Citrus Sinensis ID: 017319

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370---
Protein Sequence
MSAVQDRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVRFQTNPAGELASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHccccccccHHHcccccccccccccccccccEEEccccccHHHHHHHHHHcccccccccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHHHccccccccccccccHHHHHHcccccccccccccHHHHHHHHHHHHHHHccccEccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccccccccccHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccEEEEEEEccccEEEEccccHHHHHHHHHHHHHcccccccHHHHHHHHHHc
Coil and Loop (DISEMBL)
msavqdrrdplagltldailtnkrpspppapagrtlldiirdedpngknfghkdrkSWKLFRDRLRLKRAgaawtssvriptsdipipssslsnsnprsqlirrssvrfqtnpagelasqlednrgappqfarrpsskvassspgptqsshhedspegegsptrssrqpqlsrhnstrveaasntvsednsvdpfdvarEGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEaeaeaaepvqprqprmsLMDLLEETDRqmglegsryavgededeeeeDEAEAEAegeyeeegddveenaggiehnccvcmvrhkgaafipcghtfCRLCSRElwvqrgncplcngfILEILDIF
Flexible Loop (DISEMBL)
msavqdrrdplagltldailtnkrpspppapAGRTLLDIIRdedpngknfghkdrkswklFRDRLRLKRagaawtssvriptsdipipssslsnsnprsQLIRRSSVRFQTNPAGElasqlednrgaPPQFarrpsskvassspgptqsshhedspegegsptrssrqpqlsrhnstrveaasntvsednsvdpfDVAREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEaeaaepvqprqprmSLMDLLEETDRQmglegsryavgededeeeEDEAEAeaegeyeeegddVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Low Complexity Region (SEG)
MSAVQDRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRLKRAGAAWTSSVRiptsdipipssslsnsnprsQLIRRSSVRFQTNPAGELASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAReavaaqeaaeaeaaaaeaeaeaeaeasvqveaeaeaaePVQPRQPRMSLMDLLEETDRQMGLEGSRyavgededeeeedeaeaeaegeyeeegddveenaggIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Disordered region (IsUnstruct)
********************************************************SWKLFRDRLRLKRAGAAWTSS********************************************************************************************************************************AVV**************************************************************************************************************GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDI*
Disordered Region (DISOPRED)
***********AGLTL*****************************************************************************************************************************************************************************************************************************************************************************************************************EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Disordered Region (DISEMBL)
********DPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIP************LIRRSSVRFQTNPAGELASQLED*****************************************************************DNSVDPFDVAREGTRRLAVVLAQER***********************************************RQPRMSLMDLLEETDRQMGLEGSRYA****************************EENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Disordered Region (DISPRO)
*************LTLD*ILTNK**********RTLL*IIRDEDP*****GHKDRKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIPS****************SVRFQTNPAGELASQLEDNRGAPPQFAR************************************************************************AVVLAQERQLSAREAVAAQEAAEAE******************************************************************************************IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSAVQDRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVRFQTNPAGELASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGxxxxxxxxxxxxxxxxxxxxxEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF
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	373	2.2.26 [Sep-21-2011]
Q8LA32	359	Probable E3 ubiquitin-pro	no	no	0.152	0.158	0.383	0.0009

>sp|Q8LA32|LUL4_ARATH Probable E3 ubiquitin-protein ligase LUL4 OS=Arabidopsis thaliana GN=LUL4 PE=2 SV=1

 Score = 45.1 bits (105), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 34/60 (56%), Gaps = 3/60 (5%)

Query: 314 VEENAGGIEHNCCVCMVRHKGAAFIPCGH-TFCRLCSRELWVQRGNCPLCNGFILEILDI 372
           ++E+  G E  C +CM   K  A +PC H   C  C++EL +Q   CP+C   I E+L+I
Sbjct: 293 LDESGSGTE--CVICMTEAKDTAVLPCRHLCMCSDCAKELRLQSNKCPICRQPIEELLEI 350

Acts as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates (in vitro).
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .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	373
224065379	396	predicted protein [Populus trichocarpa]	0.914	0.861	0.539	4e-83
255560129	370	hypothetical protein RCOM_1719530 [Ricin	0.911	0.918	0.542	4e-76
449443724	342	PREDICTED: uncharacterized protein LOC10	0.868	0.947	0.445	5e-61
359495531	335	PREDICTED: uncharacterized protein LOC10	0.801	0.892	0.451	1e-59
359495529	329	PREDICTED: uncharacterized protein LOC10	0.801	0.908	0.451	1e-59
356566325	345	PREDICTED: uncharacterized protein LOC10	0.820	0.886	0.419	1e-59
357460827	340	Zinc finger-like protein [Medicago trunc	0.860	0.944	0.415	6e-57
147809369	326	hypothetical protein VITISV_001939 [Viti	0.801	0.917	0.443	1e-56
356524487	343	PREDICTED: uncharacterized protein LOC10	0.801	0.871	0.409	3e-56
449453419	343	PREDICTED: uncharacterized protein LOC10	0.857	0.932	0.431	6e-53

>gi|224065379|ref|XP_002301791.1| predicted protein [Populus trichocarpa] gi|222843517|gb|EEE81064.1| predicted protein [Populus trichocarpa]

 Score =  314 bits (805), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 206/382 (53%), Positives = 251/382 (65%), Gaps = 41/382 (10%)

Query: 15  TLDAILTNKRPSPPPAPAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRLKRAGAAW 74
           TL+ IL+ ++    P  A RTLLDIIRDE+ +G  FGHKD+KSWK FRD+LRLKRAG+AW
Sbjct: 33  TLETILSMEKQ---PGQANRTLLDIIRDEE-SGSLFGHKDKKSWKAFRDKLRLKRAGSAW 88

Query: 75  TSSVRIPTSDIPIP------SSSLSNSNPRSQLIRRSSVRFQTNPAGELASQLE---DNR 125
           TSSV  P SDIPIP      +S+++N++ RS + RR+SVRF T  +  ++ +LE   DN 
Sbjct: 89  TSSVHTPASDIPIPVENRFRNSNINNASSRSLMTRRNSVRF-TTVSSVISPELEESDDNS 147

Query: 126 G----APPQFARRPSSKVASSSPGPTQSSHHEDSPEG------EGSPTRSSRQPQLSRHN 175
           G    + PQ  RR S++  S+       S H   P+       +G P+R  R PQ+SRHN
Sbjct: 148 GIGPSSRPQMTRRSSTRFGSAMLQVQSESTHSGDPDVSIHAVEDGPPSRGFR-PQISRHN 206

Query: 176 STRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAE 235
           STR     +T S++N +DP   AREGT RL   LA+ER LSAREAVAAQEAAEA A    
Sbjct: 207 STRFPVVDSTQSDENDLDP--SAREGTTRLGTALAEERLLSAREAVAAQEAAEAAAQEEA 264

Query: 236 AEAEAEAEAS----VQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDE 291
           A   A    +    + +    E  EPV     RMSLMDLLEETDRQMG EGSRY VG+ E
Sbjct: 265 AATAAAEHEAEEGAMPMPGSTETQEPV-----RMSLMDLLEETDRQMGFEGSRYTVGDLE 319

Query: 292 DEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRE 351
             +++D+ + E E   EE      +   GIE+ CCVCMVRHKGAAFIPCGHTFCRLCSRE
Sbjct: 320 ACDDDDDEDEEEEDGGEEG-----DGVAGIEYTCCVCMVRHKGAAFIPCGHTFCRLCSRE 374

Query: 352 LWVQRGNCPLCNGFILEILDIF 373
           LWVQRGNCPLCNGFILEILDIF
Sbjct: 375 LWVQRGNCPLCNGFILEILDIF 396

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560129|ref|XP_002521082.1| hypothetical protein RCOM_1719530 [Ricinus communis] gi|223539651|gb|EEF41233.1| hypothetical protein RCOM_1719530 [Ricinus communis]

 Score =  291 bits (745), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 211/389 (54%), Positives = 251/389 (64%), Gaps = 49/389 (12%)

Query: 11  LAGLTLDAILTNKRPSPPP---APAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRLRL 67
           LAGLTLDA+L +K+  P P   A   RTLLDIIRDE+P+G  FGHKD+KSWK FRDRLRL
Sbjct: 5   LAGLTLDAVLGDKQAQPTPTATAQMNRTLLDIIRDEEPHGSLFGHKDKKSWKAFRDRLRL 64

Query: 68  KRAGAAWTSSVRIPTSDIPIPSSSLSNSN---PRSQLIRRSSVRFQTNPAGELASQLE-D 123
           KRAGAAWTS+V IP SDIPI +++ + SN    RS + RR+SVRF T  +G+ + +LE D
Sbjct: 65  KRAGAAWTSTVPIPASDIPIYNANSTASNFNQSRSLMSRRNSVRFTTLSSGDHSPRLEED 124

Query: 124 NRG-------------------APPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTR 164
           + G                   A P   RR SS+  SS   P ++ H      G+   +R
Sbjct: 125 DNGYHNNDHPPAPAQAVSVSGSARPFMVRRVSSRYGSSLL-PDENIH----AVGDEPQSR 179

Query: 165 SSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVAAQ 224
           S R PQ+SRHNSTR   +  T   ++ V        G R  A  LA+ER LSAREAVAAQ
Sbjct: 180 SFR-PQMSRHNSTRNGESPFTGGGEDEVAREGGGGSGRRLGAA-LAEERALSAREAVAAQ 237

Query: 225 EAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSR 284
           EAAEAEAAA  A   AE +     E  +  AE  QP   RMSLMDLLEETDRQMG  GSR
Sbjct: 238 EAAEAEAAAQAAAEAAEED-----EGNSPGAEEAQP--VRMSLMDLLEETDRQMGFVGSR 290

Query: 285 YAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTF 344
           Y +G+D++E EE++ + +  G    +G         IEH CCVCMVRHKGAAFIPCGHTF
Sbjct: 291 YTIGDDDEECEEEQEDEDDNGVDGGDG---------IEHTCCVCMVRHKGAAFIPCGHTF 341

Query: 345 CRLCSRELWVQRGNCPLCNGFILEILDIF 373
           CRLCSRELWVQRGNCPLCNGFI+EILDIF
Sbjct: 342 CRLCSRELWVQRGNCPLCNGFIVEILDIF 370

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443724|ref|XP_004139627.1| PREDICTED: uncharacterized protein LOC101222466 [Cucumis sativus] gi|449475393|ref|XP_004154438.1| PREDICTED: uncharacterized LOC101222466 [Cucumis sativus]

 Score =  241 bits (614), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 174/391 (44%), Positives = 218/391 (55%), Gaps = 67/391 (17%)

Query: 1   MSAVQDRRDPLAGLTLDAIL-TNKRPSPPPAPA----GRTLLDIIRDEDPNGKNFGHKDR 55
           M AV D RD   G TL+ +L   KR  P  +PA    GRTLLDIIRD D       +++R
Sbjct: 1   MLAVSDGRDLAGGFTLNDVLAIQKRALPSSSPAVRLHGRTLLDIIRD-DVGKSPVSNRER 59

Query: 56  KSWKLFRDRLRLK-RAGAAWTSSVRIP------------TSDIPIPSSSLSNSNPRSQLI 102
            SWK FRDRLRL  R+    ++S+R P             S  P  ++++S +    Q+ 
Sbjct: 60  TSWKFFRDRLRLSIRSQIPPSNSLRFPGLTSAEMMSNDEHSPEPTTTAAVSAAPSLRQIS 119

Query: 103 RRSSVRFQTNPAGELASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSP 162
           RR+S R   NP+ +                  PSS+  +S+  P     +  +    GS 
Sbjct: 120 RRNSTRL--NPSVQ------------------PSSEATNSNASP----DNNSAAAASGSG 155

Query: 163 TRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVA 222
            RS  +PQ+SRHNSTR     +    ++  D  +  REGTRRL+  LA+ER +SAREAV 
Sbjct: 156 GRSLLRPQMSRHNSTRFSVERS----ESFTDLTEPTREGTRRLSAALAEERSMSAREAVT 211

Query: 223 AQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEG 282
           AQEAA+AEA   E E + E  A               P   RMSLMDLLEETDRQMG EG
Sbjct: 212 AQEAADAEATVDEEEQQQEQVAEST------------PAPVRMSLMDLLEETDRQMGFEG 259

Query: 283 SRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGH 342
           S Y + ++++EEE +   +                +GG E +CCVCMVRHKGAAFIPCGH
Sbjct: 260 STYRIEDEDEEEEIENEVSTTVCGGGG--------SGGTEPHCCVCMVRHKGAAFIPCGH 311

Query: 343 TFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
           TFCRLCSRELWV RGNCPLCNGFILEILDIF
Sbjct: 312 TFCRLCSRELWVSRGNCPLCNGFILEILDIF 342

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495531|ref|XP_003635012.1| PREDICTED: uncharacterized protein LOC100852917 isoform 2 [Vitis vinifera] gi|359495533|ref|XP_003635013.1| PREDICTED: uncharacterized protein LOC100852917 isoform 3 [Vitis vinifera]

 Score =  236 bits (603), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 171/379 (45%), Positives = 208/379 (54%), Gaps = 80/379 (21%)

Query: 6   DRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDE-----DPNGKNFGHKDRKSWKL 60
           D RD  AGLTL A+L  ++  PPP    RTLLDIIRDE     D  G+   + ++ SWK 
Sbjct: 26  DGRDAWAGLTLGAVLGCEK-RPPPGHINRTLLDIIRDESTGYKDVLGQPNNNNNKMSWKS 84

Query: 61  FRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVR---FQTNPAGEL 117
           F+DRLR++RAGAAWTSS+ IP SD+P           RSQL RR S R   + T+P  E 
Sbjct: 85  FKDRLRIRRAGAAWTSSMPIPASDVPT----------RSQLSRRQSTRVTMYTTDPP-EP 133

Query: 118 ASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNST 177
               E++ G P              +P P ++    +             +PQ SR+NS 
Sbjct: 134 TETFEESPGTP-------------ENPLPVEAVQVHN------------LRPQFSRNNSI 168

Query: 178 RVEAASNTVSEDNSVDPFDVAREG---TRRLAVVLAQERQLSAREAVAAQEAAEAEAAAA 234
           R  A S T S  +S        +G   +RRL+  LA+ER+L   E+ AA    + EA   
Sbjct: 169 R--APSRTFSRADSTRLHTGVTDGPVVSRRLSAALAEERELQRAESAAALGGDDDEAGEE 226

Query: 235 EAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEE 294
           E E E E E                    RMSLM LLEETDRQ G+ G  Y + E+EDE+
Sbjct: 227 EDEGEGEEEGPEAAP--------------RMSLMALLEETDRQAGIVGPAYVLEEEEDED 272

Query: 295 EEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 354
           EE+EA +                 GGIE+NCCVCMVRHKGAAFIPCGHTFCRLCSRELWV
Sbjct: 273 EEEEAGS----------------GGGIEYNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 316

Query: 355 QRGNCPLCNGFILEILDIF 373
            RGNCPLCNGFILEILDIF
Sbjct: 317 SRGNCPLCNGFILEILDIF 335

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495529|ref|XP_003635011.1| PREDICTED: uncharacterized protein LOC100852917 isoform 1 [Vitis vinifera]

 Score =  236 bits (603), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 171/379 (45%), Positives = 208/379 (54%), Gaps = 80/379 (21%)

Query: 6   DRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDE-----DPNGKNFGHKDRKSWKL 60
           D RD  AGLTL A+L  ++  PPP    RTLLDIIRDE     D  G+   + ++ SWK 
Sbjct: 20  DGRDAWAGLTLGAVLGCEK-RPPPGHINRTLLDIIRDESTGYKDVLGQPNNNNNKMSWKS 78

Query: 61  FRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVR---FQTNPAGEL 117
           F+DRLR++RAGAAWTSS+ IP SD+P           RSQL RR S R   + T+P  E 
Sbjct: 79  FKDRLRIRRAGAAWTSSMPIPASDVPT----------RSQLSRRQSTRVTMYTTDPP-EP 127

Query: 118 ASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNST 177
               E++ G P              +P P ++    +             +PQ SR+NS 
Sbjct: 128 TETFEESPGTP-------------ENPLPVEAVQVHNL------------RPQFSRNNSI 162

Query: 178 RVEAASNTVSEDNSVDPFDVAREG---TRRLAVVLAQERQLSAREAVAAQEAAEAEAAAA 234
           R  A S T S  +S        +G   +RRL+  LA+ER+L   E+ AA    + EA   
Sbjct: 163 R--APSRTFSRADSTRLHTGVTDGPVVSRRLSAALAEERELQRAESAAALGGDDDEAGEE 220

Query: 235 EAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEE 294
           E E E E E                    RMSLM LLEETDRQ G+ G  Y + E+EDE+
Sbjct: 221 EDEGEGEEEGPEAAP--------------RMSLMALLEETDRQAGIVGPAYVLEEEEDED 266

Query: 295 EEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 354
           EE+EA +                 GGIE+NCCVCMVRHKGAAFIPCGHTFCRLCSRELWV
Sbjct: 267 EEEEAGS----------------GGGIEYNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 310

Query: 355 QRGNCPLCNGFILEILDIF 373
            RGNCPLCNGFILEILDIF
Sbjct: 311 SRGNCPLCNGFILEILDIF 329

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566325|ref|XP_003551383.1| PREDICTED: uncharacterized protein LOC100795449 [Glycine max]

 Score =  236 bits (602), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 164/391 (41%), Positives = 213/391 (54%), Gaps = 85/391 (21%)

Query: 11  LAGLTLDAILTNKRP--SPPPA---PAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRL 65
           LAGLTLD +L N++   S PP+   P  RTLLDII++++ N      KDR+SWK F+D+L
Sbjct: 12  LAGLTLDDVLGNQKKFSSTPPSQQLPKSRTLLDIIKEDESN-----KKDRRSWKAFKDKL 66

Query: 66  RLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVR----FQTNPAGEL---- 117
           RLKRAG+AWTSS+ IPTSD+PIP+    NS   +Q  RR+SVR     QT+   ++    
Sbjct: 67  RLKRAGSAWTSSIHIPTSDVPIPNP---NSRTFTQFGRRNSVRSPTQTQTHSDSDMSTPY 123

Query: 118 -ASQLED------NRGAP--------PQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSP 162
            A Q+ED      + G+P        PQF+R  S++ A                +  G  
Sbjct: 124 NAHQVEDLDPADDDSGSPTTGPPAVRPQFSRHGSTRFAG---------------DASGDN 168

Query: 163 TRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVA 222
           T  + +PQLSR NST +           S +P+   R        V+         EA  
Sbjct: 169 TAGTLRPQLSRRNSTNI-----------SSEPYKRGR--------VVTFRDSFDDEEADG 209

Query: 223 AQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEG 282
                  E  A  A     A+ + +  A+   A    P    MSLMDLLEETDR+MGLEG
Sbjct: 210 EDGKKPGEGRALSAREAVAAQEAAEAAAQEAEAAEQAPVT--MSLMDLLEETDREMGLEG 267

Query: 283 SRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGH 342
           SRY + +DED +E+++ + +                G +EH CCVCMV+HK AAFIPCGH
Sbjct: 268 SRYILSDDEDFDEDEDEDDDGG-------------EGSMEHTCCVCMVKHKAAAFIPCGH 314

Query: 343 TFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
           TFCR+CSREL V RGNCPLCN FILEILDIF
Sbjct: 315 TFCRMCSRELMVSRGNCPLCNNFILEILDIF 345

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357460827|ref|XP_003600695.1| Zinc finger-like protein [Medicago truncatula] gi|355489743|gb|AES70946.1| Zinc finger-like protein [Medicago truncatula]

 Score =  227 bits (579), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 163/392 (41%), Positives = 215/392 (54%), Gaps = 71/392 (18%)

Query: 1   MSAVQDRRDPLAGLTLDAILTNKR---PSPP-------PAPAGRTLLDIIRDEDPNGKNF 50
           MS  + +R+ LAGL+LD IL N++    +PP       P P  RTL+DII+D++ N    
Sbjct: 1   MSTTESKREKLAGLSLDDILANQQRHGSTPPSSTTPRQPPPKSRTLIDIIKDDESN---- 56

Query: 51  GHKDRKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVRFQ 110
             KDR+SWK F+D+LRLKRAG+AWTSS+ IPTSDIPI +    NS   SQ  RR+SVR Q
Sbjct: 57  -KKDRRSWKAFKDKLRLKRAGSAWTSSIPIPTSDIPIQNP---NSRSFSQFGRRNSVRVQ 112

Query: 111 TNPAGELASQL------EDNRGAP---PQFARRPSSKVASSSPGPTQSSHHEDSPEGEGS 161
           T+   ++++         D   AP   P+F R  S++  +            DS E  G 
Sbjct: 113 THYDSDMSTHQVDELDPSDESNAPASRPKFTRGSSTRFTA------------DSSENSGG 160

Query: 162 PTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAV 221
               + +PQLSR NST V +A          DPF       R+  VV  ++         
Sbjct: 161 ---GNLRPQLSRKNSTNVSSA----------DPF-------RKGRVVTFRDSFDDEEPDD 200

Query: 222 AAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLE 281
             +      A +A     A+  A    EAEAEA     P  P MSLMDLL ETDR+MGLE
Sbjct: 201 DTKHPETGRALSAREAVAAQEAAEAAAEAEAEAEAATGP--PTMSLMDLLGETDREMGLE 258

Query: 282 GSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCG 341
           GSRY + ++ED  ++D  E E +          E+    +EH C +CMV+HKG A   CG
Sbjct: 259 GSRYILSDEEDFSDDDYEEGEDD----------EDGESALEHTCSICMVKHKGTALAACG 308

Query: 342 HTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
           H+FCR+CSREL V +GNCPLCN F+LEIL+IF
Sbjct: 309 HSFCRMCSRELLVSKGNCPLCNNFVLEILEIF 340

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147809369|emb|CAN64493.1| hypothetical protein VITISV_001939 [Vitis vinifera]

 Score =  226 bits (577), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 168/379 (44%), Positives = 205/379 (54%), Gaps = 80/379 (21%)

Query: 6   DRRDPLAGLTLDAILTNKRPSPPPAPAGRTLLDIIRDE-----DPNGKNFGHKDRKSWKL 60
           D RD  AGLTL A+L  ++  PPP    RTLLDIIRDE     D  G+   + ++ SWK 
Sbjct: 17  DGRDAWAGLTLGAVLGCEK-RPPPGHINRTLLDIIRDESTGYKDVLGQPNNNNNKMSWKS 75

Query: 61  FRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVR---FQTNPAGEL 117
           F+DRLR++RAGAAWTSS+ IP SD+P           RSQL RR S R   + T+P  E 
Sbjct: 76  FKDRLRIRRAGAAWTSSMPIPASDVPT----------RSQLSRRQSTRVTMYTTDPP-EP 124

Query: 118 ASQLEDNRGAPPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNST 177
               E++ G P              +P P ++    +             +PQ SR+NS 
Sbjct: 125 TETFEESPGTP-------------ENPLPVEAVQVHNL------------RPQFSRNNSI 159

Query: 178 RVEAASNTVSEDNSVDPFDVAREG---TRRLAVVLAQERQLSAREAVAAQEAAEAEAAAA 234
           R  A S T S  +S        +G   +RRL+  LA+ER+L   E+ AA    + EA   
Sbjct: 160 R--APSRTFSRADSTRLHTGVTDGPVVSRRLSAALAEERELQRAESAAALGGDDDEAGEE 217

Query: 235 EAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEE 294
           E E E E E                    RMSLM LLEETDRQ G+ G  Y + E+EDE+
Sbjct: 218 EDEGEGEEEGPEAAP--------------RMSLMALLEETDRQAGIVGPAYVLEEEEDED 263

Query: 295 EEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 354
           EE+E ++    EY                NCCVCMVRHKGAAFIPCGHTFCRLCSRELWV
Sbjct: 264 EEEEGDSGGGIEY----------------NCCVCMVRHKGAAFIPCGHTFCRLCSRELWV 307

Query: 355 QRGNCPLCNGFILEILDIF 373
            RGNCPLCNGFILEILDIF
Sbjct: 308 SRGNCPLCNGFILEILDIF 326

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524487|ref|XP_003530860.1| PREDICTED: uncharacterized protein LOC100776257 [Glycine max]

 Score =  225 bits (574), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 162/396 (40%), Positives = 207/396 (52%), Gaps = 97/396 (24%)

Query: 11  LAGLTLDAILTN-KRPSPPP----APAGRTLLDIIRDEDPNGKNFGHKDRKSWKLFRDRL 65
           LAGLTLD +L N KRPS  P     P  RTLLDII++++ N      KDR+SWK F+D+L
Sbjct: 12  LAGLTLDDVLGNQKRPSSTPPSQQLPKSRTLLDIIKEDESN-----KKDRRSWKAFKDKL 66

Query: 66  RLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVR----------------- 108
           RLKRAG+AWTS++ IPTSD+PIP+    NS   +Q   R+SV+                 
Sbjct: 67  RLKRAGSAWTSTIHIPTSDVPIPNP---NSRIFTQFGHRNSVQSPTQTLTLTHSDSDMST 123

Query: 109 -FQTNPAGELASQLEDNRGAP--------PQFARRPSSKVASSSPGPTQSSHHEDSPEGE 159
            +      +L     D+ G P        PQF+RR S++              +  P GE
Sbjct: 124 PYDARQVEDLDPAAADDSGYPATMPPAVRPQFSRRGSTRF-------------DGDPSGE 170

Query: 160 GSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSARE 219
              T  + +PQLSR NST + +           +P+   R         +   R     E
Sbjct: 171 N--TAGTLRPQLSRRNSTNMPS-----------EPYKRGR---------VVTFRDTFDDE 208

Query: 220 AVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAE--PVQPRQPRMSLMDLLEETDRQ 277
               ++  E  A +A     A+  A    +   EA E  PV      MSLMDLLEETDR+
Sbjct: 209 DDGGEKPGEGRALSAREAVAAQEAAEAAAQEAEEAEEQAPVM-----MSLMDLLEETDRE 263

Query: 278 MGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAF 337
           MGLEGSRY + +D+++E+ED+   E                  +EH CCVCMVRHK AAF
Sbjct: 264 MGLEGSRYILSDDDEDEDEDDDGGEGS----------------MEHTCCVCMVRHKAAAF 307

Query: 338 IPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
           IPCGHTFCR+CSREL V RGNCP CN FILEILDIF
Sbjct: 308 IPCGHTFCRMCSRELMVSRGNCPRCNNFILEILDIF 343

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453419|ref|XP_004144455.1| PREDICTED: uncharacterized protein LOC101209945 [Cucumis sativus]

 Score =  214 bits (545), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 171/396 (43%), Positives = 216/396 (54%), Gaps = 76/396 (19%)

Query: 1   MSAVQDRRDPLAGLTLDAILTNKRPSPPPAPA-----GRTLLDIIRDEDPN-GKNFGHKD 54
           MS V+D R  LAG TLD +L N R  PP         GRTLLDIIRDE+P+ GK    KD
Sbjct: 1   MSMVEDGRS-LAGYTLDDVLANNRLGPPATARATEIRGRTLLDIIRDEEPSTGKGLFGKD 59

Query: 55  RKSWKLFRDRLRLKRAGAAWTSSVRIPTSDIPIPSSSLSNSNPRSQLIRRSSVRFQTNPA 114
           +++WK FRD+LRLKRAG+AW S+V IPTSDIP+        N RS + RR+ VRF T  +
Sbjct: 60  KRTWKSFRDKLRLKRAGSAWVSTVPIPTSDIPV-------HNKRSLMGRRNQVRFNTGSS 112

Query: 115 GELASQLEDNRGAPPQFARRPSSKVASSS------------PGPTQSSHHEDSPEGE--- 159
                     + +P   +R PS + + S+                 S+ H D        
Sbjct: 113 ----------KNSPDNQSRHPSEETSKSTRRQMCRQTSTMNSSSDSSAFHYDESSEYSSS 162

Query: 160 --GSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSA 217
              +P R  R PQ+SRHNS RV   SN +  +N  DP +  R+   R  + L++ R +SA
Sbjct: 163 PDAAPVRIMR-PQMSRHNSVRV---SNPM--ENYTDPTEPDRDNRIR-HLNLSEHRMMSA 215

Query: 218 REAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQ 277
           REAVAAQEAA+A +   E  + A                PV     RMSLMDLL ETDR+
Sbjct: 216 REAVAAQEAADAASEEEEESSPASE--------------PV-----RMSLMDLLHETDRE 256

Query: 278 MGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAF 337
           MG E S Y +G + +  EEDE +   E E +  G+         E +CCVCMV+HK    
Sbjct: 257 MGFERSSYGMGFEGNFLEEDEDDEYEEDEDDGNGE---------EFSCCVCMVKHKNGPL 307

Query: 338 IPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             CGHTFCRLCS+EL V RGNCP C+ FILEILD F
Sbjct: 308 ASCGHTFCRLCSKELMVSRGNCPTCSNFILEILDAF 343

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	373
TAIR|locus:2086949	250	AT3G25030 [Arabidopsis thalian	0.139	0.208	0.865	5.1e-42
TAIR|locus:2098515	360	AT3G07120 [Arabidopsis thalian	0.139	0.144	0.653	4e-38
TAIR|locus:2123216	265	AT4G13100 [Arabidopsis thalian	0.139	0.196	0.865	1.7e-34
TAIR|locus:504955313	209	AT4G03965 [Arabidopsis thalian	0.131	0.234	0.775	5.2e-26
TAIR|locus:2027094	204	AT1G62370 [Arabidopsis thalian	0.131	0.240	0.693	7.1e-25
TAIR|locus:2132016	214	AT4G22250 [Arabidopsis thalian	0.131	0.228	0.816	8.8e-23
FB|FBgn0032660	229	elfless "elfless" [Drosophila	0.109	0.179	0.422	0.00037
UNIPROTKB|A2AAZ4	74	TRIM39 "E3 ubiquitin-protein l	0.112	0.567	0.377	0.00047

TAIR|locus:2086949 AT3G25030 [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 5.1e-42, Sum P(4) = 5.1e-42
 Identities = 45/52 (86%), Positives = 48/52 (92%)

Query:   322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             E +CCVCMVR KGAAFIPCGHTFCRLCSRELWVQRGNCPLCN  ILE+LD+F
Sbjct:   199 EISCCVCMVRSKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNTTILEVLDLF 250

GO:0005634 "nucleus" evidence=ISM

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

GO:0005516 "calmodulin binding" evidence=TAS;IPI

TAIR|locus:2098515 AT3G07120 [Arabidopsis thaliana (taxid:3702)]

 Score = 217 (81.4 bits), Expect = 4.0e-38, Sum P(2) = 4.0e-38
 Identities = 34/52 (65%), Positives = 45/52 (86%)

Query:   322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             E +CCVCMV+ KGA+F PCGHTFC+LCS+EL  Q+G+CP+C+ F+LE L+IF
Sbjct:   309 ELSCCVCMVKIKGASFTPCGHTFCKLCSKELMAQKGHCPVCSSFVLEFLEIF 360

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2123216 AT4G13100 [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 1.7e-34, Sum P(3) = 1.7e-34
 Identities = 45/52 (86%), Positives = 47/52 (90%)

Query:   322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             E  CCVCMVR KGAAFIPCGHTFCRLCSRELWVQRGNCPLCN  IL++LDIF
Sbjct:   214 ELGCCVCMVRSKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNTAILQVLDIF 265

GO:0005634 "nucleus" evidence=ISM

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

GO:0005516 "calmodulin binding" evidence=ISS

TAIR|locus:504955313 AT4G03965 [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 5.2e-26, Sum P(3) = 5.2e-26
 Identities = 38/49 (77%), Positives = 44/49 (89%)

Query:   325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             CCVCM R KGAAFIPCGHTFCR+CSRE+W+ RG+CPLCN  I+EILDI+
Sbjct:   161 CCVCMGRKKGAAFIPCGHTFCRVCSREVWLNRGSCPLCNRPIIEILDIY 209

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2027094 AT1G62370 [Arabidopsis thaliana (taxid:3702)]

 Score = 223 (83.6 bits), Expect = 7.1e-25, Sum P(3) = 7.1e-25
 Identities = 34/49 (69%), Positives = 42/49 (85%)

Query:   325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             CCVCM R KGAAFIPCGHT+CR+CSRE+W+ RG CPLCN  I ++LD++
Sbjct:   156 CCVCMGREKGAAFIPCGHTYCRVCSREIWMNRGTCPLCNRSIFDVLDLY 204

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2132016 AT4G22250 [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 8.8e-23, Sum P(2) = 8.8e-23
 Identities = 40/49 (81%), Positives = 44/49 (89%)

Query:   325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
             CCVCM R KGAAFIPCGHTFCR+CSRELW+ RG+CPLCN  I+EILDIF
Sbjct:   166 CCVCMGRKKGAAFIPCGHTFCRVCSRELWLNRGSCPLCNRPIIEILDIF 214

GO:0005739 "mitochondrion" evidence=ISM

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

FB|FBgn0032660 elfless "elfless" [Drosophila melanogaster (taxid:7227)]

 Score = 90 (36.7 bits), Expect = 0.00037, Sum P(2) = 0.00037
 Identities = 19/45 (42%), Positives = 24/45 (53%)

Query:   321 IEHNCCVCM--VRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLC 362
             + +NC VC+  VR K      CGH FC+ C +   V  G  CPLC
Sbjct:   174 LPYNCPVCLEDVREKLPVSTNCGHVFCKACIKRA-VDTGRVCPLC 217

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

UNIPROTKB|A2AAZ4 TRIM39 "E3 ubiquitin-protein ligase TRIM39" [Homo sapiens (taxid:9606)]

 Score = 93 (37.8 bits), Expect = 0.00047, P = 0.00047
 Identities = 17/45 (37%), Positives = 24/45 (53%)

Query:   321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELW--VQRG-NCPLC 362
             +E +C VC+   K    I CGH FC+ C    W  ++R   CP+C
Sbjct:    25 VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 69


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.318   0.132   0.402    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      373       279   0.00081  115 3  11 22  0.37    34
                                                     33  0.41    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  612 (65 KB)
  Total size of DFA:  207 KB (2115 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  26.86u 0.08s 26.94t   Elapsed:  00:00:01
  Total cpu time:  26.86u 0.08s 26.94t   Elapsed:  00:00:01
  Start:  Sat May 11 05:23:11 2013   End:  Sat May 11 05:23:12 2013

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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	373
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	3e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-09
smart00184	40	smart00184, RING, Ring finger	1e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-08
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	8e-07
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
COG0330	291	COG0330, HflC, Membrane protease subunits, stomati	5e-04
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.001
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	0.001
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.002
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	0.002
cd03403	215	cd03403, Band_7_stomatin_like, Band_7_stomatin_lik	0.002
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.003
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.003
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.004
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.004
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
PRK03427	333	PRK03427, PRK03427, cell division protein ZipA; Pr	0.004

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 54.7 bits (132), Expect = 3e-10
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 2/49 (4%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEI 369
           +  C +C+ R +   F+PCGH   C  C++ L  ++  CP+C   I  +
Sbjct: 2   DDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSKK-KCPICRQPIESV 49

Length = 49

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

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 325 CCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           C +C+ +        PCGH FCR C      ++  CP+C 
Sbjct: 5   CPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 50.2 bits (120), Expect = 1e-08
 Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 325 CCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLC 362
           C +C+    K    +PCGHTFCR C R+      N CP+C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

>gnl|CDD|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 = 49.8 bits (119), Expect = 2e-08
 Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 325 CCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCN 363
           C +C+    +    +PCGH FCR C  +      N CPLC 
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 3/43 (6%)

Query: 323 HNCCVC---MVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
             C +C       +    +PCGH F + C  +       CPLC
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLC 43

Length = 46

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

 Score = 44.8 bits (106), Expect = 8e-07
 Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 4/41 (9%)

Query: 325 CCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGN--CPLC 362
           C +C+   K    I PCGH FC  C    W++ GN  CPLC
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILS-WLESGNVTCPLC 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|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 1e-04
 Identities = 47/205 (22%), Positives = 71/205 (34%), Gaps = 27/205 (13%)

Query: 130 QFARRPSSKVAS----SSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRH-NSTRVEAASN 184
           Q +RRP +KV +    S     ++ H  +    EG     +              E  + 
Sbjct: 615 QLSRRPVAKVMALGDLSKGDVAEAEHTGERTGEEGERPTEAEGENGEESGGEAEQEGETE 674

Query: 185 TVSEDNSVDPFDVAREGTRRLAVVLAQERQL----SAREAVAAQEAAEAEAAAAEAEAEA 240
           T  E+ S       R+G +     +  +       +  E V  +   EAE    E E E 
Sbjct: 675 TKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIET 734

Query: 241 EAEASV---QVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEEEED 297
             E      + E EAE    V+             E DR+   E       E E +E+ED
Sbjct: 735 GEEGEEVEDEGEGEAEGKHEVE------------TEGDRK---ETEHEGETEAEGKEDED 779

Query: 298 EAEAEAEGEYEEEGDDVEENAGGIE 322
           E E +A  + E +GD+  E     E
Sbjct: 780 EGEIQAGEDGEMKGDEGAEGKVEHE 804

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 25/52 (48%), Positives = 32/52 (61%), Gaps = 2/52 (3%)

Query: 207 VVLAQERQLSA-REAVAAQEAAEAEAAAAEAEAEAEAEASVQV-EAEAEAAE 256
           V  A E+Q++A R+  A    AE EA AA   AE EAEA++ + EAEAEA  
Sbjct: 175 VQAAMEKQMAAERDKRAEILEAEGEAQAAILRAEGEAEAAIILAEAEAEAEV 226

Length = 291

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 24/111 (21%), Positives = 30/111 (27%), Gaps = 9/111 (8%)

Query: 208  VLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSL 267
            V+  E Q      V         A   E             +  AE AEPV   Q   + 
Sbjct: 899  VVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVITESDVAVAQEVAEHAEPVVEPQDETAD 958

Query: 268  MDLLEETDRQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENA 318
            ++   ET            V E E    +  A   AE   E E     E  
Sbjct: 959  IEEAAETAEV--------VVAEPE-VVAQPAAPVVAEVAAEVETVTAVEPE 1000

Length = 1068

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 17/39 (43%), Positives = 21/39 (53%)

Query: 218 REAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAE 256
           ++   A+  A AE  AAEA A A  EA+   E EAE A 
Sbjct: 137 KKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAP 175

Length = 186

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 40.0 bits (93), Expect = 0.001
 Identities = 14/38 (36%), Positives = 16/38 (42%)

Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           C +C           C HTFC LC R     +  CPLC
Sbjct: 29  CHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLC 66

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 40.4 bits (94), Expect = 0.002
 Identities = 28/102 (27%), Positives = 42/102 (41%), Gaps = 9/102 (8%)

Query: 217 AREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDR 276
           A   V  +   EA                 +V+ E    E        ++  +  E    
Sbjct: 797 AEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQE--------LNAENQGEAKQD 848

Query: 277 QMGLEGSRYAVGED-EDEEEEDEAEAEAEGEYEEEGDDVEEN 317
           + G++G   + G D E+EEEE+E E E E E EEE ++ EEN
Sbjct: 849 EKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEEN 890

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 210 AQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAE 256
           A+   ++ ++A  A   A  EAAAAE E   EA A    EA AE + 
Sbjct: 142 ARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAE---EAPAEESA 185

Length = 186

>gnl|CDD|239497 cd03403, Band_7_stomatin_like, Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins)

 Score = 38.7 bits (91), Expect = 0.002
 Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 210 AQERQLSA-REAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAA 255
           A  +Q  A RE  A    AE E  AA   AEA  +A++   A     
Sbjct: 149 AMAKQAEAEREKRAKIIEAEGERQAAILLAEAAKQAAINPAALQLRE 195

Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Stomatin is widely expressed and, highly expressed in red blood cells. It localizes predominantly to the plasma membrane and to intracellular vesicles of the endocytic pathway, where it is present in higher order homo-oligomeric complexes (of between 9 and 12 monomers). Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and, is implicated in trafficking of Glut1 glucose transporters. Prohibitin is a mitochondrial inner-membrane protein hypothesized to act as a chaperone for the stabilization of mitochondrial proteins. Podicin localizes to the plasma membrane of podocyte foot processes and, is found in higher order oligomers. Podocin plays a role in regulating glomerular permeability. Mutations in the podicin gene give rise to autosomal recessive steroid resistant nephritic syndrome. This group also contains proteins similar to three Caenorhabditis elegans proteins: UNC-1, UNC-24 and, MEC-2. Mutations in the unc-1 and unc-24 genes result in abnormal motion and altered patterns of sensitivity to volatile anesthetics. MEC-2 and UNC-24 proteins interact with MEC-4 which is part of the degenerin channel complex required for response to gentle body touch. Length = 215

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 3/69 (4%)

Query: 206 AVVLAQERQLSAREAVAAQEA---AEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQ 262
           A   A+++  +  +  AA EA   A AEA AA A+A AEA+A+ +  A A+AAE     +
Sbjct: 195 AAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAKAAEKAAAAK 254

Query: 263 PRMSLMDLL 271
               + DL 
Sbjct: 255 AAAEVDDLF 263

Length = 387

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 198 AREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAA 255
           A    ++ A   A ++  +  +  A  EAA   AA A+ +AEAEA+     EA+ +AA
Sbjct: 163 AAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAA 220

Length = 387

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 39.3 bits (92), Expect = 0.004
 Identities = 31/172 (18%), Positives = 48/172 (27%), Gaps = 19/172 (11%)

Query: 164 RSSRQPQLSRHNSTRVEAASNTVSEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVAA 223
           R  RQ      N  R    + T  E    +  +  R   R+     A+ R+    E    
Sbjct: 607 RKPRQNNRRDRNERRDTRDNRTRREGR--ENREENRRNRRQAQQQTAETRESQQAEVTEK 664

Query: 224 QEAAEAE-----------------AAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMS 266
               + +                  A  EA+A    E SVQ   + E  + VQPR+ +  
Sbjct: 665 ARTQDEQQQAPRRERQRRRNDEKRQAQQEAKALNVEEQSVQETEQEERVQQVQPRRKQRQ 724

Query: 267 LMDLLEETDRQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENA 318
           L   +           +         E    E  A      +     V + A
Sbjct: 725 LNQKVRIEQSVAEEAVAPVVEETVAAEPVVQEVPAPRTELVKVPLPVVAQTA 776

Length = 1068

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 38.9 bits (90), Expect = 0.004
 Identities = 15/38 (39%), Positives = 18/38 (47%)

Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           C +C  R        CGHTFC LC R     +  CP+C
Sbjct: 28  CRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVC 65

Length = 391

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 38.8 bits (90), Expect = 0.004
 Identities = 27/124 (21%), Positives = 41/124 (33%), Gaps = 6/124 (4%)

Query: 140 ASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNSTRV--EAASNTVSEDNSVDPFDV 197
           A  +     S+     P G G P +     +  +     V  E A+ +V +    D    
Sbjct: 301 AELAAAAVASAASAVGPVGPGEPNQPDDVAEAVKAEVAEVTDEVAAESVVQVADRDGEST 360

Query: 198 AR-EGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAA---AEAEAEAEAEASVQVEAEAE 253
              E T    +   Q   L+ +   A Q  AEA +AA     A A    + +     E  
Sbjct: 361 PAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKA 420

Query: 254 AAEP 257
           A  P
Sbjct: 421 APIP 424

Length = 460

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 21/48 (43%), Positives = 30/48 (62%)

Query: 209 LAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAE 256
             +E +  A E   A+ AAEA+  AAEA+ +AEAEA  + EA+A+A  
Sbjct: 144 AKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKA 191

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 25/131 (19%), Positives = 43/131 (32%), Gaps = 6/131 (4%)

Query: 138 KVASSSPGPTQSSHHE---DSPEGEGSPTRSSRQPQLSRHNSTRVEAASNTVSEDNSVDP 194
           +V   +  P  +  HE    SP+ +  P  +S QP+         EA            P
Sbjct: 67  RVHRVNHAPANAQEHEAARPSPQHQYQPPYASAQPRQPVQQP--PEAQVPPQHAPRPAQP 124

Query: 195 FDVAREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAA-AAEAEAEAEAEASVQVEAEAE 253
                +            +Q  + +   A +   +    A +A   AE  A+ Q E  AE
Sbjct: 125 APQPVQQPAYQPQPEQPLQQPVSPQVAPAPQPVHSAPQPAQQAFQPAEPVAAPQPEPVAE 184

Query: 254 AAEPVQPRQPR 264
            A  +   + +
Sbjct: 185 PAPVMDKPKRK 195

Length = 333

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	373
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.05
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.99
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.93
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.88
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.8
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.77
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.77
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.76
PHA02929	238	N1R/p28-like protein; Provisional	98.75
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.73
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.61
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.58
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.55
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.54
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.53
PHA02926	242	zinc finger-like protein; Provisional	98.48
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.44
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.42
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.42
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.39
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.32
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.31
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.3
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.29
PF14634	44	zf-RING_5: zinc-RING finger domain	98.28
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.1
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.1
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.06
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.02
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.83
KOG2660	331	consensus Locus-specific chromosome binding protei	97.82
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
COG5152	259	Uncharacterized conserved protein, contains RING a	97.61
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.46
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.42
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.36
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.29
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.28
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.18
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.92
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.84
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.6
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.58
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.53
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.42
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.35
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.16
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	95.99
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.78
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.74
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	95.71
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	95.55
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.5
PF04641	260	Rtf2: Rtf2 RING-finger	95.4
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.17
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.13
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	95.06
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.01
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.79
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.67
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	94.56
KOG3002	299	consensus Zn finger protein [General function pred	94.15
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	93.97
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.33
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.25
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.2
KOG4445	368	consensus Uncharacterized conserved protein, conta	92.15
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.67
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.31
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.92
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	90.84
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	90.44
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.31
PHA03096	284	p28-like protein; Provisional	89.94
KOG1940	276	consensus Zn-finger protein [General function pred	89.7
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	89.66
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	89.63
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	89.25
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	89.08
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.97
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	88.56
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.51
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	88.21
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	87.54
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	86.04
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	83.47
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	82.5
PHA02825	162	LAP/PHD finger-like protein; Provisional	82.4
COG5109	396	Uncharacterized conserved protein, contains RING Z	81.48

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.05  E-value=1.3e-10  Score=107.87  Aligned_cols=51  Identities=25%  Similarity=0.696  Sum_probs=43.6

Q ss_pred             cCCCccccccccccccccEEeccCCcchHhHHHHHHhc----------------CCCCcccccchhh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ----------------RGNCPLCNGFILE  368 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~----------------s~~CPlCRa~i~e  368 (373)
                      .....+.|+||++.+.++++++|||.||+.||..|+..                ...||+||..+..
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            33456889999999999999999999999999999752                2479999998864

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

Probab=98.99  E-value=2.3e-10  Score=108.49  Aligned_cols=55  Identities=25%  Similarity=0.689  Sum_probs=47.9

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcC---CCCcccccchh--hhhccC
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i~--evL~IF  373 (373)
                      ....+.|.||++..++|+++.|||.||+.||.+|+...   ..||+|+..+.  +++.||
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            45679999999999999999999999999999999866   45999998776  666665

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

Probab=98.93  E-value=5.5e-10  Score=81.65  Aligned_cols=48  Identities=29%  Similarity=0.919  Sum_probs=42.4

Q ss_pred             ccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      +..|.||++...+.+++||||. ||..|+.+|+.....||+||.++..+
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIESV   50 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SEE
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcCC
Confidence            3679999999999999999999 99999999999889999999998753

...

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

Probab=98.88  E-value=1.2e-09  Score=78.30  Aligned_cols=38  Identities=42%  Similarity=1.135  Sum_probs=31.1

Q ss_pred             cccccccccccEEeccCCcchHhHHHHHHhcC----CCCccc
Q 017319          325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR----GNCPLC  362 (373)
Q Consensus       325 CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s----~~CPlC  362 (373)
                      |+||++++.+|+.|+|||.||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999999999999999999999865    369987

>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=98.80  E-value=2.4e-09  Score=76.25  Aligned_cols=40  Identities=33%  Similarity=0.946  Sum_probs=35.6

Q ss_pred             cccccccccc---ccEEeccCCcchHhHHHHHHhcCCCCcccc
Q 017319          324 NCCVCMVRHK---GAAFIPCGHTFCRLCSRELWVQRGNCPLCN  363 (373)
Q Consensus       324 ~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr~s~~CPlCR  363 (373)
                      .|+||++.+.   ..+.++|||.||..|+.+|++...+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999884   577889999999999999999999999997

...

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

Probab=98.77  E-value=4.1e-09  Score=73.55  Aligned_cols=38  Identities=32%  Similarity=1.032  Sum_probs=33.7

Q ss_pred             ccccccccccc-EEeccCCcchHhHHHHHHhcCCCCccc
Q 017319          325 CCVCMVRHKGA-AFIPCGHTFCRLCSRELWVQRGNCPLC  362 (373)
Q Consensus       325 CpICle~~~~p-v~LPCGH~FC~sCI~rwlr~s~~CPlC  362 (373)
                      |+||++.+.++ +.++|||.||..|+.+|+.....||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999999 678999999999999999998899988

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

Probab=98.77  E-value=3.7e-09  Score=97.23  Aligned_cols=53  Identities=25%  Similarity=0.641  Sum_probs=44.8

Q ss_pred             Cccccccccccccc--cEEeccCCcchHhHHHHHHhcCCCCcccccchh--hhhccC
Q 017319          321 IEHNCCVCMVRHKG--AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~--pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~--evL~IF  373 (373)
                      ..+.|+|||+.+..  ++.+.|||.||..||...++....||+|++.|.  ++.+||
T Consensus       130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence            44899999999864  455789999999999999999999999996554  666776

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

Probab=98.76  E-value=3.6e-09  Score=103.15  Aligned_cols=50  Identities=28%  Similarity=0.757  Sum_probs=45.6

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ......|.+|++...+|..+||||.||+.||..|.....-||+||..+..
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            34558999999999999999999999999999999999899999998763

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.75  E-value=4.5e-09  Score=100.58  Aligned_cols=50  Identities=22%  Similarity=0.709  Sum_probs=42.5

Q ss_pred             ccccccccccccc--------cEEeccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          322 EHNCCVCMVRHKG--------AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       322 ~l~CpICle~~~~--------pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      ...|+||++.+..        +++++|+|.||..|+.+|+....+||+||..+..+++
T Consensus       174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~  231 (238)
T PHA02929        174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEee
Confidence            4679999998754        2456799999999999999998999999999887654

>smart00504 Ubox Modified RING finger domain

Probab=98.73  E-value=8.6e-09  Score=77.30  Aligned_cols=45  Identities=18%  Similarity=0.354  Sum_probs=42.3

Q ss_pred             cccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          323 HNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      +.|+||++.+.+|+.++|||+||..|+.+|+.....||+|+..+.
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            679999999999999999999999999999998889999998874

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=98.61  E-value=1.8e-08  Score=102.61  Aligned_cols=50  Identities=30%  Similarity=0.638  Sum_probs=45.0

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....+.|+||++.+..|++++|||.||..|+..|+.....||+|+..+..
T Consensus        23 Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            34668999999999999999999999999999999988889999987753

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

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

Probab=98.58  E-value=1.7e-08  Score=100.65  Aligned_cols=48  Identities=31%  Similarity=0.720  Sum_probs=44.9

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ..+.|.||+++|..|+++||+|.||..||..++.+...||.|++.+.+
T Consensus        22 ~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence            457899999999999999999999999999999999999999988774

>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=98.55  E-value=5.8e-08  Score=66.33  Aligned_cols=43  Identities=33%  Similarity=0.918  Sum_probs=36.9

Q ss_pred             ccccccccccccEEec-cCCcchHhHHHHHHhc-CCCCcccccch
Q 017319          324 NCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQ-RGNCPLCNGFI  366 (373)
Q Consensus       324 ~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~-s~~CPlCRa~i  366 (373)
                      .|+||++.+..++.++ |||.||..|+..|+.. ...||+|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999996666665 9999999999999987 67899998753

>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=98.54  E-value=4.7e-08  Score=68.14  Aligned_cols=38  Identities=39%  Similarity=1.093  Sum_probs=34.5

Q ss_pred             cccccccccccE-EeccCCcchHhHHHHHHh--cCCCCccc
Q 017319          325 CCVCMVRHKGAA-FIPCGHTFCRLCSRELWV--QRGNCPLC  362 (373)
Q Consensus       325 CpICle~~~~pv-~LPCGH~FC~sCI~rwlr--~s~~CPlC  362 (373)
                      |+||++.+..+. +++|||.||..|+.+|+.  ....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999998 889999999999999999  44679988

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 ....

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

Probab=98.53  E-value=3.8e-08  Score=98.37  Aligned_cols=85  Identities=28%  Similarity=0.690  Sum_probs=62.3

Q ss_pred             hhhccCCCcccccCCCcchhhhHHHHhhhccccccCCccccccCCCccccccccccccccEEeccCCc-chHhHHHHHHh
Q 017319          276 RQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWV  354 (373)
Q Consensus       276 ~e~~legSry~v~dedDeeDd~dde~d~~~e~E~E~d~~~~~~~~~~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr  354 (373)
                      +...+++.+|...+..+.++...           +.+  +.........|.|||...++.++|||.|. .|..|.+....
T Consensus       257 Q~~~v~g~~y~LqEiyGien~~v-----------~~~--~~~~~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~  323 (349)
T KOG4265|consen  257 QILWVDGTRYLLQEIYGIENSTV-----------EGT--DADESESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRY  323 (349)
T ss_pred             eEEEEeCceeeeehhhccccCCC-----------CCC--ccccccCCCeeEEEecCCcceEEecchhhehhHhHHHHHHH
Confidence            34556678888777765432100           000  00011234569999999999999999998 69999999888


Q ss_pred             cCCCCcccccchhhhhccC
Q 017319          355 QRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       355 ~s~~CPlCRa~i~evL~IF  373 (373)
                      +.++||+||.+|.+++.|+
T Consensus       324 q~n~CPICRqpi~~ll~i~  342 (349)
T KOG4265|consen  324 QTNNCPICRQPIEELLEIY  342 (349)
T ss_pred             hhcCCCccccchHhhheec
Confidence            8899999999999999875

>PHA02926 zinc finger-like protein; Provisional

Probab=98.48  E-value=7.2e-08  Score=91.68  Aligned_cols=51  Identities=27%  Similarity=0.614  Sum_probs=40.2

Q ss_pred             CCccccccccccccc---------cEEeccCCcchHhHHHHHHhcC------CCCcccccchhhhh
Q 017319          320 GIEHNCCVCMVRHKG---------AAFIPCGHTFCRLCSRELWVQR------GNCPLCNGFILEIL  370 (373)
Q Consensus       320 ~~~l~CpICle~~~~---------pv~LPCGH~FC~sCI~rwlr~s------~~CPlCRa~i~evL  370 (373)
                      ..+..|+||++....         .++.+|+|.||..|+..|....      ..||+||..+..+.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~  233 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT  233 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence            345779999987632         3556899999999999999753      35999999887654

>smart00184 RING Ring finger

Probab=98.44  E-value=2e-07  Score=61.43  Aligned_cols=38  Identities=42%  Similarity=1.142  Sum_probs=34.4

Q ss_pred             cccccccccccEEeccCCcchHhHHHHHHh-cCCCCccc
Q 017319          325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWV-QRGNCPLC  362 (373)
Q Consensus       325 CpICle~~~~pv~LPCGH~FC~sCI~rwlr-~s~~CPlC  362 (373)
                      |+||++....++.++|||.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999988999999999999999999998 45679987

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)

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

Probab=98.42  E-value=9e-08  Score=99.37  Aligned_cols=47  Identities=28%  Similarity=0.746  Sum_probs=42.7

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhcC-----CCCcccccchhh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-----GNCPLCNGFILE  368 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-----~~CPlCRa~i~e  368 (373)
                      +..||||+....-++.+.|||.||..||..++...     ..||+|+..|..
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            78999999999999999999999999999998866     469999988875

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

Probab=98.42  E-value=1e-07  Score=93.69  Aligned_cols=49  Identities=33%  Similarity=0.611  Sum_probs=44.9

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ..+.|-||..++..|+.++|||.||..||..++.....||+||+...+.
T Consensus        24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es   72 (391)
T COG5432          24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES   72 (391)
T ss_pred             hHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence            4578999999999999999999999999999999999999999887643

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

Probab=98.39  E-value=9.1e-08  Score=73.20  Aligned_cols=51  Identities=25%  Similarity=0.768  Sum_probs=46.0

Q ss_pred             cccccccccccccEEeccCCc-chHhHHHHHHh-cCCCCcccccchhhhhccC
Q 017319          323 HNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWV-QRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr-~s~~CPlCRa~i~evL~IF  373 (373)
                      ..|.||++...+.++.-|||+ +|..|-.+.++ ....||+||+++..+++.|
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY   60 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTY   60 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhh
Confidence            579999999999999999998 79999998888 4568999999999999876

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

Probab=98.32  E-value=3.5e-07  Score=72.13  Aligned_cols=48  Identities=23%  Similarity=0.307  Sum_probs=39.8

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhc-CCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~e  368 (373)
                      +.+.|+||...+.+|+.++|||+|+..||..|+.. ...||+|+..+..
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            46899999999999999999999999999999998 7889999988764

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 ....

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

Probab=98.31  E-value=2e-07  Score=83.52  Aligned_cols=44  Identities=34%  Similarity=0.976  Sum_probs=39.6

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccc
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN  363 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCR  363 (373)
                      ...+.|+||++.+..+.+++|||.||..|+..++.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccC
Confidence            35688999999999999999999999999999988556899999

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

Probab=98.31  E-value=2.6e-07  Score=89.54  Aligned_cols=48  Identities=27%  Similarity=0.679  Sum_probs=42.3

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHH-HHhcCCC-Ccccccchh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRE-LWVQRGN-CPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~r-wlr~s~~-CPlCRa~i~  367 (373)
                      ..++.|.||++....+..++|||.||..||.. |-....- ||+||+.+.
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            45799999999999999999999999999999 7666655 999998764

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

Probab=98.30  E-value=5e-07  Score=71.63  Aligned_cols=40  Identities=35%  Similarity=0.852  Sum_probs=33.2

Q ss_pred             ccccccccccc-------------cEEeccCCcchHhHHHHHHhcCCCCcccc
Q 017319          324 NCCVCMVRHKG-------------AAFIPCGHTFCRLCSRELWVQRGNCPLCN  363 (373)
Q Consensus       324 ~CpICle~~~~-------------pv~LPCGH~FC~sCI~rwlr~s~~CPlCR  363 (373)
                      .|.||+..+..             .+..+|||.|+..||.+|+....+||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            49999998821             23447999999999999999999999997

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 ....

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

Probab=98.29  E-value=3.7e-07  Score=66.18  Aligned_cols=35  Identities=34%  Similarity=0.924  Sum_probs=22.5

Q ss_pred             cccccccccc----cEEeccCCcchHhHHHHHHhcC----CCCc
Q 017319          325 CCVCMVRHKG----AAFIPCGHTFCRLCSRELWVQR----GNCP  360 (373)
Q Consensus       325 CpICle~~~~----pv~LPCGH~FC~sCI~rwlr~s----~~CP  360 (373)
                      |+||++ +..    |++|+|||+||..|+.+++...    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 776    8999999999999999999853    3576

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.28  E-value=5.4e-07  Score=64.56  Aligned_cols=41  Identities=29%  Similarity=0.903  Sum_probs=35.1

Q ss_pred             ccccccccc---cccEEeccCCcchHhHHHHHHhcCCCCccccc
Q 017319          324 NCCVCMVRH---KGAAFIPCGHTFCRLCSRELWVQRGNCPLCNG  364 (373)
Q Consensus       324 ~CpICle~~---~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa  364 (373)
                      .|.||+..+   ..+.+++|||.||..|+..+......||+|+.
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            389999988   35788899999999999999855678999984

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

Probab=98.23  E-value=2.1e-07  Score=91.40  Aligned_cols=49  Identities=31%  Similarity=0.990  Sum_probs=45.3

Q ss_pred             CccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ....|.|||+...+.++|+|||. -|..|-.++    .-||+||+.+..+++||
T Consensus       299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~rvvrif  348 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIVRVVRIF  348 (350)
T ss_pred             HHHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHHHHHhhh
Confidence            37899999999999999999998 699998877    58999999999999998

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

Probab=98.23  E-value=4.9e-07  Score=90.79  Aligned_cols=47  Identities=26%  Similarity=0.634  Sum_probs=40.0

Q ss_pred             ccccccccccc---ccEEeccCCcchHhHHHHHHhcCCC-Ccccccchhhh
Q 017319          323 HNCCVCMVRHK---GAAFIPCGHTFCRLCSRELWVQRGN-CPLCNGFILEI  369 (373)
Q Consensus       323 l~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr~s~~-CPlCRa~i~ev  369 (373)
                      ..|.||++.+.   ....|||+|.||..||..|+....+ ||+|+..+..-
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            57999999996   3456899999999999999988754 99999877643

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

Probab=98.10  E-value=7.4e-07  Score=96.04  Aligned_cols=53  Identities=34%  Similarity=0.745  Sum_probs=44.9

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchh--hhhccC
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~--evL~IF  373 (373)
                      .-+.|++|...+++.+.+.|||.||..|+...+..+ .+||.|+..|.  -+.+||
T Consensus       642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            447899999999999999999999999999988755 57999999887  444444

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

Probab=98.10  E-value=1.5e-06  Score=87.90  Aligned_cols=48  Identities=23%  Similarity=0.683  Sum_probs=41.4

Q ss_pred             CCCccccccccccc-c------------ccEEeccCCcchHhHHHHHHhcCCCCcccccch
Q 017319          319 GGIEHNCCVCMVRH-K------------GAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       319 ~~~~l~CpICle~~-~------------~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      ...+..|.|||+.+ .            .|..+||||.++..|++.|+....+||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            34668899999973 2            358899999999999999999999999999884

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

Probab=98.06  E-value=1.9e-06  Score=85.28  Aligned_cols=46  Identities=26%  Similarity=0.671  Sum_probs=39.7

Q ss_pred             cccccccccccc---ccEEeccCCcchHhHHHHHHh-cCCCCcccccchh
Q 017319          322 EHNCCVCMVRHK---GAAFIPCGHTFCRLCSRELWV-QRGNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr-~s~~CPlCRa~i~  367 (373)
                      .-.|.|||..+.   ....+||.|.|+..|+.+|+. .+..||+||..+.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            367999999885   356689999999999999998 7788999998874

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

Probab=98.02  E-value=2.2e-06  Score=90.24  Aligned_cols=46  Identities=26%  Similarity=0.774  Sum_probs=41.8

Q ss_pred             Cccccccccccccc-----cEEeccCCcchHhHHHHHHhcCCCCcccccch
Q 017319          321 IEHNCCVCMVRHKG-----AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       321 ~~l~CpICle~~~~-----pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      ....|+||++.+..     +..++|+|.||..|+..|++...+||+||..+
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            45679999999987     79999999999999999999999999999843

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

Probab=97.83  E-value=2.6e-06  Score=85.52  Aligned_cols=51  Identities=24%  Similarity=0.488  Sum_probs=42.6

Q ss_pred             cCCCccccccccccccccEEec-cCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      .....+.|+||++.++...+++ |+|.||..||..-++.. +.||.||..+..
T Consensus        39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            3446689999999998777765 99999999999988876 569999987753

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

Probab=97.82  E-value=4.9e-06  Score=82.82  Aligned_cols=52  Identities=27%  Similarity=0.494  Sum_probs=46.6

Q ss_pred             cCCCccccccccccccccEEec-cCCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ......+|.+|.+++.++.++. |-|+||..||.+++.....||.|...+.+.
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            3456789999999999998886 999999999999999999999999888765

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

Probab=97.76  E-value=1.1e-05  Score=82.71  Aligned_cols=50  Identities=36%  Similarity=0.835  Sum_probs=45.7

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ..++.|.||+..+..|+.+||||.||..|+.+.+....-||+||..+.+.
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVEL  131 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccccc
Confidence            56799999999999999999999999999999888888999999988753

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

Probab=97.72  E-value=1.7e-05  Score=79.74  Aligned_cols=52  Identities=31%  Similarity=0.657  Sum_probs=42.3

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ......|.||.+..++.+++||||+.|  |..-..+. ..||+||..|..++++|
T Consensus       302 ~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l-~~CPvCR~rI~~~~k~y  353 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL-PQCPVCRQRIRLVRKRY  353 (355)
T ss_pred             cCCCCceEEecCCccceeeecCCcEEE--chHHHhhC-CCCchhHHHHHHHHHHh
Confidence            346678999999999999999999976  65443333 45999999999999877

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

Probab=97.61  E-value=2.4e-05  Score=73.76  Aligned_cols=50  Identities=24%  Similarity=0.638  Sum_probs=44.4

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ...+.|.||...+..|+.+.|||.||..|..+-++....|-+|.......
T Consensus       194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~  243 (259)
T COG5152         194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR  243 (259)
T ss_pred             CCceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccc
Confidence            36689999999999999999999999999999988888999997765543

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

Probab=97.46  E-value=8.7e-05  Score=61.32  Aligned_cols=46  Identities=22%  Similarity=0.575  Sum_probs=34.4

Q ss_pred             cccccccccccc-----------c-cEE-eccCCcchHhHHHHHHhcC---CCCcccccchh
Q 017319          322 EHNCCVCMVRHK-----------G-AAF-IPCGHTFCRLCSRELWVQR---GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~-----------~-pv~-LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i~  367 (373)
                      +..|.||...|.           + |+. -.|+|.|+..||.+|+...   ..||+||+.+.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            345777777664           1 223 3699999999999999863   67999998753

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

Probab=97.42  E-value=3.1e-05  Score=61.00  Aligned_cols=43  Identities=28%  Similarity=0.709  Sum_probs=23.3

Q ss_pred             ccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccch
Q 017319          322 EHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       322 ~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      .+.|.+|.+.++.|+.+ .|.|.||..|+...+.  ..||+|+.+-
T Consensus         7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa   50 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA   50 (65)
T ss_dssp             TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred             hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence            46899999999999865 6999999999976433  4599998764

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

Probab=97.36  E-value=5e-05  Score=74.97  Aligned_cols=50  Identities=20%  Similarity=0.603  Sum_probs=45.2

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEIL  370 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL  370 (373)
                      ..+.|-||...+..||.+.|+|.||..|....++....|.+|.+.+..+.
T Consensus       240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~  289 (313)
T KOG1813|consen  240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSF  289 (313)
T ss_pred             CCccccccccccccchhhcCCceeehhhhccccccCCcceeccccccccc
Confidence            55789999999999999999999999999999988899999988776654

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

Probab=97.29  E-value=9.1e-05  Score=75.87  Aligned_cols=49  Identities=27%  Similarity=0.575  Sum_probs=42.6

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhcC--CCCcccccchhhhh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR--GNCPLCNGFILEIL  370 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~i~evL  370 (373)
                      -..|.||-+.-++...-||||..|..|+..|....  ..||+||..|+..-
T Consensus       369 FeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  369 FELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            35799999999998888999999999999998655  57999999998643

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

Probab=97.28  E-value=0.00012  Score=73.83  Aligned_cols=51  Identities=31%  Similarity=0.642  Sum_probs=40.9

Q ss_pred             CCccccccccccccccE-----E---eccCCcchHhHHHHHHh--c-----CCCCcccccchhhhh
Q 017319          320 GIEHNCCVCMVRHKGAA-----F---IPCGHTFCRLCSRELWV--Q-----RGNCPLCNGFILEIL  370 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv-----~---LPCGH~FC~sCI~rwlr--~-----s~~CPlCRa~i~evL  370 (373)
                      ..+..|.|||+......     +   .+|.|.||..|+..|..  +     .+.||.||.....+.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            45688999999886554     3   56999999999999983  3     367999998876654

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

Probab=97.18  E-value=8.2e-05  Score=81.08  Aligned_cols=52  Identities=21%  Similarity=0.362  Sum_probs=43.6

Q ss_pred             CCccccccccccccccE---EeccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          320 GIEHNCCVCMVRHKGAA---FIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv---~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      .....|++|+..+.+..   ..+|+|.||..|+..|.+...+||+||..|.+++.
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V  175 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKV  175 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeee
Confidence            35578999998886432   34799999999999999999999999999988763

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

Probab=96.93  E-value=0.00047  Score=69.87  Aligned_cols=51  Identities=22%  Similarity=0.587  Sum_probs=45.9

Q ss_pred             cCCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...++..|+||.--....++.||+|.-|..||.+.+-+.+.|-+|+..+..
T Consensus       418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            345778999999999999999999999999999999999999999987763

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

Probab=96.92  E-value=0.00036  Score=71.22  Aligned_cols=50  Identities=26%  Similarity=0.611  Sum_probs=44.2

Q ss_pred             CCccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          320 GIEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ..++.|++|+..+.+|+.. .|||.||..|+..|+.....||.|+..+...
T Consensus        19 ~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             cccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            3568999999999999994 8999999999999999988999998776543

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

Probab=96.91  E-value=0.00037  Score=73.01  Aligned_cols=48  Identities=25%  Similarity=0.587  Sum_probs=37.8

Q ss_pred             Ccccccccccccc-----------------ccEEeccCCcchHhHHHHHHh-cCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHK-----------------GAAFIPCGHTFCRLCSRELWV-QRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~-----------------~pv~LPCGH~FC~sCI~rwlr-~s~~CPlCRa~i~e  368 (373)
                      ....|+|||..+.                 +-.++||-|.|+..|+.+|+. .+..||+||.++..
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4456999998652                 123459999999999999998 44589999998754

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

Probab=96.84  E-value=0.00082  Score=66.05  Aligned_cols=52  Identities=27%  Similarity=0.581  Sum_probs=42.6

Q ss_pred             ccCCCccccccccccccccEEec-cCCcchHhHHHHHHhcC--CCCcccccchhh
Q 017319          317 NAGGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQR--GNCPLCNGFILE  368 (373)
Q Consensus       317 ~~~~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s--~~CPlCRa~i~e  368 (373)
                      .....+.+|++|.+....|..+- |||.||..|+..-..-.  ++||.|...+..
T Consensus       234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            33446688999999999988775 99999999998876544  799999887763

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

Probab=96.60  E-value=0.00046  Score=54.53  Aligned_cols=46  Identities=30%  Similarity=0.762  Sum_probs=23.1

Q ss_pred             cccccccccccc-c---cEEe----ccCCcchHhHHHHHHhcC-----------CCCcccccchh
Q 017319          322 EHNCCVCMVRHK-G---AAFI----PCGHTFCRLCSRELWVQR-----------GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~-~---pv~L----PCGH~FC~sCI~rwlr~s-----------~~CPlCRa~i~  367 (373)
                      +..|.||+..+. .   +...    .|++.|+..|+.+|+...           +.||.|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            357999998764 2   2221    589999999999998742           35999998875

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

Probab=96.58  E-value=0.00077  Score=69.91  Aligned_cols=49  Identities=27%  Similarity=0.564  Sum_probs=38.3

Q ss_pred             ccCCCcccccccccccccc----EEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          317 NAGGIEHNCCVCMVRHKGA----AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       317 ~~~~~~l~CpICle~~~~p----v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ......-+|+||++.+..-    +.+.|.|.|+..|+.+|..  .+||+||....
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            3344567899999988643    4567999999999999965  58999997654

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

Probab=96.53  E-value=0.0013  Score=50.31  Aligned_cols=41  Identities=22%  Similarity=0.466  Sum_probs=29.2

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhc--CCCCcc
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQ--RGNCPL  361 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~--s~~CPl  361 (373)
                      ..+.|+|.+..+.+|+.- .|||.|.+..|..|++.  ...||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            558899999999999886 69999999999999943  346998

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

Probab=96.42  E-value=0.0011  Score=73.84  Aligned_cols=47  Identities=23%  Similarity=0.583  Sum_probs=36.3

Q ss_pred             Ccccccccccccc-------ccEEeccCCcchHhHHHHHHhcC--CCCcccccchh
Q 017319          321 IEHNCCVCMVRHK-------GAAFIPCGHTFCRLCSRELWVQR--GNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~-------~pv~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~i~  367 (373)
                      ....|+||...+.       ....-.|.|.||..|+.+|.+..  .+||+||..+.
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3456999998764       22233589999999999999876  57999997764

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

Probab=96.35  E-value=0.0017  Score=64.86  Aligned_cols=44  Identities=32%  Similarity=0.752  Sum_probs=37.8

Q ss_pred             CccccccccccccccEEec-cCCcchHhHHHHHHh-cCCCCccccc
Q 017319          321 IEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWV-QRGNCPLCNG  364 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr-~s~~CPlCRa  364 (373)
                      ..+.|+.|..++.+++.++ |+|.||..||...+. ..+.||.|-.
T Consensus       273 i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         273 ISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            4489999999999999997 899999999986654 5589999954

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

Probab=96.16  E-value=0.0051  Score=45.55  Aligned_cols=40  Identities=18%  Similarity=0.502  Sum_probs=31.5

Q ss_pred             ccccccc--cccccEEeccC-----CcchHhHHHHHHhcC--CCCcccc
Q 017319          324 NCCVCMV--RHKGAAFIPCG-----HTFCRLCSRELWVQR--GNCPLCN  363 (373)
Q Consensus       324 ~CpICle--~~~~pv~LPCG-----H~FC~sCI~rwlr~s--~~CPlCR  363 (373)
                      .|-||++  ...++...||.     |.++..|+.+|+...  .+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889997  33466778885     779999999999765  4799995

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

Probab=95.99  E-value=0.0029  Score=62.36  Aligned_cols=49  Identities=22%  Similarity=0.528  Sum_probs=39.0

Q ss_pred             CCCcccccccccccc----------ccEEeccCCcchHhHHHHHHhcC--CCCcccccchh
Q 017319          319 GGIEHNCCVCMVRHK----------GAAFIPCGHTFCRLCSRELWVQR--GNCPLCNGFIL  367 (373)
Q Consensus       319 ~~~~l~CpICle~~~----------~pv~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~i~  367 (373)
                      ...+..|.||-+.+.          +...|.|+|+|+.-||.-|....  .+||.|+..+.
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            345678999998774          34678999999999999997654  47999987654

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

Probab=95.78  E-value=0.007  Score=61.53  Aligned_cols=48  Identities=31%  Similarity=0.732  Sum_probs=40.0

Q ss_pred             cccccccccccccEEeccCCcchHhHHHHH--HhcCCCCcccccchhhhh
Q 017319          323 HNCCVCMVRHKGAAFIPCGHTFCRLCSREL--WVQRGNCPLCNGFILEIL  370 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~FC~sCI~rw--lr~s~~CPlCRa~i~evL  370 (373)
                      ..|.||-..+.-..++||+|.+|.-|..+.  ++..+.|++||..-..+|
T Consensus        62 ~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~  111 (493)
T COG5236          62 MNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVV  111 (493)
T ss_pred             ceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceEE
Confidence            569999999988889999999999998655  456688999998765544

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

Probab=95.74  E-value=0.0059  Score=61.41  Aligned_cols=54  Identities=22%  Similarity=0.536  Sum_probs=44.1

Q ss_pred             CCccccccccccccccEEec-cCCcchHhHHHHHHhcCCCCcccccc--hhhhhccC
Q 017319          320 GIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLCNGF--ILEILDIF  373 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s~~CPlCRa~--i~evL~IF  373 (373)
                      .+...|+||+....++..+. .|-+||..|+..++...+.||+-..+  +..++++|
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~  354 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLF  354 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHh
Confidence            45678999999999888877 59999999999999999999986544  44666554

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

Probab=95.71  E-value=0.0093  Score=49.20  Aligned_cols=29  Identities=28%  Similarity=0.556  Sum_probs=26.6

Q ss_pred             ccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          339 PCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       339 PCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      -|.|.|+..||.+|+..++.||+||+.+.
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            59999999999999999999999998754

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

Probab=95.55  E-value=0.0035  Score=51.27  Aligned_cols=44  Identities=25%  Similarity=0.610  Sum_probs=32.8

Q ss_pred             ccccccccccc------------cEEe-ccCCcchHhHHHHHHhcC---CCCcccccchh
Q 017319          324 NCCVCMVRHKG------------AAFI-PCGHTFCRLCSRELWVQR---GNCPLCNGFIL  367 (373)
Q Consensus       324 ~CpICle~~~~------------pv~L-PCGH~FC~sCI~rwlr~s---~~CPlCRa~i~  367 (373)
                      .|.||.-.|..            |.++ -|.|.|+..||.+|+...   ..||+||+.+.
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            67777766631            2333 499999999999999755   46999998753

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.50  E-value=0.0078  Score=58.77  Aligned_cols=49  Identities=16%  Similarity=0.227  Sum_probs=41.6

Q ss_pred             CCcccccccccccccc----EEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGA----AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~p----v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||.+.+.+.    ++-||||+||..|+.++.+..+.||+|-.++..
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            3678999999999753    334899999999999999999999999877753

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.40  E-value=0.011  Score=56.99  Aligned_cols=49  Identities=27%  Similarity=0.484  Sum_probs=38.7

Q ss_pred             CCCccccccccccccc----cEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKG----AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~----pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....+.|||+...+..    .++.+|||+|+..|+.+.. ....||+|..+|..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcccc
Confidence            3467999999988842    3444899999999999984 45679999988763

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.17  E-value=0.0083  Score=46.04  Aligned_cols=45  Identities=27%  Similarity=0.658  Sum_probs=35.8

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....|..|...-...+++||||..|..|..-+..  +.||+|..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY--ngCPfC~~~~~   50 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY--NGCPFCGTPFE   50 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhhc--cCCCCCCCccc
Confidence            3466888888878888999999999999864422  57999987764

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

Probab=95.13  E-value=0.0084  Score=63.71  Aligned_cols=46  Identities=30%  Similarity=0.607  Sum_probs=38.8

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcC-----CCCcccccch
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-----GNCPLCNGFI  366 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-----~~CPlCRa~i  366 (373)
                      ....|.+|.+.-.+++...|-|.||..|+.++...-     .+||.|-..+
T Consensus       535 ~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  535 GEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             CceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            456899999999999999999999999998886532     4799996554

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

Probab=95.06  E-value=0.0077  Score=56.91  Aligned_cols=45  Identities=24%  Similarity=0.707  Sum_probs=38.0

Q ss_pred             cccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          325 CCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       325 CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      |.+|...-....++||.|. +|..|-..    ...||+|+......+.+|
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~~~v~  206 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKTSSVEVN  206 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhhceeecc
Confidence            9999999999999999998 79999754    156999999888777654

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

Probab=95.01  E-value=0.014  Score=43.65  Aligned_cols=42  Identities=31%  Similarity=0.858  Sum_probs=21.5

Q ss_pred             ccccccccc--ccEEec--cCCcchHhHHHHHHh-cCCCCcccccch
Q 017319          325 CCVCMVRHK--GAAFIP--CGHTFCRLCSRELWV-QRGNCPLCNGFI  366 (373)
Q Consensus       325 CpICle~~~--~pv~LP--CGH~FC~sCI~rwlr-~s~~CPlCRa~i  366 (373)
                      |++|.+.+.  +..++|  ||+.+|..|+...+. ..+.||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            678888762  334555  788899999999986 468899999864

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

Probab=94.79  E-value=0.014  Score=63.78  Aligned_cols=45  Identities=33%  Similarity=0.776  Sum_probs=38.9

Q ss_pred             cccccccccccccEEeccCCcchHhHHHHHHhcC--CCCcccccchhh
Q 017319          323 HNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR--GNCPLCNGFILE  368 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~i~e  368 (373)
                      +.|.||++ ...++..+|+|.||..|+.......  ..||+||..+.+
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            78999999 7788888999999999999887765  359999987764

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

Probab=94.67  E-value=0.018  Score=59.60  Aligned_cols=46  Identities=28%  Similarity=0.835  Sum_probs=35.4

Q ss_pred             cCCCccccccccccccc---cEEeccCCcchHhHHHHHHhcC--------CCCcccc
Q 017319          318 AGGIEHNCCVCMVRHKG---AAFIPCGHTFCRLCSRELWVQR--------GNCPLCN  363 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~---pv~LPCGH~FC~sCI~rwlr~s--------~~CPlCR  363 (373)
                      .....+.|.||++....   -+++||+|+||+.|+..++...        .+||-|.
T Consensus       180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  180 FVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             HHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            34466889999998864   5678999999999998887533        3577664

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

Probab=94.56  E-value=0.021  Score=49.18  Aligned_cols=27  Identities=33%  Similarity=0.565  Sum_probs=25.1

Q ss_pred             ccCCcchHhHHHHHHhcCCCCcccccc
Q 017319          339 PCGHTFCRLCSRELWVQRGNCPLCNGF  365 (373)
Q Consensus       339 PCGH~FC~sCI~rwlr~s~~CPlCRa~  365 (373)
                      -|.|.|+.-||.+|++.+..||+|...
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            599999999999999999999999764

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

Probab=94.15  E-value=0.027  Score=56.08  Aligned_cols=47  Identities=30%  Similarity=0.579  Sum_probs=37.6

Q ss_pred             CCCccccccccccccccEEecc--CCcchHhHHHHHHhcCCCCcccccchhhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPC--GHTFCRLCSRELWVQRGNCPLCNGFILEI  369 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPC--GH~FC~sCI~rwlr~s~~CPlCRa~i~ev  369 (373)
                      ..+-+.||||...+..|++ .|  ||.-|..|-.+   ....||.||.++..+
T Consensus        45 ~~~lleCPvC~~~l~~Pi~-QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIF-QCDNGHLACSSCRTK---VSNKCPTCRLPIGNI   93 (299)
T ss_pred             chhhccCchhhccCcccce-ecCCCcEehhhhhhh---hcccCCccccccccH
Confidence            3466889999999998865 66  79999999863   347899999988744

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

Probab=93.97  E-value=0.035  Score=64.66  Aligned_cols=52  Identities=27%  Similarity=0.628  Sum_probs=41.4

Q ss_pred             cCCCccccccccccc---cccEEeccCCcchHhHHHHHHhcC----------CCCcccccchhhh
Q 017319          318 AGGIEHNCCVCMVRH---KGAAFIPCGHTFCRLCSRELWVQR----------GNCPLCNGFILEI  369 (373)
Q Consensus       318 ~~~~~l~CpICle~~---~~pv~LPCGH~FC~sCI~rwlr~s----------~~CPlCRa~i~ev  369 (373)
                      ....+..|.||+..-   ...+.|.|+|.|+..|..+.+.++          ..||+|..+|..+
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            445667899999754   356788999999999998888765          4699999888754

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

Probab=93.33  E-value=0.032  Score=56.08  Aligned_cols=47  Identities=34%  Similarity=0.701  Sum_probs=33.6

Q ss_pred             cccccccccccc-ccEEeccCCcchHhHHHHHHhcCCCCcccccchhhhh
Q 017319          322 EHNCCVCMVRHK-GAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEIL  370 (373)
Q Consensus       322 ~l~CpICle~~~-~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL  370 (373)
                      ...|--|--.+. -..++||.|+||..|...  ...+.||.|-..+..+-
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe  137 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQRIE  137 (389)
T ss_pred             eEeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence            356777765443 345679999999999854  34678999987776554

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

Probab=93.25  E-value=0.14  Score=52.33  Aligned_cols=26  Identities=19%  Similarity=0.183  Sum_probs=19.0

Q ss_pred             ccchHHHHHHHHHhhhccCCCccccc
Q 017319          263 PRMSLMDLLEETDRQMGLEGSRYAVG  288 (373)
Q Consensus       263 ~rmSLm~LLeE~e~e~~legSry~v~  288 (373)
                      -+++|++.+-|.-.+.-....+|..+
T Consensus       240 i~~tl~drF~e~F~~~V~~Np~y~~~  265 (358)
T PF10272_consen  240 IHQTLSDRFVEAFKEQVEQNPRYSYP  265 (358)
T ss_pred             ECCCHHHHHHHHHHHHHHhCCccccC
Confidence            56788888877777666667777666

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

>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=92.20  E-value=0.055  Score=40.65  Aligned_cols=46  Identities=24%  Similarity=0.644  Sum_probs=26.9

Q ss_pred             cccccccccccccEEeccC-CcchHhHHHHHHhcCCCCcccccchhhhh
Q 017319          323 HNCCVCMVRHKGAAFIPCG-HTFCRLCSRELWVQRGNCPLCNGFILEIL  370 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCG-H~FC~sCI~rwlr~s~~CPlCRa~i~evL  370 (373)
                      +.|.-|.-  .+.-++.|. |..|..|+..++..+..||+|..++...+
T Consensus         3 ~nCKsCWf--~~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtki   49 (50)
T PF03854_consen    3 YNCKSCWF--ANKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTKI   49 (50)
T ss_dssp             ----SS-S----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----S
T ss_pred             ccChhhhh--cCCCeeeecchhHHHHHHHHHhccccCCCcccCcCcccc
Confidence            34666663  334466786 77899999999999999999999887654

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.

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

Probab=92.15  E-value=0.044  Score=54.92  Aligned_cols=46  Identities=20%  Similarity=0.533  Sum_probs=34.2

Q ss_pred             ccccccccccccc---cEEeccCCcchHhHHHHHHhcC-----------------------CCCcccccchh
Q 017319          322 EHNCCVCMVRHKG---AAFIPCGHTFCRLCSRELWVQR-----------------------GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~---pv~LPCGH~FC~sCI~rwlr~s-----------------------~~CPlCRa~i~  367 (373)
                      ...|.||+--|.+   -+.++|-|.|+..|+.+++..-                       ..||+||..|.
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            3459999877752   3556899999999997775421                       35999998775

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

Probab=91.67  E-value=0.12  Score=53.22  Aligned_cols=45  Identities=20%  Similarity=0.307  Sum_probs=37.0

Q ss_pred             Ccccccccccccc---ccEEeccCCcchHhHHHHHHhcC---CCCcccccc
Q 017319          321 IEHNCCVCMVRHK---GAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGF  365 (373)
Q Consensus       321 ~~l~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~  365 (373)
                      .-+.|||=.+.-.   .|..|.|||++|..-+.++.++.   +.||+|-..
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            5588999777664   58899999999999999998865   479999543

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

Probab=91.31  E-value=0.079  Score=54.81  Aligned_cols=45  Identities=27%  Similarity=0.610  Sum_probs=36.1

Q ss_pred             Ccccccccccccc----ccEEeccCCcchHhHHHHHHhcC--CCCcccccc
Q 017319          321 IEHNCCVCMVRHK----GAAFIPCGHTFCRLCSRELWVQR--GNCPLCNGF  365 (373)
Q Consensus       321 ~~l~CpICle~~~----~pv~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~  365 (373)
                      ..+.|..|-+.+-    .--.+||.|.|+..|+.+++.+.  .+||.||.-
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            4578999998773    33457999999999999999765  469999943

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.92  E-value=0.14  Score=52.24  Aligned_cols=44  Identities=27%  Similarity=0.778  Sum_probs=31.9

Q ss_pred             cccccccccc--ccEEe--ccCCcchHhHHHHHHhcC-CCCcccccchh
Q 017319          324 NCCVCMVRHK--GAAFI--PCGHTFCRLCSRELWVQR-GNCPLCNGFIL  367 (373)
Q Consensus       324 ~CpICle~~~--~pv~L--PCGH~FC~sCI~rwlr~s-~~CPlCRa~i~  367 (373)
                      .|+.|++.+.  +.-+.  +||-..|.-|+..+...- ++||.||....
T Consensus        16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            3999999764  34444  577778999987665543 68999997654

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

Probab=90.84  E-value=0.16  Score=45.59  Aligned_cols=48  Identities=25%  Similarity=0.674  Sum_probs=40.6

Q ss_pred             CccccccccccccccEEec----cCCcchHhHHHHHHhcC---CCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIP----CGHTFCRLCSRELWVQR---GNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LP----CGH~FC~sCI~rwlr~s---~~CPlCRa~i~e  368 (373)
                      .-+.|-||.+...+..+|.    ||-..|-.|...+|+..   ..||+|+..+..
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            4588999999988887773    89889999999988866   579999988764

>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=90.44  E-value=0.11  Score=42.34  Aligned_cols=31  Identities=26%  Similarity=0.603  Sum_probs=24.6

Q ss_pred             CCccccccccccccccE--EeccCCcchHhHHH
Q 017319          320 GIEHNCCVCMVRHKGAA--FIPCGHTFCRLCSR  350 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv--~LPCGH~FC~sCI~  350 (373)
                      .....|.+|...+....  ..||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            34567999999987543  45999999999975

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 [].

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

Probab=90.31  E-value=0.13  Score=57.46  Aligned_cols=48  Identities=21%  Similarity=0.517  Sum_probs=38.2

Q ss_pred             CccccccccccccccE-EeccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          321 IEHNCCVCMVRHKGAA-FIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       321 ~~l~CpICle~~~~pv-~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      +...|..|-..+.-|. ...|||.|+..|+.   .....||.|+.....++.
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~~~m~  887 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELRGVMD  887 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhhhhhHH
Confidence            4468999999998664 45899999999998   445689999987666554

>PHA03096 p28-like protein; Provisional

Probab=89.94  E-value=0.17  Score=50.21  Aligned_cols=44  Identities=18%  Similarity=0.317  Sum_probs=31.2

Q ss_pred             cccccccccccc--------cEEeccCCcchHhHHHHHHhcC------CCCcccccch
Q 017319          323 HNCCVCMVRHKG--------AAFIPCGHTFCRLCSRELWVQR------GNCPLCNGFI  366 (373)
Q Consensus       323 l~CpICle~~~~--------pv~LPCGH~FC~sCI~rwlr~s------~~CPlCRa~i  366 (373)
                      ..|.||++....        .++-.|.|.||..|+..|....      ..||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            569999987642        2233599999999999998754      2355555544

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

Probab=89.70  E-value=0.15  Score=50.57  Aligned_cols=47  Identities=28%  Similarity=0.592  Sum_probs=38.3

Q ss_pred             Ccccccccccccc----ccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHK----GAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~----~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....|+||.+.+.    .+..++|||..+..|+..+.....+||+|.. +..
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d  207 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGD  207 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHH
Confidence            3345999998664    5677899999999999999888799999988 443

>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=89.66  E-value=0.15  Score=49.99  Aligned_cols=47  Identities=23%  Similarity=0.708  Sum_probs=33.9

Q ss_pred             Ccccccccccccc---ccEEe--c-cCCcchHhHHHHHHhcC-CCCc--ccccchh
Q 017319          321 IEHNCCVCMVRHK---GAAFI--P-CGHTFCRLCSRELWVQR-GNCP--LCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~---~pv~L--P-CGH~FC~sCI~rwlr~s-~~CP--lCRa~i~  367 (373)
                      .+..||||.....   +..++  | |-|.+|.+|+.+.+... ..||  -|..-++
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR   64 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR   64 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence            3467999997553   22222  5 99999999999998765 4699  7765544

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

Probab=89.63  E-value=0.22  Score=55.87  Aligned_cols=36  Identities=25%  Similarity=0.386  Sum_probs=27.7

Q ss_pred             CCccccccccccccc--cEEeccCCcchHhHHHHHHhc
Q 017319          320 GIEHNCCVCMVRHKG--AAFIPCGHTFCRLCSRELWVQ  355 (373)
Q Consensus       320 ~~~l~CpICle~~~~--pv~LPCGH~FC~sCI~rwlr~  355 (373)
                      .....|-+|...+..  -++.||||.|++.|+.+....
T Consensus       815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~  852 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS  852 (911)
T ss_pred             cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence            456789999987743  344599999999999877553

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

Probab=89.25  E-value=0.26  Score=47.91  Aligned_cols=44  Identities=27%  Similarity=0.517  Sum_probs=36.1

Q ss_pred             cccccccccc--ccEEeccCCcchHhHHHHHHhcC--------CCCcccccchh
Q 017319          324 NCCVCMVRHK--GAAFIPCGHTFCRLCSRELWVQR--------GNCPLCNGFIL  367 (373)
Q Consensus       324 ~CpICle~~~--~pv~LPCGH~FC~sCI~rwlr~s--------~~CPlCRa~i~  367 (373)
                      .|..|...+.  +.+.|-|-|.|++.|+.+|..+-        ..||.|..+|.
T Consensus        52 NC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   52 NCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            4889988775  56788999999999999997654        36999988764

>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=89.08  E-value=0.23  Score=44.47  Aligned_cols=36  Identities=22%  Similarity=0.630  Sum_probs=27.6

Q ss_pred             ccccccccccccc---cEEeccC------CcchHhHHHHHHhcCC
Q 017319          322 EHNCCVCMVRHKG---AAFIPCG------HTFCRLCSRELWVQRG  357 (373)
Q Consensus       322 ~l~CpICle~~~~---pv~LPCG------H~FC~sCI~rwlr~s~  357 (373)
                      ...|.||++.+..   .+.++||      |.||..|+.+|.+...
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence            4679999998864   4556776      5689999999955443

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.

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

Probab=88.97  E-value=0.13  Score=59.45  Aligned_cols=47  Identities=21%  Similarity=0.583  Sum_probs=39.9

Q ss_pred             CCcccccccccccc-ccEEeccCCcchHhHHHHHHhcCCCCcccccch
Q 017319          320 GIEHNCCVCMVRHK-GAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       320 ~~~l~CpICle~~~-~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      .....|.||.+.+. .....-|||.+|..|...|+.....||+|...+
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence            34568999999998 555667999999999999999999999997443

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

Probab=88.56  E-value=0.28  Score=46.26  Aligned_cols=46  Identities=26%  Similarity=0.646  Sum_probs=34.5

Q ss_pred             cccccccccccc-------EEeccCCcchHhHHHHHHhcC-----------CCCcccccchhhh
Q 017319          324 NCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQR-----------GNCPLCNGFILEI  369 (373)
Q Consensus       324 ~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s-----------~~CPlCRa~i~ev  369 (373)
                      -|.||..+.-+.       --+.||..|+.-|+..|++.-           +.||.|..++.-.
T Consensus       167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            488888755322       224799999999999999853           4699999887643

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

Probab=88.51  E-value=0.2  Score=54.69  Aligned_cols=38  Identities=29%  Similarity=0.746  Sum_probs=30.0

Q ss_pred             Ccccccccccccc----ccEEeccCCcchHhHHHHHHhcCCCCc
Q 017319          321 IEHNCCVCMVRHK----GAAFIPCGHTFCRLCSRELWVQRGNCP  360 (373)
Q Consensus       321 ~~l~CpICle~~~----~pv~LPCGH~FC~sCI~rwlr~s~~CP  360 (373)
                      ..+.|.||+..|.    .|+.+-|||+.|..|+...+..  .||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC
Confidence            3467899987774    5788889999999999887654  566

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.21  E-value=0.22  Score=49.80  Aligned_cols=37  Identities=35%  Similarity=0.738  Sum_probs=31.7

Q ss_pred             CCccccccccccccccEEecc----CCcchHhHHHHHHhcC
Q 017319          320 GIEHNCCVCMVRHKGAAFIPC----GHTFCRLCSRELWVQR  356 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPC----GH~FC~sCI~rwlr~s  356 (373)
                      ...+.|.+|.+.+.+..+..|    .|.||+.|..+..+..
T Consensus       266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q  306 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ  306 (352)
T ss_pred             CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence            355889999999999989888    5889999999888765

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

Probab=87.54  E-value=0.27  Score=51.14  Aligned_cols=30  Identities=33%  Similarity=0.808  Sum_probs=24.8

Q ss_pred             EEeccCCcchHhHHHHHHhcC--CCCcccccc
Q 017319          336 AFIPCGHTFCRLCSRELWVQR--GNCPLCNGF  365 (373)
Q Consensus       336 v~LPCGH~FC~sCI~rwlr~s--~~CPlCRa~  365 (373)
                      +.+.|||.|...||.+|+.+.  +.||.|...
T Consensus        23 vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen   23 VSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             eeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            567899999999999999743  569999643

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

Probab=86.04  E-value=0.2  Score=54.98  Aligned_cols=46  Identities=26%  Similarity=0.717  Sum_probs=38.6

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcC---CCCcccccch
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGFI  366 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i  366 (373)
                      ....|+||+..+..++.+.|-|.||..|+...+...   ..||+|+..+
T Consensus        20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~   68 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI   68 (684)
T ss_pred             hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence            457899999999999999999999999987776554   4699998554

>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=83.47  E-value=1  Score=32.54  Aligned_cols=38  Identities=21%  Similarity=0.552  Sum_probs=23.3

Q ss_pred             cccccccccccEEec---cCCcchHhHHHHHHhcCC--CCccc
Q 017319          325 CCVCMVRHKGAAFIP---CGHTFCRLCSRELWVQRG--NCPLC  362 (373)
Q Consensus       325 CpICle~~~~pv~LP---CGH~FC~sCI~rwlr~s~--~CPlC  362 (373)
                      |.+|.+.....+.=+   |+-.++..|+..+++...  .||.|
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            678888777665544   888899999999988765  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=82.50  E-value=0.74  Score=44.61  Aligned_cols=33  Identities=30%  Similarity=0.717  Sum_probs=26.5

Q ss_pred             ccEEeccCCcchHhHHHHHHhcC-CCCcccccch
Q 017319          334 GAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFI  366 (373)
Q Consensus       334 ~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i  366 (373)
                      .|..+.|||.||..|+.+.+... ..||.||...
T Consensus        21 ~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   21 IPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            34556699999999999888765 4699999873

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=82.40  E-value=1.3  Score=40.80  Aligned_cols=46  Identities=20%  Similarity=0.446  Sum_probs=33.7

Q ss_pred             CccccccccccccccEEeccCCc-----chHhHHHHHHhcC--CCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHT-----FCRLCSRELWVQR--GNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~-----FC~sCI~rwlr~s--~~CPlCRa~i~  367 (373)
                      ....|-||++... ....||...     .+..|+.+|...+  ..|++|+..+.
T Consensus         7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            4567999998764 334576542     3999999999866  46999987653

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

Probab=81.48  E-value=0.97  Score=45.91  Aligned_cols=45  Identities=20%  Similarity=0.336  Sum_probs=35.6

Q ss_pred             Ccccccccccccc---ccEEeccCCcchHhHHHHHHhcC---CCCcccccc
Q 017319          321 IEHNCCVCMVRHK---GAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGF  365 (373)
Q Consensus       321 ~~l~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~  365 (373)
                      .-+.||+-.+...   .|+++.|||++-..-+....++.   +.||.|-..
T Consensus       335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~  385 (396)
T COG5109         335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEM  385 (396)
T ss_pred             ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcc
Confidence            5578998766553   68999999999999998887765   679999543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	373
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	2e-13
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	1e-12
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	1e-11
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	4e-11
2ea5_A	68	Cell growth regulator with ring finger domain prot	9e-11
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-09
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	3e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	7e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-07
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-07
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	4e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	7e-07
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	8e-07
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	1e-06
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-06
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-06
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-06
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-06
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	4e-06
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	5e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	5e-06
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	9e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-05
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	1e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-05
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	4e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-04
3gdb_A	937	Endo-D, putative uncharacterized protein SPR0440;	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	5e-04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-04

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

 Score = 63.3 bits (154), Expect = 2e-13
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 316 ENAGGIEHNCCVCMVRHKGAAFI--PCGHTF-CRLCSRELWVQRGNCPLCNGFILEILDI 372
           E+   +   C +C  R +    I    GH   C  C+R L     +CP+C   I  ++ +
Sbjct: 1   EDCQNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKV 60

Query: 373 F 373
           F
Sbjct: 61  F 61

>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 Length = 64

 Score = 61.0 bits (148), Expect = 1e-12
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 3/52 (5%)

Query: 325 CCVCMVRHKGAAFIP--CGHTF-CRLCSRELWVQRGNCPLCNGFILEILDIF 373
           C +C  R K    +    GH   C  C+++L  +   CP+C   I  I+  +
Sbjct: 11  CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 62

>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 Length = 79

 Score = 59.0 bits (143), Expect = 1e-11
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 10/67 (14%)

Query: 308 EEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTF-CRLCSRELWVQRGNCPLCNGFI 366
           +E+   ++E        C VC      + F PCGHT  C  C+ +L     +CP+C   +
Sbjct: 9   QEKLRKLKE-----AMLCMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRV 59

Query: 367 LEILDIF 373
             +  ++
Sbjct: 60  EHVQHVY 66

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 57.5 bits (139), Expect = 4e-11
 Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 10/77 (12%)

Query: 298 EAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTF-CRLCSRELWVQR 356
               + E   EE+   ++E     E  C +CM R+    F+PCGH   C+ C+  +    
Sbjct: 6   SGSLQKEISTEEQLRRLQE-----EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV---- 56

Query: 357 GNCPLCNGFILEILDIF 373
             CP+C   I     IF
Sbjct: 57  DKCPMCYTVITFKQKIF 73

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 56.3 bits (136), Expect = 9e-11
 Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 5/66 (7%)

Query: 309 EEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFIL 367
             G    E +     +C VC         +PC HT  C  C +        CP+C  F+ 
Sbjct: 2   SSGSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQ----QCPMCRQFVQ 57

Query: 368 EILDIF 373
           E   + 
Sbjct: 58  ESFALS 63

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

 Score = 57.0 bits (137), Expect = 4e-10
 Identities = 28/106 (26%), Positives = 42/106 (39%), Gaps = 6/106 (5%)

Query: 259 QPRQPRMSLMDLLEETDR-QMGLEGSRYAVGED-EDEEEEDEAEAEAEGEYEEEGDDVEE 316
                      L+EE +R +   E    A  ++ E  +EE E     + E     +DV E
Sbjct: 3   LGSPGFQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLE 62

Query: 317 NAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           N    E  C +C      A  + C H+FC  C  E   ++  CP+C
Sbjct: 63  N----ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC 104

>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 = 57.1 bits (137), Expect = 3e-09
 Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 1/79 (1%)

Query: 289 EDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLC 348
           ++ D     E   +   +  +E  ++    G     C +C    K     PCGH  C  C
Sbjct: 299 QNPDLTGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSC 358

Query: 349 SRELWVQRGN-CPLCNGFI 366
                   G  CP C   I
Sbjct: 359 LTSWQESEGQGCPFCRCEI 377

>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 Length = 345

 Score = 53.8 bits (127), Expect = 3e-08
 Identities = 34/255 (13%), Positives = 65/255 (25%), Gaps = 12/255 (4%)

Query: 127 APPQFARRPSSKVASSSPGPTQSSHHEDSPEGEGSPTRSSRQPQLSRHNSTRVEAASNTV 186
                +  P             +                +R        S  +    N  
Sbjct: 93  LEQLLSTPPIIHYGPGESSSEDAVMMNTPVVKSALEMGFNRDLVKQTVQSKILTTGENYK 152

Query: 187 SEDNSVDPFDVAREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASV 246
           + ++ V     A +  R        E   S   ++  +                +     
Sbjct: 153 TVNDIVSALLNAEDEKREEEKEKQAEEMASDDLSLIRKNRMALFQQLTCVLPILDNLLKA 212

Query: 247 QVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGS-------RYAVGEDEDEEEEDEA 299
            V  + E     Q  Q  +   +L++    +     +              ++   +   
Sbjct: 213 NVINKQEHDIIKQKTQIPLQARELIDTILVKGNAAANIFKNSLKEIDSTLYKNLFVDKNM 272

Query: 300 EAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGH-TFCRLCSRELWVQRGN 358
           +     +      + +      E  C VCM +     FIPCGH   C+ C+  L      
Sbjct: 273 KYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RK 328

Query: 359 CPLCNGFILEILDIF 373
           CP+C G I   +  F
Sbjct: 329 CPICRGIIKGTVRTF 343

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

 Score = 49.1 bits (117), Expect = 4e-08
 Identities = 12/38 (31%), Positives = 16/38 (42%)

Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           C +C+        +PC H FC LC +        C LC
Sbjct: 18  CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALC 55

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

 Score = 48.2 bits (115), Expect = 6e-08
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 325 CCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILE 368
           C +C      A  I  C HTFC+ C    +     CP CN  + +
Sbjct: 18  CSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

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

 Score = 48.3 bits (115), Expect = 7e-08
 Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 3/59 (5%)

Query: 305 GEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           G     G   EE    I   C +C    +      C H FC  C+ E +     C +C+
Sbjct: 1   GSSGSSGGSEEEE---IPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 48.6 bits (116), Expect = 1e-07
 Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 325 CCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLCN 363
           C +C      A  IP C H +C LC R+    +  CP C 
Sbjct: 25  CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCC 64

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

 Score = 46.0 bits (109), Expect = 4e-07
 Identities = 15/60 (25%), Positives = 20/60 (33%), Gaps = 9/60 (15%)

Query: 311 GDDVEENAGGIEHNCCVCM-------VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           G      +G +   C +CM          +      CGH FC  C R+       CP C 
Sbjct: 1   GTTGLRPSGTVS--CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58

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

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 7/47 (14%)

Query: 324 NCCVCM-------VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           +C +CM          +      CGH FC  C R+       CP C 
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51

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

 Score = 46.2 bits (110), Expect = 5e-07
 Identities = 18/68 (26%), Positives = 22/68 (32%), Gaps = 21/68 (30%)

Query: 325 CCVCMVRHKGAAFIP----CGHTFCRLCSRELWVQRGN---CPLC--------------N 363
           C +CM         P    CGHT CR C  +L     N   CP C              N
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLTDN 77

Query: 364 GFILEILD 371
             +L+   
Sbjct: 78  LTVLKSGP 85

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

 Score = 45.2 bits (107), Expect = 7e-07
 Identities = 11/43 (25%), Positives = 14/43 (32%), Gaps = 1/43 (2%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCN 363
           ++ C  C +         CGH FC  C   L       C  C 
Sbjct: 15  KYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQ 57

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

 Score = 45.1 bits (107), Expect = 8e-07
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG---NCPLC 362
           E  C +C+   +    I CGH FC  C  ++         CPLC
Sbjct: 20  EVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 9/48 (18%)

Query: 324 NCCVCM-------VRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCN 363
           +C +CM          +      CGH FC  C R+  ++  N CP C 
Sbjct: 17  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRD-SLKNANTCPTCR 63

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

 Score = 44.2 bits (105), Expect = 1e-06
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG---NCPLC 362
           E +C VC+   K    I CGH FC+ C    W        CP+C
Sbjct: 15  EASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>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 = 45.3 bits (107), Expect = 2e-06
 Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 4/41 (9%)

Query: 325 CCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGN--CPLC 362
           C +CM + + A   P C    C  C R  W+      CP C
Sbjct: 25  CFICMEKLRDARLCPHCSKLCCFSCIRR-WLTEQRAQCPHC 64

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 3/43 (6%)

Query: 322 EHNCCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLC 362
              C +C+      +  +PC H FC +C    W+++   CPLC
Sbjct: 5   AERCPICLEDPSNYSMALPCLHAFCYVCITR-WIRQNPTCPLC 46

>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 = 45.3 bits (107), Expect = 2e-06
 Identities = 12/43 (27%), Positives = 15/43 (34%), Gaps = 1/43 (2%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELW-VQRGNCPLCN 363
             +C +C           C H FCR+C      V    CP C 
Sbjct: 23  SISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65

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

 Score = 45.3 bits (107), Expect = 2e-06
 Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 1/42 (2%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLC 362
           E  C +CM        +PC HT C+ C +    +    CP C
Sbjct: 15  ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFC 56

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG---NCPLC 362
           E  C +C+   +    I CGH FC  C  ++         CPLC
Sbjct: 20  EVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 23/113 (20%), Positives = 43/113 (38%), Gaps = 1/113 (0%)

Query: 198 AREGTRRLAVVLAQERQLSAREAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEP 257
            R   +++      E+       + A   A      A+AEAE+ AEA+ ++E E    + 
Sbjct: 686 GRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAA-RIEGEGSVLQA 744

Query: 258 VQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEE 310
               Q      +   E  +++      YA  + E E  + +  A  E +  +E
Sbjct: 745 KLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEAKKFKE 797

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 41.0 bits (95), Expect = 5e-04
 Identities = 24/130 (18%), Positives = 44/130 (33%), Gaps = 12/130 (9%)

Query: 198 AREGTRRLAVVLAQERQLSAR----EAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAE 253
           A + + +LA+ +    Q +A     + +  +     E      ++EAE      +E EA 
Sbjct: 653 ALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAM 712

Query: 254 AAEPVQPRQPRMSLMDLLEETDRQMGLEGSRYAVGEDEDEEEEDEAEA-------EAEGE 306
           +         + +  +   E  R  G      A  + +    E EAE        E E  
Sbjct: 713 SMAVESTGNAK-AEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELI 771

Query: 307 YEEEGDDVEE 316
           Y     ++E 
Sbjct: 772 YARAQLELEV 781

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

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 13/38 (34%), Positives = 16/38 (42%), Gaps = 3/38 (7%)

Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           C  C    K    +PC HT C  C     +Q   CP+C
Sbjct: 9   CQQCQAEAKCPKLLPCLHTLCSGCLEASGMQ---CPIC 43

>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 = 44.6 bits (105), Expect = 4e-06
 Identities = 13/79 (16%), Positives = 23/79 (29%), Gaps = 3/79 (3%)

Query: 287 VGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEH--NCCVCMVRHKGAAFIPCGHTF 344
           + ED+   +       +  +    G   +     +E    C  C           C H  
Sbjct: 15  IREDKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNV 74

Query: 345 CRLCSRELWVQRGN-CPLC 362
           C+ C    +  +   CP C
Sbjct: 75  CKDCLDRSFRAQVFSCPAC 93

>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 = 5e-06
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCN 363
           ++ C +C++  + A   PCGH FC+ C  +     G+ CP+ N
Sbjct: 18  KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

>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 = 42.3 bits (100), Expect = 6e-06
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 322 EHNCCVCM----VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
              C +C+         A  +PCGH   R C  E+  +   CPLC+
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 8/59 (13%)

Query: 308 EEEGDDVEENAGGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGN--CPLCN 363
             E D + +     E  C +C      A  IP CG+++C  C R   ++     CP C+
Sbjct: 6   SGEDDPIPD-----ELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 42.9 bits (100), Expect = 9e-06
 Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%)

Query: 323 HNCCVCMVRHKGAAF-IPCGHTFCRLCSRELWVQRGN--CPLCNGFILEI 369
           H C  C +  K     IPC H FC  C+  L  ++G+  CP C+  +  I
Sbjct: 2   HFCDKCGLPIKVYGRMIPCKHVFCYDCA-ILHEKKGDKMCPGCSDPVQRI 50

>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 = 43.2 bits (102), Expect = 1e-05
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG---NCPLC 362
              C +C+   K      C H FC+ C  +L  Q+     CPLC
Sbjct: 21  ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLC 64

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

 Score = 42.4 bits (100), Expect = 1e-05
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 6/47 (12%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN------CPLC 362
           E  C +C+   K      C H+FCR C    +    N      CP+C
Sbjct: 19  EVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVC 65

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

 Score = 41.5 bits (97), Expect = 1e-05
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 6/48 (12%)

Query: 322 EHNCCVCM---VRHKGAAFI--PCGHTFCRLCSRELWVQR-GNCPLCN 363
           +  C  C     R+     +   CGHT C  C   L+V+  GNCP C 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 43.5 bits (102), Expect = 1e-05
 Identities = 19/138 (13%), Positives = 45/138 (32%), Gaps = 22/138 (15%)

Query: 226 AAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPVQPRQPRMSLMDLLEETDRQMGLEGSRY 285
           ++      +       + ++ +V   +++AE ++  Q       L+ E            
Sbjct: 3   SSHHHHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIRE------------ 50

Query: 286 AVGEDEDEEEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFC 345
              + ++++  DE  +    E       +E+        C  C           C H  C
Sbjct: 51  ---DCQNQKLWDEVLSHLV-EGPNFLKKLEQ-----SFMCVCCQELVYQPVTTECFHNVC 101

Query: 346 RLCSRELWVQRG-NCPLC 362
           + C +  +  +  +CP C
Sbjct: 102 KDCLQRSFKAQVFSCPAC 119

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

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 325 CCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILE 368
           C +C      A  I  C H+FC+ C          CP+C+  + +
Sbjct: 18  CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

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

 Score = 42.8 bits (100), Expect = 2e-05
 Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 7/47 (14%)

Query: 324 NCCVCM-------VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           +C +CM          +      CGH FC  C R+       CP C 
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

>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 = 40.7 bits (96), Expect = 3e-05
 Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 7/48 (14%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-------NCPLC 362
           E  C +C+        + CGH+ CR C      +         +CP+C
Sbjct: 12  EVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

>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 = 42.4 bits (99), Expect = 4e-05
 Identities = 13/60 (21%), Positives = 19/60 (31%), Gaps = 3/60 (5%)

Query: 306 EYEEEGDDVEENAGGIE--HNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLC 362
           E  + G         +E  + C  C    +      CGH +C  C   +      NC  C
Sbjct: 13  ELLQPGFSKTLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAAC 72

>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 = 42.8 bits (100), Expect = 4e-05
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCN 363
           ++ C +C++  + A   PCGH FC+ C  +     G+ CP+ N
Sbjct: 18  KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

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

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 8/58 (13%)

Query: 309 EEGDDVEENAGGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGN--CPLCN 363
            E D + +     E  C +C      A  IP CG+++C  C R   ++     CP C+
Sbjct: 5   SEDDPIPD-----ELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

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

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 6/31 (19%)

Query: 338 IPCGHTFCRLCSRELWVQRG------NCPLC 362
           + CGH+FC+ C      +        +CP+C
Sbjct: 35  LDCGHSFCQACLTANHKKSMLDKGESSCPVC 65

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 11/46 (23%)

Query: 322 EHNCCVCM----VRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLC 362
           E  CC+CM            +PC H+FC+ C  + W  R  NCP+C
Sbjct: 15  EEECCICMDGRADL-----ILPCAHSFCQKCIDK-WSDRHRNCPIC 54

>3gdb_A Endo-D, putative uncharacterized protein SPR0440; alpha-beta-barrels, cell WALL, peptidoglycan-anchor, secreted, hydrolase; HET: PGE; 1.87A {Streptococcus pneumoniae} PDB: 2xqx_A Length = 937

 Score = 42.3 bits (98), Expect = 2e-04
 Identities = 21/105 (20%), Positives = 35/105 (33%), Gaps = 7/105 (6%)

Query: 219 EAVAAQEAAEAEAAAAEAEAEAEAEASVQVEAEAEAAEPV-------QPRQPRMSLMDLL 271
            + A  E    E+  +  EA+ + E     E + E AE V        P     +  +  
Sbjct: 29  NSGANTELVSGESEHSTNEADKQNEGEHARENKLEKAEGVATASETASPASNEAATTETA 88

Query: 272 EETDRQMGLEGSRYAVGEDEDEEEEDEAEAEAEGEYEEEGDDVEE 316
           E        E +   V E    E + +++ E E + E      E 
Sbjct: 89  EAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEATNQGDES 133

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

 Score = 38.3 bits (89), Expect = 5e-04
 Identities = 10/43 (23%), Positives = 14/43 (32%), Gaps = 3/43 (6%)

Query: 322 EHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLCN 363
              C  C    +    +  C H FC  C  +       CP+C 
Sbjct: 22  LLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCY 62

>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 = 37.2 bits (86), Expect = 6e-04
 Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 3/44 (6%)

Query: 323 HNCCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQRGN--CPLCN 363
             C +C  +  +G +   CG      C  + +       CP CN
Sbjct: 16  KICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	373
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.21
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.2
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.17
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.17
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.16
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.15
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.15
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.14
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.13
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.12
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.12
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.11
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.11
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.11
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.09
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.08
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.08
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.07
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.07
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.07
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.06
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.06
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.05
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.05
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.04
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.03
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.03
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.02
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.01
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.01
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.01
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.97
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.96
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.96
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.96
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.96
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.95
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.94
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.93
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.92
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.92
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.91
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.87
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.83
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.82
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.82
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.8
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.79
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.77
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.77
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.76
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.72
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.7
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.69
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.69
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.5
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.42
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.34
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.29
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.24
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.01
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.48
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.42
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.37
3nw0_A	238	Non-structural maintenance of chromosomes element	95.73
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.17
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.71
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	90.74
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	87.53

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

Probab=99.21  E-value=4.6e-12  Score=95.17  Aligned_cols=54  Identities=28%  Similarity=0.600  Sum_probs=46.7

Q ss_pred             CCcccccccccccccc-------EEeccCCcchHhHHHHHHhcCCCCcccccchh--hhhccC
Q 017319          320 GIEHNCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       320 ~~~l~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~--evL~IF  373 (373)
                      .....|+||++.+..+       +.++|||.||..|+.+|+.....||+||..+.  .+.++|
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhheeecc
Confidence            3567899999999877       88999999999999999999999999999887  444544

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

Probab=99.20  E-value=1e-11  Score=96.45  Aligned_cols=48  Identities=23%  Similarity=0.584  Sum_probs=44.5

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ..+.|+||++.+..+++++|||.||..|+..|+.....||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (81)
T 2csy_A           14 IPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGG   61 (81)
T ss_dssp             CCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCCS
T ss_pred             CCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCccccc
Confidence            457899999999999999999999999999999988899999998763

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

Probab=99.17  E-value=8.6e-12  Score=94.79  Aligned_cols=49  Identities=29%  Similarity=0.621  Sum_probs=45.1

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||++.+.+++.++|||.||..|+..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            3567899999999999999999999999999999988899999998874

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

Probab=99.17  E-value=9.2e-12  Score=91.36  Aligned_cols=53  Identities=28%  Similarity=0.620  Sum_probs=45.8

Q ss_pred             Ccccccccccccccc-------EEeccCCcchHhHHHHHHhcCCCCcccccchh--hhhccC
Q 017319          321 IEHNCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~--evL~IF  373 (373)
                      +.+.|+||++.+..+       +.++|||.||..|+.+|+.....||+||..+.  .+.++|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccceeeee
Confidence            357899999999876       78899999999999999999899999999887  455554

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

Probab=99.16  E-value=9.8e-12  Score=106.22  Aligned_cols=46  Identities=28%  Similarity=0.701  Sum_probs=43.2

Q ss_pred             cccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          323 HNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      +.|+||++.+.+|+.++|||.||..|+..|+.....||+||..+..
T Consensus        54 ~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             SBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             CCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            6799999999999999999999999999999998999999998753

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

Probab=99.15  E-value=2.1e-11  Score=92.83  Aligned_cols=49  Identities=29%  Similarity=0.555  Sum_probs=44.7

Q ss_pred             CCccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||++.+.+++.+ +|||.||..|+..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           13 TPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            4568899999999999987 999999999999999988999999998864

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

Probab=99.15  E-value=1.8e-11  Score=91.12  Aligned_cols=49  Identities=29%  Similarity=0.621  Sum_probs=43.9

Q ss_pred             CCcccccccccccccc-------EEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||++.+..+       +.++|||.||..|+..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4567899999999876       889999999999999999998999999998753

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

Probab=99.14  E-value=2.2e-11  Score=93.51  Aligned_cols=48  Identities=17%  Similarity=0.300  Sum_probs=44.0

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhc-CCCCcccccchh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~  367 (373)
                      ...+.|+||++.+.+|+.++|||.||..|+.+|+.. ...||+||..+.
T Consensus         6 ~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~   54 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             cccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCC
Confidence            456899999999999999999999999999999987 678999998875

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

Probab=99.13  E-value=3.3e-11  Score=92.55  Aligned_cols=49  Identities=29%  Similarity=0.635  Sum_probs=43.7

Q ss_pred             CCCccccccccccccccEEec-cCCcchHhHHHHHHhcC--CCCcccccchh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQR--GNCPLCNGFIL  367 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s--~~CPlCRa~i~  367 (373)
                      ....+.|+||++.+.+++.++ |||.||..||..|+...  ..||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            346689999999999999999 99999999999999865  68999999754

>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=99.12  E-value=4e-11  Score=90.10  Aligned_cols=51  Identities=25%  Similarity=0.648  Sum_probs=44.0

Q ss_pred             Ccccccccccccc---ccEEeccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          321 IEHNCCVCMVRHK---GAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       321 ~~l~CpICle~~~---~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      ....|+||++.+.   .++.++|||.||..|+..|+.....||+||..+...+.
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLP   66 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCC
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcCC
Confidence            4567999999884   46778999999999999999999999999999876553

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

Probab=99.12  E-value=3.4e-11  Score=95.20  Aligned_cols=48  Identities=29%  Similarity=0.636  Sum_probs=43.1

Q ss_pred             CCCccccccccccccccEEec-cCCcchHhHHHHHHhcC--CCCcccccch
Q 017319          319 GGIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQR--GNCPLCNGFI  366 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s--~~CPlCRa~i  366 (373)
                      ....+.|+||++.+.+|+.++ |||.||..||..|+...  ..||+||..+
T Consensus        10 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            346689999999999999999 99999999999999754  5899999986

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

Probab=99.11  E-value=4.7e-11  Score=90.27  Aligned_cols=50  Identities=28%  Similarity=0.554  Sum_probs=43.8

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHh---cCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV---QRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr---~s~~CPlCRa~i~e  368 (373)
                      ....+.|+||++.+.+++.++|||.||..|+..|+.   ....||+||..+..
T Consensus        17 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             CccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            345688999999999999999999999999999996   34689999998753

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

Probab=99.11  E-value=3.3e-11  Score=90.16  Aligned_cols=49  Identities=24%  Similarity=0.556  Sum_probs=43.8

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHh-cCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV-QRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr-~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||++.+.+++.++|||.||..|+.+|+. ....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            45689999999999999999999999999999994 45789999998864

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

Probab=99.11  E-value=2.5e-11  Score=90.76  Aligned_cols=52  Identities=25%  Similarity=0.673  Sum_probs=45.5

Q ss_pred             Ccccccccccccccc-EEeccCCcchHhHHHHHHhcCCCCcccccchhhhhcc
Q 017319          321 IEHNCCVCMVRHKGA-AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDI  372 (373)
Q Consensus       321 ~~l~CpICle~~~~p-v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~I  372 (373)
                      ....|+||++.+.++ +.++|||.||..|+.+|+.....||+||..+..++..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   56 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHT   56 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEECC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhhhhc
Confidence            346799999999885 7789999999999999999889999999998876543

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

Probab=99.09  E-value=2.7e-11  Score=91.30  Aligned_cols=53  Identities=28%  Similarity=0.729  Sum_probs=46.4

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      .....|+||++.+.. +.++|||.||..|+.+|+.....||+||..+.....+|
T Consensus        13 ~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   65 (70)
T 2ecn_A           13 TDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS   65 (70)
T ss_dssp             CCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCCC
T ss_pred             CCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCccc
Confidence            356789999999988 89999999999999999998889999999988655443

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

Probab=99.08  E-value=6e-11  Score=91.19  Aligned_cols=48  Identities=31%  Similarity=0.693  Sum_probs=43.8

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhc------CCCCcccccchh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ------RGNCPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~------s~~CPlCRa~i~  367 (373)
                      ...+.|+||++.+..++.++|||.||..|+..|+..      ...||+||..+.
T Consensus        17 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecw_A           17 KEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP   70 (85)
T ss_dssp             CTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCC
T ss_pred             ccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCC
Confidence            456889999999999999999999999999999987      568999998876

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

Probab=99.08  E-value=7.6e-11  Score=93.75  Aligned_cols=50  Identities=12%  Similarity=0.047  Sum_probs=45.8

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....+.|+||++.+.+|+.++|||+||..||.+|+....+||+|+..+..
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            34679999999999999999999999999999999988899999988763

>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=99.08  E-value=4.6e-11  Score=99.86  Aligned_cols=48  Identities=19%  Similarity=0.407  Sum_probs=43.2

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCC-CCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~-~CPlCRa~i~e  368 (373)
                      ..+.|+||++.+.+|+.++|||.||..|+..|+.... .||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4478999999999999999999999999999998554 89999998865

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

Probab=99.07  E-value=7.1e-11  Score=91.91  Aligned_cols=48  Identities=29%  Similarity=0.733  Sum_probs=43.0

Q ss_pred             CCccccccccccccc----cEEeccCCcchHhHHHHHHhcC---CCCcccccchh
Q 017319          320 GIEHNCCVCMVRHKG----AAFIPCGHTFCRLCSRELWVQR---GNCPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~----pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i~  367 (373)
                      ...+.|+||++.+..    ++.++|||.||..|+..|+...   ..||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR   67 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBC
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCccc
Confidence            456889999999988    9999999999999999999876   78999998764

>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=99.07  E-value=4.3e-11  Score=97.16  Aligned_cols=47  Identities=23%  Similarity=0.627  Sum_probs=43.2

Q ss_pred             CccccccccccccccEE-eccCCcchHhHHHHHHhcC-CCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAF-IPCGHTFCRLCSRELWVQR-GNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~-LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~  367 (373)
                      ..+.|+||++.+..|+. ++|||.||..||..|+... ..||+||..+.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ   69 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCC
Confidence            45789999999999999 8999999999999999987 68999998875

>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=99.07  E-value=7e-11  Score=84.71  Aligned_cols=47  Identities=32%  Similarity=0.718  Sum_probs=41.7

Q ss_pred             Cccccccccccccc----cEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKG----AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~----pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....|+||++.+..    ++.++|||.||..|+.+|+.....||+||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            34679999999865    778899999999999999999899999998864

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

Probab=99.07  E-value=3.4e-11  Score=91.07  Aligned_cols=53  Identities=26%  Similarity=0.596  Sum_probs=48.6

Q ss_pred             CccccccccccccccEEe--ccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          321 IEHNCCVCMVRHKGAAFI--PCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L--PCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ....|.||++...+++++  ||||. ||..|+..|+.....||+||..+..++++|
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i~i~   62 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY   62 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCEEEEEE
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhceEeee
Confidence            345799999999999988  99999 899999999988889999999999999887

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

Probab=99.06  E-value=3e-11  Score=91.05  Aligned_cols=52  Identities=29%  Similarity=0.678  Sum_probs=47.9

Q ss_pred             ccccccccccccccEEe--ccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          322 EHNCCVCMVRHKGAAFI--PCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       322 ~l~CpICle~~~~pv~L--PCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ...|.||++...+++++  ||||. ||..|+..|......||+||..+..++++|
T Consensus         7 ~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i~i~   61 (63)
T 2vje_B            7 LKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF   61 (63)
T ss_dssp             GSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCEEEEEE
T ss_pred             CCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhceEEEe
Confidence            45799999999998888  99998 999999999988889999999999999987

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

Probab=99.06  E-value=7e-11  Score=89.87  Aligned_cols=52  Identities=33%  Similarity=0.705  Sum_probs=44.1

Q ss_pred             CCcccccccccccccc---EEeccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          320 GIEHNCCVCMVRHKGA---AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       320 ~~~l~CpICle~~~~p---v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      .....|+||++.+..+   ..++|+|.||..|+.+|+.....||+||..+..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            3457899999998654   445999999999999999998999999999887654

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

Probab=99.05  E-value=7.1e-11  Score=90.77  Aligned_cols=48  Identities=25%  Similarity=0.625  Sum_probs=43.9

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhc------CCCCcccccchh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ------RGNCPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~------s~~CPlCRa~i~  367 (373)
                      ...+.|+||++.+.+++.++|||.||..|+..|+..      ...||+||..+.
T Consensus        17 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecv_A           17 KEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQ   70 (85)
T ss_dssp             CCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSC
T ss_pred             cCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccC
Confidence            456889999999999999999999999999999987      678999998876

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

Probab=99.05  E-value=7.7e-11  Score=90.52  Aligned_cols=48  Identities=25%  Similarity=0.517  Sum_probs=41.8

Q ss_pred             Ccccccccccccccc---EEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGA---AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~p---v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....|+||++.+..+   +.++|||.||..|+.+|+.....||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            457899999988644   567999999999999999988999999998864

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

Probab=99.04  E-value=1.4e-10  Score=85.79  Aligned_cols=44  Identities=32%  Similarity=0.645  Sum_probs=39.3

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhc---CCCCccc
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ---RGNCPLC  362 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~---s~~CPlC  362 (373)
                      ....+.|+||++.+.+++.++|||.||..|+.+|+..   ...||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456889999999999999999999999999999983   4689998

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

Probab=99.04  E-value=7.9e-11  Score=94.06  Aligned_cols=48  Identities=27%  Similarity=0.615  Sum_probs=42.8

Q ss_pred             Cccccccccccccc---cEEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKG---AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~---pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....|+||++.+..   ++.++|||.||..|+..|+.....||+||..+..
T Consensus        39 ~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            45789999998876   7788999999999999999998999999998764

>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=99.04  E-value=8.8e-11  Score=95.92  Aligned_cols=48  Identities=25%  Similarity=0.567  Sum_probs=44.3

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ..+.|+||++.+.+++.+ +|||.||..|+..|+.....||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            457899999999999998 999999999999999988999999998764

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

Probab=99.04  E-value=2.7e-11  Score=92.73  Aligned_cols=48  Identities=25%  Similarity=0.605  Sum_probs=43.3

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhc-------CCCCcccccchh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-------RGNCPLCNGFIL  367 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-------s~~CPlCRa~i~  367 (373)
                      ...+.|+||++.+.+++.++|||.||..|+..|+..       ...||+||..+.
T Consensus        10 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~   64 (79)
T 2egp_A           10 QEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYS   64 (79)
T ss_dssp             CCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCC
T ss_pred             ccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCC
Confidence            456889999999999999999999999999999986       568999998875

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

Probab=99.03  E-value=3.8e-11  Score=92.81  Aligned_cols=48  Identities=35%  Similarity=0.893  Sum_probs=44.9

Q ss_pred             ccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ...|+||++.+.+++++||||. ||..|+..|    ..||+||..+..++++|
T Consensus        24 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~~~i~   72 (74)
T 4ic3_A           24 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIL   72 (74)
T ss_dssp             HTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEEEECB
T ss_pred             CCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----ccCCCcCcCccCcEEEe
Confidence            3679999999999999999999 999999988    78999999999999887

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

Probab=99.03  E-value=1e-10  Score=94.04  Aligned_cols=48  Identities=29%  Similarity=0.689  Sum_probs=43.7

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ..+.|+||++.+.+++.+ +|||.||..|+..|+.....||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            347899999999999988 899999999999999988899999988763

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

Probab=99.02  E-value=9.5e-11  Score=89.69  Aligned_cols=48  Identities=25%  Similarity=0.616  Sum_probs=42.3

Q ss_pred             Ccccccccccccccc---EEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGA---AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~p---v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ....|+||++.+..+   +.++|+|.||..|+.+|+.....||+||..+..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            446799999998765   778999999999999999999999999998754

>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=99.01  E-value=1.7e-10  Score=94.78  Aligned_cols=49  Identities=10%  Similarity=-0.006  Sum_probs=45.5

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....+.|+||++.+.+|+.++|||+||..||..|+....+||+|+..+.
T Consensus        26 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~   74 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLT   74 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCC
T ss_pred             CcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCC
Confidence            4567999999999999999999999999999999998889999998876

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

Probab=99.01  E-value=1.3e-10  Score=83.45  Aligned_cols=46  Identities=33%  Similarity=0.761  Sum_probs=40.9

Q ss_pred             Cccccccccccccc---cEEec-cCCcchHhHHHHHHhcCCCCcccccch
Q 017319          321 IEHNCCVCMVRHKG---AAFIP-CGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       321 ~~l~CpICle~~~~---pv~LP-CGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      ....|+||++.+..   ++.++ |||.||..|+.+|+.....||+||..+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            34679999999876   67787 999999999999999989999999876

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.01  E-value=2.1e-10  Score=93.94  Aligned_cols=49  Identities=10%  Similarity=-0.038  Sum_probs=45.5

Q ss_pred             CCCccccccccccccccEEeccC-CcchHhHHHHHHhcCCCCcccccchh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCG-HTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCG-H~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....+.|+||++.+.+|+.++|| |+||..||.+|+.....||+|+..+.
T Consensus        19 ~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~   68 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT   68 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC
T ss_pred             CcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCC
Confidence            45679999999999999999999 99999999999998889999998876

>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=98.97  E-value=2.1e-10  Score=100.14  Aligned_cols=47  Identities=26%  Similarity=0.550  Sum_probs=42.8

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhc-CCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQ-RGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~-s~~CPlCRa~i~  367 (373)
                      ..+.|+||++.+.+++.+ +|||.||..|+..|+.. ...||+||..+.
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            457899999999999988 99999999999999997 678999999874

>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=98.96  E-value=2.4e-10  Score=99.77  Aligned_cols=48  Identities=19%  Similarity=0.438  Sum_probs=43.4

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCC-CCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~-~CPlCRa~i~e  368 (373)
                      ..+.|+||++.+.+|+.++|||.||..||..|+.... .||+||..+..
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            3478999999999999999999999999999998764 79999998874

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

Probab=98.96  E-value=1.2e-10  Score=89.84  Aligned_cols=48  Identities=38%  Similarity=0.928  Sum_probs=43.8

Q ss_pred             ccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ...|+||++.+.+++++||||. ||..|+..+    ..||+||..+...+++|
T Consensus        25 ~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~~~i~   73 (75)
T 2ecg_A           25 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIF   73 (75)
T ss_dssp             HHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC----SBCTTTCCBCCCCCBCC
T ss_pred             CCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC----CCCccCCceecCcEEEe
Confidence            3679999999999999999999 999999653    78999999999999987

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

Probab=98.96  E-value=3.4e-10  Score=81.72  Aligned_cols=43  Identities=37%  Similarity=1.010  Sum_probs=38.1

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHh---cCCCCccc
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV---QRGNCPLC  362 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr---~s~~CPlC  362 (373)
                      ...+.|+||++.+.+++.++|||.||..|+..|+.   ....||+|
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            35678999999999999999999999999999954   45689998

>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=98.96  E-value=7.7e-11  Score=97.09  Aligned_cols=48  Identities=27%  Similarity=0.649  Sum_probs=43.2

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhc-CCCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~e  368 (373)
                      .++.|+||++.+.+|+.++|||.||..|+..|+.. ...||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            45889999999999999999999999999999876 4689999998764

>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=98.95  E-value=2.3e-10  Score=92.91  Aligned_cols=46  Identities=33%  Similarity=0.764  Sum_probs=41.7

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhcC---CCCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i~  367 (373)
                      .+.|+||++.+..++.++|||.||..|+..|+...   ..||+||..+.
T Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (112)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence            36799999999999999999999999999999865   38999998876

>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=98.94  E-value=3.1e-10  Score=93.00  Aligned_cols=48  Identities=29%  Similarity=0.665  Sum_probs=39.5

Q ss_pred             ccccccccccccccE------------------EeccCCcchHhHHHHHHh-----cCCCCcccccchhhh
Q 017319          322 EHNCCVCMVRHKGAA------------------FIPCGHTFCRLCSRELWV-----QRGNCPLCNGFILEI  369 (373)
Q Consensus       322 ~l~CpICle~~~~pv------------------~LPCGH~FC~sCI~rwlr-----~s~~CPlCRa~i~ev  369 (373)
                      +..|+||++.+..+.                  .++|+|.||..||..|+.     ....||+||..+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            357999999986543                  679999999999999994     456899999887643

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

Probab=98.93  E-value=3.3e-10  Score=93.45  Aligned_cols=49  Identities=29%  Similarity=0.621  Sum_probs=44.5

Q ss_pred             CCcccccccccccccc-------EEeccCCcchHhHHHHHHhcCCCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...+.|+||++.+..+       +.++|||.||..|+.+|+.....||+||..+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            3568899999999888       899999999999999999999999999998863

>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=98.92  E-value=4e-10  Score=93.68  Aligned_cols=50  Identities=32%  Similarity=0.753  Sum_probs=44.8

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCC-CCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~-~CPlCRa~i~e  368 (373)
                      ....+.|+||++.+..++.++|||.||..|+..|+.... .||+||..+..
T Consensus        15 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            345689999999999999999999999999999998765 89999988764

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

Probab=98.92  E-value=3.7e-10  Score=84.14  Aligned_cols=46  Identities=33%  Similarity=0.805  Sum_probs=39.2

Q ss_pred             ccccccccc-ccccc----EEeccCCcchHhHHHHHHhcC-CCCcccccchh
Q 017319          322 EHNCCVCMV-RHKGA----AFIPCGHTFCRLCSRELWVQR-GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle-~~~~p----v~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~  367 (373)
                      ++.|+||++ .+.++    +.++|||.||..|+.+|+... ..||+||..+.
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   54 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccc
Confidence            467999999 78777    467999999999999996644 67999999876

>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=98.92  E-value=5e-10  Score=102.93  Aligned_cols=50  Identities=12%  Similarity=-0.027  Sum_probs=44.6

Q ss_pred             cCCCccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFIL  367 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~  367 (373)
                      .....+.|+||++.+.+|++++|||+||..||..|+... ..||+|+.++.
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~  254 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT  254 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc
Confidence            345779999999999999999999999999999999864 45999999876

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

Probab=98.91  E-value=4.7e-10  Score=86.05  Aligned_cols=49  Identities=29%  Similarity=0.778  Sum_probs=44.6

Q ss_pred             CccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ....|.||++...+++++||||. ||..|+...    ..||+||..+..++++|
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~~CP~CR~~i~~~~~i~   63 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYF----QQCPMCRQFVQESFALS   63 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHC----SSCTTTCCCCCCEECCC
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHhcC----CCCCCCCcchhceEEee
Confidence            45779999999999999999999 999999853    78999999999999987

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

Probab=98.87  E-value=8.3e-10  Score=91.03  Aligned_cols=47  Identities=23%  Similarity=0.521  Sum_probs=43.0

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhc-CCCCcccccchhh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILE  368 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~e  368 (373)
                      .+.|+||++.+.+|+.++|||.||..|+..|+.. ...||+||..+..
T Consensus        23 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            4789999999999999999999999999999987 5789999998763

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

Probab=98.86  E-value=6.7e-10  Score=96.17  Aligned_cols=47  Identities=21%  Similarity=0.496  Sum_probs=42.6

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcCC-CCcccccch
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCNGFI  366 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~-~CPlCRa~i  366 (373)
                      ...+.|+||++.+..|+.++|||.||..||..|+.... .||+||..+
T Consensus        29 ~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             CGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            45689999999999999999999999999999998664 899999864

>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=98.83  E-value=1.5e-09  Score=87.46  Aligned_cols=46  Identities=22%  Similarity=0.381  Sum_probs=40.7

Q ss_pred             CCccccccccccccccEEec-cCCcchHhHHHHHHhcC------CCCcc--cccc
Q 017319          320 GIEHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQR------GNCPL--CNGF  365 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s------~~CPl--CRa~  365 (373)
                      ...+.|+||++.+.+|+.++ |||+||..||..|+...      ..||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            46689999999999999996 99999999999999763      48999  9844

>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=98.82  E-value=5.8e-10  Score=87.74  Aligned_cols=47  Identities=32%  Similarity=0.897  Sum_probs=43.4

Q ss_pred             cccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          323 HNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ..|.||++.+.+++++||||. ||..|+..|    ..||+||..+..++++|
T Consensus        19 ~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~~~i~   66 (79)
T 2yho_A           19 MLCMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHVQHVY   66 (79)
T ss_dssp             TBCTTTSSSBCCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEEEECB
T ss_pred             CEeEEeCcccCcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhCeEEEE
Confidence            579999999999999999999 999999876    58999999999988876

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

Probab=98.82  E-value=1.8e-09  Score=84.73  Aligned_cols=46  Identities=26%  Similarity=0.586  Sum_probs=38.5

Q ss_pred             ccccccccccccc--------------cEEec-cCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          322 EHNCCVCMVRHKG--------------AAFIP-CGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~--------------pv~LP-CGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ...|+||++.+..              .+.++ |+|.||..||.+|+....+||+||..+.
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            3558888888854              44554 9999999999999999999999999875

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

Probab=98.80  E-value=6.6e-10  Score=92.22  Aligned_cols=45  Identities=22%  Similarity=0.533  Sum_probs=41.1

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ..+.|+||++.+.+|+.+ +|||.||..|+..|+.  ..||+||..+.
T Consensus        21 ~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            457899999999999999 9999999999999987  78999998874

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

Probab=98.79  E-value=1.6e-09  Score=89.30  Aligned_cols=54  Identities=28%  Similarity=0.600  Sum_probs=46.0

Q ss_pred             CCcccccccccccccc-------EEeccCCcchHhHHHHHHhcCCCCcccccchh--hhhccC
Q 017319          320 GIEHNCCVCMVRHKGA-------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL--EILDIF  373 (373)
Q Consensus       320 ~~~l~CpICle~~~~p-------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~--evL~IF  373 (373)
                      .....|+||++.+..+       +.++|||.||..|+.+|+...+.||+||..+.  .+.++|
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcceeee
Confidence            3557899999998775       88899999999999999999999999999876  444544

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

Probab=98.77  E-value=8.7e-10  Score=80.84  Aligned_cols=44  Identities=27%  Similarity=0.616  Sum_probs=38.8

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ..+.|+||++.+.+++.++|||.||..|+..   ....||+||..+.
T Consensus         5 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~   48 (56)
T 1bor_A            5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSS
T ss_pred             cCCCceEeCCccCCeEEcCCCCcccHHHHcc---CCCCCCcCCcEee
Confidence            4578999999999999999999999999977   3468999998875

>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=98.77  E-value=3e-09  Score=106.58  Aligned_cols=50  Identities=26%  Similarity=0.577  Sum_probs=44.7

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHh-cCCCCcccccchhhhhc
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWV-QRGNCPLCNGFILEILD  371 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr-~s~~CPlCRa~i~evL~  371 (373)
                      ...|+||++.+..++.++|||.||..|+..|+. ....||+||..+.....
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~  382 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP  382 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEE
T ss_pred             CCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCcee
Confidence            367999999999999999999999999999998 56789999999876543

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

Probab=98.76  E-value=3.1e-09  Score=83.76  Aligned_cols=50  Identities=30%  Similarity=0.685  Sum_probs=40.1

Q ss_pred             CCcccccccccccc--ccEEec--cCCcchHhHHHHHHhc-CCCCcccccchhhh
Q 017319          320 GIEHNCCVCMVRHK--GAAFIP--CGHTFCRLCSRELWVQ-RGNCPLCNGFILEI  369 (373)
Q Consensus       320 ~~~l~CpICle~~~--~pv~LP--CGH~FC~sCI~rwlr~-s~~CPlCRa~i~ev  369 (373)
                      .+++.|+||++.+.  ++.++|  |||.||..|+..++.. ...||+||..+...
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            35578999999884  456666  9999999999998753 46899999988753

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

Probab=98.72  E-value=6.1e-09  Score=94.41  Aligned_cols=51  Identities=12%  Similarity=-0.022  Sum_probs=45.1

Q ss_pred             cCCCccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          318 AGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       318 ~~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      .....+.|+||++.+.+|++++|||+||..||..|+... ..||+|+.++..
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            345779999999999999999999999999999999864 469999988763

>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=98.70  E-value=6.1e-09  Score=91.17  Aligned_cols=50  Identities=32%  Similarity=0.753  Sum_probs=44.4

Q ss_pred             CCCccccccccccccccEEeccCCcchHhHHHHHHhcCC-CCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~-~CPlCRa~i~e  368 (373)
                      ....+.|+||++.+.+|+.++|||.||..|+.+|+.... .||+||..+..
T Consensus        15 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            346689999999999999999999999999999997654 89999988764

>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=98.69  E-value=8.2e-09  Score=85.89  Aligned_cols=47  Identities=28%  Similarity=0.464  Sum_probs=40.1

Q ss_pred             Ccccccccccccccc------------------EEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGA------------------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~p------------------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....|.||++.+..+                  +.++|+|.||..||..|+....+||+||..+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            446799999988643                  45789999999999999999999999999853

>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=98.69  E-value=2.5e-09  Score=105.40  Aligned_cols=49  Identities=41%  Similarity=0.993  Sum_probs=45.7

Q ss_pred             CccccccccccccccEEeccCCc-chHhHHHHHHhcCCCCcccccchhhhhccC
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHT-FCRLCSRELWVQRGNCPLCNGFILEILDIF  373 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~-FC~sCI~rwlr~s~~CPlCRa~i~evL~IF  373 (373)
                      ....|+||++.+.+++++||||. ||..|+..|    ..||+||..+..++++|
T Consensus       294 ~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~~~i~  343 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKGTVRTF  343 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC----SBCTTTCCBCCEEEECC
T ss_pred             CCCCCCccCCcCCceEEcCCCChhHhHHHHhcC----CcCCCCCCCccCeEEee
Confidence            45789999999999999999999 999999987    78999999999999987

>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=98.50  E-value=4.2e-08  Score=93.99  Aligned_cols=49  Identities=22%  Similarity=0.434  Sum_probs=42.8

Q ss_pred             CCCccccccccccccccEEe-ccCCcchHhHHHHHHhcC--CCCcc--cccchh
Q 017319          319 GGIEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQR--GNCPL--CNGFIL  367 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s--~~CPl--CRa~i~  367 (373)
                      ....+.|+||+..+.+|+.. .|||.||..||..|+...  ..||+  |+..+.
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            34678999999999999986 899999999999999764  46999  998764

>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=98.42  E-value=3.2e-08  Score=84.10  Aligned_cols=47  Identities=28%  Similarity=0.464  Sum_probs=0.8

Q ss_pred             Ccccccccccccccc------------------EEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGA------------------AFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~p------------------v~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ....|.||++.+..+                  +.++|+|.||..||.+|+.....||+||..+.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            346799999988642                  22489999999999999999999999999853

>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=98.34  E-value=1.6e-07  Score=70.84  Aligned_cols=46  Identities=13%  Similarity=0.143  Sum_probs=42.4

Q ss_pred             ccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      .+.|+||++.+.+|+.+ +|||+||..||.+|+....+||+++.++.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCC
Confidence            47899999999999999 89999999999999988788999998875

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

Probab=98.29  E-value=3.4e-07  Score=72.53  Aligned_cols=47  Identities=19%  Similarity=0.489  Sum_probs=39.2

Q ss_pred             Ccccccccccccc--ccEEeccC-----CcchHhHHHHHHhcC--CCCcccccchh
Q 017319          321 IEHNCCVCMVRHK--GAAFIPCG-----HTFCRLCSRELWVQR--GNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~--~pv~LPCG-----H~FC~sCI~rwlr~s--~~CPlCRa~i~  367 (373)
                      ....|.||++.+.  .+.++||.     |.||..||.+|+...  ..||+||..+.
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            3457999998773  56778996     999999999999876  48999998875

>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=98.24  E-value=3.7e-07  Score=72.85  Aligned_cols=45  Identities=22%  Similarity=0.498  Sum_probs=37.1

Q ss_pred             CccccccccccccccEEe---ccCCcchHhHHHHHHhcC--------CCCcc--cccc
Q 017319          321 IEHNCCVCMVRHKGAAFI---PCGHTFCRLCSRELWVQR--------GNCPL--CNGF  365 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L---PCGH~FC~sCI~rwlr~s--------~~CPl--CRa~  365 (373)
                      ..+.|+||++.+..+.++   +|||.||..|+..++...        ..||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            457899999998766544   699999999999998642        36999  9987

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

Probab=98.01  E-value=4.1e-06  Score=65.91  Aligned_cols=48  Identities=19%  Similarity=0.447  Sum_probs=40.0

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhcC--CCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQR--GNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s--~~CPlCRa~i~e  368 (373)
                      ....|.||+..+.....- .|+|.|+..||.+|++..  .+||+||..+..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            446799999999754443 699999999999999887  789999987653

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

Probab=97.48  E-value=5.6e-05  Score=63.04  Aligned_cols=47  Identities=32%  Similarity=0.603  Sum_probs=38.4

Q ss_pred             cccccccccccc-cEEeccCCcchHhHHHHHHhc-CCCCcccccchhhh
Q 017319          323 HNCCVCMVRHKG-AAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILEI  369 (373)
Q Consensus       323 l~CpICle~~~~-pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~ev  369 (373)
                      ..|.+|--.+.. ..++||.|.||..|+..|.++ .+.||.|+..+..+
T Consensus         2 hfC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            2 HFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             CBCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             eecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            358889877753 456799999999999999865 57899999988754

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

Probab=97.42  E-value=2.8e-05  Score=77.38  Aligned_cols=48  Identities=21%  Similarity=0.515  Sum_probs=37.2

Q ss_pred             Cccccccccccccc----c----EEeccCCcchHhHHHHHHhcC-----------CCCcccccchhh
Q 017319          321 IEHNCCVCMVRHKG----A----AFIPCGHTFCRLCSRELWVQR-----------GNCPLCNGFILE  368 (373)
Q Consensus       321 ~~l~CpICle~~~~----p----v~LPCGH~FC~sCI~rwlr~s-----------~~CPlCRa~i~e  368 (373)
                      ....|+||+..+..    |    ....|+|.|+..|+.+|++..           +.||+||.++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            34569999988764    1    123699999999999999753           469999998764

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

Probab=97.37  E-value=9.1e-05  Score=55.57  Aligned_cols=46  Identities=20%  Similarity=0.438  Sum_probs=36.7

Q ss_pred             ccccccccccccccEEeccC--C---cchHhHHHHHHhc--CCCCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFIPCG--H---TFCRLCSRELWVQ--RGNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCG--H---~FC~sCI~rwlr~--s~~CPlCRa~i~  367 (373)
                      ...|.||+.....+..+||.  +   .|+..|+.+|+..  ...||+|+..+.
T Consensus         6 ~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            6 VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            35699999876666678865  4   6999999999975  467999998764

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

Probab=95.73  E-value=0.0054  Score=57.40  Aligned_cols=46  Identities=20%  Similarity=0.481  Sum_probs=38.0

Q ss_pred             ccccccccccccccEEec-cCCcchHhHHHHHHhcCC--CCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRG--NCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s~--~CPlCRa~i~  367 (373)
                      ...|.||.......+.-+ |+|.|+..|+.+|++...  .||.|+....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            567999999887655544 999999999999987654  8999987754

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

Probab=93.71  E-value=0.025  Score=44.95  Aligned_cols=32  Identities=19%  Similarity=0.511  Sum_probs=26.4

Q ss_pred             cccccccccc-ccccEE--eccCCcchHhHHHHHH
Q 017319          322 EHNCCVCMVR-HKGAAF--IPCGHTFCRLCSRELW  353 (373)
Q Consensus       322 ~l~CpICle~-~~~pv~--LPCGH~FC~sCI~rwl  353 (373)
                      +..|.||.+. +..++.  +.|+|.||..|+..+.
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHh
Confidence            4789999975 566666  8999999999999843

>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=90.74  E-value=0.12  Score=41.86  Aligned_cols=38  Identities=32%  Similarity=0.676  Sum_probs=31.1

Q ss_pred             CCCccccccccccccccEEecc----CCcchHhHHHHHHhcC
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPC----GHTFCRLCSRELWVQR  356 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPC----GH~FC~sCI~rwlr~s  356 (373)
                      ....+.|.+|.+.+.+.-+..|    .|.||+.|.....+..
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhc
Confidence            3466889999999998877777    5889999998887643

>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=87.53  E-value=0.36  Score=53.48  Aligned_cols=52  Identities=10%  Similarity=-0.035  Sum_probs=46.1

Q ss_pred             ccCCCccccccccccccccEEeccC-CcchHhHHHHHHhcCCCCcccccchhh
Q 017319          317 NAGGIEHNCCVCMVRHKGAAFIPCG-HTFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       317 ~~~~~~l~CpICle~~~~pv~LPCG-H~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ......+.|+|-++...+|+.+|.| ++|-..+|.+|+....+||+-|.++..
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~  938 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL  938 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc
Confidence            3456789999999999999999998 589999999999988899999988763

---

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	373
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	8e-10
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-06
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	5e-05
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-04
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-04

>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 = 52.7 bits (126), Expect = 8e-10
 Identities = 19/81 (23%), Positives = 24/81 (29%), Gaps = 9/81 (11%)

Query: 294 EEEDEAEAEAEGEYEEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELW 353
           ++  +   E    Y E G   +         C +C    K     PCGH  C  C     
Sbjct: 3   QDHIKVTQEQYELYCEMGSTFQL--------CKICAENDKDVKIEPCGHLMCTSCLTSWQ 54

Query: 354 VQRGN-CPLCNGFILEILDIF 373
              G  CP C   I     I 
Sbjct: 55  ESEGQGCPFCRCEIKGTEPIV 75

>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 = 48.4 bits (115), Expect = 3e-08
 Identities = 12/39 (30%), Positives = 14/39 (35%), Gaps = 1/39 (2%)

Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELW-VQRGNCPLC 362
           C +C           C H FCR+C      V    CP C
Sbjct: 26  CQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSC 64

>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 = 47.2 bits (112), Expect = 5e-08
 Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 1/50 (2%)

Query: 325 CCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
           C +C+      +   PC H FC +C      Q   CPLC   +  ++   
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTI 57

>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 = 44.5 bits (105), Expect = 3e-07
 Identities = 15/55 (27%), Positives = 18/55 (32%), Gaps = 12/55 (21%)

Query: 308 EEEGDDVEENAGGIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
           EEE   +          C  C    K    +PC HT C  C          CP+C
Sbjct: 1   EEEFQFLR---------CQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPIC 43

>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 = 44.7 bits (105), Expect = 1e-06
 Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 3/43 (6%)

Query: 324 NCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN---CPLCN 363
            C +C+   K      C H FC+ C  +L  Q+     CPLC 
Sbjct: 23  ECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

>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 = 38.7 bits (90), Expect = 4e-05
 Identities = 12/42 (28%), Positives = 14/42 (33%), Gaps = 4/42 (9%)

Query: 325 CCVCMVRHKGAAFI----PCGHTFCRLCSRELWVQRGNCPLC 362
           C VC+   +          CGH F   C          CPLC
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

>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 = 38.6 bits (89), Expect = 5e-05
 Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 1/40 (2%)

Query: 325 CCVCM-VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           C +   V  +          F +    +     GN P+ N
Sbjct: 3   CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITN 42

>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 = 37.0 bits (85), Expect = 4e-04
 Identities = 11/40 (27%), Positives = 12/40 (30%)

Query: 324 NCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCN 363
           N           A+  C H F   C       R  CPL N
Sbjct: 41  NQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>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 = 36.3 bits (83), Expect = 4e-04
 Identities = 13/48 (27%), Positives = 16/48 (33%), Gaps = 6/48 (12%)

Query: 322 EHNCCVCMV-----RHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCN 363
           +  C  C                CGHT C  C   L+V+    CP C 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 35.1 bits (80), Expect = 8e-04
 Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 5/43 (11%)

Query: 325 CCVCM----VRHKGAAFIPCGHTFCRLCSRELW-VQRGNCPLC 362
           C +CM    +         CG+  CR C   +   + G CP C
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPAC 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	373
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.16
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.14
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.06
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.05
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.01
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.99
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.96
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.91
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.91
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.88
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.81
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.79
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.77
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.75
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.68
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.26
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.83
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	91.09

>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=99.16  E-value=6.9e-12  Score=97.26  Aligned_cols=50  Identities=28%  Similarity=0.619  Sum_probs=44.2

Q ss_pred             cccccccccccccEEeccCCcchHhHHHHHHhc-CCCCcccccchhhhhcc
Q 017319          323 HNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILEILDI  372 (373)
Q Consensus       323 l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~evL~I  372 (373)
                      ..|+||++.+.++++++|||.||..|+..|+.. ...||+||..+.....+
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            469999999999999999999999999999975 46799999999876543

>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=99.14  E-value=7.1e-12  Score=94.26  Aligned_cols=49  Identities=27%  Similarity=0.736  Sum_probs=42.8

Q ss_pred             cccccccccccccEE-eccCCcchHhHHHHHHhcCCCCcccccchhhhhc
Q 017319          323 HNCCVCMVRHKGAAF-IPCGHTFCRLCSRELWVQRGNCPLCNGFILEILD  371 (373)
Q Consensus       323 l~CpICle~~~~pv~-LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~evL~  371 (373)
                      ..|+||++.+.+++. ++|||.||..|+.+|++...+||+||..+..+..
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~~   55 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH   55 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEEC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhcc
Confidence            459999999976644 7999999999999999999999999999876543

>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=99.06  E-value=3.6e-11  Score=95.33  Aligned_cols=47  Identities=23%  Similarity=0.516  Sum_probs=42.1

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      .+.|+||++.+.+|+.++|||.||..|+.+|++.. ..||+||.++..
T Consensus        23 ~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          23 SISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            36899999999999999999999999999999754 579999998763

>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=99.05  E-value=2.6e-11  Score=97.42  Aligned_cols=46  Identities=33%  Similarity=0.764  Sum_probs=41.4

Q ss_pred             ccccccccccccccEEeccCCcchHhHHHHHHhcC---CCCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR---GNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s---~~CPlCRa~i~  367 (373)
                      .+.|+||++.+.+|+.++|||.||..|+..|+...   ..||+||..+.
T Consensus        21 ~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            46799999999999999999999999999999765   37999998875

>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=99.01  E-value=4.1e-11  Score=87.17  Aligned_cols=45  Identities=16%  Similarity=0.203  Sum_probs=42.0

Q ss_pred             cccccccccccccEEec-cCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          323 HNCCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       323 l~CpICle~~~~pv~LP-CGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      +.|+||++.+.+|+.++ |||.||..||.+|+.....||+||.++.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCC
Confidence            46999999999999885 9999999999999999999999998876

>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=98.99  E-value=9.8e-11  Score=90.11  Aligned_cols=49  Identities=12%  Similarity=0.017  Sum_probs=43.7

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      .+.+.|+||++.+.+|+.++|||+||..||.+|+... ..||+|+..+..
T Consensus         5 P~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           5 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            4678999999999999999999999999999999754 579999988753

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.96  E-value=1.5e-10  Score=88.52  Aligned_cols=49  Identities=16%  Similarity=0.286  Sum_probs=43.9

Q ss_pred             CCccccccccccccccEEeccCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          320 GIEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       320 ~~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      ..++.|+||++.+.+|+.++|||.||..|+.+|+... ..||.|+..+..
T Consensus         6 P~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            4679999999999999999999999999999999765 569999988753

>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=98.91  E-value=1.8e-10  Score=85.93  Aligned_cols=47  Identities=32%  Similarity=0.743  Sum_probs=37.5

Q ss_pred             cccccccccccc-----ccEEeccCCcchHhHHHHHHhc-CCCCcccccchhh
Q 017319          322 EHNCCVCMVRHK-----GAAFIPCGHTFCRLCSRELWVQ-RGNCPLCNGFILE  368 (373)
Q Consensus       322 ~l~CpICle~~~-----~pv~LPCGH~FC~sCI~rwlr~-s~~CPlCRa~i~e  368 (373)
                      +..|+||++.+.     ..+.++|||.||..||.+|+.. ...||+||..+..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            467999998652     1245689999999999999865 4579999998753

>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=98.91  E-value=2.1e-10  Score=83.38  Aligned_cols=45  Identities=31%  Similarity=0.743  Sum_probs=38.5

Q ss_pred             ccccccccccccc---cEEe-ccCCcchHhHHHHHHhcCCCCcccccch
Q 017319          322 EHNCCVCMVRHKG---AAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFI  366 (373)
Q Consensus       322 ~l~CpICle~~~~---pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i  366 (373)
                      ...|+||++.+..   ...+ +|+|.||..|+.+|++...+||+||..+
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            3569999999863   4455 5999999999999999999999999876

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=7.8e-11  Score=86.29  Aligned_cols=44  Identities=27%  Similarity=0.599  Sum_probs=38.9

Q ss_pred             CccccccccccccccEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      +.+.|+||++.+.++++++|||.||..|+.+|   ...||+||..+.
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC---CCcCcCCCCccc
Confidence            34789999999999999999999999999754   568999998875

>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=98.81  E-value=2.7e-10  Score=90.42  Aligned_cols=45  Identities=22%  Similarity=0.533  Sum_probs=39.0

Q ss_pred             CccccccccccccccEEe-ccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          321 IEHNCCVCMVRHKGAAFI-PCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~L-PCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      ..+.|+||++.+.+|+.+ +|||.||..||.+|+.  ..||+||..+.
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCc
Confidence            347899999999999876 7999999999999975  46999998764

>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=98.79  E-value=7.1e-10  Score=79.42  Aligned_cols=46  Identities=28%  Similarity=0.604  Sum_probs=37.3

Q ss_pred             cccccccccccc----cEEeccCCcchHhHHHHHHhcC-CCCcccccchhh
Q 017319          323 HNCCVCMVRHKG----AAFIPCGHTFCRLCSRELWVQR-GNCPLCNGFILE  368 (373)
Q Consensus       323 l~CpICle~~~~----pv~LPCGH~FC~sCI~rwlr~s-~~CPlCRa~i~e  368 (373)
                      +.|+||++.+..    +..++|||.||..|+.+|+... .+||+||.++.+
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            369999998742    3445899999999999999864 579999998753

>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=98.77  E-value=1.4e-09  Score=87.94  Aligned_cols=47  Identities=28%  Similarity=0.675  Sum_probs=37.3

Q ss_pred             ccccccccccccc------------------cEEeccCCcchHhHHHHHHhcC-----CCCcccccchhh
Q 017319          322 EHNCCVCMVRHKG------------------AAFIPCGHTFCRLCSRELWVQR-----GNCPLCNGFILE  368 (373)
Q Consensus       322 ~l~CpICle~~~~------------------pv~LPCGH~FC~sCI~rwlr~s-----~~CPlCRa~i~e  368 (373)
                      +..|+||++.+..                  ..+++|||.||..||..|+...     .+||+||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            3569999987642                  2456899999999999999854     379999987653

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=2.5e-09  Score=85.68  Aligned_cols=50  Identities=10%  Similarity=-0.033  Sum_probs=44.7

Q ss_pred             CCCccccccccccccccEEeccCC-cchHhHHHHHHhcCCCCcccccchhh
Q 017319          319 GGIEHNCCVCMVRHKGAAFIPCGH-TFCRLCSRELWVQRGNCPLCNGFILE  368 (373)
Q Consensus       319 ~~~~l~CpICle~~~~pv~LPCGH-~FC~sCI~rwlr~s~~CPlCRa~i~e  368 (373)
                      ...++.|+||+..+.+|++++|+| +||..||.+|+.....||+|+.++..
T Consensus        19 ~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             CcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            346799999999999999999775 79999999999988899999998763

>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=98.68  E-value=4.8e-09  Score=82.10  Aligned_cols=33  Identities=30%  Similarity=0.419  Sum_probs=29.6

Q ss_pred             cEEeccCCcchHhHHHHHHhcCCCCcccccchh
Q 017319          335 AAFIPCGHTFCRLCSRELWVQRGNCPLCNGFIL  367 (373)
Q Consensus       335 pv~LPCGH~FC~sCI~rwlr~s~~CPlCRa~i~  367 (373)
                      .+.++|||.||..||.+|+....+||+||..+.
T Consensus        52 ~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          52 VAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             EEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             eEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            355789999999999999999999999998864

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.26  E-value=1.8e-07  Score=67.97  Aligned_cols=46  Identities=17%  Similarity=0.372  Sum_probs=37.2

Q ss_pred             ccccccccccccccEEecc-----CCcchHhHHHHHHhc--CCCCcccccchh
Q 017319          322 EHNCCVCMVRHKGAAFIPC-----GHTFCRLCSRELWVQ--RGNCPLCNGFIL  367 (373)
Q Consensus       322 ~l~CpICle~~~~pv~LPC-----GH~FC~sCI~rwlr~--s~~CPlCRa~i~  367 (373)
                      ...|.||++.+......+|     +|.||..|+.+|+..  ..+||+||+.+.
T Consensus         6 ~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           6 VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            3569999998877666665     499999999999864  357999998864

>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=97.83  E-value=2e-06  Score=66.67  Aligned_cols=44  Identities=20%  Similarity=0.465  Sum_probs=33.2

Q ss_pred             Ccccccccccccc--c-cEEeccCCcchHhHHHHHHhcC--------CCCccccc
Q 017319          321 IEHNCCVCMVRHK--G-AAFIPCGHTFCRLCSRELWVQR--------GNCPLCNG  364 (373)
Q Consensus       321 ~~l~CpICle~~~--~-pv~LPCGH~FC~sCI~rwlr~s--------~~CPlCRa  364 (373)
                      ....|+||++.+.  + +.+++|+|.||..|+..|+...        .+||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3467999999874  3 3445799999999999998632        25998653

>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=91.09  E-value=0.043  Score=41.49  Aligned_cols=36  Identities=33%  Similarity=0.706  Sum_probs=29.9

Q ss_pred             CccccccccccccccEEecc----CCcchHhHHHHHHhcC
Q 017319          321 IEHNCCVCMVRHKGAAFIPC----GHTFCRLCSRELWVQR  356 (373)
Q Consensus       321 ~~l~CpICle~~~~pv~LPC----GH~FC~sCI~rwlr~s  356 (373)
                      ..+.|.+|.+.+.+.-+..|    +|.||..|.....+..
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q   46 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   46 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhc
Confidence            45889999999998877777    5889999998887643