (144)
                      .+.|+||.+.+   ..+++++|+ |.|+..||..|+..+..||+|+.++..+++......+
T Consensus        22 ~f~CPI~~~lm---~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr   79 (98)
T d1wgma_          22 EFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELK   79 (98)
T ss_dssp             TTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHH
T ss_pred             HhCCcCchhHH---HHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHH
Confidence            79999999999   889999865 5899999999999999999999999887766444443

>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=98.37  E-value=8e-08  Score=59.44  Aligned_cols=48  Identities=23%  Similarity=0.551  Sum_probs=35.8

Q ss_pred             CcccccccccccccCCCceeecCCCCcchHhhHHHHhhC-----C---CCcccccc
Q psy12643         62 EPESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEK-----T---STCPLCRH  109 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~-----~---~~CP~Cr~  109 (144)
                      .....|+||++.+...+.+..++|+|.||..|+..|+..     .   -.||.|+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            346789999998854344555689999999999999961     1   15998654

>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=90.65  E-value=0.066  Score=28.02  Aligned_cols=43  Identities=28%  Similarity=0.614  Sum_probs=27.0

Q ss_pred             ccccccccccCCCceeec-CCCCcchHhhHHHHhhCC----CCcccccc
Q psy12643         66 SCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLEKT----STCPLCRH  109 (144)
Q Consensus        66 ~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~~~----~~CP~Cr~  109 (144)
                      .|.||...-.. ...+.- .|...||..|+..-+...    -.|+.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            57888654321 222222 599999999997654422    25898875

>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=89.56  E-value=0.046  Score=30.10  Aligned_cols=49  Identities=22%  Similarity=0.424  Sum_probs=32.2

Q ss_pred             cccccccccccccCCCceeec-CCCCcchHhhHHHHhh-----CCCCcccccccc
Q psy12643         63 PESSCPICLKLFLVGESAKKL-DCKHTFHSTCILPWLE-----KTSTCPLCRHEF  111 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~-~C~h~f~~~Ci~~~~~-----~~~~CP~Cr~~~  111 (144)
                      ....|.+|......+...+.- .|+..||..|+..-..     ....||.|+..-
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~   59 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcC
Confidence            467899998876443333333 5999999999842111     234699997643

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.18  E-value=0.6  Score=26.16  Aligned_cols=36  Identities=17%  Similarity=0.235  Sum_probs=27.5

Q ss_pred             cccccccccccccCCCceeecC--CCCcchHhhHHHHhh
Q psy12643         63 PESSCPICLKLFLVGESAKKLD--CKHTFHSTCILPWLE   99 (144)
Q Consensus        63 ~~~~C~IC~~~~~~~~~~~~~~--C~h~f~~~Ci~~~~~   99 (144)
                      ....|.+|.+.++. .+.++-|  =+|.||..|-...++
T Consensus         7 ~~l~CtlC~erLEd-tHFVQCPsv~~HkFCFpCsr~sik   44 (80)
T d2cs3a1           7 GPLCCTICHERLED-THFVQCPSVPSHKFCFPCSRESIK   44 (80)
T ss_dssp             CSCCCSSSCSCCSS-TTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CceeeeeehhhhcC-CceEeCCCCcCCceeccccHHHHH
Confidence            35789999999843 4455554  389999999988876

>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=88.04  E-value=0.25  Score=28.66  Aligned_cols=33  Identities=18%  Similarity=0.621  Sum_probs=24.1

Q ss_pred             CcccccccccccccCCCceeecC---CCCcchHhhHHHHh
Q psy12643         62 EPESSCPICLKLFLVGESAKKLD---CKHTFHSTCILPWL   98 (144)
Q Consensus        62 ~~~~~C~IC~~~~~~~~~~~~~~---C~h~f~~~Ci~~~~   98 (144)
                      ..+..|.|| +.+   ....++|   |+..||..|+.+.-
T Consensus        13 ~~D~mC~vC-~v~---t~~~l~pCRvCtRv~H~~CL~r~g   48 (89)
T d1wila_          13 VNDEMCDVC-EVW---TAESLFPCRVCTRVFHDGCLRRMG   48 (89)
T ss_dssp             CCSCCCTTT-CCC---CSSCCSSCSSSSSCCCHHHHHHHT
T ss_pred             CcCcccccc-Ccc---cccceecceeecchhhHHHHHHhc
Confidence            348889999 666   3333444   78999999999873

>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=84.26  E-value=0.28  Score=26.55  Aligned_cols=44  Identities=20%  Similarity=0.336  Sum_probs=28.4

Q ss_pred             ccccccccccccCCCceeecCCCCcchHhhHHHHhhCCCCcccc
Q psy12643         64 ESSCPICLKLFLVGESAKKLDCKHTFHSTCILPWLEKTSTCPLC  107 (144)
Q Consensus        64 ~~~C~IC~~~~~~~~~~~~~~C~h~f~~~Ci~~~~~~~~~CP~C  107 (144)
                      ...|.-|+..+.......-..|++.||.+|=.-.-..-..||-|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            56788898887422122223599999999954322355679887