Citrus Sinensis ID: 020261

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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-------33
Protein Sequence
MDSKGKATNDDKEREQEQEQNPNSNNDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHcccccccccccccccccccHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHccccccccccccccccccccEEEccccccccEEEEEcccccccHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHccccccccccccccccccccccccccccccccccHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccHHHHHHcccEEEEcccccccccccEEEEEEEccccccEEEEccccccHHHHHHHHHHHHcccccEEEEccccccc
Coil and Loop (DISEMBL)
mdskgkatnddkereqeqeqnpnsnndninsnelsdeeTETNLEQQQqgqrqdsrtrtpftnlsQVDADLALARTLQEQERAYMMLRMNnnegsdygsweagsylhdedddfggdgddddddddedesdagdhenhecdgsdfviddddededafdvhaheeveednnpsveydsdvfssDEAYARALQDAEERDMAARLLALAEIhdreiedpedhgghsqdtweevdpdelsYEELLALGEVvgsesrglsadtlatlptvnykggtsqngsndscvicrldyedgetLTVLSCKHSYHSECINNWLKInkvcpvcsaevstsghs
Flexible Loop (DISEMBL)
mdskgkatnddkereqeqeqnpnsnndninSNELSDEETETNLEQqqqgqrqdsrtrtpftnlsqvdaDLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDEsdagdhenhecdgsDFVIDDDDEDEDAFDVHAheeveednnpsveydsdvFSSDEAYARALQDAEERDMAARLLALAEIHDreiedpedhgghsQDTWEEVDPDELSYEELLALGEVVGsesrglsadtlatlptvnykggtsqngsndsCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Low Complexity Region (SEG)
MDSKGKATNDDKereqeqeqnpnsnndninsnelsdeetetnleqqqqgqrqdsrtrtPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHdedddfggdgddddddddedesdagdheNHECDGSdfviddddededafdvhaheeVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Disordered region (IsUnstruct)
********************************************************************************************************************************************************************************************************LA********************************YEELLALGEVVG*********TLATLPTVNYK********NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA********
Disordered Region (DISOPRED)
*******************************************************************************************************YL**************************************************************************************************************************VDPDELSYEELLALGEVVGSESRGLSADTLATLPTV************DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA*VS*****
Disordered Region (DISEMBL)
************************NNDNINSNE***********************RTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDG*******************HECDGSDFVIDDDDEDEDAFDVHAHE***********YDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREI*******************DELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC**********
Disordered Region (DISPRO)
************************************************************TNLSQVDADLALARTLQEQERAYMMLRMNNNE**D***WEA***LH****************************************************************VEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDR********GGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDSKGKATNDDKEREQEQEQNPNSNNDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
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	328	2.2.26 [Sep-21-2011]
Q9LT17	340	E3 ubiquitin ligase BIG B	yes	no	0.780	0.752	0.635	3e-82
Q8L649	248	E3 ubiquitin ligase BIG B	no	no	0.307	0.407	0.557	2e-28
Q9H0F5	515	RING finger protein 38 OS	yes	no	0.268	0.170	0.377	7e-14
Q8BI21	518	RING finger protein 38 OS	yes	no	0.265	0.167	0.395	1e-13
Q7L0R7	432	RING finger protein 44 OS	no	no	0.268	0.203	0.377	4e-13
Q08CG8	448	RING finger protein 44 OS	no	no	0.268	0.196	0.377	6e-13
Q3UHJ8	407	RING finger protein 44 OS	no	no	0.268	0.216	0.377	7e-13
Q4V7B8	350	RING finger protein 44 OS	no	no	0.268	0.251	0.377	9e-13
Q6ZSG1	346	RING finger protein 165 O	no	no	0.274	0.260	0.346	7e-11
E9QAU8	347	RING finger protein 165 O	no	no	0.274	0.259	0.355	3e-10

>sp|Q9LT17|BBR_ARATH E3 ubiquitin ligase BIG BROTHER-related OS=Arabidopsis thaliana GN=BBR PE=2 SV=1

 Score =  305 bits (782), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 174/274 (63%), Positives = 211/274 (77%), Gaps = 18/274 (6%)

Query: 52  QDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDD 111
           + S  R PFTNLSQ+DADLALARTLQEQERAYMML MN+ E SDYGSWE GSY++DED+ 
Sbjct: 80  RSSSARVPFTNLSQIDADLALARTLQEQERAYMMLTMNS-EISDYGSWETGSYVYDEDEF 138

Query: 112 FGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSV 171
              + +D+DDD+DE E+D    E    DG D             +VHA+E+ +ED+  S 
Sbjct: 139 DDPENEDEDDDEDEYETDDDPQE----DGLDV------------NVHANEDDQEDDGNS- 181

Query: 172 EYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPD 231
           + +   ++ DEAYARALQ+AEERDMAARL AL+ + +R +ED ED    SQD W+E+DPD
Sbjct: 182 DIEEVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDESHTSQDAWDEMDPD 241

Query: 232 ELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETL 291
           ELSYEELLALG++VG+ESRGLSADT+A+LP+  YK G +QNG+N+SCVICRLDYED E L
Sbjct: 242 ELSYEELLALGDIVGTESRGLSADTIASLPSKRYKEGDNQNGTNESCVICRLDYEDDEDL 301

Query: 292 TVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
            +L CKHSYHSECINNWLKINKVCPVCSAEVSTS
Sbjct: 302 ILLPCKHSYHSECINNWLKINKVCPVCSAEVSTS 335

E3 ubiquitin-ligase probably involved in organ size regulation.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8L649|BB_ARATH E3 ubiquitin ligase BIG BROTHER OS=Arabidopsis thaliana GN=BB PE=1 SV=1

 Score =  126 bits (317), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 58/104 (55%), Positives = 77/104 (74%), Gaps = 3/104 (2%)

Query: 222 QDTWEE-VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGT--SQNGSNDSC 278
           Q +W++ +DPD ++YEEL+ LGE VG+ESRGLS + + TLPT  YK G+  S+  + + C
Sbjct: 138 QVSWQDDIDPDTMTYEELVELGEAVGTESRGLSQELIETLPTKKYKFGSIFSRKRAGERC 197

Query: 279 VICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
           VIC+L Y+ GE    L CKH YHSECI+ WL INKVCPVC++EV
Sbjct: 198 VICQLKYKIGERQMNLPCKHVYHSECISKWLSINKVCPVCNSEV 241

E3 ubiquitin-ligase that limits organ size, and possibly seed size, in a dose-dependent manner. Negatively regulates the duration of cell proliferation in leaves and petals independently of the major phytohormones (e.g. auxin, cytokinin, gibberellin, brassinosteroids, ethylene, abscisic acid, jasmonic acid), probably by targeting growth stimulators for degradation.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9H0F5|RNF38_HUMAN RING finger protein 38 OS=Homo sapiens GN=RNF38 PE=1 SV=4

 Score = 78.6 bits (192), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 53/90 (58%), Gaps = 2/90 (2%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTV 293
           YE LL L E +G ++ RGL+   +  LP+  +     Q+     CV+C  D+E  + L V
Sbjct: 420 YEALLNLAERLGEAKPRGLTKADIEQLPSYRFNPNNHQS-EQTLCVVCMCDFESRQLLRV 478

Query: 294 LSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           L C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 479 LPCNHEFHAKCVDKWLKANRTCPICRADAS 508

Homo sapiens (taxid: 9606)

>sp|Q8BI21|RNF38_MOUSE RING finger protein 38 OS=Mus musculus GN=Rnf38 PE=2 SV=1

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/91 (39%), Positives = 56/91 (61%), Gaps = 4/91 (4%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDS-CVICRLDYEDGETLT 292
           YE LL L E +G ++ RGL+   +  LP+  Y+   S + S  + CV+C  D+E  + L 
Sbjct: 423 YEALLNLAERLGEAKPRGLTKADIEQLPS--YRFNPSNHQSEQTLCVVCMCDFESRQLLR 480

Query: 293 VLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 481 VLPCNHEFHAKCVDKWLKGNRTCPICRADAS 511

Mus musculus (taxid: 10090)

>sp|Q7L0R7|RNF44_HUMAN RING finger protein 44 OS=Homo sapiens GN=RNF44 PE=2 SV=1

 Score = 75.9 bits (185), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 54/90 (60%), Gaps = 2/90 (2%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTV 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+     CV+C  D+E  + L V
Sbjct: 337 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQS-EQTLCVVCFSDFEARQLLRV 395

Query: 294 LSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           L C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 396 LPCNHEFHTKCVDKWLKANRTCPICRADAS 425

Homo sapiens (taxid: 9606)

>sp|Q08CG8|RNF44_DANRE RING finger protein 44 OS=Danio rerio GN=rnf44 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 53/90 (58%), Gaps = 2/90 (2%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTV 293
           YE LL L E +G ++ RGL+   +  LP+  +     Q+     CV+C  D+E  + L V
Sbjct: 353 YEALLNLAERLGEAKPRGLTKADIEQLPSYRFNLENHQS-EQTLCVVCFSDFESRQLLRV 411

Query: 294 LSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           L C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 412 LPCNHEFHAKCVDKWLKTNRTCPICRADAS 441

Danio rerio (taxid: 7955)

>sp|Q3UHJ8|RNF44_MOUSE RING finger protein 44 OS=Mus musculus GN=Rnf44 PE=2 SV=1

 Score = 75.1 bits (183), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 54/90 (60%), Gaps = 2/90 (2%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTV 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+     CV+C  D+E  + L V
Sbjct: 312 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQS-EQTLCVVCFSDFEVRQLLRV 370

Query: 294 LSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           L C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 371 LPCNHEFHAKCVDKWLKANRTCPICRADAS 400

Mus musculus (taxid: 10090)

>sp|Q4V7B8|RNF44_RAT RING finger protein 44 OS=Rattus norvegicus GN=Rnf44 PE=2 SV=1

 Score = 74.7 bits (182), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 54/90 (60%), Gaps = 2/90 (2%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTV 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+     CV+C  D+E  + L V
Sbjct: 255 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQS-EQTLCVVCFSDFEVRQLLRV 313

Query: 294 LSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           L C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 314 LPCNHEFHAKCVDKWLKANRTCPICRADAS 343

Rattus norvegicus (taxid: 10116)

>sp|Q6ZSG1|RN165_HUMAN RING finger protein 165 OS=Homo sapiens GN=RNF165 PE=1 SV=1

 Score = 68.6 bits (166), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 36/104 (34%), Positives = 55/104 (52%), Gaps = 14/104 (13%)

Query: 234 SYEELLALGEVVGSESRGLSADTL--ATLPTVNYKGGTSQNG-----------SNDSCVI 280
           SYEELL L + +G+ +RG   +T+   T P   YK    Q+G           +++ C I
Sbjct: 238 SYEELLQLEDRLGNVTRGAVQNTIERFTFPH-KYKKRRPQDGKGKKDEGEESDTDEKCTI 296

Query: 281 CRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 324
           C    EDGE +  L C H +H  C++ WL ++K CP+C  ++ T
Sbjct: 297 CLSMLEDGEDVRRLPCMHLFHQLCVDQWLAMSKKCPICRVDIET 340

Homo sapiens (taxid: 9606)

>sp|E9QAU8|RN165_MOUSE RING finger protein 165 OS=Mus musculus GN=Rnf165 PE=2 SV=1

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 37/104 (35%), Positives = 52/104 (50%), Gaps = 14/104 (13%)

Query: 234 SYEELLALGEVVGSESRGLSADTL--ATLPTVNYKGGTSQ--NGSND---------SCVI 280
           SYEELL L + +G+ +RG   +T+   T P   YK    Q   G  D          C I
Sbjct: 239 SYEELLQLEDRLGNVTRGAVQNTIERFTFPH-KYKKRRPQDSKGKKDEGEESDTDEKCTI 297

Query: 281 CRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 324
           C    EDGE +  L C H +H  C++ WL ++K CP+C  ++ T
Sbjct: 298 CLSMLEDGEDVRRLPCMHLFHQLCVDQWLAMSKKCPICRVDIET 341

Mus musculus (taxid: 10090)

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	328
356575432	335	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.814	0.797	0.722	1e-102
296085296	308	unnamed protein product [Vitis vinifera]	0.844	0.899	0.655	1e-102
359484061	452	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.844	0.612	0.655	1e-102
356575434	341	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.814	0.782	0.700	1e-100
255561042	316	ring finger protein, putative [Ricinus c	0.823	0.854	0.728	1e-99
356536410	344	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.798	0.761	0.728	2e-94
357444871	333	RING finger protein [Medicago truncatula	0.899	0.885	0.662	1e-93
217075302	332	unknown [Medicago truncatula]	0.908	0.897	0.664	1e-92
356536412	353	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.798	0.742	0.698	9e-92
357444873	339	RING finger protein [Medicago truncatula	0.899	0.870	0.650	1e-91

>gi|356575432|ref|XP_003555845.1| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related-like isoform 1 [Glycine max]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 203/281 (72%), Positives = 228/281 (81%), Gaps = 14/281 (4%)

Query: 46  QQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYL 105
           +Q G RQ S  RTPFTNLSQVDADLALARTLQEQERAYMMLRM NNEGSDYGSWE GSYL
Sbjct: 66  EQTGSRQPS--RTPFTNLSQVDADLALARTLQEQERAYMMLRM-NNEGSDYGSWEGGSYL 122

Query: 106 HDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEE 165
           HDE DDF         DD  D +D  + E+ +    +   D++DEDEDAFDVHAH    E
Sbjct: 123 HDEGDDF---------DDLHDGTDVDEDEDDD--DDEDDDDEEDEDEDAFDVHAHASAGE 171

Query: 166 DNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTW 225
            +NP++E+D DVFSSDEAYARALQ+AEER+MAARLLA A I+DRE ED E+HG +SQD W
Sbjct: 172 HDNPTIEFDPDVFSSDEAYARALQEAEEREMAARLLAFAGINDREEEDIEEHGANSQDAW 231

Query: 226 EEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDY 285
           E+VDPDELSYEELLALGE VG+ESRGLS DT+A LP+VNYK G+ Q+GSNDSCVICR+DY
Sbjct: 232 EDVDPDELSYEELLALGEAVGTESRGLSTDTIACLPSVNYKTGSDQHGSNDSCVICRVDY 291

Query: 286 EDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           ED E+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 292 EDDESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 332

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085296|emb|CBI29028.3| unnamed protein product [Vitis vinifera]

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/311 (65%), Positives = 235/311 (75%), Gaps = 34/311 (10%)

Query: 18  QEQNPNSN---NDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALAR 74
           +EQNPNS    + N NSN              Q   RQ SRT  PFTNLSQVDADLALAR
Sbjct: 28  EEQNPNSPAAEDPNPNSN--------------QAPPRQSSRT--PFTNLSQVDADLALAR 71

Query: 75  TLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHE 134
           TLQEQERAYMMLR+N  EGSDYGSWEAGSY ++E+ D              D +D  D +
Sbjct: 72  TLQEQERAYMMLRING-EGSDYGSWEAGSYFNEEEFD--------------DPNDGTDVD 116

Query: 135 NHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEER 194
           +   D  +   + D  DEDAFDVHA  +  ED+NP++E+D  VFSSDEAYARALQ  EE+
Sbjct: 117 DGVDDEDEDEGEYDGTDEDAFDVHAQADDGEDDNPTIEFDPAVFSSDEAYARALQHIEEQ 176

Query: 195 DMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSA 254
           +MAARLLALA IHD  +ED EDHGG+SQDTWEEVDPDELSYEELLALGEV+G+ESRGLS+
Sbjct: 177 EMAARLLALAGIHDHGVEDTEDHGGNSQDTWEEVDPDELSYEELLALGEVIGTESRGLSS 236

Query: 255 DTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV 314
           DT+A+LP+V YK  ++Q GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWL+INKV
Sbjct: 237 DTIASLPSVTYKAQSNQEGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLQINKV 296

Query: 315 CPVCSAEVSTS 325
           CP+CS EVS+S
Sbjct: 297 CPICSTEVSSS 307

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484061|ref|XP_002270577.2| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related [Vitis vinifera]

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/311 (65%), Positives = 235/311 (75%), Gaps = 34/311 (10%)

Query: 18  QEQNPNSN---NDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALAR 74
           +EQNPNS    + N NSN              Q   RQ SRT  PFTNLSQVDADLALAR
Sbjct: 172 EEQNPNSPAAEDPNPNSN--------------QAPPRQSSRT--PFTNLSQVDADLALAR 215

Query: 75  TLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHE 134
           TLQEQERAYMMLR+N  EGSDYGSWEAGSY ++E+ D              D +D  D +
Sbjct: 216 TLQEQERAYMMLRING-EGSDYGSWEAGSYFNEEEFD--------------DPNDGTDVD 260

Query: 135 NHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEER 194
           +   D  +   + D  DEDAFDVHA  +  ED+NP++E+D  VFSSDEAYARALQ  EE+
Sbjct: 261 DGVDDEDEDEGEYDGTDEDAFDVHAQADDGEDDNPTIEFDPAVFSSDEAYARALQHIEEQ 320

Query: 195 DMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSA 254
           +MAARLLALA IHD  +ED EDHGG+SQDTWEEVDPDELSYEELLALGEV+G+ESRGLS+
Sbjct: 321 EMAARLLALAGIHDHGVEDTEDHGGNSQDTWEEVDPDELSYEELLALGEVIGTESRGLSS 380

Query: 255 DTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV 314
           DT+A+LP+V YK  ++Q GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWL+INKV
Sbjct: 381 DTIASLPSVTYKAQSNQEGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLQINKV 440

Query: 315 CPVCSAEVSTS 325
           CP+CS EVS+S
Sbjct: 441 CPICSTEVSSS 451

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575434|ref|XP_003555846.1| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related-like isoform 2 [Glycine max]

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 201/287 (70%), Positives = 226/287 (78%), Gaps = 20/287 (6%)

Query: 46  QQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYL 105
           +Q G RQ S  RTPFTNLSQVDADLALARTLQEQERAYMMLRM NNEGSDYGSWE GSYL
Sbjct: 66  EQTGSRQPS--RTPFTNLSQVDADLALARTLQEQERAYMMLRM-NNEGSDYGSWEGGSYL 122

Query: 106 HDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEE 165
           HDE DDF         DD  D +D  + E+ +    +   D++DEDEDAFDVHAH    E
Sbjct: 123 HDEGDDF---------DDLHDGTDVDEDEDDD--DDEDDDDEEDEDEDAFDVHAHASAGE 171

Query: 166 DNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREI------EDPEDHGG 219
            +NP++E+D DVFSSDEAYARALQ+AEER+MAARLLA A I+D         ED E+HG 
Sbjct: 172 HDNPTIEFDPDVFSSDEAYARALQEAEEREMAARLLAFAGINDLSFSISGEEEDIEEHGA 231

Query: 220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCV 279
           +SQD WE+VDPDELSYEELLALGE VG+ESRGLS DT+A LP+VNYK G+ Q+GSNDSCV
Sbjct: 232 NSQDAWEDVDPDELSYEELLALGEAVGTESRGLSTDTIACLPSVNYKTGSDQHGSNDSCV 291

Query: 280 ICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           ICR+DYED E+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 292 ICRVDYEDDESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 338

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561042|ref|XP_002521533.1| ring finger protein, putative [Ricinus communis] gi|223539211|gb|EEF40804.1| ring finger protein, putative [Ricinus communis]

 Score =  369 bits (947), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 207/284 (72%), Positives = 230/284 (80%), Gaps = 14/284 (4%)

Query: 45  QQQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSY 104
           +Q+   RQ S  RTPFTNLSQVDADLALARTLQEQERAYMMLR NN EGSDYGSWEA SY
Sbjct: 47  EQEDPPRQSSSRRTPFTNLSQVDADLALARTLQEQERAYMMLRFNNIEGSDYGSWEAASY 106

Query: 105 LHDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVE 164
           LH  DDD  GD DDDDDDDD+D+ +    ++ E D     +D       AFDVH      
Sbjct: 107 LHHHDDDDFGDPDDDDDDDDDDDDETDGDDDDEDDHGTDDVD-------AFDVH------ 153

Query: 165 EDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDT 224
           E    + + D  +FSSDEAYARALQDAEER+MAARLLA A I+D ++ED +DHGG+SQD 
Sbjct: 154 ESGGAAADLDPCMFSSDEAYARALQDAEEREMAARLLAFAGIND-QVEDTDDHGGNSQDA 212

Query: 225 WEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLD 284
           WEEVDPDELSYEEL+ALGEVVGSESRGLSADT+A+LPTVNYK G+SQNG+NDSCVICRLD
Sbjct: 213 WEEVDPDELSYEELIALGEVVGSESRGLSADTIASLPTVNYKAGSSQNGTNDSCVICRLD 272

Query: 285 YEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
           YEDGETLT+LSCKHSYHSECINNWLKINKVCPVCS EVSTSGHS
Sbjct: 273 YEDGETLTLLSCKHSYHSECINNWLKINKVCPVCSTEVSTSGHS 316

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536410|ref|XP_003536731.1| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related isoform 1 [Glycine max]

 Score =  351 bits (901), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 201/276 (72%), Positives = 225/276 (81%), Gaps = 14/276 (5%)

Query: 51  RQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDD 110
           RQ SRT  PFTNLSQVDADLALARTLQEQERAYMMLRMNN +GSDYGSWE GSYLHD+ D
Sbjct: 80  RQPSRT--PFTNLSQVDADLALARTLQEQERAYMMLRMNN-DGSDYGSWEGGSYLHDDGD 136

Query: 111 DFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPS 170
           DF    D  D D+DEDE D  D E           +++ EDEDAFD HAH    E +NPS
Sbjct: 137 DFDDLHDGTDVDEDEDEDDDEDDE-----------NEEYEDEDAFDAHAHASAGEHDNPS 185

Query: 171 VEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDP 230
           +E+D D+FSSDEAYARALQ+AEER+MA RLLALA I+DRE ED E+HG +SQD WE+VDP
Sbjct: 186 IEFDPDLFSSDEAYARALQEAEEREMAVRLLALAGINDREEEDIEEHGANSQDAWEDVDP 245

Query: 231 DELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGET 290
           DELSYEELLAL EVVG+ESRGLS DT+A LP+VNYK G+ Q+GS+DSCVICR+DYEDGE+
Sbjct: 246 DELSYEELLALSEVVGTESRGLSTDTIACLPSVNYKTGSDQHGSHDSCVICRVDYEDGES 305

Query: 291 LTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 306 LTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 341

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357444871|ref|XP_003592713.1| RING finger protein [Medicago truncatula] gi|355481761|gb|AES62964.1| RING finger protein [Medicago truncatula]

 Score =  349 bits (895), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 212/320 (66%), Positives = 247/320 (77%), Gaps = 25/320 (7%)

Query: 14  REQEQEQNPNSNNDNINSNELSDEETETN----LEQQQQGQRQDSR--TRTPFTNLSQVD 67
           RE+E+E +      N+NS E   E+ E N     EQQQ G   +++  +RTPFTNLSQVD
Sbjct: 29  REEEEEHS------NLNSVENLPEKIEENDEHEAEQQQTGSETNTQQPSRTPFTNLSQVD 82

Query: 68  ADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDE 127
           ADLALARTLQEQERAYMMLRMNN +GSDYGSWE GSYLHD+ DDF    D  D DD++D+
Sbjct: 83  ADLALARTLQEQERAYMMLRMNN-DGSDYGSWEGGSYLHDDGDDFDDLHDGTDVDDEDDD 141

Query: 128 SDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEV-EEDNNPSVEYDSDVFSSDEAYAR 186
            D  + E           D +DEDEDAFDVH H  V + +NNP +E+D ++FSSDEAYAR
Sbjct: 142 EDDDNEE-----------DYEDEDEDAFDVHDHASVGDRENNPVIEFDPELFSSDEAYAR 190

Query: 187 ALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVG 246
           ALQ+AEER+MAARLLALA IHD++ ED E+H  +SQD WE+VDPDELSYEELLALGEVVG
Sbjct: 191 ALQEAEEREMAARLLALAGIHDQDAEDMEEHAANSQDAWEDVDPDELSYEELLALGEVVG 250

Query: 247 SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECIN 306
           +ESRGLS DT+A LP+VNYK G+ Q GSNDSCVICR+DYED E+LTVLSCKH YH ECIN
Sbjct: 251 TESRGLSTDTIACLPSVNYKAGSDQLGSNDSCVICRVDYEDDESLTVLSCKHLYHPECIN 310

Query: 307 NWLKINKVCPVCSAEVSTSG 326
           NWLKINKVCPVCS EVS SG
Sbjct: 311 NWLKINKVCPVCSTEVSASG 330

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217075302|gb|ACJ86011.1| unknown [Medicago truncatula]

 Score =  345 bits (886), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 210/316 (66%), Positives = 243/316 (76%), Gaps = 18/316 (5%)

Query: 14  REQEQEQNPNSNNDNINSNELSDEETETNLEQQQQGQRQDSR--TRTPFTNLSQVDADLA 71
           RE+E+  N NS     N  E  +E  E   EQQQ G   +++  +RTPFTNLSQVDADLA
Sbjct: 29  REEEEHSNLNSVE---NLPEKIEENDEHEAEQQQTGSETNTQQPSRTPFTNLSQVDADLA 85

Query: 72  LARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAG 131
           LARTLQEQERAYMMLRMNN +GSDYGSWE GSYLHD+ DDF    D  D DD++D+ D  
Sbjct: 86  LARTLQEQERAYMMLRMNN-DGSDYGSWEGGSYLHDDGDDFDDLHDGTDVDDEDDDEDDD 144

Query: 132 DHENHECDGSDFVIDDDDEDEDAFDVHAHEEV-EEDNNPSVEYDSDVFSSDEAYARALQD 190
           + E           D +DEDEDAFDVH H  V + +NNP +E+D ++FSSDEAYARALQ+
Sbjct: 145 NEE-----------DYEDEDEDAFDVHDHASVGDRENNPVIEFDPELFSSDEAYARALQE 193

Query: 191 AEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESR 250
           AEER+MAARLLALA IHD++ ED E+H  +SQD WE+VDPDELSYEELLALGEVVG+ESR
Sbjct: 194 AEEREMAARLLALAGIHDQDAEDMEEHAANSQDAWEDVDPDELSYEELLALGEVVGTESR 253

Query: 251 GLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK 310
           GLS DT+A LP+VNYK G+ Q GSNDSCVICR+DYED E+LTVLSCKH YH ECINNWLK
Sbjct: 254 GLSTDTIACLPSVNYKAGSDQLGSNDSCVICRVDYEDDESLTVLSCKHLYHPECINNWLK 313

Query: 311 INKVCPVCSAEVSTSG 326
           INKVCPVCS EV  SG
Sbjct: 314 INKVCPVCSTEVFASG 329

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536412|ref|XP_003536732.1| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related isoform 2 [Glycine max]

 Score =  343 bits (879), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 199/285 (69%), Positives = 225/285 (78%), Gaps = 23/285 (8%)

Query: 51  RQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDD 110
           RQ SRT  PFTNLSQVDADLALARTLQEQERAYMMLRMNN +GSDYGSWE GSYLHD+ D
Sbjct: 80  RQPSRT--PFTNLSQVDADLALARTLQEQERAYMMLRMNN-DGSDYGSWEGGSYLHDDGD 136

Query: 111 DFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPS 170
           DF    D  D D+DEDE D  D E           +++ EDEDAFD HAH    E +NPS
Sbjct: 137 DFDDLHDGTDVDEDEDEDDDEDDE-----------NEEYEDEDAFDAHAHASAGEHDNPS 185

Query: 171 VEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREI---------EDPEDHGGHS 221
           +E+D D+FSSDEAYARALQ+AEER+MA RLLALA I+D+ +         ED E+HG +S
Sbjct: 186 IEFDPDLFSSDEAYARALQEAEEREMAVRLLALAGINDQPLISFSISGEEEDIEEHGANS 245

Query: 222 QDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVIC 281
           QD WE+VDPDELSYEELLAL EVVG+ESRGLS DT+A LP+VNYK G+ Q+GS+DSCVIC
Sbjct: 246 QDAWEDVDPDELSYEELLALSEVVGTESRGLSTDTIACLPSVNYKTGSDQHGSHDSCVIC 305

Query: 282 RLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           R+DYEDGE+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 306 RVDYEDGESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 350

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357444873|ref|XP_003592714.1| RING finger protein [Medicago truncatula] gi|355481762|gb|AES62965.1| RING finger protein [Medicago truncatula]

 Score =  342 bits (877), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 212/326 (65%), Positives = 245/326 (75%), Gaps = 31/326 (9%)

Query: 14  REQEQEQNPNSNNDNINSNELSDEETETN----LEQQQQGQRQDSR--TRTPFTNLSQVD 67
           RE+E+E +      N+NS E   E+ E N     EQQQ G   +++  +RTPFTNLSQVD
Sbjct: 29  REEEEEHS------NLNSVENLPEKIEENDEHEAEQQQTGSETNTQQPSRTPFTNLSQVD 82

Query: 68  ADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDE 127
           ADLALARTLQEQERAYMMLRMNN +GSDYGSWE GSYLHD+ DDF    D  D DD++D+
Sbjct: 83  ADLALARTLQEQERAYMMLRMNN-DGSDYGSWEGGSYLHDDGDDFDDLHDGTDVDDEDDD 141

Query: 128 SDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEV-EEDNNPSVEYDSDVFSSDEAYAR 186
            D  + E           D +DEDEDAFDVH H  V + +NNP +E+D ++FSSDEAYAR
Sbjct: 142 EDDDNEE-----------DYEDEDEDAFDVHDHASVGDRENNPVIEFDPELFSSDEAYAR 190

Query: 187 ALQDAEERDMAARLLALAEIHDREI------EDPEDHGGHSQDTWEEVDPDELSYEELLA 240
           ALQ+AEER+MAARLLALA IHD         ED E+H  +SQD WE+VDPDELSYEELLA
Sbjct: 191 ALQEAEEREMAARLLALAGIHDLSFSITEDAEDMEEHAANSQDAWEDVDPDELSYEELLA 250

Query: 241 LGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSY 300
           LGEVVG+ESRGLS DT+A LP+VNYK G+ Q GSNDSCVICR+DYED E+LTVLSCKH Y
Sbjct: 251 LGEVVGTESRGLSTDTIACLPSVNYKAGSDQLGSNDSCVICRVDYEDDESLTVLSCKHLY 310

Query: 301 HSECINNWLKINKVCPVCSAEVSTSG 326
           H ECINNWLKINKVCPVCS EVS SG
Sbjct: 311 HPECINNWLKINKVCPVCSTEVSASG 336

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	328
TAIR|locus:2092271	340	AT3G19910 [Arabidopsis thalian	0.487	0.470	0.703	2.2e-78
TAIR|locus:504955576	248	BB "BIG BROTHER" [Arabidopsis	0.435	0.576	0.444	1.5e-28
TAIR|locus:2145086	280	AT5G52140 [Arabidopsis thalian	0.307	0.360	0.408	7.6e-24
TAIR|locus:2075641	210	AT3G47180 [Arabidopsis thalian	0.347	0.542	0.426	1e-22
TAIR|locus:2086305	486	AT3G15070 [Arabidopsis thalian	0.378	0.255	0.350	2e-17
ZFIN|ZDB-GENE-101206-1	474	wu:fb39e10 "wu:fb39e10" [Danio	0.277	0.191	0.431	7.1e-17
TAIR|locus:2160031	691	AT5G42940 [Arabidopsis thalian	0.304	0.144	0.376	3.1e-16
TAIR|locus:2124271	666	MBR2 "MED25 BINDING RING-H2 PR	0.317	0.156	0.357	3.4e-15
UNIPROTKB|B4DYE0	351	RNF44 "cDNA FLJ61466, highly s	0.292	0.273	0.373	5.4e-15
ZFIN|ZDB-GENE-030131-8693	673	si:dkey-20n3.1 "si:dkey-20n3.1	0.292	0.142	0.373	5.7e-15

TAIR|locus:2092271 AT3G19910 [Arabidopsis thaliana (taxid:3702)]

 Score = 605 (218.0 bits), Expect = 2.2e-78, Sum P(2) = 2.2e-78
 Identities = 114/162 (70%), Positives = 135/162 (83%)

Query:   164 EEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQD 223
             E+D N  +E     ++ DEAYARALQ+AEERDMAARL AL+ + +R +ED ED    SQD
Sbjct:   176 EDDGNSDIE--EVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDESHTSQD 233

Query:   224 TWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRL 283
              W+E+DPDELSYEELLALG++VG+ESRGLSADT+A+LP+  YK G +QNG+N+SCVICRL
Sbjct:   234 AWDEMDPDELSYEELLALGDIVGTESRGLSADTIASLPSKRYKEGDNQNGTNESCVICRL 293

Query:   284 DYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
             DYED E L +L CKHSYHSECINNWLKINKVCPVCSAEVSTS
Sbjct:   294 DYEDDEDLILLPCKHSYHSECINNWLKINKVCPVCSAEVSTS 335

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:504955576 BB "BIG BROTHER" [Arabidopsis thaliana (taxid:3702)]

 Score = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 72/162 (44%), Positives = 98/162 (60%)

Query:   166 DNNPSVEYDSDVFSSDEAYARALQ--DAEERDMAARLLALAEIHDREIEDPEDHGGHSQD 223
             D +P V    D    +   AR++Q  D +E   A     +A  HD     P+      Q 
Sbjct:    94 DYHPMVNVADD---PENTVARSVQIGDTDEHSEAEE--CIANEHD-----PDS----PQV 139

Query:   224 TWEE-VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGT--SQNGSNDSCVI 280
             +W++ +DPD ++YEEL+ LGE VG+ESRGLS + + TLPT  YK G+  S+  + + CVI
Sbjct:   140 SWQDDIDPDTMTYEELVELGEAVGTESRGLSQELIETLPTKKYKFGSIFSRKRAGERCVI 199

Query:   281 CRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
             C+L Y+ GE    L CKH YHSECI+ WL INKVCPVC++EV
Sbjct:   200 CQLKYKIGERQMNLPCKHVYHSECISKWLSINKVCPVCNSEV 241

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0031624 "ubiquitin conjugating enzyme binding" evidence=IPI

GO:0046621 "negative regulation of organ growth" evidence=IMP

GO:0048437 "floral organ development" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

TAIR|locus:2145086 AT5G52140 [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 7.6e-24, Sum P(3) = 7.6e-24
 Identities = 47/115 (40%), Positives = 65/115 (56%)

Query:   220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNG------ 273
             H+    E  DP+ ++YEEL  LG+ VG   +GLS + ++ L T  Y  GT          
Sbjct:   166 HNPTDDENNDPENMTYEELTELGDSVGDVGKGLSQERISRLRTHKY--GTKTKSWYCLHM 223

Query:   274 -----SNDS-CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
                  ++DS C IC ++Y  G+ +T L CKH YH +CI+ WLK NKVC +C AEV
Sbjct:   224 KKKFVADDSQCSICLMEYAKGDKITTLPCKHIYHKDCISQWLKQNKVCCICKAEV 278

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2075641 AT3G47180 [Arabidopsis thaliana (taxid:3702)]

 Score = 263 (97.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 52/122 (42%), Positives = 79/122 (64%)

Query:   211 IEDPEDHGG-HSQDTW----EEVDPDELSYEELLALGEVVGSESRGLSADTLAT-LPTVN 264
             +ED E +     +D +    +E+DPD+LSYEEL+ALG+ +G E+RGL+   ++T L    
Sbjct:    90 LEDQESNSNLEEEDDFLEEEDEIDPDQLSYEELIALGDFIGVENRGLTPIEISTCLNAST 149

Query:   265 YKGGTSQNGSNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVS 323
             Y    ++N   D CV+C++++E+ E+L VL  C H YHSECI  WL+  K+CP+C +E S
Sbjct:   150 YVFSHNKN-EIDRCVVCQMEFEERESLVVLRPCDHPYHSECITKWLETKKICPICCSEPS 208

Query:   324 TS 325
              S
Sbjct:   209 VS 210

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2086305 AT3G15070 [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 47/134 (35%), Positives = 74/134 (55%)

Query:   194 RDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLS 253
             R M A   A  E+ D    +  ++  H QD    +D +++SYEELLAL + +G+   GLS
Sbjct:   342 RAMPANENAFWEVGD--FYNAVNYVDHHQDM--RLDIEDMSYEELLALSDQIGTVKTGLS 397

Query:   254 ADTLATL------PTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINN 307
             ++ +  L        +N + G S +   DSC IC+ +Y++ + +  L C H YH+EC+  
Sbjct:   398 SEDVKELLKRRTSTRINLEEGPSTDLETDSCTICQENYKNEDKIATLDCMHKYHAECLKK 457

Query:   308 WLKINKVCPVCSAE 321
             WL I  VCP+C +E
Sbjct:   458 WLVIKNVCPICKSE 471

GO:0005737 "cytoplasm" evidence=ISM

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

ZFIN|ZDB-GENE-101206-1 wu:fb39e10 "wu:fb39e10" [Danio rerio (taxid:7955)]

 Score = 183 (69.5 bits), Expect = 7.1e-17, Sum P(2) = 7.1e-17
 Identities = 41/95 (43%), Positives = 51/95 (53%)

Query:   234 SYEELLALGEVVGS--ESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETL 291
             +YE LLA  E  G+      LS   +  LP   Y   T   G  D C IC  +Y+ GE L
Sbjct:   379 NYEALLAFEEQQGAVMAKNTLSKAEIERLPIKTYDP-THSAGKTD-CQICFSEYKAGERL 436

Query:   292 TVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
              +L C H YH +CI+ WLK N  CP+C A+VS SG
Sbjct:   437 RMLPCLHDYHVKCIDRWLKENATCPICRADVSESG 471

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2160031 AT5G42940 [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 3.1e-16, P = 3.1e-16
 Identities = 38/101 (37%), Positives = 57/101 (56%)

Query:   219 GHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLAT-LPTVNYKGGTSQNGSNDS 277
             GH +     +D D +SYEELLAL E +G    G++ +T++  L    YK  T      + 
Sbjct:   577 GHDRYRDMRLDVDNMSYEELLALEERIGDVCTGVNEETISNRLKQRKYKSNTKSPQDAEP 636

Query:   278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 318
             C +C+ +Y +GE +  L C H +HS+CI  WLK   +CP+C
Sbjct:   637 CCVCQEEYTEGEDMGTLECGHEFHSQCIKEWLKQKNLCPIC 677

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

TAIR|locus:2124271 MBR2 "MED25 BINDING RING-H2 PROTEIN 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 3.4e-15, P = 3.4e-15
 Identities = 39/109 (35%), Positives = 63/109 (57%)

Query:   220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSN---D 276
             H +     +D D +SYEELLALGE +G  S GLS + +  +    +K  +S  GS+   +
Sbjct:   559 HDRHRDMRLDVDNMSYEELLALGERIGDVSTGLSEEVILKVMK-QHKHTSSAAGSHQDME 617

Query:   277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC-SAEVST 324
              C +C+ +Y +G+ L  L C H +H+ C+  WL +  +CP+C +  +ST
Sbjct:   618 PCCVCQEEYAEGDDLGTLGCGHEFHTACVKQWLMLKNLCPICKTVALST 666

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|B4DYE0 RNF44 "cDNA FLJ61466, highly similar to Homo sapiens ring finger protein 44 (RNF44), mRNA" [Homo sapiens (taxid:9606)]

 Score = 194 (73.4 bits), Expect = 5.4e-15, P = 5.4e-15
 Identities = 37/99 (37%), Positives = 60/99 (60%)

Query:   227 EVDPDEL-SYEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLD 284
             +VD  E+ +YE LL L E +G ++ RGL+   +  LP+  +   + Q+     CV+C  D
Sbjct:   247 DVDDVEMENYEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQS-EQTLCVVCFSD 305

Query:   285 YEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
             +E  + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct:   306 FEARQLLRVLPCNHEFHTKCVDKWLKANRTCPICRADAS 344

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-030131-8693 si:dkey-20n3.1 "si:dkey-20n3.1" [Danio rerio (taxid:7955)]

 Score = 200 (75.5 bits), Expect = 5.7e-15, P = 5.7e-15
 Identities = 37/99 (37%), Positives = 59/99 (59%)

Query:   227 EVDPDEL-SYEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLD 284
             +VD  E+ +YE LL L E +G ++ RGL+   +  LP+  +     Q+     CV+C  D
Sbjct:   569 DVDDGEVENYEALLNLAERLGEAKPRGLTKADIEQLPSYRFNPSNHQS-EQTLCVVCMCD 627

Query:   285 YEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
             +E  + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct:   628 FESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADAS 666

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LT17	BBR_ARATH	6, ., 3, ., 2, ., -	0.6350	0.7804	0.7529	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pg.C_LG_VII0699 hypothetical protein (320 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	328
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-11
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-10
smart00184	40	smart00184, RING, Ring finger	9e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	8e-07
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	3e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	4e-05
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	5e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	7e-04
smart00249	47	smart00249, PHD, PHD zinc finger	8e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.001
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.002
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	0.004

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

 Score = 70.5 bits (173), Expect = 6e-16
 Identities = 20/46 (43%), Positives = 29/46 (63%)

Query: 276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 321
           D C IC  ++E GE + VL C H +H EC++ WL+ +  CP+C A 
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 58.6 bits (142), Expect = 1e-11
 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVCSAEV 322
           C IC  ++ +   + +L C H +   CI+ WLK  K  CP+C   +
Sbjct: 2   CPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 57.5 bits (139), Expect = 3e-11
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 318
               C IC     D   + +  C H +  ECI  +LK    CP+C
Sbjct: 1   EELECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 56.3 bits (136), Expect = 2e-10
 Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 10/53 (18%)

Query: 276 DSCVICRLDYED--------GETLTVL--SCKHSYHSECINNWLKINKVCPVC 318
           D C ICR  ++         G+   V+   C H++H  CI+ WLK    CP+C
Sbjct: 20  DVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLC 72

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

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

 Score = 52.9 bits (127), Expect = 9e-10
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVC 318
           C IC  +Y   +   +L C H++   CI  WL+  N  CP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 51.9 bits (124), Expect = 1e-07
 Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 269 TSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVCSAEV 322
             +      C IC  ++   + L VL C H +H  C++ WL      CPVC   +
Sbjct: 317 AVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 45.2 bits (107), Expect = 5e-07
 Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 3/42 (7%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVC 318
           C IC  + +D   +T+L C H + S+CI +WL+   V CP+C
Sbjct: 1   CPICLEEPKD--PVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 46.0 bits (109), Expect = 8e-07
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)

Query: 268 GTSQNGSNDSCVICRLDYEDGETLTVL--SCKHSYHSECINNWLKINKVCPVC 318
              +N    +C  C+     G+   V+   C H++H  CI  WL    VCP+ 
Sbjct: 24  AICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLD 76

Length = 88

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

 Score = 41.7 bits (98), Expect = 3e-05
 Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 13/58 (22%)

Query: 274 SNDSCVICRLDYE----------DGETLTVLSCKHSYHSECINNWLKINKV---CPVC 318
           S+D C ICR+ ++          D   L    CKH++H  CI  WL        CP+C
Sbjct: 20  SDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMC 77

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

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

 Score = 44.6 bits (105), Expect = 4e-05
 Identities = 23/79 (29%), Positives = 34/79 (43%), Gaps = 13/79 (16%)

Query: 250 RGLSADTLATLPTVNYKGGTSQNGSNDSCVICR--LDYEDGETLTV--------LSCKHS 299
           R  + D  A  PT   +  T+ + +   C IC   + + D E L          L C H 
Sbjct: 265 RRATKDLNAMYPTATEEQLTNSDRT---CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHI 321

Query: 300 YHSECINNWLKINKVCPVC 318
            H  C+ NWL+  + CP+C
Sbjct: 322 LHLHCLKNWLERQQTCPIC 340

Length = 491

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 44.6 bits (106), Expect = 5e-05
 Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 7/87 (8%)

Query: 107 DEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEED 166
               D   D DDDDD DD+D  D  D E+ +        DDDD+D D  D    E  E +
Sbjct: 127 LNQADDDDDDDDDDDLDDDDIDDDDDDEDDD-------EDDDDDDVDDEDEEKKEAKELE 179

Query: 167 NNPSVEYDSDVFSSDEAYARALQDAEE 193
                +         EA  +A +DA+ 
Sbjct: 180 KLSDDDDFVWDEDDSEALRQARKDAKL 206

Length = 509

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 27/119 (22%), Positives = 52/119 (43%), Gaps = 15/119 (12%)

Query: 78  EQERAYMMLRMNNNEGSDYGSWEA--------GSYLHDEDDDFGGDGDDDDDDDDE---- 125
           E ER   + RM   E  D    ++          +  D+DD+FG    ++D++++E    
Sbjct: 275 EAER---LRRMRGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVD 331

Query: 126 DESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAY 184
           DE +  D ++ E +  D  + D++EDE+  D    ++ EE+     +       S  + 
Sbjct: 332 DEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSE 390

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

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

 Score = 40.1 bits (94), Expect = 7e-04
 Identities = 25/68 (36%), Positives = 31/68 (45%), Gaps = 6/68 (8%)

Query: 257 LATLPTVNYKGGTSQNGSND-SCVICRLDYEDGET----LTVLS-CKHSYHSECINNWLK 310
           L T+P+V  +     N S D  C IC     D E       +LS C H +  ECI+ W K
Sbjct: 155 LKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK 214

Query: 311 INKVCPVC 318
               CPVC
Sbjct: 215 EKNTCPVC 222

Length = 238

>gnl|CDD|214584 smart00249, PHD, PHD zinc finger

 Score = 36.4 bits (84), Expect = 8e-04
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 5/46 (10%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECIN----NWLKINK-VCPVC 318
           C +C    + GE L    C   YH  C+           K  CP C
Sbjct: 2   CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers. Length = 47

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.8 bits (95), Expect = 0.001
 Identities = 54/261 (20%), Positives = 99/261 (37%), Gaps = 40/261 (15%)

Query: 6    KATNDDKEREQEQEQNPNSNN--------DNINSNELSDEETETNLEQQQQGQRQDSRTR 57
                D  E EQ+  +   +NN        D+  + E  D + + + E+       D   +
Sbjct: 3911 PNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQ 3970

Query: 58   TPF-TNLSQ-----VDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDD 111
                 N SQ      D DL     L E+E        + ++ SD    +  +   ++++ 
Sbjct: 3971 PDIQENNSQPPPENEDLDLPEDLKLDEKEG-------DVSKDSDLEDMDMEAADENKEE- 4022

Query: 112  FGGDGDDDDDDDDED---ESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNN 168
               D + D+   DED   E++  D +  + D SD   DD+  +ED F+ +  E  EE   
Sbjct: 4023 --ADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQEN-EESTE 4079

Query: 169  PSVEYDSDVFSSDEAYARALQ-----DAEERDMAARLL-------ALAEIHDREIEDPED 216
              V+ D ++   +    +A+      DA+    +A           + E  +   ED   
Sbjct: 4080 DGVKSDEELEQGEVPEDQAIDNHPKMDAKSTFASAEADEENTDKGIVGENEELGEEDGVR 4139

Query: 217  HGGHSQDTWEEVDPDELSYEE 237
              G +   +E+V  D  + +E
Sbjct: 4140 GNGTADGEFEQVQEDTSTPKE 4160

Length = 4600

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

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 7/54 (12%)

Query: 274 SNDSCVICRLDYEDGETLTVLS-CKH-SYHSECINNWLKINKVCPVCSAEVSTS 325
            +D CVIC     +     V   C H     EC    L+  K CP+C   + + 
Sbjct: 1   EDDLCVICL----ERPRNVVFLPCGHLCLCEECAKR-LRSKKKCPICRQPIESV 49

Length = 49

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 35.5 bits (82), Expect = 0.004
 Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 16/66 (24%)

Query: 276 DSCVICRLDYEDGETLTVLSCKH-----SYHSECINNWLKINK-----------VCPVCS 319
             C IC     DG  +  +SC +      +H  C+  WL+  +            CP C 
Sbjct: 3   IECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCK 62

Query: 320 AEVSTS 325
           A++S  
Sbjct: 63  AKISVK 68

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	328
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.7
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.55
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.36
PHA02929	238	N1R/p28-like protein; Provisional	99.36
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.31
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.2
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.09
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.09
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.06
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.04
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.03
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.01
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.92
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.9
PHA02926	242	zinc finger-like protein; Provisional	98.88
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.87
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.87
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.86
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.83
PF14634	44	zf-RING_5: zinc-RING finger domain	98.83
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.82
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.76
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.67
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.52
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.51
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.51
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.5
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.47
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.46
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.42
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.41
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.4
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.39
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.38
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.37
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.33
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.21
KOG4445	368	consensus Uncharacterized conserved protein, conta	98.12
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.12
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.98
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.73
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.71
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.44
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.42
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.37
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.36
KOG2660	331	consensus Locus-specific chromosome binding protei	97.34
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
COG5152	259	Uncharacterized conserved protein, contains RING a	97.08
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.04
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.98
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.81
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.6
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.59
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.58
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.43
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.27
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.2
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.19
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.19
PHA03096	284	p28-like protein; Provisional	96.19
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.14
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.1
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.06
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.96
PF04641	260	Rtf2: Rtf2 RING-finger	95.87
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.77
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.7
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.47
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.44
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	95.31
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.3
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.23
KOG3002	299	consensus Zn finger protein [General function pred	95.23
PHA02862	156	5L protein; Provisional	95.06
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.97
PF06524	314	NOA36: NOA36 protein; InterPro: IPR010531 This fam	94.82
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.81
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.8
KOG1940	276	consensus Zn-finger protein [General function pred	94.68
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.43
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.98
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.49
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.83
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.67
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.63
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.04
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.81
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.51
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	91.44
KOG0825	1134	consensus PHD Zn-finger protein [General function	91.36
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	90.61
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	90.57
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	90.36
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	90.23
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	90.06
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	89.63
KOG1609	323	consensus Protein involved in mRNA turnover and st	89.53
KOG3899	381	consensus Uncharacterized conserved protein [Funct	88.7
KOG1832	1516	consensus HIV-1 Vpr-binding protein [Cell cycle co	88.45
KOG1829	580	consensus Uncharacterized conserved protein, conta	88.4
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	88.14
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	87.66
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.01
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	86.28
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	85.9
KOG0269	839	consensus WD40 repeat-containing protein [Function	82.35
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	81.77
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	81.21

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

Probab=99.70  E-value=9.3e-18  Score=163.75  Aligned_cols=78  Identities=35%  Similarity=0.871  Sum_probs=69.1

Q ss_pred             CCCCCCHHHHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCccccccCCC
Q 020261          248 ESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVSTSG  326 (328)
Q Consensus       248 ~s~GLS~e~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~t~~  326 (328)
                      ..+++.+..++++|..+|+........ ..|+|||++|..|+++++|||+|.||..||++||...+ .||+||+.+.+..
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            456889999999999999988765544 79999999999999999999999999999999998775 5999999998664

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.55  E-value=1.5e-15  Score=106.32  Aligned_cols=43  Identities=49%  Similarity=1.172  Sum_probs=40.6

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS  319 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR  319 (328)
                      .|+||++.|..++.++.|+|+|.||..||..||+.+++||+||
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            6999999999999999999999999999999999999999997

...

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

Probab=99.36  E-value=3.4e-13  Score=129.12  Aligned_cols=51  Identities=31%  Similarity=0.907  Sum_probs=47.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t  324 (328)
                      ....|+|||+.|..++++++|||+|.||..||.+|+. .+..||+||++|++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3468999999999999999999999999999999998 77899999999986

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.36  E-value=5e-13  Score=125.24  Aligned_cols=75  Identities=27%  Similarity=0.499  Sum_probs=58.4

Q ss_pred             CCCCCHHHHhcCCceeccCCCC-CCCCCCcccccccccCCCCc-----eEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          249 SRGLSADTLATLPTVNYKGGTS-QNGSNDSCVICRLDYEDGET-----LTVLSCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       249 s~GLS~e~I~sLp~~~~~~~~~-~~~~~~~CaICLeef~~ge~-----v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      ..+.+...+..+|.+....... .......|+||++.+..+..     .+.++|+|.||..||.+|++.+.+||+||..+
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            4566889999999987554322 22346899999999765431     24456999999999999999999999999987


Q ss_pred             c
Q 020261          323 S  323 (328)
Q Consensus       323 ~  323 (328)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            5

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

Probab=99.31  E-value=1.7e-12  Score=100.85  Aligned_cols=45  Identities=42%  Similarity=0.983  Sum_probs=36.9

Q ss_pred             CCcccccccccCCC----------CceEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 020261          275 NDSCVICRLDYEDG----------ETLTVLSCKHSYHSECINNWLKINKVCPVCS  319 (328)
Q Consensus       275 ~~~CaICLeef~~g----------e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR  319 (328)
                      ...|+||++.|...          -.+...+|||.||..||.+||+.+++||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            45699999999332          3456678999999999999999999999998

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 ....

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

Probab=99.20  E-value=8e-12  Score=122.49  Aligned_cols=68  Identities=32%  Similarity=0.668  Sum_probs=50.7

Q ss_pred             CHHHHhcCCceeccCCCCCCCCCCcccccccc-cCCC---------CceEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          253 SADTLATLPTVNYKGGTSQNGSNDSCVICRLD-YEDG---------ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       253 S~e~I~sLp~~~~~~~~~~~~~~~~CaICLee-f~~g---------e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      .+..-+.+|+.+.....   .....|+||+++ |+.+         .+.++|||||+||..|++.|+.+..+||+||.+|
T Consensus       268 ~kdl~~~~~t~t~eql~---n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         268 TKDLNAMYPTATEEQLT---NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             hhHHHhhcchhhhhhhc---CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            34444455554433322   245789999999 5444         2467899999999999999999999999999995


Q ss_pred             c
Q 020261          323 S  323 (328)
Q Consensus       323 ~  323 (328)
                      .
T Consensus       345 i  345 (491)
T COG5243         345 I  345 (491)
T ss_pred             c
Confidence            4

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

Probab=99.09  E-value=5.3e-11  Score=113.40  Aligned_cols=49  Identities=22%  Similarity=0.656  Sum_probs=44.7

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+|||+....+   ..+||||+||+.||..|+..+..||+||..+.++
T Consensus       238 a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            457899999998877   8899999999999999999999999999998765

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

Probab=99.09  E-value=9.3e-11  Score=79.34  Aligned_cols=44  Identities=34%  Similarity=1.019  Sum_probs=36.8

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEV  322 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV  322 (328)
                      .|+||+..+.  ..+..++|+|.||..|+..|+.. +..||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999983  34455669999999999999997 77899999864

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

Probab=99.06  E-value=8.6e-11  Score=109.03  Aligned_cols=50  Identities=40%  Similarity=0.743  Sum_probs=42.7

Q ss_pred             CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc---CCCCCCccccccCC
Q 020261          273 GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVSTS  325 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~---~ksCPvCR~eV~t~  325 (328)
                      +....|.|||+.-+.+   +++.|||.||+.||.+||..   ++.|||||..|...
T Consensus        45 ~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            4568899999998877   77779999999999999975   45799999998754

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.04  E-value=1.7e-10  Score=104.95  Aligned_cols=48  Identities=33%  Similarity=0.712  Sum_probs=41.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc----------------CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI----------------NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~----------------~ksCPvCR~eV~t  324 (328)
                      ....|+||++.+..+   ++++|||.||+.||..|+..                ...||+||..|..
T Consensus        17 ~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         17 GDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            457899999998876   77899999999999999852                2479999999864

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

Probab=99.03  E-value=1.4e-10  Score=83.28  Aligned_cols=45  Identities=33%  Similarity=0.819  Sum_probs=39.0

Q ss_pred             CcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ..|+||++.+..   ++.+||||. ||..|+..|++.++.||+||++|.
T Consensus         3 ~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    3 EECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             SB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            579999998654   588899999 999999999999999999999885

...

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

Probab=99.01  E-value=2.4e-10  Score=78.19  Aligned_cols=39  Identities=44%  Similarity=1.001  Sum_probs=33.7

Q ss_pred             ccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvC  318 (328)
                      |+||++.+..  .++.++|||.||..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998876  45688999999999999999999999998

>smart00504 Ubox Modified RING finger domain

Probab=98.92  E-value=1.2e-09  Score=80.69  Aligned_cols=46  Identities=22%  Similarity=0.375  Sum_probs=41.8

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ..|+||+..+..+   ++++|||.|+..||.+|++.+.+||+|+..+..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4799999999987   788999999999999999998999999998753

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

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

Probab=98.90  E-value=5.2e-10  Score=115.65  Aligned_cols=49  Identities=27%  Similarity=0.866  Sum_probs=44.2

Q ss_pred             CCcccccccccCCCCc--eEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGET--LTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~--v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||++.+..+.+  .++|||+|+||..|+..||++.++||+||..+.
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            5789999999988654  689999999999999999999999999999554

>PHA02926 zinc finger-like protein; Provisional

Probab=98.88  E-value=1.1e-09  Score=101.63  Aligned_cols=50  Identities=28%  Similarity=0.688  Sum_probs=38.3

Q ss_pred             CCCcccccccccCCC-----CceEEe-CCCCcccHHHHHHHHhcC------CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDG-----ETLTVL-SCKHSYHSECINNWLKIN------KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~g-----e~v~~L-PCgH~FH~~CI~~WL~~~------ksCPvCR~eV~  323 (328)
                      ...+|+|||+..-.+     ....+| +|+|.||..||..|...+      ++||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            468999999886322     123344 699999999999999753      46999999875

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

Probab=98.87  E-value=1.2e-09  Score=76.46  Aligned_cols=38  Identities=34%  Similarity=0.774  Sum_probs=30.6

Q ss_pred             ccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvC  318 (328)
                      |+||+..|..+   +.|+|||.|+..||..|++..    ..||+|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999998   999999999999999999754    369998

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

Probab=98.87  E-value=1.3e-09  Score=97.79  Aligned_cols=51  Identities=25%  Similarity=0.593  Sum_probs=42.3

Q ss_pred             CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          273 GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      .....|+|||..|... ..+.+.|||+||..||+..|+....||+||+.|..
T Consensus       129 ~~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             ccccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            3457899999998753 22446799999999999999999999999987754

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

Probab=98.86  E-value=1.9e-09  Score=86.51  Aligned_cols=49  Identities=35%  Similarity=0.934  Sum_probs=39.1

Q ss_pred             CCcccccccccCC--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCCCCcccccc
Q 020261          275 NDSCVICRLDYED--------GE--TLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~--------ge--~v~~LPCgH~FH~~CI~~WL~~---~ksCPvCR~eV~  323 (328)
                      .+.|.||+..|..        |+  .++.-.|+|.||..||.+||..   +..||+||++..
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            6789999999962        22  3444469999999999999975   468999999764

>smart00184 RING Ring finger

Probab=98.83  E-value=3.2e-09  Score=69.26  Aligned_cols=38  Identities=42%  Similarity=1.079  Sum_probs=32.9

Q ss_pred             ccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~-~~ksCPvC  318 (328)
                      |+||+...   ..++.++|+|.||..||..|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999884   3458899999999999999998 66789998

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)

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.83  E-value=2.4e-09  Score=75.16  Aligned_cols=44  Identities=25%  Similarity=0.680  Sum_probs=38.7

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  320 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~  320 (328)
                      .|+||+..|......++++|||+||..||..+......||+||+
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            49999999955567888999999999999999866779999985

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

Probab=98.82  E-value=2.5e-09  Score=73.23  Aligned_cols=39  Identities=38%  Similarity=1.057  Sum_probs=34.1

Q ss_pred             ccccccccCCCCceEEeCCCCcccHHHHHHHHh--cCCCCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK--INKVCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~--~~ksCPvC  318 (328)
                      |+||++.+..+  +++++|+|.||..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998766  25889999999999999998  45689998

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.76  E-value=4.2e-09  Score=105.32  Aligned_cols=48  Identities=31%  Similarity=0.666  Sum_probs=43.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   ++++|+|.||..||..||.....||+||..+..
T Consensus        25 ~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            357899999999877   678999999999999999988899999998864

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

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

Probab=98.67  E-value=6.9e-09  Score=85.79  Aligned_cols=51  Identities=35%  Similarity=0.757  Sum_probs=39.2

Q ss_pred             CCCCCcccccccccC-------------CCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          272 NGSNDSCVICRLDYE-------------DGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       272 ~~~~~~CaICLeef~-------------~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      ......|+||+..+.             ..+-++.. -|+|.||..||.+||+.++.||+|.++.
T Consensus        43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            344578999987652             22333333 4999999999999999999999998864

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

Probab=98.52  E-value=3e-08  Score=96.72  Aligned_cols=48  Identities=29%  Similarity=0.641  Sum_probs=44.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      -..|.||.+.|..+   .++||+|.||.-||..+|..+..||.|+.++..+
T Consensus        23 lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence            47899999999998   8899999999999999999999999999988643

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

Probab=98.51  E-value=8.4e-08  Score=76.10  Aligned_cols=48  Identities=33%  Similarity=0.787  Sum_probs=36.9

Q ss_pred             CcccccccccC-----------CCC--ceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          276 DSCVICRLDYE-----------DGE--TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~-----------~ge--~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ..|+||+..|.           ++.  .++.=-|+|.||..||.+||..++.||+||++..
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            56777776663           222  2333349999999999999999999999999764

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

Probab=98.51  E-value=3e-08  Score=78.06  Aligned_cols=50  Identities=30%  Similarity=0.816  Sum_probs=37.3

Q ss_pred             CCCcccccccccCCCCce---------EEe-CCCCcccHHHHHHHHhcC---CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETL---------TVL-SCKHSYHSECINNWLKIN---KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v---------~~L-PCgH~FH~~CI~~WL~~~---ksCPvCR~eV~  323 (328)
                      ..++|.||+..|...-.-         .++ -|.|.||..||.+||...   ..||+||++..
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            456999999999632111         122 399999999999999653   57999999764

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

Probab=98.50  E-value=5.2e-08  Score=92.25  Aligned_cols=49  Identities=27%  Similarity=0.652  Sum_probs=41.6

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHH-HHhcCC-CCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINN-WLKINK-VCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~-WL~~~k-sCPvCR~eV~t~  325 (328)
                      ....|+||++....+   ..+||||+||..||.. |-+++. .||+||+.+...
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             cccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            357899999987766   8899999999999999 877665 599999988654

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

Probab=98.47  E-value=7.6e-08  Score=97.98  Aligned_cols=47  Identities=21%  Similarity=0.561  Sum_probs=39.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC-----CCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~-----ksCPvCR~eV~t  324 (328)
                      ...|||||+....+   ..+.|||+||..||.+++...     ..||+||..|..
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            57899999987665   555699999999999998654     579999998865

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

Probab=98.46  E-value=5.6e-08  Score=98.56  Aligned_cols=50  Identities=26%  Similarity=0.823  Sum_probs=39.6

Q ss_pred             CCcccccccccCCCC--------------ceEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGE--------------TLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge--------------~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t  324 (328)
                      ...|+|||..+....              ....+||.|+||..|+.+|.. .+-.||+||.++++
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            367999999874211              133569999999999999998 55599999999875

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

Probab=98.42  E-value=1.7e-07  Score=66.27  Aligned_cols=38  Identities=32%  Similarity=0.783  Sum_probs=22.7

Q ss_pred             ccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcC----CCCC
Q 020261          278 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKIN----KVCP  316 (328)
Q Consensus       278 CaICLeef~~ge-~v~~LPCgH~FH~~CI~~WL~~~----ksCP  316 (328)
                      |+||++ |...+ ..++|+|||.|+..||.+|++.+    -.||
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 86644 45789999999999999999854    2577

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

Probab=98.41  E-value=1.4e-07  Score=73.06  Aligned_cols=47  Identities=23%  Similarity=0.389  Sum_probs=38.5

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ...|+||..-|..+   +++||||.|.+.||..||.. ..+||+|+..+..
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            46899999999998   89999999999999999998 8899999988764

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

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

Probab=98.40  E-value=1.1e-07  Score=90.41  Aligned_cols=50  Identities=30%  Similarity=0.768  Sum_probs=42.1

Q ss_pred             CCCcccccccccCCCC-------ceEEeCCCCcccHHHHHHHH--hcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGE-------TLTVLSCKHSYHSECINNWL--KINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge-------~v~~LPCgH~FH~~CI~~WL--~~~ksCPvCR~eV~  323 (328)
                      ++..|+||-..+....       ++.+|.|+|.||.-||+.|-  .++.+||.||..|-
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            4578999988876554       78899999999999999996  45679999998774

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

Probab=98.39  E-value=2.7e-07  Score=66.76  Aligned_cols=42  Identities=31%  Similarity=0.789  Sum_probs=33.2

Q ss_pred             cccccccccCCCCceEEeCCC-----CcccHHHHHHHHhcC--CCCCCcc
Q 020261          277 SCVICRLDYEDGETLTVLSCK-----HSYHSECINNWLKIN--KVCPVCS  319 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCg-----H~FH~~CI~~WL~~~--ksCPvCR  319 (328)
                      .|.||+. +..+....++||.     |.||..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 3444455678985     899999999999654  5899995

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

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

Probab=98.38  E-value=8.8e-08  Score=102.81  Aligned_cols=51  Identities=24%  Similarity=0.793  Sum_probs=38.2

Q ss_pred             CCCCcccccccccC-CCC---ceEEeCCCCcccHHHHHHHHhc--CCCCCCcccccc
Q 020261          273 GSNDSCVICRLDYE-DGE---TLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVS  323 (328)
Q Consensus       273 ~~~~~CaICLeef~-~ge---~v~~LPCgH~FH~~CI~~WL~~--~ksCPvCR~eV~  323 (328)
                      +..++|+||...+. ...   .-++-.|+|.||..|+.+|++.  +++||+||.+++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            35689999987765 221   1122339999999999999975  468999998875

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

Probab=98.37  E-value=1.3e-07  Score=84.66  Aligned_cols=44  Identities=25%  Similarity=0.664  Sum_probs=39.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  320 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~  320 (328)
                      ....|+||++.|..+   +++||+|.||..||..|+...-.||.||.
T Consensus        12 ~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            457899999999988   89999999999999999885568999994

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

Probab=98.33  E-value=2.3e-07  Score=89.22  Aligned_cols=47  Identities=30%  Similarity=0.598  Sum_probs=42.6

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|-||-..|..+   ..++|||.||.-||...|.....||+||.+..
T Consensus        24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            357899999999888   78899999999999999999999999998754

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

Probab=98.21  E-value=5e-07  Score=90.90  Aligned_cols=47  Identities=28%  Similarity=0.773  Sum_probs=39.1

Q ss_pred             CCcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge-~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      -.+|||||+.+.... .++...|.|.||..|+.+|  ...+|||||.-..
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence            468999999987654 4556679999999999999  6789999998655

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

Probab=98.12  E-value=5.3e-07  Score=86.97  Aligned_cols=97  Identities=24%  Similarity=0.525  Sum_probs=62.5

Q ss_pred             ccccCCCCCCHHHHHHhhhhhCC---CCCCCC--HHHHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCc
Q 020261          225 WEEVDPDELSYEELLALGEVVGS---ESRGLS--ADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHS  299 (328)
Q Consensus       225 w~~ld~D~mSyEeLlaL~e~ig~---~s~GLS--~e~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~  299 (328)
                      ....+|..++-.++.+|...++.   .+.|++  -.+|.....+.    ......+..|+|||--|..++.+++++|-|+
T Consensus        64 vtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~L----T~nn~p~gqCvICLygfa~~~~ft~T~C~Hy  139 (368)
T KOG4445|consen   64 VTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFL----TENNHPNGQCVICLYGFASSPAFTVTACDHY  139 (368)
T ss_pred             eEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHc----ccCCCCCCceEEEEEeecCCCceeeehhHHH
Confidence            34566777776666666554432   222322  12222211111    1112245789999999999999999999999


Q ss_pred             ccHHHHHHHHhc-----------------------CCCCCCccccccCC
Q 020261          300 YHSECINNWLKI-----------------------NKVCPVCSAEVSTS  325 (328)
Q Consensus       300 FH~~CI~~WL~~-----------------------~ksCPvCR~eV~t~  325 (328)
                      ||..|+..+|..                       .-+|||||..|.-.
T Consensus       140 ~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  140 MHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            999999988721                       23699999988643

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

Probab=98.12  E-value=4.9e-07  Score=69.90  Aligned_cols=49  Identities=33%  Similarity=0.696  Sum_probs=24.0

Q ss_pred             CcccccccccC-CCCc--eEEe--CCCCcccHHHHHHHHhc---C--------CCCCCccccccC
Q 020261          276 DSCVICRLDYE-DGET--LTVL--SCKHSYHSECINNWLKI---N--------KVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~-~ge~--v~~L--PCgH~FH~~CI~~WL~~---~--------ksCPvCR~eV~t  324 (328)
                      ..|.||+..+. .+..  ++.-  .|++.||..||..||..   .        ..||.|+.+|..
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            57999999876 3322  2222  49999999999999953   1        249999999864

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

Probab=98.01  E-value=3.5e-06  Score=82.84  Aligned_cols=47  Identities=32%  Similarity=0.716  Sum_probs=40.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...+|+|||.+.++-   .+|||.|. .|..|.+..--+.+.||+||+.|.
T Consensus       289 ~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            357999999987664   89999997 799999887667889999999885

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

Probab=97.98  E-value=1.3e-06  Score=92.71  Aligned_cols=49  Identities=22%  Similarity=0.537  Sum_probs=44.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||+..|..+......+|+|+||..||..|-+...+||+||.++.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            4689999999988777777789999999999999999999999999875

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

Probab=97.92  E-value=4.6e-06  Score=82.37  Aligned_cols=50  Identities=32%  Similarity=0.782  Sum_probs=38.5

Q ss_pred             CCCcccccccccCCCC----ceEEeC-CCCcccHHHHHHHH--hc-----CCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGE----TLTVLS-CKHSYHSECINNWL--KI-----NKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge----~v~~LP-CgH~FH~~CI~~WL--~~-----~ksCPvCR~eV~  323 (328)
                      ...+|.||++......    ...+|| |.|.||..||..|-  .+     .+.||.||....
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            4689999999865432    133445 99999999999998  44     578999998653

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

Probab=97.85  E-value=2.1e-06  Score=84.37  Aligned_cols=47  Identities=26%  Similarity=0.574  Sum_probs=38.6

Q ss_pred             CCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ...|+|||.-++..   ++.+ |.|.||..||..-|+. ++.||.||+.+..
T Consensus        43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            57899999987654   4444 9999999999888874 6799999998754

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

Probab=97.73  E-value=5.3e-06  Score=63.48  Aligned_cols=44  Identities=27%  Similarity=0.628  Sum_probs=23.1

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ..|+||...++.+  +....|.|+||..||..-+.  ..||+|+.+.-
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw   51 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW   51 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence            6799999998876  33346999999999988544  45999998764

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

Probab=97.71  E-value=1e-05  Score=85.85  Aligned_cols=50  Identities=22%  Similarity=0.677  Sum_probs=40.7

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTSG  326 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t~~  326 (328)
                      ....|++|-.-++..   +++.|+|.||..||.+-+. +.+.||.|.+.+...+
T Consensus       642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            347899999766653   5566999999999999996 5679999999987654

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

Probab=97.60  E-value=3.6e-05  Score=77.48  Aligned_cols=47  Identities=30%  Similarity=0.675  Sum_probs=42.8

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|.||+..+..+   +++||||.||..||.+-+.++..||.||..+.
T Consensus        83 sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   83 SEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             chhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence            468899999999887   78899999999999998888899999999876

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

Probab=97.44  E-value=9.2e-05  Score=82.85  Aligned_cols=75  Identities=21%  Similarity=0.525  Sum_probs=57.4

Q ss_pred             CCCCHHHHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----------CCCCCcc
Q 020261          250 RGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----------KVCPVCS  319 (328)
Q Consensus       250 ~GLS~e~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----------ksCPvCR  319 (328)
                      .|--+..-..||....+...........|.||+.+--.....+.|.|+|+||..|...-|.++          -+||+|+
T Consensus      3461 CGGvkNEE~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~ 3540 (3738)
T KOG1428|consen 3461 CGGVKNEEHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICK 3540 (3738)
T ss_pred             ccCccchhhcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeeccccc
Confidence            344445556788777766665556678999999987777778899999999999998876543          2699999


Q ss_pred             ccccC
Q 020261          320 AEVST  324 (328)
Q Consensus       320 ~eV~t  324 (328)
                      ..|..
T Consensus      3541 n~InH 3545 (3738)
T KOG1428|consen 3541 NKINH 3545 (3738)
T ss_pred             chhhh
Confidence            98753

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

Probab=97.42  E-value=7.5e-05  Score=74.92  Aligned_cols=49  Identities=29%  Similarity=0.624  Sum_probs=42.6

Q ss_pred             CCCcccccccccCCCCceEE-eCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTV-LSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~-LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..+..+   .. +.|||.||..||..|+..+..||.|++.+...
T Consensus        20 ~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             ccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            468999999999887   33 58999999999999999999999999887543

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

Probab=97.38  E-value=0.00012  Score=72.42  Aligned_cols=49  Identities=24%  Similarity=0.451  Sum_probs=41.6

Q ss_pred             CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          273 GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ++...|+||.-.-   ...+..||+|.-|+.||.+.|.+.+.|-.|++.+.+
T Consensus       420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            3567899997653   344788999999999999999999999999998863

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

Probab=97.37  E-value=8.1e-05  Score=55.56  Aligned_cols=41  Identities=29%  Similarity=0.621  Sum_probs=28.8

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPV  317 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~--~ksCPv  317 (328)
                      ...|||.+..|..+  ++...|+|.|-+..|.+||+.  ...||+
T Consensus        11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            57899999999866  555679999999999999944  447999

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

Probab=97.36  E-value=5.9e-05  Score=75.32  Aligned_cols=46  Identities=30%  Similarity=0.696  Sum_probs=38.7

Q ss_pred             CCcccccccccCC-CCceEEeCCCCcccHHHHHHHHhcC--CCCCCccc
Q 020261          275 NDSCVICRLDYED-GETLTVLSCKHSYHSECINNWLKIN--KVCPVCSA  320 (328)
Q Consensus       275 ~~~CaICLeef~~-ge~v~~LPCgH~FH~~CI~~WL~~~--ksCPvCR~  320 (328)
                      ...|..|-+.+-- ++.+-.|||.|+||..|+...|.++  ++||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            4689999888743 4578899999999999999999765  58999994

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

Probab=97.34  E-value=4.8e-05  Score=74.30  Aligned_cols=49  Identities=27%  Similarity=0.666  Sum_probs=40.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...+|.+|--.|....  .+.-|-|.||+.||...|..+++||+|...|..
T Consensus        14 ~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             cceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            3578999999887651  233499999999999999999999999987753

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

Probab=97.29  E-value=7.2e-05  Score=55.75  Aligned_cols=46  Identities=28%  Similarity=0.651  Sum_probs=34.5

Q ss_pred             CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHh-cCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLK-INKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~-~~ksCPvCR~eV~  323 (328)
                      ..+|.||++.-...   +...|||. .|..|-..-++ .+..||+||++|.
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            47899998874433   45569997 67888665555 6789999999874

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

Probab=97.08  E-value=0.00018  Score=66.36  Aligned_cols=44  Identities=34%  Similarity=0.642  Sum_probs=39.9

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      ..|.||..+|..+   ++..|||.||..|...-++....|-+|.+..
T Consensus       197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             eeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            5799999999998   7888999999999999888899999998754

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

Probab=97.04  E-value=0.00023  Score=71.33  Aligned_cols=46  Identities=24%  Similarity=0.754  Sum_probs=37.4

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~--~ksCPvCR~eV~t  324 (328)
                      ..|-||-+.=   ..|++-||||..|..|+..|-..  ..+||.||.+|..
T Consensus       370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            4699998653   34678899999999999999643  5799999999853

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

Probab=97.01  E-value=0.00067  Score=65.15  Aligned_cols=49  Identities=24%  Similarity=0.472  Sum_probs=38.7

Q ss_pred             CCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--CCCCCCcccccc
Q 020261          273 GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVS  323 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~--~ksCPvCR~eV~  323 (328)
                      ....+|++|-+.-..+  .+..+|+|+||..||..-+..  .-+||.|-..+.
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3457999999875554  345579999999999987653  368999998886

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

Probab=96.98  E-value=0.00024  Score=68.72  Aligned_cols=46  Identities=26%  Similarity=0.510  Sum_probs=41.5

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ..|-||...|..+   ++..|+|.||..|...-++....|++|.+.+..
T Consensus       242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             ccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccccc
Confidence            4699999999998   888899999999999999999999999887643

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

Probab=96.81  E-value=0.0009  Score=62.86  Aligned_cols=50  Identities=30%  Similarity=0.672  Sum_probs=41.1

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--------CCCCCCccccccCCC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPVCSAEVSTSG  326 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~--------~ksCPvCR~eV~t~~  326 (328)
                      ..|..|-..+..++.++ |-|-|.||.+|+..|-..        .-.||.|.++|++..
T Consensus        51 pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   51 PNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            56999999988887664 569999999999999744        236999999998654

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

Probab=96.60  E-value=0.00076  Score=69.77  Aligned_cols=48  Identities=31%  Similarity=0.666  Sum_probs=38.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-----CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-----NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-----~ksCPvCR~eV~t  324 (328)
                      ....|.+|...-+..   +...|.|.||+.||..++..     +-+||+|...+..
T Consensus       535 ~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  535 GEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             CceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            346899999876554   67779999999999998843     4589999887753

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

Probab=96.59  E-value=0.0015  Score=64.63  Aligned_cols=64  Identities=23%  Similarity=0.489  Sum_probs=45.1

Q ss_pred             HHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHH--HhcCCCCCCccccc
Q 020261          256 TLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNW--LKINKVCPVCSAEV  322 (328)
Q Consensus       256 ~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~W--L~~~ksCPvCR~eV  322 (328)
                      .+.+-|..+-.+.......+..|.||-..+.-   +.++||+|..|..|....  |-..+.||+||++.
T Consensus        42 nlsaEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          42 NLSAEPNLTTSSADDTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccCCccccccccccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            33344444444444444566789999887643   478999999999997653  55688999999874

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

Probab=96.58  E-value=0.001  Score=65.87  Aligned_cols=43  Identities=28%  Similarity=0.607  Sum_probs=33.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||+....+-   +.+||||.-|  |+.-. +...+||+||+.|.
T Consensus       305 p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  305 PDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            46899999998774   8899999866  66443 34456999999874

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

Probab=96.43  E-value=0.0015  Score=52.51  Aligned_cols=32  Identities=25%  Similarity=0.696  Sum_probs=27.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHH
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECIN  306 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~  306 (328)
                      ....|+||-..+.. ..+.+.||||.||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            35679999999876 577888999999999975

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 [].

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.27  E-value=0.0037  Score=59.47  Aligned_cols=51  Identities=20%  Similarity=0.359  Sum_probs=44.3

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ...|+||...+.+...+.+| ||||+|+..|+.+.+..-..||+|-.++...
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            46899999999888766666 6999999999999999999999998887654

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

Probab=96.20  E-value=0.0028  Score=55.11  Aligned_cols=39  Identities=13%  Similarity=0.432  Sum_probs=32.1

Q ss_pred             CCcccccccccCCCCceEEeCCC------CcccHHHHHHHHhcCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCK------HSYHSECINNWLKINK  313 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCg------H~FH~~CI~~WL~~~k  313 (328)
                      ..+|.||+..+.....++.++|+      |.||..|+.+|-+.++
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            46899999999886678888886      8999999999954333

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.

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

Probab=96.19  E-value=0.0033  Score=45.04  Aligned_cols=40  Identities=30%  Similarity=0.850  Sum_probs=27.1

Q ss_pred             ccccccccCCCCceEEeCCC--C---cccHHHHHHHHh--cCCCCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCK--H---SYHSECINNWLK--INKVCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCg--H---~FH~~CI~~WL~--~~ksCPvC  318 (328)
                      |-||+..-.... ..+.||+  =   ..|..|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            779998866554 4567764  3   679999999997  45689998

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

Probab=96.19  E-value=0.00028  Score=70.44  Aligned_cols=51  Identities=24%  Similarity=0.587  Sum_probs=44.8

Q ss_pred             CCcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~g-e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ...|+||...++.. +++..+-|||.+|..||.+||..+..||.|+++++..
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            46799999998766 6777788999999999999999999999999998754

>PHA03096 p28-like protein; Provisional

Probab=96.19  E-value=0.0022  Score=62.12  Aligned_cols=44  Identities=25%  Similarity=0.499  Sum_probs=31.7

Q ss_pred             CcccccccccCCC----CceEEeC-CCCcccHHHHHHHHhcC---CCCCCcc
Q 020261          276 DSCVICRLDYEDG----ETLTVLS-CKHSYHSECINNWLKIN---KVCPVCS  319 (328)
Q Consensus       276 ~~CaICLeef~~g----e~v~~LP-CgH~FH~~CI~~WL~~~---ksCPvCR  319 (328)
                      ..|.||++.....    ....+|+ |.|.||..||..|-..+   .+||.||
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~  230 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR  230 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence            5799999987543    2345676 99999999999998543   3444444

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

Probab=96.14  E-value=0.0028  Score=63.82  Aligned_cols=46  Identities=22%  Similarity=0.561  Sum_probs=38.0

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--------CCCCCccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPVCSA  320 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~--------ksCPvCR~  320 (328)
                      ...|.||++.......++.|||+|+||..|+..++...        -.||-|+-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            46799999998777889999999999999999998531        26876653

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.10  E-value=0.0028  Score=47.20  Aligned_cols=47  Identities=28%  Similarity=0.649  Sum_probs=35.5

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  326 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~~  326 (328)
                      ...|..|...-..+   +++||+|..+..|..-  .+-+-||+|.+++....
T Consensus         7 ~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVGTKG---TVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEcccccccc---ccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            34677776554444   8899999999999655  36788999999987654

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

Probab=96.06  E-value=0.0021  Score=57.70  Aligned_cols=28  Identities=43%  Similarity=0.860  Sum_probs=26.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccH
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHS  302 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~  302 (328)
                      ..+|+|||+++..++++.+|||-.+||+
T Consensus       177 kGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  177 KGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             CCcEEEEhhhccCCCceeccceEEEeec
Confidence            4689999999999999999999999996

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

Probab=95.96  E-value=0.0023  Score=62.07  Aligned_cols=42  Identities=26%  Similarity=0.598  Sum_probs=31.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||+......   +.|+|||. -|..|-..    -+.||+||+.|.
T Consensus       300 ~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDC---VFLECGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcce---EEeecCcEEeehhhccc----cccCchHHHHHH
Confidence            46799998875544   89999996 46777543    348999999764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.87  E-value=0.008  Score=57.09  Aligned_cols=50  Identities=16%  Similarity=0.460  Sum_probs=39.4

Q ss_pred             CCCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|||+...|..... +.+.||||+|...||..- .....||+|-.++..
T Consensus       112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTE  162 (260)
T ss_pred             ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcccc
Confidence            45789999999965544 445589999999999986 335689999988764

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

Probab=95.77  E-value=0.0065  Score=44.12  Aligned_cols=45  Identities=18%  Similarity=0.506  Sum_probs=22.1

Q ss_pred             ccccccccCCC-CceEEeCCCCcccHHHHHHHHh-cCCCCCCccccc
Q 020261          278 CVICRLDYEDG-ETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEV  322 (328)
Q Consensus       278 CaICLeef~~g-e~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV  322 (328)
                      |++|.+.+... ..+.--+|++..|..|...-+. ....||-||++.
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            78999998332 2333345899999999887775 467999999863

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

Probab=95.70  E-value=0.0086  Score=58.48  Aligned_cols=42  Identities=29%  Similarity=0.611  Sum_probs=34.6

Q ss_pred             CcccccccccCCCCceEEeC-CCCcccHHHHHHHHhc-CCCCCCccc
Q 020261          276 DSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKI-NKVCPVCSA  320 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~-~ksCPvCR~  320 (328)
                      +.|+.|..-+..+   ..+| |+|.||..||..-|.. -..||.|.+
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            7899998877766   4445 9999999999988865 468999976

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

Probab=95.47  E-value=0.0088  Score=54.60  Aligned_cols=50  Identities=30%  Similarity=0.727  Sum_probs=34.9

Q ss_pred             CcccccccccCCCC----ceEEeCCCCcccHHHHHHHHhcC-----------CCCCCccccccCC
Q 020261          276 DSCVICRLDYEDGE----TLTVLSCKHSYHSECINNWLKIN-----------KVCPVCSAEVSTS  325 (328)
Q Consensus       276 ~~CaICLeef~~ge----~v~~LPCgH~FH~~CI~~WL~~~-----------ksCPvCR~eV~t~  325 (328)
                      ..|.||...--.|.    ..-...||..||.-|+..||+.-           ..||.|..+|...
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            45777765543332    22334599999999999999541           3599999988643

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

Probab=95.44  E-value=0.0068  Score=65.70  Aligned_cols=43  Identities=28%  Similarity=0.724  Sum_probs=34.4

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ..|.+|--.+..|  .+..-|||.||..|+.   .....||.|+.+..
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPELR  883 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence            4799998887665  4566799999999998   45678999998553

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

Probab=95.31  E-value=0.0089  Score=65.08  Aligned_cols=35  Identities=26%  Similarity=0.602  Sum_probs=29.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHH
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWL  309 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL  309 (328)
                      ..+.|.||...+-.. ...+.||||.||+.||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            457899999887653 67788999999999998865

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.30  E-value=0.018  Score=51.56  Aligned_cols=46  Identities=26%  Similarity=0.817  Sum_probs=34.0

Q ss_pred             CCCcccccccccCCCCceEEeCCC--C---cccHHHHHHHHhcC--CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCK--H---SYHSECINNWLKIN--KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCg--H---~FH~~CI~~WL~~~--ksCPvCR~eV~  323 (328)
                      ....|-||+.....    ..-||.  .   .-|..|+..|+..+  .+||+|+++..
T Consensus         7 ~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            35789999988432    235754  4   45999999999754  58999998764

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

Probab=95.23  E-value=0.015  Score=57.22  Aligned_cols=46  Identities=22%  Similarity=0.442  Sum_probs=37.4

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      ....|+||+....++   .+|. -|-+||..||..++...+.|||=..++
T Consensus       299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            346899999998777   3333 599999999999999999999865544

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

Probab=95.23  E-value=0.011  Score=57.69  Aligned_cols=43  Identities=23%  Similarity=0.589  Sum_probs=35.7

Q ss_pred             CCcccccccccCCCCceEEeCC--CCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSC--KHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPC--gH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      -..||||...+..+    +..|  ||.-|..|-.   +..+.||.||.++..
T Consensus        48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             hccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            47899999999886    6677  7988888865   468899999999873

>PHA02862 5L protein; Provisional

Probab=95.06  E-value=0.017  Score=51.07  Aligned_cols=46  Identities=24%  Similarity=0.659  Sum_probs=32.4

Q ss_pred             CcccccccccCCCCceEEeCC---CCcccHHHHHHHHhc--CCCCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSC---KHSYHSECINNWLKI--NKVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPC---gH~FH~~CI~~WL~~--~ksCPvCR~eV~  323 (328)
                      ..|-||+..-...  +.--.|   ...-|..|+.+|++.  +..||+||.+..
T Consensus         3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            5799999885332  210112   246899999999974  458999998864

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

Probab=94.97  E-value=0.0098  Score=41.93  Aligned_cols=41  Identities=22%  Similarity=0.711  Sum_probs=23.7

Q ss_pred             ccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC--CCCCc
Q 020261          278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK--VCPVC  318 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k--sCPvC  318 (328)
                      |.+|.+....|..-....|+=.+|..|+..+++...  .||.|
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            678888877773222234999999999999998765  79998

; PDB: 3NW0_A 2CT0_A.

>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues

Probab=94.82  E-value=0.037  Score=53.19  Aligned_cols=7  Identities=29%  Similarity=0.567  Sum_probs=2.9

Q ss_pred             CCCCccC
Q 020261          101 AGSYLHD  107 (328)
Q Consensus       101 ~~~y~~~  107 (328)
                      .|.|.+.
T Consensus       266 ~~~~~~~  272 (314)
T PF06524_consen  266 GGNYGYE  272 (314)
T ss_pred             CCCCccc
Confidence            3444443

The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus

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

Probab=94.81  E-value=0.011  Score=63.36  Aligned_cols=44  Identities=23%  Similarity=0.652  Sum_probs=36.1

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--CCCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~--ksCPvCR~eV~  323 (328)
                      ..|.||++    .+..++.+|+|.||..|+..-+...  ..||+||..+.
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            68999998    4556888999999999999987643  36999997653

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

Probab=94.80  E-value=0.017  Score=62.65  Aligned_cols=47  Identities=28%  Similarity=0.728  Sum_probs=35.3

Q ss_pred             CCCcccccccccCCCCceEE-eCCCCcccHHHHHHHHhcC-------CCCCCccc
Q 020261          274 SNDSCVICRLDYEDGETLTV-LSCKHSYHSECINNWLKIN-------KVCPVCSA  320 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~-LPCgH~FH~~CI~~WL~~~-------ksCPvCR~  320 (328)
                      ...+|.||.+.+.....+-. ..|-|+||..||..|-+..       -.||.|+.
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            34789999999876543322 2388999999999998642       15999984

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

Probab=94.68  E-value=0.016  Score=55.98  Aligned_cols=45  Identities=31%  Similarity=0.592  Sum_probs=37.9

Q ss_pred             CcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 020261          276 DSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSA  320 (328)
Q Consensus       276 ~~CaICLeef~~ge-~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~  320 (328)
                      ..||||.+.+.... .+..++|||.-|..|.......+=+||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            44999998865544 5678899999999999998877789999988

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

Probab=94.43  E-value=0.054  Score=54.17  Aligned_cols=29  Identities=28%  Similarity=0.862  Sum_probs=22.8

Q ss_pred             CCCcccHHHHHHHHhc-------------CCCCCCccccccC
Q 020261          296 CKHSYHSECINNWLKI-------------NKVCPVCSAEVST  324 (328)
Q Consensus       296 CgH~FH~~CI~~WL~~-------------~ksCPvCR~eV~t  324 (328)
                      |...+|..|+.+|+-.             +-.||.||+.+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            5677899999999832             3479999998753

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

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

Probab=93.98  E-value=0.016  Score=65.37  Aligned_cols=46  Identities=24%  Similarity=0.551  Sum_probs=38.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      ...|.||+..+....  .+..|||.||..|+..|+..+..||+|+...
T Consensus      1153 ~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             ccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence            458999999987321  4556999999999999999999999998543

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

Probab=93.49  E-value=0.032  Score=54.79  Aligned_cols=43  Identities=28%  Similarity=0.713  Sum_probs=30.2

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      .|.-|--.+  ...-+.+||+|+||.+|...  ..-|.||.|--.|.
T Consensus        92 fCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence            576675333  23346789999999999754  34679999976653

>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=92.83  E-value=0.038  Score=40.18  Aligned_cols=44  Identities=23%  Similarity=0.672  Sum_probs=25.6

Q ss_pred             cccccccccCCCCceEEeCC-CCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          277 SCVICRLDYEDGETLTVLSC-KHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPC-gH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      .|--|.-.  ..   ..+.| .|+.|..|+...|.++..||+|..++++.
T Consensus         4 nCKsCWf~--~k---~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFA--NK---GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S----S---SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhc--CC---CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            45566633  22   23446 69999999999999999999999999875

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.67  E-value=0.076  Score=52.85  Aligned_cols=49  Identities=22%  Similarity=0.487  Sum_probs=35.9

Q ss_pred             CCCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHh-cCCCCCCccccc
Q 020261          274 SNDSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLK-INKVCPVCSAEV  322 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV  322 (328)
                      ....|+.|++.+...++ ..-.|||-..|.-|....-. .+..||-||+..
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            45679999999987764 44567998888888554332 357899999864

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

Probab=92.63  E-value=0.1  Score=52.61  Aligned_cols=49  Identities=24%  Similarity=0.430  Sum_probs=38.8

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC---CCCCccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEV  322 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k---sCPvCR~eV  322 (328)
                      .-..|||=.+.-........|.|||+..+.-|.+..+...   .||.|=.+.
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            3468999888776666678999999999999999776544   699996544

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

Probab=92.04  E-value=0.12  Score=45.23  Aligned_cols=50  Identities=28%  Similarity=0.575  Sum_probs=36.8

Q ss_pred             CCcccccccccCCCCceEEeC---CCCcccHHHHHHHHh---cCCCCCCccccccCCC
Q 020261          275 NDSCVICRLDYEDGETLTVLS---CKHSYHSECINNWLK---INKVCPVCSAEVSTSG  326 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LP---CgH~FH~~CI~~WL~---~~ksCPvCR~eV~t~~  326 (328)
                      -.+|.||.+......  ..-|   ||-..|..|-...++   ...+||+|++++.++.
T Consensus        80 lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   80 LYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             ceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            478999999866542  2223   899999998766544   3568999999987654

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

Probab=91.81  E-value=0.051  Score=57.76  Aligned_cols=43  Identities=23%  Similarity=0.467  Sum_probs=31.8

Q ss_pred             CcccccccccCCCC-ceEEeCCCCcccHHHHHHHHhcCCCCCCcccc
Q 020261          276 DSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSAE  321 (328)
Q Consensus       276 ~~CaICLeef~~ge-~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~e  321 (328)
                      ..|.||+..|-... ..+.|.|||..|..|+..-  -+.+|| |++.
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~D   55 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKRD   55 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCcc
Confidence            57999988886553 2345569999999999764  566788 6654

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

Probab=91.51  E-value=0.1  Score=56.48  Aligned_cols=41  Identities=32%  Similarity=0.805  Sum_probs=31.5

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPV  317 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPv  317 (328)
                      ..|+||.-.+. |-..+...|+|..|..|...|+....+||.
T Consensus      1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            35777665542 334556779999999999999999999984

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

Probab=91.44  E-value=0.043  Score=58.72  Aligned_cols=47  Identities=23%  Similarity=0.658  Sum_probs=38.9

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC---CCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~---ksCPvCR~eV~t  324 (328)
                      ..+|+||+..+..+   ..+.|-|.|+..|+..-|...   +.||+|+..+..
T Consensus        21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            47899999999887   778899999999998876544   479999976653

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

Probab=91.36  E-value=0.083  Score=57.33  Aligned_cols=51  Identities=10%  Similarity=0.220  Sum_probs=37.4

Q ss_pred             CCcccccccccCCCC-ceEEeC---CCCcccHHHHHHHHhc------CCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGE-TLTVLS---CKHSYHSECINNWLKI------NKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge-~v~~LP---CgH~FH~~CI~~WL~~------~ksCPvCR~eV~t~  325 (328)
                      ..+|.||...+..+. ...++|   |+|.||..||..|+.+      +-.||+|..-|.++
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW  156 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW  156 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence            357888887776632 345566   9999999999999843      23689998776544

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

Probab=90.61  E-value=0.3  Score=43.79  Aligned_cols=35  Identities=23%  Similarity=0.533  Sum_probs=20.8

Q ss_pred             CCcccccccccCCCCceEE---------eCCC-CcccHHHHHHHH
Q 020261          275 NDSCVICRLDYEDGETLTV---------LSCK-HSYHSECINNWL  309 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~---------LPCg-H~FH~~CI~~WL  309 (328)
                      ...|+|||+.-.+.--+..         .-|+ -.-|..|+.++-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence            3579999998766511100         0022 224788999986

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

>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar

Probab=90.57  E-value=0.3  Score=53.22  Aligned_cols=16  Identities=19%  Similarity=0.372  Sum_probs=8.0

Q ss_pred             ccccchHHHHHHHHHH
Q 020261          176 DVFSSDEAYARALQDA  191 (328)
Q Consensus       176 a~~~sdE~~AR~LQ~~  191 (328)
                      +.|.=|+.+|...+..
T Consensus       733 ~m~~lD~~La~~Fk~r  748 (784)
T PF04931_consen  733 QMMALDEQLAAIFKER  748 (784)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444455555555444

The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent

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

Probab=90.36  E-value=0.14  Score=47.62  Aligned_cols=41  Identities=27%  Similarity=0.712  Sum_probs=29.1

Q ss_pred             ccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccCC
Q 020261          278 CVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       278 CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      |-+|.+   .+-.|..|||.|. +|..|=..    .+.||+|+..+...
T Consensus       161 Cr~C~~---~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~  202 (207)
T KOG1100|consen  161 CRKCGE---REATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS  202 (207)
T ss_pred             ceecCc---CCceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence            777754   4456889999775 77778543    55699999876543

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

Probab=90.23  E-value=0.24  Score=54.07  Aligned_cols=49  Identities=33%  Similarity=0.746  Sum_probs=36.6

Q ss_pred             CCCcccccccccCCCCceEEeCCCC-----cccHHHHHHHHhc--CCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKH-----SYHSECINNWLKI--NKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH-----~FH~~CI~~WL~~--~ksCPvCR~eV~  323 (328)
                      ....|-||+.+=..+..+. -||+.     ..|..|+..|+.-  .+.|-+|+.++.
T Consensus        11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            4578999998865554443 36764     4899999999974  458999998864

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

Probab=90.06  E-value=0.11  Score=52.25  Aligned_cols=38  Identities=21%  Similarity=0.769  Sum_probs=29.3

Q ss_pred             CCcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcC
Q 020261          275 NDSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKIN  312 (328)
Q Consensus       275 ~~~CaICLeef~~g-e~v~~LPCgH~FH~~CI~~WL~~~  312 (328)
                      ..+|.||+..+... ....++.|+|.||..|+.+.+..+
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            57899999554444 455567799999999999998643

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=89.63  E-value=0.43  Score=35.55  Aligned_cols=43  Identities=26%  Similarity=0.743  Sum_probs=32.5

Q ss_pred             CCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcCCCCCC--cccc
Q 020261          275 NDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPV--CSAE  321 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPv--CR~e  321 (328)
                      ...|++|-..|+.++.+++-| |+-.||+.|...    ...|-+  |...
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            467999999999888777777 999999999432    445644  5443

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

Probab=89.53  E-value=0.15  Score=48.29  Aligned_cols=49  Identities=24%  Similarity=0.651  Sum_probs=36.3

Q ss_pred             CCcccccccccCCCCc-eEEeCCC-----CcccHHHHHHHHh--cCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGET-LTVLSCK-----HSYHSECINNWLK--INKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~-v~~LPCg-----H~FH~~CI~~WL~--~~ksCPvCR~eV~  323 (328)
                      ...|-||......... ....||.     +..|..|+..|+.  .+..|.+|.....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            3679999987654321 4566764     5689999999998  5568999988654

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.70  E-value=0.23  Score=48.63  Aligned_cols=29  Identities=17%  Similarity=0.594  Sum_probs=23.2

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCCCccccccC
Q 020261          296 CKHSYHSECINNWLK-------------INKVCPVCSAEVST  324 (328)
Q Consensus       296 CgH~FH~~CI~~WL~-------------~~ksCPvCR~eV~t  324 (328)
                      |...+|..|+.+|+.             .+-+||.||+.+..
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            678899999999983             34579999998753

>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]

Probab=88.45  E-value=0.6  Score=51.81  Aligned_cols=24  Identities=21%  Similarity=0.141  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHhcCCCCCCCCCCCCCCCc
Q 020261           78 EQERAYMMLRMNNNEGSDYGSWEAGSYL  105 (328)
Q Consensus        78 ~qe~~~~~~~~~~~~~~~~~~~~~~~y~  105 (328)
                      |-++.-||++|..    .-.--++|+--
T Consensus      1378 e~~~~~d~dq~sT----~~r~yEIGR~r 1401 (1516)
T KOG1832|consen 1378 EMEDQEDMDQFST----SARMYEIGRRR 1401 (1516)
T ss_pred             eccChhhhhhhhh----hhhhhhhcccC
Confidence            3456667777632    11233566643

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

Probab=88.40  E-value=0.16  Score=53.71  Aligned_cols=43  Identities=23%  Similarity=0.692  Sum_probs=27.1

Q ss_pred             CCcccccccc-----cCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 020261          275 NDSCVICRLD-----YEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  320 (328)
Q Consensus       275 ~~~CaICLee-----f~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~  320 (328)
                      ...|.||-..     |......+...|+++||..|...   .+..||.|-+
T Consensus       511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence            3567888321     22222344456999999999543   5556999954

>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar

Probab=88.14  E-value=1.3  Score=48.38  Aligned_cols=15  Identities=27%  Similarity=0.605  Sum_probs=9.5

Q ss_pred             CCCCHHHHHHhhhhh
Q 020261          231 DELSYEELLALGEVV  245 (328)
Q Consensus       231 D~mSyEeLlaL~e~i  245 (328)
                      +.|+-+++.+|-..+
T Consensus       727 ~~mdDe~m~~lD~~L  741 (784)
T PF04931_consen  727 EDMDDEQMMALDEQL  741 (784)
T ss_pred             cccCHHHHHHHHHHH
Confidence            456667777765554

The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent

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

Probab=87.66  E-value=0.15  Score=37.01  Aligned_cols=43  Identities=21%  Similarity=0.443  Sum_probs=21.6

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC---C--CCCCcccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---K--VCPVCSAE  321 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~---k--sCPvCR~e  321 (328)
                      ..|+|....+..+  ++...|.|.-|.+ +..||...   +  .||+|.++
T Consensus         3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            5799988887764  5566799986654 44566432   2  69999863

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

>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=87.01  E-value=0.37  Score=46.11  Aligned_cols=47  Identities=19%  Similarity=0.597  Sum_probs=35.5

Q ss_pred             CCccccccccc-CCCC-ceEEeC-CCCcccHHHHHHHHhcCC-CCC--Ccccc
Q 020261          275 NDSCVICRLDY-EDGE-TLTVLS-CKHSYHSECINNWLKINK-VCP--VCSAE  321 (328)
Q Consensus       275 ~~~CaICLeef-~~ge-~v~~LP-CgH~FH~~CI~~WL~~~k-sCP--vCR~e  321 (328)
                      ...||||..+. -+++ ++.+-| |-|..|-.|+...+.... .||  -|-+-
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI   62 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI   62 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence            46899998874 4444 444446 999999999999998765 799  77543

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

Probab=86.28  E-value=0.34  Score=45.38  Aligned_cols=42  Identities=31%  Similarity=0.826  Sum_probs=34.6

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS  319 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR  319 (328)
                      ..|.+|..-.--+  ++.=.|+-.||..||..++.....||.|.
T Consensus       182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~  223 (235)
T KOG4718|consen  182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG  223 (235)
T ss_pred             HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence            5799998775543  34446999999999999999999999993

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

Probab=85.90  E-value=0.38  Score=50.31  Aligned_cols=44  Identities=32%  Similarity=0.938  Sum_probs=37.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|.||+..+    ..++.+|.   |..|+..|+..+.+||+|+..+..
T Consensus       478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~  521 (543)
T KOG0802|consen  478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKE  521 (543)
T ss_pred             ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhc
Confidence            356899999998    44777888   899999999999999999887653

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=82.35  E-value=1  Score=49.00  Aligned_cols=40  Identities=23%  Similarity=0.573  Sum_probs=28.7

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCC
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPV  317 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPv  317 (328)
                      .|++|.-.+. |..+-.--|+|.-|..|+.+|+...+-||.
T Consensus       781 ~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  781 KCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             Cceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence            6778865542 211222239999999999999999888876

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

Probab=81.77  E-value=0.64  Score=46.93  Aligned_cols=46  Identities=24%  Similarity=0.513  Sum_probs=32.3

Q ss_pred             CCcccccccccCCCC--ceEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 020261          275 NDSCVICRLDYEDGE--TLTVLSCKHSYHSECINNWLKINKVCPVCSA  320 (328)
Q Consensus       275 ~~~CaICLeef~~ge--~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~  320 (328)
                      ...|++|.-.+.-..  .-.+-.|||.||..|...|...+..|..|-+
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~r  353 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECCR  353 (384)
T ss_pred             cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCccc
Confidence            356888876654433  2222239999999999999988888755533

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=81.21  E-value=0.79  Score=46.80  Aligned_cols=36  Identities=25%  Similarity=0.654  Sum_probs=30.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI  311 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~  311 (328)
                      ....|.||...+..  .+..+.|+|.||..|+...|..
T Consensus        69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT  104 (444)
T ss_pred             ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence            45789999998865  5677889999999999998854

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	328
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-09
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		4e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		8e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-04
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		2e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		3e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		3e-04

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 253 SADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN 312
           S+ +   LP+  +     Q+     CV+C  D+E  + L VL C H +H++C++ WLK N
Sbjct: 2   SSGSSGQLPSYRFNPNNHQS-EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60
Query: 313 KVCPVCSAEVSTS 325
           + CP+C A+   S
Sbjct: 61  RTCPICRADSGPS 73

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/45 (37%), Positives = 30/45 (66%)
Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
           C +C  D++  + L +  CKH++H +C+  WL++ KVCP+C+  V
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
           C IC    E+GE +  L C H +H  C++ WL  NK CP+C  ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 253 SADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN 312
           S +++  LP +         G    C IC  +Y  G+  T L C H +H  C++ WL+ +
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS 77
Query: 313 KVCPVC 318
             CPVC
Sbjct: 78  GTCPVC 83

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 29/51 (56%)
Query: 273 GSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           GS   C +C+ DY  GE++  L C H +H  CI  WL+ +  CPVC   ++
Sbjct: 13  GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 278 CVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV 322
           C +C  + EDGE    L  C H +H+EC++ WL  +  CP+C   V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
           C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 56  CIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 103

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
           C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 67  CIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 114

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
           C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 56  CIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 103

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	328
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-27
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-19
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-18
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-15
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	8e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-13
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	3e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	8e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-08
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-04

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

 Score =  100 bits (251), Expect = 5e-27
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 1/74 (1%)

Query: 253 SADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN 312
           S+ +   LP+  +     Q+     CV+C  D+E  + L VL C H +H++C++ WLK N
Sbjct: 2   SSGSSGQLPSYRFNPNNHQS-EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 313 KVCPVCSAEVSTSG 326
           + CP+C A+   S 
Sbjct: 61  RTCPICRADSGPSS 74

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

 Score = 93.6 bits (233), Expect = 3e-24
 Identities = 21/73 (28%), Positives = 32/73 (43%)

Query: 250 RGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWL 309
              S +++  LP +         G    C IC  +Y  G+  T L C H +H  C++ WL
Sbjct: 15  PPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWL 74

Query: 310 KINKVCPVCSAEV 322
           + +  CPVC    
Sbjct: 75  QKSGTCPVCRCMF 87

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

 Score = 80.6 bits (199), Expect = 1e-19
 Identities = 18/61 (29%), Positives = 34/61 (55%)

Query: 266 KGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
            G   +   ++ C +C  D++  + L +  CKH++H +C+  WL++ KVCP+C+  V   
Sbjct: 6   SGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL 65

Query: 326 G 326
            
Sbjct: 66  A 66

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

 Score = 76.6 bits (189), Expect = 3e-18
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 266 KGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
               ++  + + C IC    E+GE +  L C H +H  C++ WL  NK CP+C  ++   
Sbjct: 5   GEEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 72.8 bits (179), Expect = 1e-16
 Identities = 21/62 (33%), Positives = 31/62 (50%)

Query: 267 GGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           G     GS   C +C+ DY  GE++  L C H +H  CI  WL+ +  CPVC   ++   
Sbjct: 7   GTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

Query: 327 HS 328
            +
Sbjct: 67  TA 68

>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 = 69.2 bits (170), Expect = 1e-15
 Identities = 17/53 (32%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 272 NGSNDSCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           +  +  C IC  D      +  VL C H  H  C    LK    CP+CS   S
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 64.5 bits (158), Expect = 5e-14
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 278 CVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV 322
           C +C  + EDGE    L  C H +H+EC++ WL  +  CP+C   V
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 64.7 bits (158), Expect = 8e-14
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 267 GGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 326
           G   Q    + C IC     DG    +L C HS+  +CI+ W   ++ CP+C  +++ + 
Sbjct: 7   GRVKQLTDEEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62

Query: 327 HS 328
            S
Sbjct: 63  ES 64

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

 Score = 64.0 bits (156), Expect = 1e-13
 Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
             + C IC  D  +      L C H++   CI  W++ N  CP+C   V +  H+
Sbjct: 4   VAERCPICLEDPSNYSMA--LPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHT 56

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

 Score = 63.4 bits (154), Expect = 2e-13
 Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 4/66 (6%)

Query: 262 TVNYKGGTSQNGSNDSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPV 317
           +    G   +     SC IC   Y +    G  +    C H + S+C+ + LK    CP 
Sbjct: 2   SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61

Query: 318 CSAEVS 323
           C  +++
Sbjct: 62  CRKKIN 67

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

 Score = 63.3 bits (154), Expect = 2e-13
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 4/57 (7%)

Query: 273 GSNDSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
           G+  SC IC   Y +    G  +    C H + S+C+ + LK    CP C  +++  
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57

>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 = 62.9 bits (153), Expect = 3e-13
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 6/64 (9%)

Query: 268 GTSQNGSNDS--CVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 321
           GT+    + +  C IC   Y +    G  +    C H + S+C+ + LK    CP C  +
Sbjct: 1   GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

Query: 322 VSTS 325
           ++  
Sbjct: 61  INHK 64

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

 Score = 60.7 bits (147), Expect = 3e-12
 Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 271 QNGSNDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAE 321
           +    D+C+ C+ + +  + + V   C HS+H+ C++ W+K N  CP+C  +
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQD 73

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

 Score = 54.4 bits (131), Expect = 4e-10
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
           C IC+    D    T+  C H++   CI      +  CP C+  V  +
Sbjct: 18  CSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT 63

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

 Score = 54.1 bits (130), Expect = 6e-10
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 322
            C ICR  +++     V  C+H +   C     +    C +C    
Sbjct: 17  RCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPT 59

>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 = 51.7 bits (124), Expect = 8e-09
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
           CV+C   + D    T++ C HS+   CI  +L+ +K CP+C  +V  +
Sbjct: 18  CVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT 63

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

 Score = 49.1 bits (117), Expect = 3e-08
 Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 3/57 (5%)

Query: 267 GGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
           G T+ + +   C IC            L CKH +   C+     + K C +C  E+ 
Sbjct: 7   GNTAPSLTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

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

 Score = 50.2 bits (119), Expect = 3e-08
 Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 15/65 (23%)

Query: 272 NGSNDSCVICRL---------------DYEDGETLTVLSCKHSYHSECINNWLKINKVCP 316
           +   D+C ICR                   +  T+    C H++H  CI+ WLK  +VCP
Sbjct: 34  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93

Query: 317 VCSAE 321
           + + E
Sbjct: 94  LDNRE 98

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

 Score = 49.2 bits (117), Expect = 3e-08
 Identities = 11/59 (18%), Positives = 20/59 (33%), Gaps = 4/59 (6%)

Query: 265 YKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAE 321
             G  +   +   C IC      G++    +C    H  C+  + +      CP C+  
Sbjct: 5   SSGRETYPDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

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

 Score = 49.1 bits (116), Expect = 1e-07
 Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 15/67 (22%)

Query: 270 SQNGSNDSCVICRL---------------DYEDGETLTVLSCKHSYHSECINNWLKINKV 314
           + +   D+C ICR                   +  T+    C H++H  CI+ WLK  +V
Sbjct: 43  AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQV 102

Query: 315 CPVCSAE 321
           CP+ + E
Sbjct: 103 CPLDNRE 109

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

 Score = 47.9 bits (113), Expect = 4e-07
 Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 277 SCVICRLDYEDGETL----TVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 327
           SC IC   Y +            C H + S+C+ + LK    CP C  +++   +
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63

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

 Score = 43.2 bits (101), Expect = 1e-05
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 278 CVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 327
           C IC   Y +    G  +    C H + S+C+ + LK    CP C  +++   +
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128

>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 = 45.7 bits (108), Expect = 1e-06
 Identities = 13/50 (26%), Positives = 15/50 (30%), Gaps = 3/50 (6%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVSTS 325
            C IC     D        C       CI  WL   +  CP C A +   
Sbjct: 24  RCFICMEKLRDARLCP--HCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

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

 Score = 45.1 bits (107), Expect = 1e-06
 Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
            C IC   +     +    C H+Y S CI  +L     CP C   V+  
Sbjct: 24  RCGICFEYFNIAMIIP--QCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP 70

>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 = 48.2 bits (114), Expect = 2e-06
 Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 4/67 (5%)

Query: 260 LPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWL-KINKVCPVC 318
           +    Y+       +   C IC    E+ + + +  C H   + C+ +W     + CP C
Sbjct: 317 VTQEQYELYCEMGSTFQLCKIC---AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373

Query: 319 SAEVSTS 325
             E+  +
Sbjct: 374 RCEIKGT 380

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

 Score = 48.3 bits (114), Expect = 2e-06
 Identities = 21/120 (17%), Positives = 34/120 (28%), Gaps = 26/120 (21%)

Query: 222 QDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVIC 281
            D     D +   ++ LL +                      +      ++     C IC
Sbjct: 265 SDGLSNWDSEMNIHKNLLRM----------FDLCYFPMPDWSDGPKLDEEDNEELRCNIC 314

Query: 282 RLDYEDGETLTV-----LSCKHSYHSECINNWLK-----------INKVCPVCSAEVSTS 325
                DG  + +       C    H+ C+  W K               CP C A++STS
Sbjct: 315 FAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS 374

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

 Score = 43.7 bits (102), Expect = 7e-06
 Identities = 10/70 (14%), Positives = 18/70 (25%), Gaps = 20/70 (28%)

Query: 271 QNGSNDSCVICR---------------LDYEDGETLTVLSCKHSYHSECINNWLK----- 310
           +    + C+IC                          +  C H++H  C+          
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 311 INKVCPVCSA 320
            +  CP C  
Sbjct: 81  GSLQCPSCKT 90

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

 Score = 40.8 bits (96), Expect = 3e-05
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 4/54 (7%)

Query: 277 SCVICRLDYEDGETLT-VLSCKHSYHSECINNWLKINK---VCPVCSAEVSTSG 326
            C IC   + + +    +L C H+   +C+   L  +     CP CS     + 
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS 70

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

 Score = 42.0 bits (98), Expect = 5e-05
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
           +   C+IC   + +      L+C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 63  NELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 114

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

 Score = 39.5 bits (92), Expect = 1e-04
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 6/61 (9%)

Query: 267 GGTSQNGSNDSCVICRLDYEDGETL-TVLSCKHSY---HSECINNWL--KINKVCPVCSA 320
           G +    S D C IC  + +D   L T   C  S    H  C+  W+     + C +C  
Sbjct: 7   GTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKY 66

Query: 321 E 321
           E
Sbjct: 67  E 67

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

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 9/47 (19%), Positives = 13/47 (27%), Gaps = 4/47 (8%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS 323
           C  C L            C H +   C+   L   +  C  C   + 
Sbjct: 18  CEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIV 61

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

 Score = 39.5 bits (92), Expect = 2e-04
 Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 4/43 (9%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVC 318
           SC IC     D       SCKH +   CI   LK+    CP C
Sbjct: 25  SCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSC 64

>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 = 38.2 bits (89), Expect = 3e-04
 Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWL--KINKVCPVCSAEVS 323
            C+IC+    D   +    C +SY  ECI   L       CP C     
Sbjct: 17  LCLICKDIMTDAVVIP--CCGNSYCDECIRTALLESDEHTCPTCHQNDV 63

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

 Score = 40.5 bits (94), Expect = 3e-04
 Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 4/52 (7%)

Query: 272 NGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAE 321
             +   C IC      G++    +C    H  C+  + +      CP C+  
Sbjct: 177 PDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDY 226

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

 Score = 39.6 bits (92), Expect = 3e-04
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 3/50 (6%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS 325
            C IC LD     T+T   C H + ++CI   L+  NK CP C  ++ + 
Sbjct: 56  MCPIC-LDMLK-NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 323
            C  C+ + +      +L C H+  S C+         CP+C A   
Sbjct: 8   RCQQCQAEAKC---PKLLPCLHTLCSGCLE---ASGMQCPICQAPWP 48

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	328
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.76
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.68
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.56
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.56
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.55
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.54
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.49
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.49
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.46
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.45
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.45
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.43
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.42
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.4
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.38
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.38
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.37
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.37
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.37
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.37
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.35
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.33
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.32
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.32
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.3
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.3
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.29
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.27
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.26
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.26
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.25
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.24
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.24
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.24
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.19
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.19
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.18
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.14
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.14
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.12
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.09
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.01
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.0
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.0
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.99
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.99
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.99
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.96
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.92
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.91
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.91
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.84
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.8
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.77
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.76
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.66
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.66
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.64
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.63
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.57
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.52
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.51
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.17
3nw0_A	238	Non-structural maintenance of chromosomes element	98.01
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.6
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.88
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.78
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	89.97
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.6
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	89.5
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	87.96
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	86.28
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	86.11
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	85.3
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	82.95
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	81.93
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	81.87
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	81.59
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	81.03
2yt5_A	66	Metal-response element-binding transcription facto	80.77
1we9_A	64	PHD finger family protein; structural genomics, PH	80.16

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

Probab=99.76  E-value=8.6e-19  Score=138.64  Aligned_cols=79  Identities=27%  Similarity=0.621  Sum_probs=70.7

Q ss_pred             CCCCCCCCHHHHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          246 GSESRGLSADTLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       246 g~~s~GLS~e~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      +...+|++++.|.+||.+++............|+||++.|..+..+++|||+|.||..||..||+.+.+||+||+.+.+
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            4567899999999999999887665555678899999999999999999999999999999999999999999999875

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

Probab=99.68  E-value=1.4e-17  Score=126.43  Aligned_cols=70  Identities=33%  Similarity=0.883  Sum_probs=59.8

Q ss_pred             HHhcCCceeccCCCCCCCCCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 020261          256 TLATLPTVNYKGGTSQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  326 (328)
Q Consensus       256 ~I~sLp~~~~~~~~~~~~~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~~  326 (328)
                      .+..||.+++..... ......|+||++.|..+..++.|||+|.||..||.+||+.+.+||+||+.+.++.
T Consensus         5 ~i~~lp~~~~~~~~~-~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNH-QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPSS   74 (75)
T ss_dssp             CCSSCCCEEBCSSSC-SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCCC
T ss_pred             hHhhCCcEEecCccc-cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCCC
Confidence            456788888875442 2345789999999999999999999999999999999999999999999998654

>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=99.56  E-value=2.9e-15  Score=111.43  Aligned_cols=52  Identities=35%  Similarity=0.940  Sum_probs=47.7

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+..++.+||+|.||..||.+|++.+.+||+||+.|...
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            4578999999998888899999999999999999999999999999998754

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

Probab=99.56  E-value=3.2e-15  Score=112.67  Aligned_cols=52  Identities=33%  Similarity=0.926  Sum_probs=47.8

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+..+++|||+|.||..||.+||+.+++||+||+.|...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            4578999999999998999999999999999999999999999999998643

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

Probab=99.55  E-value=2e-15  Score=107.40  Aligned_cols=50  Identities=36%  Similarity=0.948  Sum_probs=46.3

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..++.++.+| |+|.||..||.+|++.+.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            3578999999999988889998 9999999999999999999999999875

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

Probab=99.54  E-value=4.6e-15  Score=112.83  Aligned_cols=52  Identities=37%  Similarity=0.912  Sum_probs=47.8

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+..+++|+|+|.||..||.+||+.+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            4578999999999988889999999999999999999999999999998754

>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=99.49  E-value=1.9e-14  Score=102.12  Aligned_cols=50  Identities=34%  Similarity=0.666  Sum_probs=44.0

Q ss_pred             CCCcccccccccCCC-CceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~g-e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..+ ..+++++|+|.||..||.+|++.+.+||+||+.|.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            357899999999654 45788899999999999999999999999999875

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

Probab=99.49  E-value=2.1e-14  Score=111.36  Aligned_cols=51  Identities=35%  Similarity=0.913  Sum_probs=41.9

Q ss_pred             CCCcccccccccCC-----------CCceEEeC-CCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYED-----------GETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~-----------ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..           ++.+++++ |+|.||..||.+||+.+++||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            35678888888854           44566665 99999999999999999999999998753

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

Probab=99.46  E-value=2.5e-14  Score=106.34  Aligned_cols=52  Identities=27%  Similarity=0.656  Sum_probs=45.7

Q ss_pred             CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~g----e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+    ..++.++|||.||..||.+|++.+++||+||+.+...
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            457899999998653    5668899999999999999999999999999998754

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

Probab=99.45  E-value=4e-14  Score=104.34  Aligned_cols=51  Identities=27%  Similarity=0.668  Sum_probs=44.5

Q ss_pred             CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~g----e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||++.|..+    ..+++++|+|.||..||..||..+.+||+||+.|..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           14 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            457899999998753    455889999999999999999999999999998864

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

Probab=99.45  E-value=7.1e-14  Score=113.46  Aligned_cols=51  Identities=20%  Similarity=0.518  Sum_probs=42.1

Q ss_pred             CCcccccccccCCCC---------------ceEEeCCCCcccHHHHHHHH-----hcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWL-----KINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge---------------~v~~LPCgH~FH~~CI~~WL-----~~~ksCPvCR~eV~t~  325 (328)
                      ...|+||++.|..+.               .+++++|+|.||..||..||     ..+.+||+||+.+...
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            468999999997653               44578999999999999999     4567999999988643

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

Probab=99.43  E-value=4.7e-14  Score=102.48  Aligned_cols=52  Identities=27%  Similarity=0.643  Sum_probs=45.2

Q ss_pred             CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~g----e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+    ..++.++|||.||..||.+|++.+.+||+||+.+...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            357899999998753    4567889999999999999999999999999998754

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.42  E-value=1e-13  Score=113.62  Aligned_cols=50  Identities=38%  Similarity=0.754  Sum_probs=43.5

Q ss_pred             CCCcccccccccCCCC---------------ceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge---------------~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..+.               .++.++|+|.||..||.+||+.+.+||+||+++.
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            4578999999998541               3677899999999999999999999999999853

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

Probab=99.40  E-value=1.1e-13  Score=103.91  Aligned_cols=47  Identities=26%  Similarity=0.593  Sum_probs=42.7

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..+   +++||+|.||..||..|+..+.+||+||+.|.
T Consensus        14 ~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           14 TVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            457899999998765   78899999999999999999999999999885

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

Probab=99.38  E-value=2.1e-13  Score=100.82  Aligned_cols=49  Identities=31%  Similarity=0.777  Sum_probs=43.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..+..+  ++.+||||.||..||..|++.+++||+||+.+..
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            357899999998753  5788999999999999999999999999998864

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

Probab=99.38  E-value=1.6e-13  Score=115.88  Aligned_cols=47  Identities=34%  Similarity=0.920  Sum_probs=42.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +++||||.||..||..|+..+.+||+||+.+..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            35799999999876   789999999999999999999999999999864

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

Probab=99.37  E-value=1.5e-13  Score=102.31  Aligned_cols=48  Identities=29%  Similarity=0.880  Sum_probs=43.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..+..    +++||+|.||..||..|+..+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           14 DEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            45789999999876    7899999999999999999999999999998754

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

Probab=99.37  E-value=5e-13  Score=100.51  Aligned_cols=49  Identities=27%  Similarity=0.593  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   +++ +|+|.||..||..|++.+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           14 PYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             GGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             CCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            357899999999875   555 9999999999999999999999999998654

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

Probab=99.37  E-value=4.3e-13  Score=102.86  Aligned_cols=47  Identities=21%  Similarity=0.620  Sum_probs=42.6

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||+..|..+   +++||+|.||..||..|+....+||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            457899999999775   67999999999999999999999999999875

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

Probab=99.37  E-value=4.2e-13  Score=104.81  Aligned_cols=52  Identities=31%  Similarity=0.794  Sum_probs=44.3

Q ss_pred             CCCCcccccccccCCCCceEEeCCC-----CcccHHHHHHHHhcC--CCCCCccccccCC
Q 020261          273 GSNDSCVICRLDYEDGETLTVLSCK-----HSYHSECINNWLKIN--KVCPVCSAEVSTS  325 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge~v~~LPCg-----H~FH~~CI~~WL~~~--ksCPvCR~eV~t~  325 (328)
                      .....|+||++.|..+..+ ++||+     |.||..||.+||..+  .+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            4557899999999877666 68996     999999999999876  4899999998754

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

Probab=99.35  E-value=1e-12  Score=101.20  Aligned_cols=52  Identities=23%  Similarity=0.567  Sum_probs=44.7

Q ss_pred             CCCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHhcC---CCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~~~---ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..... .++++|||.||..||..|+..+   .+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            45789999999987553 6788999999999999999876   7999999988643

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

Probab=99.33  E-value=1.1e-12  Score=98.00  Aligned_cols=50  Identities=22%  Similarity=0.486  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh---cCCCCCCccccccCCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK---INKVCPVCSAEVSTSG  326 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~---~~ksCPvCR~eV~t~~  326 (328)
                      ....|+||+..|..+   ++++|||.||..||..|++   .+..||+||+.+....
T Consensus        19 ~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           19 EEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             cCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            457899999999865   7789999999999999997   4568999999987654

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

Probab=99.32  E-value=1e-12  Score=99.52  Aligned_cols=49  Identities=31%  Similarity=0.663  Sum_probs=42.6

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcC--CCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~--ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   +++| |||.||..||..|+..+  .+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           14 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            357899999999877   7799 99999999999999865  6899999986543

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

Probab=99.32  E-value=8.7e-13  Score=97.43  Aligned_cols=49  Identities=18%  Similarity=0.497  Sum_probs=42.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..+..+   ++++|||.||..||..|+. .+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            457899999999877   5589999999999999994 567999999998754

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

Probab=99.30  E-value=1.6e-12  Score=98.62  Aligned_cols=48  Identities=23%  Similarity=0.447  Sum_probs=43.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   ++++|||.||..||..||.. +.+||+||+.+..
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            457899999999876   77899999999999999987 7899999998864

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

Probab=99.30  E-value=2.6e-13  Score=113.33  Aligned_cols=51  Identities=37%  Similarity=0.710  Sum_probs=1.4

Q ss_pred             CCCCcccccccccCCCC---------------ceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          273 GSNDSCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       273 ~~~~~CaICLeef~~ge---------------~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      .....|+||++.|..+.               .++.++|+|.||..||.+||+.+++||+||+++.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCC---------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            34578999999997531               3344689999999999999999999999999854

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

Probab=99.30  E-value=3e-12  Score=97.45  Aligned_cols=49  Identities=24%  Similarity=0.530  Sum_probs=43.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc------CCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI------NKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~------~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   +++||+|.||..||..|+..      ...||+||+.+...
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            457899999999877   68899999999999999987      67899999998643

>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=99.29  E-value=1.2e-12  Score=104.96  Aligned_cols=47  Identities=28%  Similarity=0.625  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCceEE-eCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTV-LSCKHSYHSECINNWLKIN-KVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~-LPCgH~FH~~CI~~WL~~~-ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +. ++|||.||..||..|+..+ .+||+||+.+..
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           22 VFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            46899999999865   56 8999999999999999987 699999999864

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

Probab=99.27  E-value=1.9e-12  Score=102.80  Aligned_cols=47  Identities=30%  Similarity=0.701  Sum_probs=41.7

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +++ +|||.||..||..|+..+.+||+||+.+..
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            46899999999875   555 899999999999999999999999998864

>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=99.26  E-value=2.4e-12  Score=106.37  Aligned_cols=47  Identities=17%  Similarity=0.531  Sum_probs=41.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +++||||.||..||..|+..+. +||+||+.+..
T Consensus        52 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            46899999999876   7789999999999999998554 99999999875

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

Probab=99.26  E-value=3.6e-12  Score=97.01  Aligned_cols=49  Identities=27%  Similarity=0.563  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc------CCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI------NKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~------~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   +++||+|.||..||..|+..      ...||+||+.+...
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           18 EEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            457899999999876   66799999999999999987      78999999998743

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

Probab=99.25  E-value=2.2e-12  Score=105.58  Aligned_cols=52  Identities=27%  Similarity=0.656  Sum_probs=45.5

Q ss_pred             CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~g----e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+    ..+++++|||.||..||.+||+.+++||+||+.+...
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            457899999998754    4568899999999999999999999999999998644

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

Probab=99.25  E-value=1.2e-12  Score=99.02  Aligned_cols=48  Identities=31%  Similarity=0.534  Sum_probs=42.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-------CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-------NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-------~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   +++||||.||..||..|+..       ...||+||+.+..
T Consensus        11 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           11 EEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             cCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            457899999999876   56899999999999999986       5689999999864

>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=99.24  E-value=3.6e-12  Score=102.88  Aligned_cols=47  Identities=34%  Similarity=0.822  Sum_probs=42.2

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +++ +|||.||..||..|+..+.+||+||..+..
T Consensus        15 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           15 HLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             cCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            57899999999765   555 999999999999999999999999999874

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

Probab=99.24  E-value=7.5e-12  Score=97.80  Aligned_cols=47  Identities=32%  Similarity=0.678  Sum_probs=41.5

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcC--CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~--ksCPvCR~eV~  323 (328)
                      ....|+||+..|..+   +++| |||.||..||..|+..+  ..||+||..+.
T Consensus        12 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           12 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            457899999999887   7899 99999999999999754  58999999873

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

Probab=99.24  E-value=9.3e-12  Score=90.90  Aligned_cols=42  Identities=24%  Similarity=0.534  Sum_probs=37.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh---cCCCCCCc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK---INKVCPVC  318 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~---~~ksCPvC  318 (328)
                      ....|+||+..|..+   ++++|||.||..||..|++   .+.+||+|
T Consensus        19 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            457899999999876   7789999999999999998   45689998

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

Probab=99.21  E-value=5.8e-12  Score=101.32  Aligned_cols=48  Identities=23%  Similarity=0.564  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC---CCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k---sCPvCR~eV~t~  325 (328)
                      ...|+||+..|..+   +++||||.||..||..|+..++   +||+||..+...
T Consensus        21 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            36899999999876   5689999999999999998764   899999988753

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

Probab=99.20  E-value=9.7e-12  Score=91.48  Aligned_cols=51  Identities=24%  Similarity=0.603  Sum_probs=41.7

Q ss_pred             CCccccccc-ccCCCCc-eEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 020261          275 NDSCVICRL-DYEDGET-LTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLe-ef~~ge~-v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t~  325 (328)
                      ...|+||+. .|..+.. +++++|||.||..||.+|+.. ...||+||+.+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            468999999 7776643 356799999999999999765 46899999998754

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

Probab=99.19  E-value=8.3e-12  Score=107.84  Aligned_cols=48  Identities=29%  Similarity=0.647  Sum_probs=40.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+  +.+++|||.||..||..||.. +.+||+||..+..
T Consensus        54 ~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKNT--MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhCc--CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            35899999999864  333499999999999999997 7789999998853

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

Probab=99.19  E-value=1e-11  Score=88.63  Aligned_cols=42  Identities=29%  Similarity=0.860  Sum_probs=36.6

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh---cCCCCCCc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK---INKVCPVC  318 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~---~~ksCPvC  318 (328)
                      ....|+||++.|..+   ++++|+|.||..||..|+.   .+.+||+|
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            457899999999887   6689999999999999954   56789998

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

Probab=99.18  E-value=1.1e-11  Score=106.77  Aligned_cols=48  Identities=21%  Similarity=0.520  Sum_probs=42.4

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~t~  325 (328)
                      ...|+||+..|..+   +++||||.||..||..|+.... +||+||..+...
T Consensus        78 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            36899999999876   7799999999999999998765 899999998754

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

Probab=99.14  E-value=6.4e-12  Score=102.32  Aligned_cols=46  Identities=26%  Similarity=0.589  Sum_probs=41.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~  323 (328)
                      ...|+||+..|..+   ++++|||.||..||..|+.. +.+||+||+.+.
T Consensus        15 ~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            46899999999876   78899999999999999976 668999999875

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

Probab=99.14  E-value=1.4e-11  Score=100.79  Aligned_cols=52  Identities=27%  Similarity=0.656  Sum_probs=44.8

Q ss_pred             CCCcccccccccCCC----CceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~g----e~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.|..+    ..++.++|||.||..||.+||+.+++||+||+.+...
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            457899999998753    3457889999999999999999999999999998643

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

Probab=99.12  E-value=3.9e-11  Score=92.70  Aligned_cols=48  Identities=23%  Similarity=0.555  Sum_probs=41.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--CCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~--ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+.  +...|+|.||..||.+||+.+  .+||+||+.+..
T Consensus        15 i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           15 VKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            478999999998763  333799999999999999887  899999998764

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

Probab=99.11  E-value=2.2e-11  Score=100.00  Aligned_cols=48  Identities=23%  Similarity=0.508  Sum_probs=42.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   ++++|||.||..||..|+..++ +||+||..+..
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            357899999999876   7789999999999999998765 99999998864

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

Probab=99.11  E-value=3.6e-11  Score=94.13  Aligned_cols=48  Identities=10%  Similarity=-0.043  Sum_probs=43.9

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   ++++|||.|++.||..||..+.+||+||..+..
T Consensus        13 ~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hheECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            357899999999998   889999999999999999988999999998753

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

Probab=99.11  E-value=3.1e-11  Score=98.42  Aligned_cols=47  Identities=34%  Similarity=0.615  Sum_probs=41.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +.++|||.||..||..|+.. +.+||+||+.+..
T Consensus        23 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            36899999999876   67899999999999999987 6799999999864

>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=99.09  E-value=4.5e-11  Score=96.60  Aligned_cols=48  Identities=10%  Similarity=-0.036  Sum_probs=44.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   +++||||.|++.||..||..+.+||+||..+..
T Consensus        28 ~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            357899999999998   889999999999999999988999999998864

>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=99.05  E-value=8.5e-11  Score=94.65  Aligned_cols=48  Identities=15%  Similarity=0.047  Sum_probs=44.0

Q ss_pred             CCCcccccccccCCCCceEEeCCC-CcccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCg-H~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   ++++|| |.|++.||..||..+.+||+||..+..
T Consensus        21 ~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            357899999999998   889999 999999999999988899999998864

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

Probab=99.01  E-value=1.6e-10  Score=113.90  Aligned_cols=47  Identities=26%  Similarity=0.688  Sum_probs=41.7

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t  324 (328)
                      ...|+||++.+..+   +.+||||.||..||..|+. .+.+||+||+.+..
T Consensus       332 ~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            36899999998664   8899999999999999998 78899999998863

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

Probab=99.00  E-value=6e-11  Score=101.22  Aligned_cols=47  Identities=26%  Similarity=0.461  Sum_probs=41.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~  323 (328)
                      ....|+||+..|..+   +.++|||.||..||..|+...+ +||+||.++.
T Consensus        30 ~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           30 AKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            457899999999887   6789999999999999998665 8999999763

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

Probab=99.00  E-value=1.3e-10  Score=105.94  Aligned_cols=48  Identities=13%  Similarity=0.085  Sum_probs=42.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~-ksCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   +++||||+||+.||..||..+ .+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            457899999999988   889999999999999999864 459999998863

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

Probab=98.99  E-value=2.9e-10  Score=88.12  Aligned_cols=52  Identities=17%  Similarity=0.363  Sum_probs=40.2

Q ss_pred             CCCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~-~~ksCPvCR~eV~t~  325 (328)
                      ....|+||++.+...+. +..++|||.||..||..|+. ....||+||+.+...
T Consensus        10 ~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             cCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            45789999998864332 22245999999999999875 356899999998754

>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=98.99  E-value=6.1e-11  Score=97.17  Aligned_cols=45  Identities=24%  Similarity=0.583  Sum_probs=40.2

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..|..+   +++ +|||.||..||..|+.  ..||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            47899999999877   677 9999999999999987  889999999853

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

Probab=98.99  E-value=8.5e-11  Score=84.82  Aligned_cols=46  Identities=24%  Similarity=0.543  Sum_probs=40.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   ++|||||.||..||..|   ...||+||+.+...
T Consensus         5 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             cCCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            457899999999877   78999999999999884   67899999998754

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

Probab=98.96  E-value=2.7e-10  Score=84.60  Aligned_cols=46  Identities=30%  Similarity=0.629  Sum_probs=39.8

Q ss_pred             CCcccccccccCCCCceEEe--CCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVL--SCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L--PCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||++.+...   +.+  ||||. ||..|+..|++.++.||+||+.|.
T Consensus         8 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            8 IEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             cCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            46899999987654   444  99999 899999999999999999999875

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

Probab=98.92  E-value=2.7e-10  Score=86.55  Aligned_cols=43  Identities=21%  Similarity=0.495  Sum_probs=37.8

Q ss_pred             CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..+...   +.+||||. ||..|+..|    ..||+||+.+..
T Consensus        24 ~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            36899999988765   78899999 999999998    899999998863

>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=98.91  E-value=5.9e-10  Score=88.49  Aligned_cols=45  Identities=24%  Similarity=0.539  Sum_probs=39.3

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcC------CCCCC--cccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN------KVCPV--CSAE  321 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~------ksCPv--CR~e  321 (328)
                      ....|+||+..|..+   ++++ |||.|++.||..||..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            457899999999987   7886 99999999999999754      48999  9865

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

Probab=98.91  E-value=4.7e-10  Score=83.02  Aligned_cols=46  Identities=24%  Similarity=0.598  Sum_probs=39.5

Q ss_pred             CCcccccccccCCCCceEEe--CCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVL--SCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L--PCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||++.+...   +.+  ||||. ||..|+..|.+.++.||+||+.|.
T Consensus         7 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            46899999986553   444  99998 999999999998899999999885

>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=98.84  E-value=9.5e-10  Score=95.16  Aligned_cols=48  Identities=23%  Similarity=0.508  Sum_probs=42.1

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k-sCPvCR~eV~t  324 (328)
                      ....|+||+..|..+   +.++|||.||..||..|+..++ +||+||..+..
T Consensus        17 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           17 SKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            357899999999877   6789999999999999998654 99999998864

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

Probab=98.80  E-value=2.2e-09  Score=95.67  Aligned_cols=48  Identities=13%  Similarity=0.075  Sum_probs=42.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~-ksCPvCR~eV~t  324 (328)
                      ....||||+..|..+   +++||||.|++.||..||..+ .+||+||.++..
T Consensus       105 ~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            357899999999988   888999999999999999864 479999998754

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

Probab=98.77  E-value=2.2e-09  Score=81.53  Aligned_cols=42  Identities=21%  Similarity=0.503  Sum_probs=36.0

Q ss_pred             CcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ..|+||+..+...   +.+||||. ||..|+..    ...||+||+.+..
T Consensus        26 ~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           26 KLCKICMDRNIAI---VFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HSCSSSCSSCCCB---CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCcCCCCCCCE---EEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            5799999998765   67899999 99999964    4789999998865

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

Probab=98.76  E-value=1.3e-09  Score=106.14  Aligned_cols=52  Identities=33%  Similarity=0.667  Sum_probs=40.5

Q ss_pred             CCCcccccccccCCCCceE-----EeCCCCcccHHHHHHHHhcC-----------CCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLT-----VLSCKHSYHSECINNWLKIN-----------KVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~-----~LPCgH~FH~~CI~~WL~~~-----------ksCPvCR~eV~t~  325 (328)
                      ....|+||+..+..+..+.     ..+|+|.||..||.+||+..           +.||+||++|.++
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            4578999999998733222     24699999999999999752           4699999998753

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

Probab=98.66  E-value=1.3e-08  Score=75.17  Aligned_cols=48  Identities=27%  Similarity=0.706  Sum_probs=37.9

Q ss_pred             CCCcccccccccCCCCceEEeCCC--C---cccHHHHHHHHhc--CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCK--H---SYHSECINNWLKI--NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCg--H---~FH~~CI~~WL~~--~ksCPvCR~eV~t  324 (328)
                      ....|.||+....  +.+ ++||.  |   .||..||.+||..  +.+||+||+.+..
T Consensus         5 ~~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4578999999743  334 68965  4   9999999999975  5789999998764

>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=98.66  E-value=9.4e-09  Score=80.98  Aligned_cols=47  Identities=19%  Similarity=0.668  Sum_probs=39.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc--------CCCCCC--cccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPV--CSAE  321 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~--------~ksCPv--CR~e  321 (328)
                      ..+|+||++.|..+..+..++|+|.||..||..|+..        .-.||.  ||..
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4689999999987655555689999999999999963        137999  9987

>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=98.64  E-value=6.8e-09  Score=80.19  Aligned_cols=42  Identities=26%  Similarity=0.675  Sum_probs=36.1

Q ss_pred             CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ...|+||+..+...   +.+||||. ||..|+..|    ..||+||+.+.
T Consensus        18 ~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           18 AMLCMVCCEEEINS---TFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HTBCTTTSSSBCCE---EEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCEeEEeCcccCcE---EEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            35799999987654   88999999 999999877    49999999875

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

Probab=98.63  E-value=2.3e-08  Score=75.19  Aligned_cols=44  Identities=25%  Similarity=0.711  Sum_probs=37.1

Q ss_pred             CCCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ....|+||+..+...   +.+||+|. ||..|+..    .+.||+||+.|..
T Consensus        14 ~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNW---VLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCCCC---EETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCCCE---EEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            357899999987654   88999999 99999983    5799999998863

>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=98.57  E-value=2.1e-08  Score=74.16  Aligned_cols=47  Identities=11%  Similarity=0.170  Sum_probs=41.5

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||++.|..+   +++ +|||.|.+.||.+||+.+.+||+++..+..
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            36799999999977   677 899999999999999988899999998753

>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=98.52  E-value=2.8e-08  Score=93.39  Aligned_cols=48  Identities=33%  Similarity=0.589  Sum_probs=40.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--CCCCC--cccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPV--CSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~--ksCPv--CR~eV~  323 (328)
                      ....||||+..|..+  |+.+.|||.||+.||..|+..+  .+||+  ||+.+.
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             eeeECcCccCcccCC--eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            357899999999877  3335899999999999999764  47999  999775

>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=98.51  E-value=1.8e-08  Score=97.82  Aligned_cols=43  Identities=21%  Similarity=0.600  Sum_probs=38.0

Q ss_pred             CCcccccccccCCCCceEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~-FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||+..+..+   +.+||||. ||..|+..|    ..||+||..+..
T Consensus       295 ~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCce---EEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            46899999998765   78899999 999999988    789999998853

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

Probab=98.17  E-value=1.2e-06  Score=71.34  Aligned_cols=45  Identities=31%  Similarity=0.596  Sum_probs=37.9

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCcccccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS  323 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~  323 (328)
                      .|.+|--.+.  ...+.+||+|.||..|+..|.++ .++||+|+.+|.
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            5888876654  45688999999999999999865 689999999885

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

Probab=98.01  E-value=3.2e-06  Score=78.03  Aligned_cols=47  Identities=23%  Similarity=0.547  Sum_probs=39.2

Q ss_pred             CCcccccccccCCCCceEEe-CCCCcccHHHHHHHHhcCC--CCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINK--VCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L-PCgH~FH~~CI~~WL~~~k--sCPvCR~eV~t  324 (328)
                      -..|.||.+.+..+   ..- .|+|.||..|+..|++.+.  .||.|+...+.
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            57899999998876   333 3999999999999998654  89999998753

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

Probab=94.88  E-value=0.012  Score=46.09  Aligned_cols=34  Identities=26%  Similarity=0.564  Sum_probs=26.8

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHH
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNW  308 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~W  308 (328)
                      ...|.||+..|........++|+|.||..||..|
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            4689999987544444455999999999999983

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

Probab=94.78  E-value=0.018  Score=43.02  Aligned_cols=48  Identities=21%  Similarity=0.468  Sum_probs=35.6

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC----CCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k----sCPvCR~eV~t~  325 (328)
                      ...|.||..   .++.+.--.|...||..|+.+.|....    .||.|+....+.
T Consensus        12 ~~~C~vC~~---~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p~   63 (66)
T 2lri_C           12 GARCGVCGD---GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTPA   63 (66)
T ss_dssp             TCCCTTTSC---CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCCC
T ss_pred             CCCcCCCCC---CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCccC
Confidence            467999974   344444445999999999999886542    799998766543

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

Probab=89.97  E-value=0.13  Score=37.43  Aligned_cols=45  Identities=29%  Similarity=0.731  Sum_probs=32.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCcccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAE  321 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~e  321 (328)
                      ....|.||...   +..+..-.|...||..|+.+-|...    =.||.|+..
T Consensus        10 ~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A           10 HQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            45789999863   4444444599999999999865432    279999864

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

Probab=89.60  E-value=0.12  Score=35.81  Aligned_cols=44  Identities=27%  Similarity=0.619  Sum_probs=30.5

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSA  320 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~  320 (328)
                      .|.||...-..+..+.--.|...||..|+.+=|...    =.||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488998764444444445699999999997644332    26999975

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=89.50  E-value=0.19  Score=39.68  Aligned_cols=34  Identities=15%  Similarity=0.651  Sum_probs=24.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHH
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNW  308 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~W  308 (328)
                      ....|.||-. |.....+..--|+-.||..|+.+-
T Consensus        14 ~D~~C~VC~~-~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEV-WTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCC-CCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCcccc-ccccceeccccccccccHhhcccc
Confidence            4689999964 444433333338999999999996

>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=87.96  E-value=0.32  Score=52.86  Aligned_cols=47  Identities=11%  Similarity=0.026  Sum_probs=42.2

Q ss_pred             CCcccccccccCCCCceEEeCCC-CcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCg-H~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|||-++-|..+   +++|.| +.|-+.+|.+||..+.+||+=|+++..
T Consensus       891 ~F~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~  938 (968)
T 3m62_A          891 EFLDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL  938 (968)
T ss_dssp             GGBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             HhCCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc
Confidence            46799999999998   899997 689999999999999999999988753

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=86.28  E-value=0.11  Score=37.73  Aligned_cols=47  Identities=32%  Similarity=0.653  Sum_probs=33.0

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~eV~  323 (328)
                      ....|.||..   .+..+..-.|...||..|+.+-|...    =.||.|+....
T Consensus         8 ~~~~C~vC~~---~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            8 HMEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SCSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCcCCCCCC---CCCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            4578999985   34444444599999999998755432    26999987654

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

Probab=86.11  E-value=0.22  Score=37.21  Aligned_cols=51  Identities=18%  Similarity=0.393  Sum_probs=35.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc----CCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI----NKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~----~ksCPvCR~eV~t~  325 (328)
                      ...|.||.........|..-.|.--||..||..-+..    .-.||.|+..+...
T Consensus        18 ~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k~   72 (75)
T 2k16_A           18 IWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKD   72 (75)
T ss_dssp             EECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCSC
T ss_pred             CcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhhc
Confidence            4579999877543234444459999999999765532    23699998876543

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.30  E-value=0.08  Score=37.77  Aligned_cols=44  Identities=34%  Similarity=0.831  Sum_probs=31.4

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC----CCCCccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSA  320 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k----sCPvCR~  320 (328)
                      ....|.||...   +..+..-.|...||..|+.+-|....    .||.|+.
T Consensus         8 ~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            8 HEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            45789999864   44444456999999999987554322    5888864

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=82.95  E-value=0.35  Score=38.71  Aligned_cols=37  Identities=19%  Similarity=0.495  Sum_probs=26.9

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHh
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK  310 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~  310 (328)
                      ....|.||...=...+.+.--.|...||..||..++.
T Consensus         6 ~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            6 SGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccc
Confidence            4678999987633222355556999999999988764

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=81.93  E-value=0.42  Score=37.92  Aligned_cols=45  Identities=22%  Similarity=0.529  Sum_probs=31.8

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc---CCCCCCcccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSAE  321 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~---~ksCPvCR~e  321 (328)
                      ..| ||......+..|..-.|.--||..|+..=+..   .-.||.|+..
T Consensus        29 vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           29 TRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             CCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             EEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            467 89877666655555569999999999763322   1279999753

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=81.87  E-value=0.19  Score=36.98  Aligned_cols=47  Identities=26%  Similarity=0.617  Sum_probs=33.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~eV~  323 (328)
                      ....|.||...   +..+..-.|...||..|+.+-|...    =.||.|+..-.
T Consensus         7 ~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~~   57 (66)
T 1xwh_A            7 NEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATV   57 (66)
T ss_dssp             CCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTCC
T ss_pred             CCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCccc
Confidence            45789999853   4444444699999999998655432    26999976543

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=81.59  E-value=1.9  Score=34.68  Aligned_cols=32  Identities=22%  Similarity=0.481  Sum_probs=22.9

Q ss_pred             CCccccccccc------CCCCceEEeCCCCcccHHHHH
Q 020261          275 NDSCVICRLDY------EDGETLTVLSCKHSYHSECIN  306 (328)
Q Consensus       275 ~~~CaICLeef------~~ge~v~~LPCgH~FH~~CI~  306 (328)
                      ...|.||+..-      ..++.+.-..|+..||..||.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            46799998752      222344455699999999995

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=81.03  E-value=0.17  Score=36.53  Aligned_cols=47  Identities=32%  Similarity=0.766  Sum_probs=33.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~eV~  323 (328)
                      ....|.||...   +..+..-.|...||..|+.+-|...    =.||.|+....
T Consensus         4 ~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   54 (60)
T 2puy_A            4 HEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQML   54 (60)
T ss_dssp             CCSSCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHH
T ss_pred             CCCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhh
Confidence            35789999863   4445555699999999998755432    26999976554

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=80.77  E-value=0.15  Score=37.20  Aligned_cols=51  Identities=25%  Similarity=0.617  Sum_probs=34.7

Q ss_pred             CCCcccccccccCC--CCceEEeCCCCcccHHHHHHHHh-------cCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYED--GETLTVLSCKHSYHSECINNWLK-------INKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~--ge~v~~LPCgH~FH~~CI~~WL~-------~~ksCPvCR~eV~t  324 (328)
                      ....|.||......  +..+..-.|...||..|+.+-|.       ..=.||.|+....+
T Consensus         5 ~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~~   64 (66)
T 2yt5_A            5 SSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTT   64 (66)
T ss_dssp             CCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTSC
T ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcccc
Confidence            45789999976433  33344445999999999987442       12379999876543

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

Probab=80.16  E-value=0.33  Score=35.11  Aligned_cols=49  Identities=22%  Similarity=0.471  Sum_probs=34.3

Q ss_pred             CCCcccccccccCCC-CceEEeCCCCcccHHHHHHHHh-----cCCCCCCccccc
Q 020261          274 SNDSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLK-----INKVCPVCSAEV  322 (328)
Q Consensus       274 ~~~~CaICLeef~~g-e~v~~LPCgH~FH~~CI~~WL~-----~~ksCPvCR~eV  322 (328)
                      ....|+||...+... ..|..-.|..=||..|+.--..     ..-.||.|+..-
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k~   59 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCcC
Confidence            456899999988543 3444456999999999965332     234799997643

---

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	328
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	3e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.003
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	0.004

>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 = 64.9 bits (158), Expect = 2e-14
 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 275 NDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV 322
              C +C  + EDGE    L  C H +H+EC++ WL  +  CP+C   V
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 59.6 bits (144), Expect = 2e-12
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 328
            + C IC  D  +      L C H++   CI  W++ N  CP+C   V +  H+
Sbjct: 5   AERCPICLEDPSNYSM--ALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHT 56

>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 = 59.4 bits (143), Expect = 4e-12
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 15/67 (22%)

Query: 270 SQNGSNDSCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKV 314
           + +   D+C ICR    D                 T+    C H++H  CI+ WLK  +V
Sbjct: 16  AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQV 75

Query: 315 CPVCSAE 321
           CP+ + E
Sbjct: 76  CPLDNRE 82

>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 = 53.5 bits (128), Expect = 4e-10
 Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 4/57 (7%)

Query: 270 SQNGSNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVSTS 325
               +   C IC    E+ + + +  C H   + C+ +W +   + CP C  E+  +
Sbjct: 18  EMGSTFQLCKIC---AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 71

>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 = 47.6 bits (113), Expect = 2e-08
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 6/48 (12%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
           C  C+ + +      +L C H+  S C+         CP+C A     
Sbjct: 9   CQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG 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 = 45.1 bits (106), Expect = 2e-07
 Identities = 9/49 (18%), Positives = 15/49 (30%), Gaps = 2/49 (4%)

Query: 277 SCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS 323
            C +C    E  +      +C +     C +      N +CP C     
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 44.8 bits (105), Expect = 3e-07
 Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 3/52 (5%)

Query: 275 NDSCVICRLDYEDGETLTVL--SCKHSYHSECINNWLKINK-VCPVCSAEVS 323
           +  C  C+       +L ++   C H+    C++         CP C   + 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 41.8 bits (97), Expect = 3e-06
 Identities = 10/57 (17%), Positives = 22/57 (38%), Gaps = 7/57 (12%)

Query: 275 NDSCVICRLDYEDGETLTVLS-----CKHSYHSECINNWLKIN--KVCPVCSAEVST 324
           ++   +C +  E+       +        + H  C++ WL I+    C +C    +T
Sbjct: 3   DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT 59

>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 = 40.7 bits (95), Expect = 2e-05
 Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 4/50 (8%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS 325
           SC IC     D       SCKH +   CI   LK+    CP C      +
Sbjct: 25  SCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (94), Expect = 2e-05
 Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVS 323
            C IC    ++        C H +   C+   L   K    CP+C  +++
Sbjct: 23  ECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (91), Expect = 6e-05
 Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 10/57 (17%)

Query: 273 GSNDS--CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPVCS 319
           GS+ S  C +C  +Y   +  T+  C+  + + C+  ++++           CP  +
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (83), Expect = 3e-04
 Identities = 5/48 (10%), Positives = 13/48 (27%), Gaps = 2/48 (4%)

Query: 278 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
           C I                +  +    +  ++K     P+ +  +S  
Sbjct: 3   CAISGKVPRRPVLSPK--SRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.3 bits (85), Expect = 4e-04
 Identities = 10/72 (13%), Positives = 18/72 (25%), Gaps = 20/72 (27%)

Query: 271 QNGSNDSCVIC---------------RLDYEDGETLTVLSCKHSYHSECINNWLK----- 310
           +    + C+IC                          +  C H++H  C+          
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 311 INKVCPVCSAEV 322
            +  CP C    
Sbjct: 81  GSLQCPSCKTIY 92

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.4 bits (78), Expect = 0.003
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 325
            C  C     +   L    C+H + S C+++ +     CPVC       
Sbjct: 24  RCSRCTNILREPVCLG--GCEHIFCSNCVSDCIGTG--CPVCYTPAWIQ 68

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 33.1 bits (75), Expect = 0.004
 Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 6/60 (10%)

Query: 272 NGSNDSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINK-----VCPVCSAEVSTS 325
           +GS+  C  C   Y   E       C+  +H +C+       +      CP CS +   S
Sbjct: 3   SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGPS 62

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	328
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.51
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.46
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.45
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.42
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.4
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.4
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.31
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.29
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.23
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.21
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.14
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.08
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.07
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.89
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.57
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.31
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	91.59
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	91.45
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	87.43
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	86.72
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	82.95
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	82.37
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	81.76
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	81.0

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.64  E-value=3.7e-17  Score=117.72  Aligned_cols=50  Identities=36%  Similarity=0.948  Sum_probs=45.9

Q ss_pred             CCCcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..++.++++| |+|.||..||.+||+.+++||+||++|.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            3567999999999999988885 9999999999999999999999999875

>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=99.51  E-value=3.4e-15  Score=110.93  Aligned_cols=48  Identities=31%  Similarity=0.797  Sum_probs=42.7

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.|..  .++.+||||.||..||.+||+.+++||+||++|.
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            35789999999864  4567899999999999999999999999999885

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=1.6e-14  Score=116.38  Aligned_cols=51  Identities=20%  Similarity=0.490  Sum_probs=41.2

Q ss_pred             CCcccccccccCCC---------------CceEEeCCCCcccHHHHHHHHhcC-----CCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDG---------------ETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~g---------------e~v~~LPCgH~FH~~CI~~WL~~~-----ksCPvCR~eV~t~  325 (328)
                      ...|+||++.|...               ..+.+++|+|.||..||..||+.+     .+||+||+.+...
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            46899999988542               246678899999999999999754     3799999987644

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=2.3e-14  Score=111.37  Aligned_cols=50  Identities=38%  Similarity=0.754  Sum_probs=42.5

Q ss_pred             CCCcccccccccCCCC---------------ceEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge---------------~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~  323 (328)
                      ....|+||++.+....               .+++++|+|.||..||.+||+.+++||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3567999998886532               3677899999999999999999999999999864

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=1.9e-14  Score=101.87  Aligned_cols=48  Identities=19%  Similarity=0.405  Sum_probs=40.8

Q ss_pred             cccccccccCCCCc-eEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          277 SCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       277 ~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      +|+||++.|..+.. ++.++|||.||..||.+|++. +++||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            69999999987654 455689999999999999986 4579999998864

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=5.4e-14  Score=103.68  Aligned_cols=51  Identities=22%  Similarity=0.501  Sum_probs=41.2

Q ss_pred             CCcccccccccCCC--CceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDG--ETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~g--e~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t~  325 (328)
                      ...|+||++.+..+  ..+.+++|||.||..||.+||+. +++||+||+.|...
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            47899999986433  24566789999999999999965 56899999998654

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=8.9e-14  Score=106.27  Aligned_cols=48  Identities=25%  Similarity=0.691  Sum_probs=41.4

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t~  325 (328)
                      ...|+||++.+...   +++||||.||..||..||.. +++||+||+.|...
T Consensus        23 ~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          23 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TTBCTTTSSSBCCE---ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCccCCCcCCCe---EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            35799999988764   88999999999999999974 57899999999754

>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=99.31  E-value=2.2e-13  Score=97.58  Aligned_cols=46  Identities=11%  Similarity=0.167  Sum_probs=41.1

Q ss_pred             CcccccccccCCCCceEEeC-CCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LP-CgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ..|+||++.|..+   ++++ |||.||+.||.+||+.+++||+||+++..
T Consensus         1 l~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            3699999999876   6665 99999999999999999999999998864

>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=99.29  E-value=6.5e-13  Score=105.43  Aligned_cols=48  Identities=23%  Similarity=0.564  Sum_probs=41.4

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC---CCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k---sCPvCR~eV~t~  325 (328)
                      ...|+||+..|..+   ++++|||.||..||..|+...+   .||+||..+...
T Consensus        21 ~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            36799999999877   6789999999999999997653   799999988643

>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=99.23  E-value=2.1e-12  Score=100.52  Aligned_cols=46  Identities=35%  Similarity=0.621  Sum_probs=40.6

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ..|+||++.|..+   ++++|||.||..||..|++. +++||+||.++..
T Consensus        24 l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          24 ISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             TBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            5799999999876   88999999999999999974 5689999998764

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=6.1e-13  Score=95.76  Aligned_cols=45  Identities=24%  Similarity=0.553  Sum_probs=39.6

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ...|+||+..|..+   +++||||.||..||.+|   +.+||+||++|+..
T Consensus         6 ~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            46899999999877   77899999999999876   67899999999754

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.14  E-value=2.5e-12  Score=100.97  Aligned_cols=46  Identities=22%  Similarity=0.532  Sum_probs=38.2

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  324 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~ksCPvCR~eV~t  324 (328)
                      ...|+||++.|..+  ++..+|||.||..||..|+.  +.||+||..+..
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             cCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            46899999999876  23347999999999999984  469999998764

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.08  E-value=2.8e-11  Score=91.78  Aligned_cols=48  Identities=13%  Similarity=0.103  Sum_probs=42.3

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~-~ksCPvCR~eV~t  324 (328)
                      ....|+||++.|..+   ++++|||.||..||.+||.. +.+||+||..+..
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            457899999999987   78999999999999999975 5689999998753

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.08  E-value=3e-11  Score=87.04  Aligned_cols=48  Identities=23%  Similarity=0.585  Sum_probs=37.9

Q ss_pred             CCCcccccccccCCCCceEEeC-----CCCcccHHHHHHHHh--cCCCCCCccccccC
Q 020261          274 SNDSCVICRLDYEDGETLTVLS-----CKHSYHSECINNWLK--INKVCPVCSAEVST  324 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LP-----CgH~FH~~CI~~WL~--~~ksCPvCR~eV~t  324 (328)
                      ....|+||++.+...   .+.|     |+|.||..||.+|+.  .+.+||+||+++..
T Consensus         5 d~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           5 DVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            457899999988655   3334     459999999999995  45689999998754

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.07  E-value=5.2e-11  Score=89.73  Aligned_cols=49  Identities=22%  Similarity=0.440  Sum_probs=43.1

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC-CCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~-ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   ++++|||.||+.||.+|+..+ ..||+|+..+...
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            468899999999987   788999999999999999765 5799999988653

>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=98.89  E-value=4.3e-10  Score=88.72  Aligned_cols=49  Identities=14%  Similarity=0.049  Sum_probs=43.5

Q ss_pred             CCCcccccccccCCCCceEEeCCC-CcccHHHHHHHHhcCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCg-H~FH~~CI~~WL~~~ksCPvCR~eV~t~  325 (328)
                      ....|+||+..|..+   +++||+ |.|++.||..||+.+.+||+||..+...
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            358999999999998   889866 5899999999999999999999998643

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.57  E-value=8.9e-09  Score=79.32  Aligned_cols=46  Identities=17%  Similarity=0.582  Sum_probs=37.2

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC--------CCCCCcc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPVCS  319 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~--------ksCPvCR  319 (328)
                      ....|+||++.+...+.++.++|+|.||..||..|++.+        -+||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            357899999999776667777899999999999999531        1599864

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.0069  Score=40.74  Aligned_cols=44  Identities=27%  Similarity=0.641  Sum_probs=31.5

Q ss_pred             cccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC----CCCCccc
Q 020261          277 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSA  320 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k----sCPvCR~  320 (328)
                      .|.||...-..+..|.--.|...||..|+.+-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            4889976644443444445999999999998765432    6999985

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.59  E-value=0.023  Score=40.70  Aligned_cols=45  Identities=20%  Similarity=0.562  Sum_probs=31.3

Q ss_pred             CcccccccccCCCCceEEeCCCCcccHHHHHHHHhcCC----CCCCcccccc
Q 020261          276 DSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSAEVS  323 (328)
Q Consensus       276 ~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~k----sCPvCR~eV~  323 (328)
                      ..|.||.   ..++.+.-=.|...||..|+.+.|....    .||.|+....
T Consensus         8 ~~C~~C~---~~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           8 TICRVCQ---KPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SCCSSSC---SSSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCC---CcCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            4566665   3455444445999999999998875432    5999976544

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.45  E-value=0.014  Score=40.90  Aligned_cols=52  Identities=25%  Similarity=0.517  Sum_probs=36.1

Q ss_pred             CCCcccccccccCCCCc-eEEeCCCCcccHHHHHHHHh-----cCCCCCCccccccCC
Q 020261          274 SNDSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLK-----INKVCPVCSAEVSTS  325 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~-v~~LPCgH~FH~~CI~~WL~-----~~ksCPvCR~eV~t~  325 (328)
                      ....|.||...+..... |.--.|+.-||..|+..-..     ..-.||.|+....++
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~ps   62 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGPS   62 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCSS
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCCCC
Confidence            45789999988766654 33445999999999964211     123799998765543

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.43  E-value=0.053  Score=37.61  Aligned_cols=47  Identities=32%  Similarity=0.653  Sum_probs=32.5

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  323 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~WL~~~----ksCPvCR~eV~  323 (328)
                      ....|.||..   .+..|.--.|.-.||..||...+...    =.||.|+....
T Consensus         8 ~~~~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           8 HMEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SCSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CcCCCcCCCC---CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            3467999974   34444444599999999998665432    26999986543

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.72  E-value=0.26  Score=36.86  Aligned_cols=34  Identities=15%  Similarity=0.574  Sum_probs=25.1

Q ss_pred             CCCcccccccccCCCCceEEeCCCCcccHHHHHHH
Q 020261          274 SNDSCVICRLDYEDGETLTVLSCKHSYHSECINNW  308 (328)
Q Consensus       274 ~~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~~W  308 (328)
                      +...|.|| ..|....++..--|+-.||..|+.+-
T Consensus        14 ~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          14 NDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            56899999 66766533322238999999999986

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.95  E-value=0.069  Score=39.34  Aligned_cols=49  Identities=20%  Similarity=0.513  Sum_probs=31.4

Q ss_pred             CCcccccccccCCC-C-ceEEeCCCCcccHHHHHHHH-----hc---CCCCCCcccccc
Q 020261          275 NDSCVICRLDYEDG-E-TLTVLSCKHSYHSECINNWL-----KI---NKVCPVCSAEVS  323 (328)
Q Consensus       275 ~~~CaICLeef~~g-e-~v~~LPCgH~FH~~CI~~WL-----~~---~ksCPvCR~eV~  323 (328)
                      ...|.||....... . .|..-.|...||..||.+.+     ..   .-.||.|+....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            35799998654332 2 22233599999999987543     22   236999976543

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.37  E-value=0.47  Score=33.47  Aligned_cols=50  Identities=24%  Similarity=0.557  Sum_probs=32.6

Q ss_pred             CCcccccccccCCCCceEEeCCCCcccHHHHH----HH--H---hcCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVLSCKHSYHSECIN----NW--L---KINKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~LPCgH~FH~~CI~----~W--L---~~~ksCPvCR~eV~t~  325 (328)
                      ...| ||......+..|.--.|.--||..|+.    ..  +   ...-.||.|+....++
T Consensus        16 ~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~~ps   74 (76)
T d1wema_          16 ALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGPS   74 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCSS
T ss_pred             cCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcCCCC
Confidence            3558 898776555444445699999999983    11  1   1235899997665443

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=81.76  E-value=0.25  Score=35.54  Aligned_cols=50  Identities=18%  Similarity=0.368  Sum_probs=32.4

Q ss_pred             CCcccccccccCCCCceEEe--CCCCcccHHHHHH----HHh-----cCCCCCCccccccCC
Q 020261          275 NDSCVICRLDYEDGETLTVL--SCKHSYHSECINN----WLK-----INKVCPVCSAEVSTS  325 (328)
Q Consensus       275 ~~~CaICLeef~~ge~v~~L--PCgH~FH~~CI~~----WL~-----~~ksCPvCR~eV~t~  325 (328)
                      ...| ||......+..+..-  .|..=||..|+.-    +..     ..-.||.|+..-.++
T Consensus        16 ~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~ps   76 (78)
T d1wewa_          16 KVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGPS   76 (78)
T ss_dssp             CCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSCC
T ss_pred             ccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCCCC
Confidence            3568 899877655444333  3999999999842    101     124799998766543

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.00  E-value=0.052  Score=36.86  Aligned_cols=46  Identities=20%  Similarity=0.488  Sum_probs=31.1

Q ss_pred             cccccccccCCCCceEE-eCCCCcccHHHHHHHHhcCCCCCCccccc
Q 020261          277 SCVICRLDYEDGETLTV-LSCKHSYHSECINNWLKINKVCPVCSAEV  322 (328)
Q Consensus       277 ~CaICLeef~~ge~v~~-LPCgH~FH~~CI~~WL~~~ksCPvCR~eV  322 (328)
                      .|.+|...|..-..-.. ..||++|+..|.....+..++|..|.+..
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~~r   48 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQRFR   48 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhhHh
Confidence            58899988875433222 34999999999887766677898886543